LOCUS NC_002163 1641481 bp DNA circular BCT 04-MAR-2010 DEFINITION Campylobacter jejuni subsp. jejuni NCTC 11168, complete genome. ACCESSION NC_002163 VERSION NC_002163.1 GI:15791399 DBLINK Project:8 KEYWORDS complete genome. SOURCE Campylobacter jejuni subsp. jejuni NCTC 11168 ORGANISM Campylobacter jejuni subsp. jejuni NCTC 11168 Bacteria; Proteobacteria; Epsilonproteobacteria; Campylobacterales; Campylobacteraceae; Campylobacter. REFERENCE 1 AUTHORS Gundogdu,O., Bentley,S.D., Holden,M.T., Parkhill,J., Dorrell,N. and Wren,B.W. TITLE Re-annotation and re-analysis of the Campylobacter jejuni NCTC11168 genome sequence JOURNAL BMC Genomics 8, 162 (2007) PUBMED 17565669 REMARK Publication Status: Online-Only REFERENCE 2 AUTHORS Parkhill,J., Wren,B.W., Mungall,K., Ketley,J.M., Churcher,C., Basham,D., Chillingworth,T., Davies,R.M., Feltwell,T., Holroyd,S., Jagels,K., Karlyshev,A.V., Moule,S., Pallen,M.J., Penn,C.W., Quail,M.A., Rajandream,M.A., Rutherford,K.M., van Vliet,A.H., Whitehead,S. and Barrell,B.G. TITLE The genome sequence of the food-borne pathogen Campylobacter jejuni reveals hypervariable sequences JOURNAL Nature 403 (6770), 665-668 (2000) PUBMED 10688204 REFERENCE 3 (bases 1 to 1641481) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (12-DEC-2008) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 4 (bases 1 to 1641481) AUTHORS Gundogdu,O. TITLE Direct Submission JOURNAL Submitted (07-AUG-2006) Submitted on behalf of the Campylobacter sequencing team, Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA. In Collaboration with the Pathogen Molecular Biology Department at The London School of Hygiene & Tropical Medicine, London, Keppel Street, WC1E 7HT. E-mail:ozan.gundogdu@lshtm.ac.uk REFERENCE 5 (bases 1 to 1641481) AUTHORS Parkhill,J. TITLE Direct Submission JOURNAL Submitted (09-FEB-2000) Submitted on behalf of the Campylobacter sequencing team, Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA E-mail: parkhill@sanger.ac.uk REMARK revised by [4] COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from AL111168. Notes: Details of C. jejuni sequencing at the Sanger Centre are available on the World Wide Web. (URL, http://www.sanger.ac.uk/Projects/C_jejuni/). COMPLETENESS: full length. FEATURES Location/Qualifiers source 1..1641481 /organism="Campylobacter jejuni subsp. jejuni NCTC 11168" /mol_type="genomic DNA" /strain="NCTC 11168" /sub_species="jejuni" /db_xref="taxon:192222" misc_feature complement(order(19674..19742,19482..19550,19386..19445)) /locus_tag="Cj0014c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0014c by TMHMM2.0 at aa 12-34, 76-98 and 111-130" misc_feature complement(order(23276..23344,23180..23233,23108..23167, 22982..23050,22853..22921)) /gene="dsbI" /locus_tag="Cj0017c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0017c by TMHMM2.0 at aa 13-35, 50-67, 72-91, 111-133 and 154-176" misc_feature complement(order(25348..25416,24661..24729)) /locus_tag="Cj0019c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0019c by TMHMM2.0 at aa 10-32 and 239-261" misc_feature complement(order(33433..33492,33331..33399,33205..33273, 33076..33144,32908..32976,32779..32847,32653..32721, 32548..32616,32437..32505,32332..32400,32251..32319)) /locus_tag="Cj0025c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj0025c by TMHMM2.0 at aa 10-29, 41-63, 83-105, 126-148,182-204, 225-247, 267-289, 302-324, 339-361, 374-396 and 401-423" misc_feature complement(order(53763..53831,53652..53720,53550..53618, 53487..53540,53382..53450,53301..53369,53145..53213, 53034..53102,52947..53015,52851..52919,52764..52832, 52686..52754)) /locus_tag="Cj0035c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0035c by TMHMM2.0 at aa 13-35, 50-72, 84-106, 110-127,140-162, 167-189, 219-241, 256-278, 285-307, 317-339,346-368 and 372-394" misc_feature complement(order(57095..57163,57032..57085)) /locus_tag="Cj0038c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0038c by TMHMM2.0 at aa 17-39 and 43-60" misc_feature complement(order(76362..76421,76278..76346)) /locus_tag="Cj0062c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0062c by TMHMM2.0 at aa 7-26 and 32-54" misc_feature complement(order(88608..88676,88536..88595,88425..88493, 88269..88364,88158..88226,88071..88139,87903..87956, 87762..87830,87546..87605,87444..87512,87297..87365, 87168..87236,87057..87125)) /gene="lctP" /locus_tag="Cj0076c" /inference="protein motif:TMHMM:2.0" /note="13 probable transmembrane helices predicted for Cj0076c by TMHMM2.0 at aa 15-37, 42-61, 76-98, 119-150,165-187, 194-216, 255-272, 297-319, 372-391, 403-425,452-474, 495-517 and 532-554" misc_feature complement(order(127332..127400,127221..127289)) /locus_tag="Cj0124c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0124c by TMHMM2.0 at aa 5-27 and 42-64" misc_feature complement(order(144652..144720,144526..144594, 144421..144489,144307..144363,144157..144246, 144046..144114,143974..144042)) /locus_tag="Cj0141c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0141c by TMHMM2.0 at aa 13-35, 55-77, 90-112, 132-150,171-200, 215-237 and 239-261" misc_feature complement(order(159397..159456,159280..159348, 159193..159252,159091..159159)) /locus_tag="Cj0157c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0157c by TMHMM2.0 at aa 10-29, 46-68, 78-97 and 109-131" misc_feature complement(order(163990..164058,163903..163962, 163738..163806,163612..163680,163531..163599, 163405..163473,163324..163392,163213..163281)) /gene="ubiA" /locus_tag="Cj0164c" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj0164c by TMHMM2.0 at aa 12-34, 44-63, 96-118, 138-160,165-187, 207-229, 234-256 and 271-293" misc_feature complement(order(165512..165571,165407..165475, 165326..165394,165200..165268,165122..165190, 165026..165085)) /locus_tag="Cj0167c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0167c by TMHMM2.0 at aa 4-23, 36-58, 63-85, 105-127,131-153 and 166-185" misc_feature complement(order(171458..171526,171290..171358, 171191..171253,171065..171133,170936..171004, 170774..170842,170621..170689,170510..170578, 170384..170452,170273..170341,170144..170212, 169982..170050)) /gene="cfbpB" /locus_tag="Cj0174c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0174c by TMHMM2.0 at aa 13-35, 69-91, 104-124, 144-166,187-209, 241-263, 292-314, 329-351, 371-393, 408-430,451-473 and 505-527" misc_feature complement(order(182677..182745,182581..182640, 182479..182538,182350..182418,182269..182337, 182179..182232,182095..182151)) /locus_tag="Cj0186c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0186c by TMHMM2.0 at aa 15-37, 50-69, 84-103, 124-146,151-173, 186-203 and 213-231" misc_feature complement(order(216753..216821,216672..216740, 216516..216584)) /locus_tag="Cj0232c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0232c by TMHMM2.0 at aa 15-37, 42-64 and 94-116" misc_feature complement(order(218354..218407,218207..218275)) /gene="secG" /locus_tag="Cj0235c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0235c by TMHMM2.0 at aa 5-22 and 49-71" misc_feature complement(order(219057..219125,218991..219044, 218886..218954,218805..218873,218718..218786, 218649..218708)) /locus_tag="Cj0236c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0236c by TMHMM2.0 at aa 32-54, 59-76, 89-111, 116-138,145-167 and 171-190" misc_feature complement(order(231485..231553,231359..231427, 231281..231340,231200..231268,231071..231139, 230966..231034,230810..230878,230699..230767, 230618..230686,230522..230590,230420..230488, 230309..230377)) /locus_tag="Cj0250c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0250c by TMHMM2.0 at aa 13-35, 55-77, 84-103, 108-130,151-173, 186-208, 238-260, 275-297, 302-324, 334-356,368-390 and 405-427" misc_feature complement(order(237875..237943,237797..237865)) /locus_tag="Cj0260c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0260c by TMHMM2.0 at aa 12-34 and 38-60" misc_feature complement(order(240719..240787,239879..239938)) /locus_tag="Cj0262c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0262c by TMHMM2.0 at aa 15-37 and 298-317" misc_feature complement(order(245933..246001,245846..245914)) /locus_tag="Cj0266c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0266c by TMHMM2.0 at aa 5-27 and 34-56" misc_feature complement(order(246433..246501,246346..246414)) /locus_tag="Cj0267c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0267c by TMHMM2.0 at aa 15-37 and 44-66" misc_feature complement(order(268591..268785,267638..268597, 267627..267629)) /gene="glpT" /locus_tag="Cj0292c" /inference="protein motif:Pfam:PF07690" /note="HMMPfam hit to PF07690, Major Facilitator Superfamily, score 1.8e-34" /pseudo misc_feature complement(order(268717..268785,268621..268689, 268535..268597,268591..268597,268457..268525, 268328..268396,268232..268285,268010..268078, 267908..267967,267821..267889,267740..267808, 267659..267727,267540..267608)) /gene="glpT" /locus_tag="Cj0292c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0292c by TMHMM2.0 at aa 9-31, 41-63, 72-94, 98-120,141-163, 178-195, 247-269, 284-303, 310-332, 337-359,364-386 and 401-423" /pseudo misc_feature complement(order(275624..275692,275522..275590, 275411..275479,275228..275296,275084..275152)) /gene="modB" /locus_tag="Cj0301c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0301c by TMHMM2.0 at aa 15-37, 49-71, 86-108, 147-169 and 195-217" misc_feature complement(order(281566..281619,281479..281538, 281392..281460,281317..281376)) /locus_tag="Cj0309c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0309c by TMHMM2.0 at aa 3-20, 30-49, 56-78 and 84-103" misc_feature complement(order(281884..281949,281803..281871, 281722..281790,281644..281712)) /locus_tag="Cj0310c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0310c by TMHMM2.0 at aa 7-28, 33-55, 60-82 and 86-108" misc_feature complement(order(305565..305633,305208..305276, 305112..305180)) /gene="motA" /locus_tag="Cj0337c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0337c by TMHMM2.0 at aa 28-50, 147-169 and 179-201" misc_feature complement(order(311187..311255,311100..311168, 310944..311012,310866..310925)) /locus_tag="Cj0341c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0341c by TMHMM2.0 at aa 15-37, 44-66, 96-118 and 125-144" misc_feature complement(order(314893..314961,314797..314865, 314710..314763,314629..314697,314542..314595, 314479..314532,314407..314466,314311..314379, 314209..314277)) /locus_tag="Cj0343c" /inference="protein motif:TMHMM:2.0" /note="9 probable transmembrane helices predicted for Cj0343c by TMHMM2.0 at aa 9-31, 41-63, 75-92, 97-119,131-148, 152-169, 174-193, 203-225 and 237-259" misc_feature complement(order(325743..325811,325503..325571, 325407..325475,325335..325394,325239..325307)) /locus_tag="Cj0357c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0357c by TMHMM2.0 at aa 5-27, 85-107, 117-139, 144-163 and 173-195" misc_feature complement(order(335623..335691,334636..334695, 334555..334623,334474..334542,334318..334386, 334216..334284,334120..334173,334033..334101, 333070..333123,332983..333051,332887..332955, 332758..332826,332647..332715)) /gene="cmeB" /locus_tag="Cj0366c" /inference="protein motif:TMHMM:2.0" /note="13 probable transmembrane helices predicted for Cj0366c by TMHMM2.0 at aa 10-32, 342-361, 366-388,393-415, 445-467, 479-501, 516-533, 540-562, 866-883,890-912, 922-944, 965-987 and 1002-1024" misc_feature complement(order(338819..338875,338672..338740, 338465..338533,338354..338422,337946..338014)) /locus_tag="Cj0369c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0369c by TMHMM2.0 at aa 13-31, 58-80, 127-149, 164-186 and 300-322" misc_feature complement(order(346097..346156,346010..346069, 345917..345976,345806..345874,345728..345772, 345662..345718)) /locus_tag="Cj0378c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0378c by TMHMM2.0 at aa 7-26, 36-55, 67-86, 101-123,135-149 and 153-171" misc_feature complement(order(351261..351320,351177..351233, 351084..351152,350997..351056,350916..350984, 350826..350879,350724..350792,350628..350696, 350502..350570,350433..350492)) /locus_tag="Cj0385c" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj0385c by TMHMM2.0 at aa 9-28, 38-56, 65-87, 97-116,121-143, 156-173, 185-207, 217-239, 259-281 and 285-304" misc_feature complement(order(386657..386725,386519..386587, 386432..386485,386312..386365,386240..386293, 386153..386212)) /locus_tag="Cj0421c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0421c by TMHMM2.0 at aa 2-24, 48-70, 82-99, 122-139,146-163 and 173-192" misc_feature complement(order(402080..402148,401951..402019, 401882..401938,401765..401821,401654..401722, 401573..401641,401462..401530,401375..401443, 401294..401362,401156..401215)) /gene="mraY" /locus_tag="Cj0433c" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj0433c by TMHMM2.0 at aa 20-42, 63-85, 90-108, 129-147,162-184, 189-211, 226-248, 255-277, 282-304 and 331-350" misc_feature complement(order(422408..422461,422306..422365)) /locus_tag="Cj0457c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0457c by TMHMM2.0 at aa 7-24 and 39-58" misc_feature complement(order(426294..426362,426213..426281, 426126..426194,426057..426116,425928..425996, 425850..425918,425724..425792,425613..425681, 425526..425579,425448..425516,425319..425387, 425250..425309)) /locus_tag="Cj0461c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0461c by TMHMM2.0 at aa 21-43, 48-70, 77-99, 103-122,143-165, 169-191, 211-233, 248-270, 282-299, 303-325,346-368 and 372-391" misc_feature complement(order(520108..520176,520045..520104, 519919..519987,519832..519900,519721..519789, 519616..519684,519523..519588,519337..519396, 519226..519294)) /locus_tag="Cj0557c" /inference="protein motif:TMHMM:2.0" /note="9 probable transmembrane helices predicted for Cj0557c by TMHMM2.0 at aa 23-45, 47-66, 86-108, 115-137,152-174, 187-209, 219-240, 283-302 and 317-339" misc_feature complement(order(539622..539690,539457..539525, 539355..539423,539190..539258,539085..539153)) /gene="tatC" /locus_tag="Cj0578c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0578c by TMHMM2.0 at aa 16-38, 71-93, 105-127, 160-182 and 195-217" misc_feature complement(order(551787..551855,551700..551768, 551607..551663,551526..551594,551445..551513, 551352..551411,551283..551342)) /locus_tag="Cj0593c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0593c by TMHMM2.0 at aa 5-27, 34-56, 69-87, 92-114,119-141, 153-172 and 176-195" misc_feature complement(order(559721..559789,559625..559693, 559475..559543,559331..559399,559232..559300, 559085..559153,558980..559048,558848..558916, 558719..558787,558593..558661,558464..558532)) /locus_tag="Cj0601c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj0601c by TMHMM2.0 at aa 5-27, 37-59, 87-109, 135-157,168-190, 217-239, 252-274, 296-318, 339-361, 381-403 and 424-446" misc_feature complement(order(561624..561692,561522..561590, 561411..561479,561258..561353,561162..561230, 561075..561128,561006..561065,560910..560969)) /gene="dsbD" /locus_tag="Cj0603c" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj0603c by TMHMM2.0 at aa 177-199, 211-233, 248-270,290-321, 331-353, 365-382, 386-405 and 418-437" misc_feature complement(order(572433..572486,572301..572405, 572214..572282,572103..572171,572010..572069, 571884..571952,571725..571793,571476..571544, 571389..571457,571254..571313,571167..571235)) /locus_tag="Cj0611c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj0611c by TMHMM2.0 at aa 5-22, 32-66, 73-95, 110-132,144-163, 183-205, 236-258, 319-341, 348-370, 396-415 and 422-444" misc_feature complement(order(616288..616356,616202..616261, 616121..616189,616022..616078,616011..616022, 615924..615992,615777..615845,615694..615750, 615607..615666,615380..615448,615254..615322, 615158..615217,615062..615130)) /locus_tag="Cj0654c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0654c by TMHMM2.0 at aa 44-66, 76-95, 100-122, 137-159,166-188, 215-237, 249-267, 277-296, 350-372, 392-414,427-446 and 456-478" /pseudo misc_feature complement(order(677399..677467,677282..677341, 677156..677224,677045..677113)) /locus_tag="Cj0721c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0721c by TMHMM2.0 at aa 7-29, 49-68, 88-110 and 125-147" misc_feature complement(order(679420..679488,679249..679317, 679153..679221,679018..679086,678940..679008, 678595..678663,678499..678567)) /locus_tag="Cj0723c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0723c by TMHMM2.0 at aa 4-26, 61-83, 93-115, 138-160,164-186, 279-301 and 311-333" misc_feature complement(order(680486..680554,680390..680458)) /gene="corA" /locus_tag="Cj0726c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0726c by TMHMM2.0 at aa 267-289 and 299-321" misc_feature complement(order(723466..723534,723361..723429, 723280..723348,723085..723153,722959..723027, 722872..722925,722800..722859)) /locus_tag="Cj0773c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0773c by TMHMM2.0 at aa 57-79, 92-114, 119-141, 184-206,226-248, 260-277 and 282-301" misc_feature complement(order(747174..747242,747048..747116, 746910..746978)) /gene="murF" /locus_tag="Cj0795c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0795c by TMHMM2.0 at aa 7-29, 49-71 and 95-117" misc_feature complement(order(760645..760710,760516..760584, 760435..760503)) /locus_tag="Cj0808c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0808c by TMHMM2.0 at aa 5-26, 47-69 and 74-96" misc_feature complement(order(768686..768754,768581..768649, 768470..768538,768146..768214,768059..768118)) /gene="fliP" /locus_tag="Cj0820c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0820c by TMHMM2.0 at aa 4-26, 39-61, 76-98, 184-206 and 216-235" misc_feature complement(order(779967..780035,779886..779954, 779715..779783,779586..779654,779475..779543, 779388..779441,779322..779375,779115..779183, 778968..779027,778863..778931,778731..778799, 778458..778511,778380..778448)) /locus_tag="Cj0832c" /inference="protein motif:TMHMM:2.0" /note="13 probable transmembrane helices predicted for Cj0832c by TMHMM2.0 at aa 22-44, 49-71, 106-128, 149-171,186-208, 220-237, 242-259, 306-328, 358-377, 390-412,434-456, 530-547 and 551-573" misc_feature complement(order(791835..791903,791655..791723)) /locus_tag="Cj0844c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0844c by TMHMM2.0 at aa 7-29 and 67-89" misc_feature complement(order(798739..798807,798652..798711, 798574..798633,798478..798546,798373..798441, 798304..798363,798163..798231,798067..798135, 797989..798048,797911..797979,797785..797853, 797704..797772)) /locus_tag="Cj0850c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0850c by TMHMM2.0 at aa 12-34, 44-63, 70-89, 99-121,134-156, 160-179, 204-226, 236-258, 265-284, 288-310,330-352 and 357-379" misc_feature complement(order(799256..799303,799160..799228, 798944..799012,798848..798916)) /locus_tag="Cj0851c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0851c by TMHMM2.0 at aa 7-22, 32-54, 104-126 and 136-158" misc_feature complement(order(799498..799566,799414..799470)) /locus_tag="Cj0852c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0852c by TMHMM2.0 at aa 29-51 and 61-79" misc_feature complement(order(819625..819693,819544..819612, 819448..819510,819322..819390,819046..819114, 818935..819003,818794..818862)) /gene="flhA" /locus_tag="Cj0882c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0882c by TMHMM2.0 at aa 21-43, 48-70, 82-102, 122-144,214-236, 251-273 and 298-320" misc_feature complement(order(823419..823487,823308..823376, 823203..823271)) /gene="ftsK" /locus_tag="Cj0886c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0886c by TMHMM2.0 at aa 13-35, 50-72 and 85-107" misc_feature complement(order(829415..829474,829025..829093)) /locus_tag="Cj0889c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0889c by TMHMM2.0 at aa 7-26 and 134-156" misc_feature complement(order(843575..843643,843401..843469, 843209..843277,843059..843127,842963..843031, 842687..842755,842543..842611,842456..842509, 842345..842413)) /locus_tag="Cj0903c" /inference="protein motif:TMHMM:2.0" /note="9 probable transmembrane helices predicted for Cj0903c by TMHMM2.0 at aa 27-49, 85-107, 149-171, 199-221,231-253, 323-345, 371-393, 405-422 and 437-459" misc_feature complement(order(854393..854452,854297..854365, 854144..854212,854057..854116,853928..853996, 853832..853900,853751..853819,853640..853708, 853553..853621,853442..853510,853313..853381, 853010..853078,852881..852949,852785..852853, 852689..852748,852422..852490)) /gene="cstA" /locus_tag="Cj0917c" /inference="protein motif:TMHMM:2.0" /note="16 probable transmembrane helices predicted for Cj0917c by TMHMM2.0 at aa 7-26, 36-58, 87-109, 119-138,159-181, 191-213, 218-240, 255-277, 284-306, 321-343,364-386, 465-487, 508-530, 540-562, 575-594 and 661-683" misc_feature complement(order(856199..856267,856070..856138, 855710..855778)) /locus_tag="Cj0919c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0919c by TMHMM2.0 at aa 23-45, 66-88 and 186-208" misc_feature complement(order(856890..856958,856761..856829, 856389..856457)) /locus_tag="Cj0920c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0920c by TMHMM2.0 at aa 47-69, 90-112 and 214-236" misc_feature complement(order(870862..870918,870766..870834, 870610..870678,870472..870540,870370..870438, 870223..870291,870118..870186,869977..870045, 869848..869916,869731..869790,869602..869670)) /locus_tag="Cj0934c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj0934c by TMHMM2.0 at aa 7-25, 35-57, 87-109, 133-155,167-189, 216-238, 251-273, 298-320, 341-363, 383-402 and 423-445" misc_feature complement(order(872209..872265,872098..872166, 871969..872037,871801..871869,871696..871764, 871570..871638,871465..871533,871321..871389, 871192..871260,871081..871134,870955..871023)) /locus_tag="Cj0935c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj0935c by TMHMM2.0 at aa 7-25, 40-62, 83-105, 139-161,174-196, 216-238, 251-273, 299-321, 342-364, 384-401 and 421-443" misc_feature complement(order(877516..877584,877390..877458, 877294..877353,877216..877284,877111..877179, 877000..877068,876829..876888,876718..876786, 876625..876693,876547..876615,876442..876510, 876364..876432,875200..875268)) /gene="aas" /locus_tag="Cj0938c" /inference="protein motif:TMHMM:2.0" /note="13 probable transmembrane helices predicted for Cj0938c by TMHMM2.0 at aa 7-29, 49-71, 84-103, 107-129,142-164, 179-201, 239-258, 273-295, 304-326, 330-352,365-387, 391-413 and 779-801" misc_feature complement(order(879470..879538,879344..879412, 879242..879310,879146..879214,879017..879085, 878849..878917)) /gene="glnP" /locus_tag="Cj0940c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0940c by TMHMM2.0 at aa 26-48, 68-90, 102-124, 134-156,177-199 and 233-255" misc_feature complement(order(880713..880781,879978..880046, 879834..879902,879690..879758)) /locus_tag="Cj0941c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0941c by TMHMM2.0 at aa 21-43, 266-288, 314-336 and 362-384" misc_feature complement(order(889196..889264,889118..889186, 888992..889060,888881..888949,888779..888847, 888701..888769)) /locus_tag="Cj0948c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0948c by TMHMM2.0 at aa 7-29, 33-55, 75-97, 112-134,146-168 and 172-194" misc_feature complement(order(892287..892355,891792..891860)) /locus_tag="Cj0952c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0952c by TMHMM2.0 at aa 10-32 and 175-197" misc_feature complement(order(900611..900670,899645..899713, 899441..899509,899330..899383,899204..899272)) /locus_tag="Cj0958c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0958c by TMHMM2.0 at aa 13-32, 332-354, 400-422, 442-459 and 479-501" misc_feature complement(order(915442..915510,915331..915399, 915235..915294,915163..915222,915037..915105, 914935..914994,914767..914835,914656..914724, 914584..914637,914503..914571,914401..914469, 914332..914391)) /gene="cjaB" /locus_tag="Cj0981c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0981c by TMHMM2.0 at aa 7-29, 44-66, 79-98, 103-122,142-164, 179-198, 232-254, 269-291, 298-315, 320-342,354-376 and 380-399" misc_feature complement(order(919865..919918,919769..919837)) /locus_tag="Cj0986c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0986c by TMHMM2.0 at aa 2-19 and 29-51" misc_feature complement(order(920861..920920,920735..920803, 920663..920716,920579..920647,920486..920554, 920390..920443,920252..920320,920135..920188, 920033..920101)) /locus_tag="Cj0987c" /inference="protein motif:TMHMM:2.0" /note="9 probable transmembrane helices predicted for Cj0987c by TMHMM2.0 at aa 12-31, 51-73, 80-97, 103-125,134-156, 171-188, 212-234, 256-273 and 285-307" misc_feature complement(order(930016..930084,929929..929988, 929818..929871,929737..929805,929659..929718, 929563..929631,929461..929529,929350..929418, 929254..929313,929143..929211,929038..929106)) /locus_tag="Cj0999c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj0999c by TMHMM2.0 at aa 12-34, 44-63, 83-100, 105-127,134-153, 163-185, 197-219, 234-256, 269-288, 303-325 and 338-360" misc_feature complement(order(934016..934084,933905..933973, 933818..933886,933731..933790,933644..933712)) /locus_tag="Cj1003c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj1003c by TMHMM2.0 at aa 7-29, 44-66, 73-95, 105-124 and 131-153" misc_feature complement(order(936174..936227,935913..935981)) /locus_tag="Cj1005c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1005c by TMHMM2.0 at aa 6-23 and 88-110" misc_feature complement(order(938336..938404,938207..938275, 938105..938164)) /locus_tag="Cj1007c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1007c by TMHMM2.0 at aa 221-243, 264-286 and 301-320" misc_feature complement(order(947230..947289,947128..947187, 947026..947094,944947..945015,944845..944913, 944749..944817,944677..944736,944530..944598, 944401..944469,944302..944358,944215..944283, 944113..944172)) /locus_tag="Cj1013c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj1013c by TMHMM2.0 at aa 13-32, 47-66, 78-100, 771-793,805-827, 837-859, 864-883, 910-932, 953-975, 990-1008,1015-1037 and 1052-1071" misc_feature complement(order(949758..949826,949692..949745, 949605..949673,949467..949535,949380..949448, 949272..949337,949008..949076,948873..948926)) /gene="livM" /locus_tag="Cj1016c" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj1016c by TMHMM2.0 at aa 7-29, 34-51, 58-80, 104-126,133-155, 170-191, 257-279 and 307-324" misc_feature complement(order(950630..950698,950501..950569, 950390..950458,950261..950329,950102..950170, 949973..950041,949862..949930)) /gene="livH" /locus_tag="Cj1017c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj1017c by TMHMM2.0 at aa 15-37, 58-80, 95-117, 138-160,191-213, 234-256 and 271-293" misc_feature complement(order(954125..954193,953975..954043, 953822..953875,953741..953794)) /locus_tag="Cj1022c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1022c by TMHMM2.0 at aa 13-35, 63-85, 119-136 and 146-163" misc_feature complement(order(975136..975204,975025..975093, 974947..975006,974869..974937,974764..974832, 974686..974754,974539..974607,974443..974511, 974356..974424,974272..974340,974176..974235, 974080..974148)) /locus_tag="Cj1040c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj1040c by TMHMM2.0 at aa 7-29, 44-66, 73-92, 96-118,131-153, 157-179, 206-228, 238-260, 267-289, 295-317,330-349 and 359-381" misc_feature complement(order(982174..982242,982069..982137, 981991..982059,981862..981930,981766..981834, 981685..981753)) /locus_tag="Cj1049c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1049c by TMHMM2.0 at aa 5-27, 40-62, 66-88, 109-131,141-163 and 168-190" misc_feature complement(order(989504..989557,989423..989476)) /locus_tag="Cj1053c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1053c by TMHMM2.0 at aa 5-22 and 32-49" misc_feature complement(order(992817..992885,992667..992735, 992562..992630,992385..992453,992298..992366)) /locus_tag="Cj1055c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj1055c by TMHMM2.0 at aa 5-27, 55-77, 90-112, 149-171 and 178-200" misc_feature complement(order(1026132..1026200,1025775..1025828, 1025463..1025531,1025367..1025435)) /gene="secF" /locus_tag="Cj1092c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1092c by TMHMM2.0 at aa 13-35, 137-154, 236-258 and 268-290" misc_feature complement(order(1027730..1027798,1026674..1026742, 1026587..1026655,1026305..1026373)) /gene="secD" /locus_tag="Cj1093c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1093c by TMHMM2.0 at aa 7-29, 359-381, 388-410 and 482-504" misc_feature complement(order(1045133..1045201,1045022..1045090, 1044917..1044985,1044797..1044865,1044710..1044778, 1044614..1044667)) /locus_tag="Cj1111c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1111c by TMHMM2.0 at aa 7-29, 44-66, 79-101, 119-141,148-170 and 185-202" misc_feature complement(order(1047113..1047181,1047035..1047103, 1046924..1046977,1046858..1046911,1046756..1046824, 1046675..1046728,1046579..1046638,1046501..1046569)) /gene="pssA" /locus_tag="Cj1114c" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj1114c by TMHMM2.0 at aa 7-29, 33-55, 75-92, 97-114,126-148, 158-175, 188-207 and 211-233" misc_feature complement(order(1049638..1049697,1049320..1049379)) /gene="ftsH" /locus_tag="Cj1116c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1116c by TMHMM2.0 at aa 22-41 and 128-147" misc_feature complement(order(1051482..1051550,1051377..1051445, 1051248..1051316,1051167..1051235)) /gene="pglG" /locus_tag="Cj1119c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1119c by TMHMM2.0 at aa 161-183, 196-218, 239-261 and 266-288" misc_feature complement(order(1053719..1053778,1053623..1053691, 1053497..1053565)) /gene="pglF" /locus_tag="Cj1120c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1120c by TMHMM2.0 at aa 9-28, 38-60 and 80-102" misc_feature complement(order(1055558..1055617,1055429..1055497, 1055303..1055371)) /locus_tag="Cj1122c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1122c by TMHMM2.0 at aa 33-52, 73-95 and 115-137" misc_feature complement(order(1060019..1060087,1059764..1059832, 1059692..1059745,1059611..1059664,1059539..1059592, 1059476..1059529,1059389..1059457,1059278..1059346, 1059080..1059136,1058951..1059004,1058846..1058914)) /gene="pglB" /locus_tag="Cj1126c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj1126c by TMHMM2.0 at aa 12-34, 97-119, 126-143, 153-170,177-194, 198-215, 222-244, 259-281, 329-347, 373-390 and 403-425" misc_feature complement(order(1064776..1064844,1064647..1064715, 1064398..1064466,1064311..1064379,1064062..1064121, 1063990..1064043)) /gene="pglK" /locus_tag="Cj1130c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1130c by TMHMM2.0 at aa 20-42, 63-85, 146-168, 175-197,261-280 and 287-304" misc_feature complement(order(1087701..1087769,1087620..1087673, 1087503..1087562,1087434..1087490,1086969..1087037, 1086858..1086926,1085985..1086044,1085922..1085975)) /locus_tag="Cj1155c" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj1155c by TMHMM2.0 at aa 166-188, 198-215, 235-254,259-277, 410-432, 447-469, 741-760 and 764-781" misc_feature complement(order(1091300..1091368,1091216..1091272)) /locus_tag="Cj1158c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1158c by TMHMM2.0 at aa 21-43 and 53-71" misc_feature complement(order(1093580..1093633,1093484..1093552, 1093397..1093465,1093325..1093384,1092860..1092913, 1092749..1092817,1091879..1091947,1091813..1091866)) /locus_tag="Cj1161c" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj1161c by TMHMM2.0 at aa 88-105, 115-137, 144-166,171-190, 328-345, 360-382, 650-672 and 677-694" misc_feature complement(order(1094843..1094911,1094756..1094815, 1094651..1094719,1094540..1094608,1094435..1094503, 1094357..1094425)) /locus_tag="Cj1163c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1163c by TMHMM2.0 at aa 40-62, 72-91, 104-126, 141-163,176-198 and 202-224" misc_feature complement(order(1095863..1095922,1095788..1095844, 1095707..1095775,1095605..1095673,1095479..1095547)) /locus_tag="Cj1165c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj1165c by TMHMM2.0 at aa 4-23, 30-48, 53-75, 87-109 and 129-151" misc_feature complement(order(1096288..1096347,1096222..1096275, 1096144..1096203,1096057..1096116,1095952..1096020)) /locus_tag="Cj1166c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj1166c by TMHMM2.0 at aa 120-139, 144-161, 168-187,197-216 and 229-251" misc_feature complement(order(1098192..1098260,1098066..1098134, 1097814..1097882,1097718..1097786)) /locus_tag="Cj1168c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1168c by TMHMM2.0 at aa 13-35, 55-77, 139-161 and 171-193" misc_feature complement(order(1106989..1107048,1106908..1106976, 1106803..1106871,1106671..1106739,1106599..1106658, 1106488..1106556,1106386..1106454)) /gene="fliR" /locus_tag="Cj1179c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj1179c by TMHMM2.0 at aa 13-32, 37-59, 72-94, 116-138,143-162, 177-199 and 211-233" misc_feature complement(order(1112028..1112096,1111020..1111079)) /gene="petC" /locus_tag="Cj1184c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1184c by TMHMM2.0 at aa 7-29 and 346-365" misc_feature complement(order(1113179..1113247,1113011..1113079, 1112924..1112992,1112828..1112896,1112723..1112791, 1112522..1112590,1112402..1112461,1112330..1112389, 1112234..1112293,1112138..1112206)) /gene="petB" /locus_tag="Cj1185c" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj1185c by TMHMM2.0 at aa 39-61, 95-117, 124-146, 156-178,191-213, 258-280, 301-320, 325-344, 357-376 and 386-408" misc_feature complement(order(1115117..1115185,1115006..1115074, 1114841..1114936,1114745..1114813,1114610..1114678, 1114499..1114567,1114430..1114480,1114334..1114402, 1114205..1114273,1114058..1114147,1113962..1114021)) /gene="arsB" /locus_tag="Cj1187c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj1187c by TMHMM2.0 at aa 20-42, 57-79, 103-134, 144-166,189-211, 226-248, 255-271, 281-303, 324-346, 366-395 and 408-427" misc_feature complement(order(1133292..1133360,1133211..1133279)) /locus_tag="Cj1203c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1203c by TMHMM2.0 at aa 2-24 and 29-51" misc_feature complement(order(1133930..1133998,1133747..1133815, 1133675..1133734,1133573..1133641,1133447..1133515, 1133375..1133428)) /gene="atpB" /locus_tag="Cj1204c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1204c by TMHMM2.0 at aa 15-37, 76-98, 103-122, 134-156,176-198 and 205-222" misc_feature complement(order(1141505..1141573,1141307..1141375, 1141196..1141264,1141103..1141162,1140992..1141060, 1140905..1140973)) /gene="rbn" /locus_tag="Cj1212c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1212c by TMHMM2.0 at aa 20-42, 86-108, 123-145, 157-176,191-213 and 220-242" misc_feature complement(order(1152265..1152333,1151812..1151871)) /gene="dccS" /locus_tag="Cj1222c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1222c by TMHMM2.0 at aa 5-27 and 159-178" misc_feature complement(order(1155431..1155499,1155044..1155112)) /locus_tag="Cj1226c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1226c by TMHMM2.0 at aa 6-28 and 135-157" misc_feature complement(order(1173980..1174033,1173884..1173937)) /locus_tag="Cj1245c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1245c by TMHMM2.0 at aa 2-19 and 34-51" misc_feature complement(order(1188274..1188342,1188163..1188231, 1188061..1188129,1187983..1188051,1187896..1187964, 1187800..1187868,1187674..1187742,1187578..1187646, 1187476..1187544,1187395..1187463,1187281..1187334, 1187212..1187271)) /locus_tag="Cj1257c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj1257c by TMHMM2.0 at aa 7-29, 44-66, 78-100, 104-126,133-155, 165-187, 207-229, 239-261, 273-295, 300-322,343-360 and 364-383" misc_feature complement(order(1195354..1195413,1195228..1195296, 1195027..1195095,1194862..1194930)) /gene="hydC" /locus_tag="Cj1265c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1265c by TMHMM2.0 at aa 25-44, 64-86, 131-153 and 186-208" misc_feature complement(order(1209691..1209759,1209283..1209351, 1209115..1209183,1208989..1209057)) /locus_tag="Cj1276c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1276c by TMHMM2.0 at aa 7-29, 143-165, 199-221 and 241-263" misc_feature complement(order(1280521..1280616,1280443..1280502, 1280380..1280433,1280302..1280361,1280230..1280289, 1280101..1280169,1280032..1280091)) /gene="cdsA" /locus_tag="Cj1347c" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj1347c by TMHMM2.0 at aa 10-41, 48-67, 71-88, 95-114,119-138, 159-181 and 185-204" misc_feature complement(order(1288340..1288408,1287986..1288054, 1287896..1287949)) /locus_tag="Cj1356c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1356c by TMHMM2.0 at aa 13-35, 131-153 and 166-183" misc_feature complement(order(1344619..1344687,1344538..1344606, 1343941..1344009)) /locus_tag="Cj1412c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1412c by TMHMM2.0 at aa 115-137, 142-164 and 341-363" misc_feature complement(order(1386133..1386201,1385161..1385229)) /gene="kpsE" /locus_tag="Cj1445c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1445c by TMHMM2.0 at aa 22-44 and 346-368" misc_feature complement(order(1387568..1387636,1387472..1387540, 1387319..1387387,1387208..1387276,1387127..1387195, 1386959..1387027)) /gene="kpsM" /locus_tag="Cj1448c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1448c by TMHMM2.0 at aa 24-46, 56-78, 107-129, 144-166,171-193 and 227-249" misc_feature complement(order(1404617..1404685,1404458..1404526, 1404347..1404415,1404347,1404015..1404083)) /locus_tag="Cj1470c" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj1470c by TMHMM2.0 at aa 156-178, 209-231, 246-268 and 357-379" /pseudo misc_feature complement(order(1422041..1422109,1421570..1421629)) /locus_tag="Cj1484c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1484c by TMHMM2.0 at aa 9-31 and 169-188" misc_feature complement(order(1423220..1423282,1423055..1423123)) /gene="ccoP" /locus_tag="Cj1487c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1487c by TMHMM2.0 at aa 10-30 and 63-85" misc_feature complement(order(1425617..1425685,1425476..1425544, 1425350..1425418,1425254..1425322,1425176..1425235, 1425008..1425076,1424903..1424971,1424807..1424875, 1424705..1424773,1424594..1424662,1424468..1424536, 1424342..1424410)) /gene="ccoN" /locus_tag="Cj1490c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj1490c by TMHMM2.0 at aa 13-35, 60-82, 102-124, 134-156,163-182, 216-238, 251-273, 283-305, 317-339, 354-376,396-418 and 438-460" misc_feature complement(order(1428293..1428361,1428182..1428250, 1428095..1428163,1427942..1428010,1427855..1427923, 1427744..1427812)) /locus_tag="Cj1493c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1493c by TMHMM2.0 at aa 13-35, 50-72, 79-101, 130-152,159-181 and 196-218" misc_feature complement(order(1435445..1435513,1435244..1435312, 1435085..1435153,1434989..1435057,1434884..1434952, 1434773..1434841,1434644..1434712,1434494..1434562, 1434365..1434433,1434269..1434337,1434191..1434250, 1434110..1434178)) /gene="putP" /locus_tag="Cj1502c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj1502c by TMHMM2.0 at aa 13-35, 80-102, 133-155, 165-187,200-222, 237-259, 280-302, 330-352, 373-395, 405-427,434-453 and 458-480" misc_feature complement(order(1442899..1442967,1441936..1442004)) /locus_tag="Cj1506c" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj1506c by TMHMM2.0 at aa 7-29 and 328-350" misc_feature complement(order(1445635..1445694,1445473..1445541, 1445344..1445412,1445239..1445301,1445059..1445127, 1444921..1444989)) /gene="fdhC" /locus_tag="Cj1509c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1509c by TMHMM2.0 at aa 5-24, 56-78, 99-121, 136-156,194-216 and 240-262" misc_feature complement(order(1472042..1472110,1471955..1472023, 1471844..1471912,1471676..1471744,1471535..1471603)) /locus_tag="Cj1539c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj1539c by TMHMM2.0 at aa 43-65, 72-94, 109-131, 165-187 and 212-234" misc_feature complement(order(1476518..1476571,1476422..1476490, 1476326..1476385,1476230..1476298,1476140..1476193, 1476059..1476127,1475975..1476034,1475864..1475932, 1475783..1475851,1475705..1475773)) /locus_tag="Cj1544c" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj1544c by TMHMM2.0 at aa 7-24, 34-56, 69-88, 98-120,133-150, 155-177, 186-205, 220-242, 247-269 and 273-295" misc_feature complement(order(1497706..1497774,1497619..1497687, 1497517..1497576,1497412..1497480,1497259..1497327, 1497130..1497198,1497034..1497102,1496947..1497015, 1496776..1496844,1496650..1496718,1496554..1496622, 1496428..1496496)) /gene="nuoN" /locus_tag="Cj1566c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj1566c by TMHMM2.0 at aa 13-35, 42-64, 79-98, 111-133,162-184, 205-227, 237-259, 266-288, 323-345, 365-387,397-419 and 439-461" misc_feature complement(order(1499228..1499278,1499141..1499209, 1499015..1499083,1498943..1498996,1498865..1498933, 1498778..1498846,1498622..1498690,1498535..1498603, 1498439..1498507,1498352..1498420,1498271..1498339, 1498145..1498213,1498040..1498108,1497911..1497979)) /gene="nuoM" /locus_tag="Cj1567c" /inference="protein motif:TMHMM:2.0" /note="14 probable transmembrane helices predicted for Cj1567c by TMHMM2.0 at aa 4-20, 27-49, 69-91, 98-115,119-141, 148-170, 200-222, 229-251, 261-283, 290-312,317-339, 359-381, 394-416 and 437-459" misc_feature complement(order(1501011..1501070,1500924..1500992, 1500786..1500854,1500708..1500767,1500630..1500698, 1500534..1500593,1500408..1500476,1500306..1500374, 1500210..1500278,1500123..1500191,1500054..1500113, 1499925..1499993,1499820..1499888,1499691..1499759, 1499580..1499648,1499295..1499363)) /gene="nuoL" /locus_tag="Cj1568c" /inference="protein motif:TMHMM:2.0" /note="16 probable transmembrane helices predicted for Cj1568c by TMHMM2.0 at aa 4-23, 30-52, 76-98, 105-124,128-150, 163-182, 202-224, 236-258, 268-290, 297-319,323-342, 363-385, 398-420, 441-463, 478-500 and 573-595" misc_feature complement(order(1501315..1501365,1501234..1501302, 1501138..1501206)) /gene="nuoK" /locus_tag="Cj1569c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1569c by TMHMM2.0 at aa 5-21, 26-48 and 58-80" misc_feature complement(order(1501821..1501880,1501752..1501811, 1501665..1501733,1501563..1501622,1501404..1501472)) /gene="nuoJ" /locus_tag="Cj1570c" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj1570c by TMHMM2.0 at aa 5-24, 28-47, 54-76, 91-110 and 141-163" misc_feature complement(order(1503443..1503511,1503239..1503307, 1503113..1503181,1503008..1503076,1502897..1502965, 1502735..1502803,1502657..1502725,1502549..1502608)) /gene="nuoH" /locus_tag="Cj1572c" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj1572c by TMHMM2.0 at aa 10-32, 78-100, 120-142, 155-177,192-214, 246-268, 272-294 and 311-330" misc_feature complement(order(1509701..1509769,1509524..1509592, 1509443..1509511)) /gene="nuoA" /locus_tag="Cj1579c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1579c by TMHMM2.0 at aa 10-32, 69-91 and 96-118" misc_feature complement(order(1511982..1512050,1511796..1511864, 1511703..1511762,1511634..1511693,1511475..1511543, 1511310..1511378)) /locus_tag="Cj1582c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1582c by TMHMM2.0 at aa 7-29, 69-91, 103-122, 126-145,176-198 and 231-253" misc_feature complement(order(1512928..1512987,1512646..1512714, 1512541..1512609,1512406..1512465,1512226..1512294, 1512100..1512168)) /locus_tag="Cj1583c" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj1583c by TMHMM2.0 at aa 5-24, 96-118, 131-153, 179-198,236-258 and 278-300" misc_feature complement(order(1519536..1519604,1519425..1519493, 1519161..1519229)) /locus_tag="Cj1587c" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj1587c by TMHMM2.0 at aa 13-35, 50-72 and 138-160" misc_feature complement(order(1520881..1520949,1520770..1520838, 1520665..1520733,1520569..1520637,1520467..1520535, 1520371..1520439,1520197..1520265,1520086..1520154, 1520005..1520073,1519924..1519992,1519819..1519887, 1519708..1519776)) /locus_tag="Cj1588c" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj1588c by TMHMM2.0 at aa 13-35, 50-72, 85-107, 117-139,151-173, 183-205, 241-263, 278-300, 305-327, 332-354,367-389 and 404-426" misc_feature complement(order(1554280..1554348,1554217..1554270, 1554067..1554135,1553929..1553997,1553842..1553910, 1553716..1553784,1553590..1553658,1553446..1553514, 1553332..1553385,1553236..1553304,1553149..1553202)) /gene="sdaC" /locus_tag="Cj1625c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj1625c by TMHMM2.0 at aa 13-35, 39-56, 84-106, 130-152,159-181, 201-223, 243-265, 291-313, 334-351, 361-383 and 395-412" misc_feature complement(order(1578388..1578456,1578241..1578309, 1578136..1578204,1578055..1578108,1577953..1578021, 1577875..1577943,1577770..1577838,1577644..1577712, 1577545..1577613,1577434..1577502,1577329..1577397)) /gene="nhaA" /locus_tag="Cj1654c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj1654c by TMHMM2.0 at aa 12-34, 61-83, 96-118, 128-145,157-179, 183-205, 218-240, 260-282, 293-315, 330-352 and 365-387" misc_feature complement(order(1579521..1579589,1579395..1579463, 1579293..1579361,1579197..1579265,1579110..1579178, 1579038..1579097,1578951..1579019,1578702..1578770, 1578597..1578665,1578501..1578554)) /gene="nhaA1" /locus_tag="Cj1655c" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj1655c by TMHMM2.0 at aa 16-38, 58-80, 92-114, 124-146,153-175, 180-199, 206-228, 289-311, 324-346 and 361-378" misc_feature complement(order(1606461..1606514,1606374..1606442, 1606293..1606361,1606155..1606256,1606029..1606097, 1605924..1605992,1605780..1605848,1605666..1605719, 1605570..1605638,1605477..1605545,1605381..1605449)) /locus_tag="Cj1684c" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj1684c by TMHMM2.0 at aa 10-27, 34-56, 61-83, 96-129,149-171, 184-206, 232-254, 275-292, 302-324, 333-355 and 365-387" misc_feature complement(order(1612129..1612197,1611973..1612041, 1611844..1611912,1611733..1611801,1611649..1611714, 1611538..1611606,1611385..1611453,1611259..1611327, 1611094..1611153,1611028..1611081)) /gene="secY" /locus_tag="Cj1688c" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj1688c by TMHMM2.0 at aa 9-31, 61-83, 104-126, 141-163,170-191, 206-228, 257-279, 299-321, 357-376 and 381-398" gene 1..1323 /gene="dnaA" /locus_tag="Cj0001" /db_xref="GeneID:904342" CDS 1..1323 /gene="dnaA" /locus_tag="Cj0001" /inference="protein motif:Pfam:PF00308" /inference="protein motif:Prosite:PS00017" /note="binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself." /codon_start=1 /transl_table=11 /product="chromosomal replication initiation protein" /protein_id="YP_002343473.1" /db_xref="GI:218561694" /db_xref="GOA:Q9PJB0" /db_xref="HSSP:O66659" /db_xref="InterPro:IPR001957" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR013159" /db_xref="InterPro:IPR013317" /db_xref="UniProtKB/Swiss-Prot:Q9PJB0" /db_xref="GeneID:904342" /translation="MNPSQILENLKKELSENEYENYLSNLKFNEKQSKADLLVFNAPN ELMAKFIQTKYGKKIAHFYEVQSGNKAIINIQAQSAKQSNKSTKIDIAHIKAQSTILN PSFTFESFVVGDSNKYAYGACKAIAHKDKLGKLYNPIFVYGPTGLGKTHLLQAVGNAS LEMGKKVIYATSENFINDFTSNLKNGSLDKFHEKYRNCDVLLIDDVQFLGKTDKIQEE FFFIFNEIKNNDGQIIMTSDNPPNMLKGITERLKSRFAHGIIADITPPQLDTKIAIIR KKCEFNDINLSNDIINYIATSLGDNIREIEGIIISLNAYATILGQEITLELAKSVMKD HIKEKKENITIDDILSLVCKEFNIKPSDVKSNKKTQNIVTARRIVIYLARALTALTMP QLANYFEMKDHTAISHNVKKITEMIENDASLKAKIEELKNKILVKSQS" misc_feature 301..1239 /gene="dnaA" /locus_tag="Cj0001" /inference="protein motif:Pfam:PF00308" /note="HMMPfam hit to PF00308, Bacterial dnaA protein,score 4.2e-124" misc_feature 427..450 /gene="dnaA" /locus_tag="Cj0001" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 1483..2550 /gene="dnaN" /locus_tag="Cj0002" /db_xref="GeneID:904340" CDS 1483..2550 /gene="dnaN" /locus_tag="Cj0002" /EC_number="2.7.7.7" /inference="protein motif:Pfam:PF00712" /note="binds the polymerase to DNA and acts as a sliding clamp" /codon_start=1 /transl_table=11 /product="DNA polymerase III subunit beta" /protein_id="YP_002343474.1" /db_xref="GI:218561695" /db_xref="GOA:Q0PCC3" /db_xref="InterPro:IPR001001" /db_xref="UniProtKB/TrEMBL:Q0PCC3" /db_xref="GeneID:904340" /translation="MKLSINKNTLESAVILCNAYVEKKDSSTITSHLFFHADEDKLLI KASDYEIGINYKIKKIRVESSGFATANAKSIADVIKSLNNEEVVLETIDNFLFVRQKS TKYKLPMFNHEDFPNFPNTEGKNQFDIDSSDLSRSLKKILPSIDTNNPKYSLNGAFLD IKTDKINFVGTDTKRLAIYTLEKANNQEFSFSIPKKAIMEMQKLFYEKIEIFYDQNML IAKNENFEFFTKLINDKFPDYEKVIPKTFKQELSFSTEDFIDSLKKISVVTEKMRLHF NKDKIIFEGISLDNMEAKTELEIQTGVSEEFNLTIKIKHLLDFLTSIEEEKFTLSVNE PNSAFIVKSQGLSMIIMPMIL" misc_feature 1483..1839 /gene="dnaN" /locus_tag="Cj0002" /inference="protein motif:Pfam:PF00712" /note="HMMPfam hit to PF00712, DNA polymerase III beta subunit, N-te, score 1.9e-11" misc_feature 1864..2196 /gene="dnaN" /locus_tag="Cj0002" /inference="protein motif:Pfam:PF02767" /note="HMMPfam hit to PF02767, DNA polymerase III beta subunit, cent, score 4e-11" misc_feature 2200..2544 /gene="dnaN" /locus_tag="Cj0002" /inference="protein motif:Pfam:PF02768" /note="HMMPfam hit to PF02768, DNA polymerase III beta subunit, C-te, score 2.7e-05" gene 2579..4888 /gene="gyrB" /locus_tag="Cj0003" /db_xref="GeneID:904343" CDS 2579..4888 /gene="gyrB" /locus_tag="Cj0003" /EC_number="5.99.1.3" /inference="protein motif:Pfam:PF00204" /inference="protein motif:Pfam:PF00986" /inference="protein motif:Prosite:PS00177" /note="negatively supercoils closed circular double-stranded DNA" /codon_start=1 /transl_table=11 /product="DNA gyrase subunit B" /protein_id="YP_002343475.1" /db_xref="GI:218561696" /db_xref="GOA:O87667" /db_xref="HSSP:P06982" /db_xref="InterPro:IPR001241" /db_xref="InterPro:IPR002288" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR006171" /db_xref="InterPro:IPR011557" /db_xref="InterPro:IPR013506" /db_xref="InterPro:IPR013759" /db_xref="InterPro:IPR014721" /db_xref="UniProtKB/Swiss-Prot:O87667" /db_xref="GeneID:904343" /translation="MQENYGASNIKVLKGLEAVRKRPGMYIGDTNIGGLHHMIYEVVD NSIDEAMAGHCDTIDVEITTEGSCIVSDNGRGIPVDMHPTENMPTLTVVLTVLHAGGK FDKDTYKVSGGLHGVGVSVVNALSKKLVATVERNGEIYRQEFSEGKVISEFGVIGKSK KTGTTIEFWPDDQIFEVTEFDYEILAKRFRELAYLNPKITINFKDNRVGKHESFHFEG GISQFVTDLNKKEALTKAIFFSVDEEDVNVEVALLYNDTYSENLLSFVNNIKTPDGGT HEAGFRMGLTRVISNYIEANASAREKDNKITGDDVREGLIAIVSVKVPEPQFEGQTKG KLGSTYVRPIVSKASFEYLTKYFEENPIEAKAIMNKALMAARGREAAKKARELTRKKE SLSVGTLPGKLADCQSKDPSESEIYLVEGDSAGGSAKQGRERSFQAILPLRGKILNVE KARLDKILKSEQIQNMITAFGCGIGEDFDLSKLRYHKIIIMTDADVDGSHIQTLLLTF FFRFMNELVANGHIYLAQPPLYLYKKAKKQIYLKDEKALSEYLIETGIEGLNYEGIGM NDLKDYLKIVAAYRAILKDLEKRFNVISVIRYMIENSNLVKGNNEELFSVIKQFLETQ GHNILNHYINENEIRAFVQTQNGLEELVINEELFTHPLYEEASYIFDKIKDRSLEFDK DILEVLEDVETNAKKGATIQRYKGLGEMNPEQLWETTMDPSVRRLLKITIEDAQSAND TFNLFMGDEVEPRRDYIQAHAKDVKHLDV" misc_feature 2666..3097 /gene="gyrB" /locus_tag="Cj0003" /inference="protein motif:Pfam:PF02518" /note="HMMPfam hit to PF02518, Histidine kinase-, DNA gyrase B-, and H, score 1.1e-30" misc_feature 3233..3739 /gene="gyrB" /locus_tag="Cj0003" /inference="protein motif:Pfam:PF00204" /note="HMMPfam hit to PF00204, DNA gyrase B, score 6.7e-81" misc_feature 3818..4153 /gene="gyrB" /locus_tag="Cj0003" /inference="protein motif:Pfam:PF01751" /note="HMMPfam hit to PF01751, Toprim domain, score 1e-08" misc_feature 3830..3856 /gene="gyrB" /locus_tag="Cj0003" /inference="protein motif:Prosite:PS00177" /note="PS00177 DNA topoisomerase II signature" misc_feature 3962..3994 /gene="gyrB" /locus_tag="Cj0003" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 4652..4852 /gene="gyrB" /locus_tag="Cj0003" /inference="protein motif:Pfam:PF00986" /note="HMMPfam hit to PF00986, DNA gyrase B subunit,carboxyl terminus, score 3.1e-43" gene complement(4916..5257) /locus_tag="Cj0004c" /db_xref="GeneID:904344" CDS complement(4916..5257) /locus_tag="Cj0004c" /note="Original (2000) note: Cj0004c, possible periplasmic protein, len: 113 aa. No Hp match. Contains possible N-terminal signal sequence; Updated (2006) note: NCTC11168 Cj0004c encodes a monohaem cytochrome C (PMID:15632441). Together with Cj0005 (molybdopterin oxidoreductase), they are homologous to sulphite:cytochrome C oxidoreductase (SOR) of Starkeya novella (PMID:11557133). Cj0004 mutants showed wild-type rates of formate-dependent respiration but were unable to respire with sulphite or metabisulphite as electron donors. Periplasmic extracts of wild-type NCTC11168 showed a symmetrical absorption peak (552nm) after addition of sulphite, demonstrating the reduction of cytochrome C. No cytochrome C reduction was observed after addition of sulphite to periplasmic extracts of the Cj0004c mutant (PMID:15632441). Characterised within Campylobacter jejuni, so putative not added to product function. Functional classification - Energy metabolism -Respiration - Electron transport; PMID:15632441" /codon_start=1 /transl_table=11 /product="monohaem cytochrome C" /protein_id="YP_002343476.1" /db_xref="GI:218561697" /db_xref="GOA:Q0PCC1" /db_xref="UniProtKB/TrEMBL:Q0PCC1" /db_xref="GeneID:904344" /translation="MKKIILILALFLSASWAQNLEINPDTGLIIDPDSPLVEANCLAC HGSNLITNMHASRKAWLAAIRWMQDSEGLWEIEPEDEEKILNYLEKYYGEKYDTRRRI PLAILLQNKTH" sig_peptide complement(4916..4966) /locus_tag="Cj0004c" /note="Signal peptide predicted for signalp2embl_unknown_000000_4916_5257 by SignalP 2.0 HMM (Signal peptide probability 0.973) with cleavage site probability 0.940 between residues 17 and 18" misc_feature complement(5120..5137) /locus_tag="Cj0004c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" gene complement(5260..6498) /locus_tag="Cj0005c" /db_xref="GeneID:904345" CDS complement(5260..6498) /locus_tag="Cj0005c" /inference="protein motif:Pfam:PF00174" /inference="protein motif:Pfam:PF03404" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0005c, possible molybdenum containing oxidoreductase, len: 412 aa; similar to many eukaryotic oxidoreductases e.g. SUOX_HUMAN sulfite oxidase precursor (488 aa), fasta scores; opt: 543 z-score: 338.2 E(): 1.4e-11, 29.8% identity in 372 aa overlap and NIA_PETHY nitrate reductase from Petunia hybrida (909 aa),fasta scores; opt: 281 z-score: 312.5 E(): 3.8e-10, 28.9% identity in 395 aa overlap. No Hp match. Contains Pfam match to entry PF00174 oxidored_molyb, Oxidoreductase molybdopterin binding domain, score 45.20, E-value 1e-12; Updated (2006) note: Pfam domain PF03404 Mo-co oxidoreductase dimerisation domain identified within CDS. One probable transmembrane helix predicted by TMHMM2.0. Further support given to product function. Supporting paper identified showing interaction with Cj0004c (PMID:15632441). Product function modified to more specific family member based on characterisation paper. Functional classification - Misc; PMID:15632441" /codon_start=1 /transl_table=11 /product="molydopterin containing oxidoreductase" /protein_id="YP_002343477.1" /db_xref="GI:218561698" /db_xref="GOA:Q0PCC0" /db_xref="InterPro:IPR000572" /db_xref="InterPro:IPR005066" /db_xref="InterPro:IPR008335" /db_xref="UniProtKB/TrEMBL:Q0PCC0" /db_xref="GeneID:904345" /translation="MKQNDQKENRRDFLKNIGLGLFGISVLSNFSFENFLGSKALAKE LPDFKIEGKKDLIYHGEKPLTAETEIYALDSDFTKPENFFVRNNGLPPSLETIKERLH KGWTLEIDGESIINKKSYTIEDLKKKFKTYTYALTVECGGNGRSEVIPSTKGTQWGYG AVACGRWTGVRLKDILKDCGIKNDAVYIGYYGIDTKLNGEETSPISRGVPISKALQDE TLIAWAYEGKDIPLVNGYPLRLVCGGYPASTSGKWLYKISVRNKIHDGEKMEGSYKVP VNPVKPGDFNYKGEMKIIESMPIRSVITNIKNGSEIKANKKFEVRGKAWAGELEVSEV YVSNDYGVTWTKAKVEKPLNRLAWQKWSAQISIPTKGYYEIWARAIDSQGNSQPMVLA QWNPGGYINNACHRVNVYGV" sig_peptide complement(5260..5385) /locus_tag="Cj0005c" /note="Signal peptide predicted for signalp2embl_unknown_000001_5260_6498 by SignalP 2.0 HMM (Signal peptide probability 0.861) with cleavage site probability 0.853 between residues 42 and 43" misc_feature complement(5263..5628) /locus_tag="Cj0005c" /inference="protein motif:Pfam:PF03404" /note="HMMPfam hit to PF03404, Mo-co oxidoreductase dimerisation doma, score 6.8e-19" misc_feature complement(5707..6375) /locus_tag="Cj0005c" /inference="protein motif:Pfam:PF00174" /note="HMMPfam hit to PF00174, Oxidoreductase molybdopterin binding d, score 2.1e-14" misc_feature complement(6007..6039) /locus_tag="Cj0005c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature complement(6403..6462) /locus_tag="Cj0005c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0005c by TMHMM2.0 at aa 13-32" gene 6703..8010 /locus_tag="Cj0006" /db_xref="GeneID:904346" CDS 6703..8010 /locus_tag="Cj0006" /inference="protein motif:Pfam:PF03553" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0006, probable integral membrane protein, len: 435 aa; similar to e.g. Y325_HAEIN hypothetical protein HI0325 (450 aa), fasta scores; opt: 757 z-score: 1654.9 E(): 0, 44.0% identity in 450 aa overlap. 47.2% identity to HP0758; Updated (2006) note: Pfam domain PF03553 Na+/H+ antiporter family identified within CDS. Product modified to more specific family member due to motif match. Also,eleven probable transmembrane helices predicted by TMHMM2.0 giving further support to product function. No specific characterisation with acceptable identity score has been carried out yet. Thus, putative kept within product function. Functional classification -Transport/binding proteins - Cations" /codon_start=1 /transl_table=11 /product="putative Na+/H+ antiporter family protein" /protein_id="YP_002343478.1" /db_xref="GI:218561699" /db_xref="GOA:Q0PCB9" /db_xref="InterPro:IPR004770" /db_xref="UniProtKB/TrEMBL:Q0PCB9" /db_xref="GeneID:904346" /translation="MILTLLTNPIIISVVLMTLLCLFRFNVLLSLLISALVAGVFSHL ELVDTMNILISGMKENLKTALSYILLGAIAAAISKTNLTAYLIKIVSHFISHKKYLLL LSIALISCFSQNLIPIHVAFIPLLIPPLLSLFNKLKIDRRAVACALTFGLTTPYMVLP VGFGLTFQDLLKDNLNANNVSASLNDVTNTMYFAAICMIAGLFLALFVFYRKPREYQE VEIAKVDLENLEMTRKEWGVLAGLVLTLILQILTMNLPLSGLLGFVLMVILGGVEFSK VNEVFDDGLKMMGFIAFVILVAAGYGEVLKESGSVVDLVNSVVPWMEQSKFLAVFFML LIGLIITMGIGTSFGTIPIIATLFCPICLELGFSTALIIFILGVAGALGDAGSPASET TMGTTVGLNADKQHDHIKDTCIPTFIFYNGPLLILGSIIAMFL" sig_peptide 6703..6813 /locus_tag="Cj0006" /note="Signal peptide predicted for signalp2embl_unknown_000002_6703_8010 by SignalP 2.0 HMM (Signal peptide probability 0.887) with cleavage site probability 0.659 between residues 37 and 38" misc_feature order(6730..6834,6895..6963,7045..7104,7138..7206, 7264..7332,7408..7461,7471..7527,7564..7617,7681..7749, 7783..7851,7936..8004) /locus_tag="Cj0006" /inference="protein motif:TMHMM:2.0" /note="11 probable transmembrane helices predicted for Cj0006 by TMHMM2.0 at aa 10-44, 65-87, 115-134, 146-168,188-210, 236-253, 257-275, 288-305, 327-349, 361-383 and 412-434" misc_feature 7000..7032 /locus_tag="Cj0006" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 7141..7989 /locus_tag="Cj0006" /inference="protein motif:Pfam:PF03553" /note="HMMPfam hit to PF03553, Na+/H+ antiporter family,score 4.4e-90" gene 8144..12634 /gene="gltB" /locus_tag="Cj0007" /db_xref="GeneID:904339" CDS 8144..12634 /gene="gltB" /locus_tag="Cj0007" /EC_number="1.4.1.13" /inference="protein motif:Pfam:PF00310" /inference="protein motif:Pfam:PF01493" /inference="protein motif:Pfam:PF01645" /inference="protein motif:Pfam:PF04898" /note="Original (2000) note: Cj0007, gltB, probable glutamate synthase (NADPH) large subunit, len: 1496 aa; similar to many e.g. GLTB_ECOLI glutamate synthase (NADPH) large chain (1517 aa), fasta scores; opt: 3846 z-score: 3828.3 E(): 0, 42.5% identity in 1488 aa overlap. No Hp match; Updated (2006) note: Pfam domains PF00310 Glutamine amidotransferases class-II, PF04898 Glutamate synthase central domain, PF01645 Conserved region in glutamate synthase and PF01493 GXGXG motif were all identified within CDS. Further support given to product function. Characterised within Bacillus subtilis with acceptable identity score. Thus, putative not added to product function. Functional classification - Central intermediary metabolism - General; PMID:2548995, PMID:11029411" /codon_start=1 /transl_table=11 /product="glutamate synthase (NADPH) large subunit" /protein_id="YP_002343479.1" /db_xref="GI:218561700" /db_xref="GOA:Q0PCB8" /db_xref="InterPro:IPR000583" /db_xref="InterPro:IPR002489" /db_xref="InterPro:IPR002932" /db_xref="InterPro:IPR006982" /db_xref="InterPro:IPR013785" /db_xref="UniProtKB/TrEMBL:Q0PCB8" /db_xref="GeneID:904339" /translation="MDLENILENNQSIGLYHPKNEHDACGIAAVANIRGIASYKVICD ALEILMNLEHRGGTGAEENSGDGAGILIQIPHDFFKTQELGFELPKKGDYAVAQMFLS PNTDAKEEAKEIFLQGLKDKKLEFLGFREVPFNPSDIGASALKAMPYFLQAFVKKPSK ISAGLEFERVLYSTRRLIEKRAINVPKFYFSSFSSRTIVYKGMLLSTQLSDFYLDFKD VNMKSAIALVHSRFSTNTFPSWERAHPNRYMVHNGEINTIRGNVDSIRAREGLMQSEY FENLDEIFPIIAKLSSDSAMFDNTLEFLALNGRTLEEAFMMMVPEPWHKNENMESKKR AFYEYHSLLMEPWDGPAAIVFTDGVIMGASLDRNGFRPSRYYLTKDDMLILSSETGAL KLDEKNIKAKKRLEPGKLLLVDTARGRVIADNEIKEHYANAKPYKKWLKNLVELEKQK SGVYKHQFLKEDEVLKLQKAFGWSYDELKMSVAAMAQNGKEAIAAMGVDTPLAILSKT YQPLYNYFKQLFAQVTNPPLDAIREEIVTSTRIYLGSEGNLLKPDENNAKRVKIALPV ISNEELFEVKALNKFQVKEFSILYDYSKKTLEKALDELCVKIEDEVKKGVSIIILSDK GVDEKNAYIPALLAVSGVHNHLVRKNLRTHTSLIIESGEPREIHHFACLLGYGATVIN PYLVYESIQKLIANKDLNLSYEKAVENFIKASSSGIVKIASKMGVSTLQSYNGSALFE CLGLSSKVIDKYFTSTTSRIEGMDLEDFEKELIALHKHAFNDTHKALDSKGIHGFRSA KEEHLIDPLVIFNLQQACRNKDYKSFKKYSALVDEKQVNLRSLMEFDFSEAISIDKVE SVESIVKRFRTGAMSYGSISKEAHECLAQAMNKIGAKSNSGEGGEDEERYEIKEGVDK NSAIKQVASGRFGVDLNYLSHAKEIQIKVAQGAKPGEGGQLMGFKVYPWIAKARHSTA GVTLISPPPHHDIYSIEDLAQLIYDLKHANKDAKISVKLVSENGIGTVAAGVAKAGAN LILVSGYDGGTGASPRTSIPHAGIPWELGLAETHQTLILNKLRDRVRLETDGKLMNGR DLAIAALLGAEEFGFATAPLIVLGCTMMRVCHLNTCPFGIATQDTELRDRFKGKVDDV INFMYFIAEELREYMARLGFERLDDMIGRVDKLRQKSVQGKAGKLNLDKILKSLPTYN RTAVHFKDYKDNKLEKTIDYRILLPLCKNAVEKKEPIKLSLEVGNQSRTFATMLSSEI LKTYGKDALDEDSIHIKAIGNAGNSFGAFLLKGIKLEIIGDSNDYLGKGLSGGKIIAK ISNEATFSPEENIIAGNACLYGATKGEVYLDGIAGERFCVRNSGALAVVLGTGVHGCE YMTGGQVVVLGDVGANFAAGMSGGVVYIFGRHNEAHVNTELVDIKDLNAKDEKELKAV IEKHITYTDSKKAKDILEKFDKKDFFKVMPRDYEKMLKMLDLCKNEKDPNLAAFLKIT QK" misc_feature 8216..9310 /gene="gltB" /locus_tag="Cj0007" /inference="protein motif:Pfam:PF00310" /note="HMMPfam hit to PF00310, Glutamine amidotransferases class-II, score 5.9e-222" misc_feature 9533..10381 /gene="gltB" /locus_tag="Cj0007" /inference="protein motif:Pfam:PF04898" /note="HMMPfam hit to PF04898, Glutamate synthase central domain, score 1.8e-181" misc_feature 10547..11644 /gene="gltB" /locus_tag="Cj0007" /inference="protein motif:Pfam:PF01645" /note="HMMPfam hit to PF01645, Conserved region in glutamate synthas, score 1e-224" misc_feature 11450..11482 /gene="gltB" /locus_tag="Cj0007" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 11870..12451 /gene="gltB" /locus_tag="Cj0007" /inference="protein motif:Pfam:PF01493" /note="HMMPfam hit to PF01493, GXGXG motif, score 4.1e-72" misc_feature 11987..12043 /gene="gltB" /locus_tag="Cj0007" /inference="protein motif:Prosite:PS00095" /note="PS00095 C-5 cytosine-specific DNA methylases C-terminal signature" gene 12644..14395 /locus_tag="Cj0008" /db_xref="GeneID:904337" CDS 12644..14395 /locus_tag="Cj0008" /inference="protein motif:Pfam:PF03235" /note="Original (2000) note: Cj0008, unknown, len: 583 aa; similar to Y686_METJA hypothetical protein MJ0686 (580 aa), fasta scores; opt: 171 z-score: 228.3 E(): 1.9e-05,22.8% identity in 609 aa overlap. 37.5% identity in N-term to HP0938, 30.0% identity in C-term to HP0937; Updated (2006) note: Pfam PF03235 Protein of unknown function (DUF262), was present within CDS. Conserved added to product function as motif was identified. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343480.1" /db_xref="GI:218561701" /db_xref="InterPro:IPR004919" /db_xref="UniProtKB/TrEMBL:Q0PCB7" /db_xref="GeneID:904337" /translation="MAGFQSPITINEAMQRIKNNEYLLPAFQREYVWEPWQIEELFDS LIRGYPISSMLFWKVKDESKTAWKFYRFLEYYRESYHTHNDYFNTSNHKDFYAILDGQ QRLTSLYFALFGNYDIHRSYNKWENNDRYFKICHFYFNLTQSKKPENENIEYEFLWLD KLETKEQNIYIDKYQQKWFKCQYLYQYDSGRVRKIAKEFNLNENEEDRLDLLHQKIFD KNLINFYLEEEQDPDKAVNIFIRINSNGEPLDYSDILFSIAIANWNKIDARTEINNLV DKINENFDISKDLILKGFLYLFHNNIKFQINSFDKNFIESIEAKWEGIKNAFIETFRL LRSFGFEAKTLSSNNAILPILYFIYHKNLTNNIVDSVKCNENRAIIKKWLLRAIILKP FGGSSDTVLSNMRKAFIKDFKQNSGFFDREIELFPLEEIEKEAKYIQTIDEEYLENNV IECRKNSPEAFAVLSLLYPNLDYKNNNFHKDHLHPESAYKEYEKLYKATDNCISFNIY DSLPNLQMLDANENESKNNKPLKQWVNEKCNGNRKEFLGKHLIPDVDLSLENFNNFIE ERKKIIIDKLKSILNKE" misc_feature 12668..13450 /locus_tag="Cj0008" /inference="protein motif:Pfam:PF03235" /note="HMMPfam hit to PF03235, Protein of unknown function DUF262, score 0.00029" gene 14398..15843 /gene="gltD" /locus_tag="Cj0009" /db_xref="GeneID:904336" CDS 14398..15843 /gene="gltD" /locus_tag="Cj0009" /EC_number="1.4.1.13" /inference="protein motif:Pfam:PF00070" /inference="protein motif:Pfam:PF00890" /inference="protein motif:Pfam:PF01266" /inference="protein motif:Pfam:PF01593" /inference="protein motif:Pfam:PF03486" /inference="protein motif:Pfam:PF07992" /note="glutamate synthase is composed of subunits alpha and beta; beta subunit is a flavin adenine dinucleotide-NADPH dependent oxidoreductase; provides electrons to the alpha subunit, which binds L-glutamine and 2-oxoglutarate and forms L-glutamate" /codon_start=1 /transl_table=11 /product="glutamate synthase subunit beta" /protein_id="YP_002343481.1" /db_xref="GI:218561702" /db_xref="GOA:Q0PCB6" /db_xref="InterPro:IPR000759" /db_xref="InterPro:IPR001100" /db_xref="InterPro:IPR001327" /db_xref="InterPro:IPR006005" /db_xref="InterPro:IPR012285" /db_xref="InterPro:IPR013027" /db_xref="UniProtKB/TrEMBL:Q0PCB6" /db_xref="GeneID:904336" /translation="MGNARGFLDFKRMDFKKIAPKERILNYKEFTIPLDKKEQEVQGG RCMDCGVAFCHTGVMSEGKDVGCPLNNLIPEWNDLVYRSLWKEAYERLDLTNPFPEFT GRVCPAPCEDSCVCAINGVSVSIKNNELSIIENAFKENLVRVNKPKQYNGKKIAVIGS GPAGLACANTLNSLGYKVSVFERSDKIGGLLMYGIPDMKLDKSIVQRRVDLLKKSGIE FKVNENIDSKDKVSKLLKEFDALVLCTGASKPIDLDIEGRKLKGVEFALDFLTQNTKT LLKTGKGADMAKGKNVLVIGSGDTSVDCIAVATRQGAKSIVRFERSPKRPLQRSQNNP WPLKADIFTTDYGLEEAIAVYGKDPREYQKMTKKFLGKTHVEGVEANDLKREFKEGKA INVEISNSKKTYKADLVLLAMGFSGCEEAISKNFGVKLDEKNNISTENFQTTHKKIFA CGDARKGQSLVVWAIKDGIECALSLHQNLAK" misc_feature 14857..15774 /gene="gltD" /locus_tag="Cj0009" /inference="protein motif:Pfam:PF00070" /note="HMMPfam hit to PF00070, Pyridine nucleotide-disulphide oxidoreducta, score 2.4e-23" misc_feature 14866..14898 /gene="gltD" /locus_tag="Cj0009" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 15619..15651 /gene="gltD" /locus_tag="Cj0009" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(15844..16419) /gene="rnhB" /locus_tag="Cj0010c" /db_xref="GeneID:904334" CDS complement(15844..16419) /gene="rnhB" /locus_tag="Cj0010c" /EC_number="3.1.26.4" /inference="protein motif:Pfam:PF01351" /note="Original (2000) note: Cj0010c, rnhB, probable ribonuclease HII, len: 191 aa; similar to many e.g. RNH2_ECOLI ribonuclease HII (EC 3.1.26.4) (198 aa), fasta scores; opt: 303 z-score: 506.7 E(): 5.7e-21, 38.6% identity in 176 aa overlap. 42.7% identity to HP1323; Updated (2006) note: Pfam PF01351 Ribonuclease HII was identified within CDS. Further support given to product function. Characterised within Escherichia coli with acceptable identity score. Thus, putative not added to product function. Functional classification -Degradation of macromolecules; PMID:2172991, PMID:9888800" /codon_start=1 /transl_table=11 /product="ribonuclease HII" /protein_id="YP_002343482.1" /db_xref="GI:218561703" /db_xref="GOA:Q9PJA1" /db_xref="HSSP:Q57599" /db_xref="InterPro:IPR001352" /db_xref="UniProtKB/Swiss-Prot:Q9PJA1" /db_xref="GeneID:904334" /translation="MKTLFDTKELLNEFDINLIGIDEAGRGALAGPMMMAACKLNKQL DGLCDSKKLSEKKREELYEIIIKNSNYLILAFSSEQIDALGLSTCLKKGLKLIKKHFK TENNFLYDGNTNLGINGIKTQIKADTSILQVSAASILAKVSKDRVMNFLAKDFPCYEF EKNKAYGTKAHKEFIAKFGICKLHRKSFKLL" misc_feature complement(15847..16365) /gene="rnhB" /locus_tag="Cj0010c" /inference="protein motif:Pfam:PF01351" /note="HMMPfam hit to PF01351, Ribonuclease HII, score 7.2e-39" misc_feature complement(16306..16338) /gene="rnhB" /locus_tag="Cj0010c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(16452..16691) /locus_tag="Cj0011c" /db_xref="GeneID:904332" CDS complement(16452..16691) /locus_tag="Cj0011c" /inference="protein motif:Pfam:PF00633" /note="Updated (2006) note: Characterisation work carried out within Bacillus subtilis, however, sequence alignment was only partial. Putative kept within product function; Original (2000) note: Cj0011c, possible non-specific DNA binding protein, len: 79 aa; similar to the C-terminus of CME1_BACSU comE operon protein 1 (comeA) (205 aa), fasta scores; opt: 223 z-score: 359.5 E(): 9e-13, 56.9% identity in 65 aa overlap. No Hp match. Contains Pfam match to entry PF00633 HHH,Helix-hairpin-helix motif., score 31.80, E-value 1.6e-05; PMID:7968523, PMID:7768800" /codon_start=1 /transl_table=11 /product="putative non-specific DNA binding protein. Functional classification-Synthesis and modification of macromolecules-DNA replication,restriction/modification, recombination and repair" /protein_id="YP_002343483.1" /db_xref="GI:218561704" /db_xref="GOA:Q0PCB4" /db_xref="InterPro:IPR000445" /db_xref="InterPro:IPR003583" /db_xref="InterPro:IPR004509" /db_xref="UniProtKB/TrEMBL:Q0PCB4" /db_xref="GeneID:904332" /translation="MKKLLFLFFALTAFLFGAVNINTATLKELKSLNGIGEAKAKAIL EYRKEANFTSIDDLKKVKGIGDKLFEKIKNDITIE" sig_peptide complement(16452..16529) /locus_tag="Cj0011c" /note="Signal peptide predicted for signalp2embl_unknown_000004_16452_16691 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.572 between residues 26 and 27" misc_feature complement(16467..16553) /locus_tag="Cj0011c" /inference="protein motif:Pfam:PF00633" /note="HMMPfam hit to PF00633, Helix-hairpin-helix motif,score 2.1" misc_feature complement(16554..16643) /locus_tag="Cj0011c" /inference="protein motif:Pfam:PF00633" /note="HMMPfam hit to PF00633, Helix-hairpin-helix motif,score 1.5e-06" misc_feature complement(16614..16682) /locus_tag="Cj0011c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0011c by TMHMM2.0 at aa 4-26" gene complement(16756..17403) /gene="rrc" /locus_tag="Cj0012c" /db_xref="GeneID:904330" CDS complement(16756..17403) /gene="rrc" /locus_tag="Cj0012c" /inference="protein motif:Pfam:PF00301" /inference="protein motif:Pfam:PF02915" /inference="protein motif:Pfam:PF06397" /note="Original (2000) note: Cj0012c, non-haem iron protein, len: 215 aa; has three possible iron-binding domains; C-terminus is similar to rubrerythrins e.g. RUBY_DESVH rubrerythrin (191 aa), fasta scores; opt: 454 z-score: 746.8 E(): 0, 39.5% identity in 190 aa overlap,with the iron-binding residues of both the rubredoxin-like center non-sulfur oxo-bridged di-iron center conserved. N-terminal 33 aa are simialar to the iron-bindingdomain of desulfoferrodoxins e.g. DESR_DESVH desulfoferrodoxin (125 aa), fasta scores; opt: 161 z-score: 275.8 E(): 4.2e-08,68.8% identity in 32 aa overlap, with the iron-binding residues conserved. No Hp match; Updated (2006) note: Pfam domains PF00301 Rubredoxin, PF02915 Rubrerythrin and PF06397 Desulfoferrodoxin, N-terminal domain were all identified within CDS. Further support given to product function. Characterisation paper within Campylobacter also identified allowing gene name to be designated as Rrc (Rbo/Rbr-like protein of C. jejuni) protein. Thus,putative not added to product function. Functional classification - Transport/binding proteins - Cations; PMID:15158262" /codon_start=1 /transl_table=11 /product="non-haem iron protein" /protein_id="YP_002343484.1" /db_xref="GI:218561705" /db_xref="GOA:Q0PCB3" /db_xref="InterPro:IPR003251" /db_xref="InterPro:IPR004039" /db_xref="InterPro:IPR004462" /db_xref="InterPro:IPR009040" /db_xref="InterPro:IPR012347" /db_xref="UniProtKB/TrEMBL:Q0PCB3" /db_xref="GeneID:904330" /translation="MRQYETYKCQKCGNEVEVQNVGGGKLSCCGEEMKCITTDLTAVN LMKAFAGESMARNKYDLFADVAEEEGWHAVARHFREAAENEKWHARAEFKAYHEIVDG KPLEVTTKNLVTAAEGENYEHTTMYPNFAKIAEDEGKKAIARLFTAIGKVEIEHEREY LALKKMLEEEEFFNSEVEELWVCEVCGHIHRGKKAPAACPLCKAPKEYFKREFLG" misc_feature complement(16777..16872) /gene="rrc" /locus_tag="Cj0012c" /inference="protein motif:Pfam:PF00301" /note="HMMPfam hit to PF00301, Rubredoxin, score 1.9e-05" misc_feature complement(16903..17283) /gene="rrc" /locus_tag="Cj0012c" /inference="protein motif:Pfam:PF02915" /note="HMMPfam hit to PF02915, Rubrerythrin, score 6e-43" misc_feature complement(17296..17403) /gene="rrc" /locus_tag="Cj0012c" /inference="protein motif:Pfam:PF06397" /note="HMMPfam hit to PF06397, Desulfoferrodoxin,N-terminal domain, score 4.4e-20" gene 17563..19239 /gene="ilvD" /locus_tag="Cj0013" /db_xref="GeneID:904349" CDS 17563..19239 /gene="ilvD" /locus_tag="Cj0013" /EC_number="4.2.1.9" /inference="protein motif:Pfam:PF00920" /inference="protein motif:Prosite:PS00886" /inference="protein motif:Prosite:PS00887" /note="catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis" /codon_start=1 /transl_table=11 /product="dihydroxy-acid dehydratase" /protein_id="YP_002343485.1" /db_xref="GI:218561706" /db_xref="GOA:Q9PJ98" /db_xref="InterPro:IPR000581" /db_xref="InterPro:IPR004404" /db_xref="UniProtKB/Swiss-Prot:Q9PJ98" /db_xref="GeneID:904349" /translation="MRSDAIKKGHLRAPNRSLLRACGLKDEDFDKPFIGVANSYIDII PGHYFLNDYAKIIKDEIRKNGCVPFEFNTIGVDDGIAMGHEGMLYSLPSRELIANSIE TVMNAHQLDALICIPNCDKITPGMLMGALRVNVPTIFVSGGPMASGVTKKGEKISLSS VFEAVGAYESKKISEEEFKDIECSACPSGGSCSGMFTANSMNTLCEAMGIALEGNGTI LALSKEREELLRKAARRICEIALDERFKIRNIITQKAVRNAMVVDMAMGGSSNTVLHM LAISREAGVALDIKDLNFISSKVAHIAKIAPSLNSVYMDDIHKAGGVSAVMAEISSRQ GHILELDALTITGESLKERLKNAKIKDENIIRKVDNAYSKVGGLAILFGNLAKQGCVI KTAGIIGERKFKGKAVCFNSQDEAIKGIIKGKVQKGNVCVIRYEGPKGGPGMQEMLSP TSLLMGMGLGADVALITDGRFSGATRGLSVGHISPEAAEGGLIGLLKDGDEIEIDVDA YTIHANVSEEEIAKRKKEFALPQKEVSSRWLRMYQKLVSNASKGAVLDME" misc_feature 17653..19230 /gene="ilvD" /locus_tag="Cj0013" /inference="protein motif:Pfam:PF00920" /note="HMMPfam hit to PF00920, Dehydratase family, score 0" misc_feature 17917..17949 /gene="ilvD" /locus_tag="Cj0013" /inference="protein motif:Prosite:PS00886" /note="PS00886 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 1" misc_feature 18952..18987 /gene="ilvD" /locus_tag="Cj0013" /inference="protein motif:Prosite:PS00887" /note="PS00887 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 2" gene complement(19251..19775) /locus_tag="Cj0014c" /db_xref="GeneID:904347" CDS complement(19251..19775) /locus_tag="Cj0014c" /inference="protein motif:Pfam:PF07274" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0014c, probable integral membrane protein, len: 174 aa; similar to YAGU_ECOLI hypothetical 23.0 kd protein in intF-eaeH intergenic region (204 aa), fasta scores; opt: 402 z-score: 821.6 E(): 0, 45.1% identity in 184 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF07274 Protein of unknown function (DUF1440) identified within CDS. Also,three probable transmembrane helices identified by TMHMM2.0. Further support given to product function. No specific characterisation has been carried out yet. Thus,putative kept within product function. Functional classification - Central intermediary metabolism -General" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343486.1" /db_xref="GI:218561707" /db_xref="InterPro:IPR009898" /db_xref="UniProtKB/TrEMBL:Q0PCB1" /db_xref="GeneID:904347" /translation="MKKYFQKRYTLAFFIGILAGIFGAIVKWGWEVPFPPRNPNVFWP ADALERVTPPKIFLEQLGLPTDWTYMFSGMQMPLSIFIVHVGFSIIFGVAYCMIAEKW HRITMWQGAVFGFFVYLFAHVIIMPLIAEVPPLSEIPFDEHLSEIFGHIVWLWGMEIV RRDIRNRITKEIEE" sig_peptide complement(19251..19322) /locus_tag="Cj0014c" /note="Signal peptide predicted for signalp2embl_unknown_000005_19251_19775 by SignalP 2.0 HMM (Signal peptide probability 0.976) with cleavage site probability 0.268 between residues 24 and 25" misc_feature complement(19296..19730) /locus_tag="Cj0014c" /inference="protein motif:Pfam:PF07274" /note="HMMPfam hit to PF07274, Protein of unknown function (DUF1440), score 1.1e-96" gene complement(19867..21093) /locus_tag="Cj0015c" /db_xref="GeneID:904352" CDS complement(19867..21093) /locus_tag="Cj0015c" /note="Original (2000) note: Cj0015c, unknown, len: 408 aa; 35.4% identity to HP0711; Updated (2006) note: Literature search identified paper (PMID:15647906) giving potential clues to product functionality. Functional classification - Conserved hypothetical proteins; PMID:15647906" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343487.1" /db_xref="GI:218561708" /db_xref="UniProtKB/TrEMBL:Q0PCB0" /db_xref="GeneID:904352" /translation="MINIKLIEHIFKAASISRWNDYPRMANLVELDKQAHKFIIAYFI AKMEKDVDMRVIIEGGIFEFLSRVVVTDIRPDVYHEIVRQKKAEVNAWVLSKIEPMIE DIEDGEFLKRFEAYLNGNAYAKERLILKAASYFATRWEFNIVYQTSAFLNDIDEIKNK VEEELEDYYELIGARKIALNQKIAKIIDLSGRLRFQKRWAQTPRIPETAVLGHMLVVA ILGYFYSLKIKACDKRLENNFYCALFHDLPESLTRDIISPVKYGIDGLHDIINDYEMK LINERILPFVPEGLRAEFSYILGIREGRNGESNFVKNEFENRTYKNAKIELCSGSLSS FNENEFGAIDGKALKYCDKIAAYIEAGLSISYGVKSKELESGFLGMHEFFKENPTIDG VNFFEICESLREYFKI" gene 21159..21833 /locus_tag="Cj0016" /db_xref="GeneID:904353" CDS 21159..21833 /locus_tag="Cj0016" /inference="protein motif:Pfam:PF06508" /note="Original (2000) note: Cj0016, possible transcriptional regulatory protein, len: 224 aa; similar to many hypothetical proteins and to TR:Q52925 (EMBL:Z50189) Rhizobium meliloti succinoglycan biosynthesis regulator exsB (234 aa), fasta scores; opt: 284 z-score: 395.5 E(): 9e-15, 33.5% identity in 191 aa overlap. 33.9% identity to HP0639 conserved hypothetical protein; Updated (2006) note: Pfam domain PF06508 ExsB identified within CDS. Further support given to product function. Characterisation work carried out within Pseudomonas aeruginosa, however, identity scores were not acceptable. Thus, putative kept within product function. Functional classification - Broad regulatory functions; PMID:9045825, PMID:8544814" /codon_start=1 /transl_table=11 /product="putative transcriptional regulatory protein" /protein_id="YP_002343488.1" /db_xref="GI:218561709" /db_xref="GOA:P0C634" /db_xref="GOA:Q9PJ95" /db_xref="InterPro:IPR004479" /db_xref="UniProtKB/Swiss-Prot:P0C634" /db_xref="GeneID:904353" /translation="MSKKALCIISGGMDSTLCAYLAKKEGYEIIALHFDYEQRTQEKE KECFKQICKALKVEKSYILDVSFIKDIGGNALTDKSIDIPKNELCTSDTPPITYVPFR NGIFLSIAGSLAEKENCESIFIGVVEEDGSGYPDCTDEFIQKAQEFINEGTSKNFKVC IKTPLVRLNKAKIVELALKENVPLELTWSCYESEDEACGECDSCLLRLRGFEKAGFKD KIKYKS" misc_feature 21369..21593 /locus_tag="Cj0016" /inference="protein motif:Pfam:PF06508" /note="HMMPfam hit to PF06508, ExsB, score 4.4e-41" gene complement(21854..23380) /gene="dsbI" /locus_tag="Cj0017c" /db_xref="GeneID:904354" CDS complement(21854..23380) /gene="dsbI" /locus_tag="Cj0017c" /inference="protein motif:Pfam:PF02600" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0017c, probable ATP/GTP binding protein, len: 508 aa; 37.4% identity to HP0595 hypothetical protein. Contains PS00017 ATP/GTP-binding site motif A (P-loop); Updated (2006) note: Pfam domain PF02600 Disulfide bond formation protein DsbB identified within CDS. Gram negative bacterial cells have disulfide bond formation occuring in the oxidative environment of the periplasm and are catalysed by Dsb (disulfide bond) proteins found in the periplasm and in the inner membrane. Supporting paper (PMID:15632440) demonstrates via deletion and complementation that Cj0017c is part of the DsbB family and has been designated as dsbI. There is also strong evidence that Cj0017c and upstream ORF Cj0018c are co-transcribed (PMID:15632440). This information along with motif identification has led to a new product function designation. In addition, this coding sequence has 100% amino acid identity with DsbI from C. jejuni 81-176 (CJJ81-176_0044). Characterisation paper within Campylobacter jejuni has led to putative being removed from product function. Functional classification -Synthesis and modification of macromolecules - Protein translation and modification; PMID:15632440" /codon_start=1 /transl_table=11 /product="disulphide bond formation protein" /protein_id="YP_002343489.1" /db_xref="GI:218561710" /db_xref="GOA:Q0PCA8" /db_xref="InterPro:IPR003752" /db_xref="UniProtKB/TrEMBL:Q0PCA8" /db_xref="GeneID:904354" /translation="MNEINKTKNFYTLMCLAGFLIILLPVGIANLIFGYMLGDSPCTL CWGQREAMIFIGVMALFIVRYGMKGKYLAALLIMTAVGLYQSFAHYGNHAHRDLDQGF GLAVFGIHTYFWAEVVFWAVVLLLGVIFAFAPKFNAFEAELNGEKFRKYTKFSFAAVL ISAIIVASNVFQAFVSTGIPPYVGQGDPVRFSLNPKYIIWSKEGWNGLWQNISFLGKR DVKAPDYAFAPASEKLGIKFDNDINNAPFAKINDELKITNEQTINFDKAINTLDYINN EFVASSKWDVAFLDNNFSVKEGFELDPYFSASIDPIIGIIPYMNDKFILMGSNKSFLR FAKNPNASEEDIAKQYADFVKGNDKFKGQGESLGRGRLDTVRAKFNHVASMTTDGNYL YLATVPNNKDAKTFVISKVSLKDRVLSGEFTPKANLKEGKTLGDLYVTSMTFKDGEIY ALSKNHNVIAVIDPVKEEVVKTIAFPSSITNARSIFFKDGKINILSYQDGANKLYTLN" sig_peptide complement(21854..21946) /gene="dsbI" /locus_tag="Cj0017c" /note="Signal peptide predicted for dsbI by SignalP 2.0 HMM (Signal peptide probability 0.820) with cleavage site probability 0.405 between residues 31 and 32" misc_feature complement(22082..22105) /gene="dsbI" /locus_tag="Cj0017c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature complement(22862..23365) /gene="dsbI" /locus_tag="Cj0017c" /inference="protein motif:Pfam:PF02600" /note="HMMPfam hit to PF02600, Disulfide bond formation protein DsbB, score 1.9e-17" gene complement(23392..23559) /gene="dba" /locus_tag="Cj0018c" /db_xref="GeneID:904356" CDS complement(23392..23559) /gene="dba" /locus_tag="Cj0018c" /note="Original (2000) note: Cj0018c, small hydrophobic protein, len: 55 aa; similar to TR:E1314390 (EMBL:AL031184) small hydrophobic protein SC2A11.18 from Streptomyces coelicolor (55 aa), fasta scores; opt: 72 z-score: 141.4 E(): 1.3, 32.7% identity in 49 aa overlap. 49.1% identity to HP0594 hypothetical protein; Updated (2006) note: Gram negative bacterial cells have disulfide bond formation occuring in the oxidative environment of the periplasm and are catalysed by Dsb (disulfide bond) proteins found in the periplasm and in the inner membrance. Supporting paper (PMID:15632440) speculates Dba has a supportive role as dba is co-transcribed with dsbI. This information has led to a new product function designation. Dba has 100% amino acid identity with Dba from 81-176 (CJJ81176_0045). Characterisation paper within Campylobacter jejuni has led to putative being removed from product function. Functional classification - Synthesis and modification of macromolecules - Protein translation and modification; PMID:15632440" /codon_start=1 /transl_table=11 /product="disulphide bond formation protein" /protein_id="YP_002343490.1" /db_xref="GI:218561711" /db_xref="UniProtKB/TrEMBL:Q0PCA7" /db_xref="GeneID:904356" /translation="MEFLELLLVLIALILIIKKPEKENLAFGLVMVAWLLMVFFYVGH KTGALLTIMNL" misc_feature complement(23428..23487) /gene="dba" /locus_tag="Cj0018c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0018c by TMHMM2.0 at aa 25-44" gene complement(23665..25443) /locus_tag="Cj0019c" /db_xref="GeneID:904357" CDS complement(23665..25443) /locus_tag="Cj0019c" /inference="protein motif:Pfam:PF00015" /inference="protein motif:Pfam:PF00672" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0019c, probable MCP-domain signal transduction protein, len: 592 aa; similar to other proteins containing the MCP domain e.g. HLYB_VIBCH hemolysin secretion protein precursor (548 aa), fasta scores; opt: 418 z-score: 492.5 E(): 3.5e-20, 22.7% identity in 565 aa overlap, and AER_ECOLI aerotaxis receptor (506 aa), fasta scores; opt: 299 z-score: 391.2 E(): 1.6e-14, 25.5% identity in 357 aa overlap. 27.5% identity to HP0103. Contains N-terminal signal sequence and transmembrane anchor around aa 250. Also contains Pfam match to entry PF00015 MCPsignal, Methyl-accepting chemotaxis protein (MCP) signaling domain, score 104.90,E-value 1.7e-28; Updated (2006) note: Pfam domain PF00672 HAMP domain identified within CDS. Two probable transmembrace helices identified by TMHMM2.0. Further support given to product function. No specific characterisation with acceptable identity scores has yet been carried out. Thus,putative kept within product function. Functional classification - Signal transduction" /codon_start=1 /transl_table=11 /product="putative MCP-domain signal transduction protein" /protein_id="YP_002343491.1" /db_xref="GI:218561712" /db_xref="GOA:Q0PCA6" /db_xref="InterPro:IPR003660" /db_xref="InterPro:IPR004089" /db_xref="InterPro:IPR004090" /db_xref="UniProtKB/TrEMBL:Q0PCA6" /db_xref="GeneID:904357" /translation="MTNKKSSFLIKFIILSTLVLAFILVLLGIIFNNYSSSKDNKELI NIVQQLEISDEKINSVFQNSFNFINYDPSVQAIKKMQENFTKLKTFGIDINKAEEIFN AKLIQLNYFKSANSIAVNSKLYLFELAKNYFEELEQNHETNKNNYKTMSSMLSVLSTE NILQKTTLNQLNNLMKEIKNDTKSENLQLFLKHYNMIVKQISIMQDNSSIYENNSLMK ELKQLNTFTQNTIEQSNLFKFYIALAVFGITLVLFVFFILLTLKKVIMPIHTLEKLSA NLASKEANLHSRLNIDPKSELGQSAQYINSFISTVQNSIIEAIENAKSSHQNSQKLKN NSMMLENSSNSQHEQIQGVKEITHVLDDHINLAGNLAQESIENMQDMHILMDKVELTL SELVNLINENNEKEQNIVANMDNLTQSADNIIEITNSIKDIADQTNLLALNAAIEAAR AGEHGRGFAVVADEVGQLADKTSKSLLNINATVNTIVQQINDNKALMDLIHDSMKETS SKTNDLQQELVNSMHKLESSIESTQTMKDKSMEVKDKMLILGTNIDKVNELANSVKDL SCEINNISQNVLNGASKLSEKLSSFQ" sig_peptide complement(23665..23775) /locus_tag="Cj0019c" /note="Signal peptide predicted for signalp2embl_unknown_000008_23665_25443 by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.852 between residues 37 and 38" misc_feature complement(23668..24375) /locus_tag="Cj0019c" /inference="protein motif:Pfam:PF00015" /note="HMMPfam hit to PF00015, Methyl-accepting chemotaxis protein (MCP) s, score 5.5e-10" misc_feature complement(24505..24720) /locus_tag="Cj0019c" /inference="protein motif:Pfam:PF00672" /note="HMMPfam hit to PF00672, HAMP domain, score 1.8e-06" gene complement(25433..26347) /locus_tag="Cj0020c" /db_xref="GeneID:904360" CDS complement(25433..26347) /locus_tag="Cj0020c" /EC_number="1.11.1.5" /inference="protein motif:Prosite:PS00190" /note="Original (2000) note: Cj0020c, probable cytochrome C551 peroxidase, len: 304 aa; similar to CCPR_PSEAE cytochrome C551 peroxidase precursor (EC 1.11.1.5) (346 aa), fasta scores; opt: 775 z-score: 1167.7 E(): 0, 42.3% identity in 298 aa overlap. No Hp ortholog. Contains 2x PS00190 Cytochrome c family heme-binding site signature and probable N-terminal signal sequence; Updated (2006) note: Characterisation has been carried out within Pseudomonas aeruginosa with acceptable identity score. Appropriate motifs also identified. Putative not added to product function. Functional classification - Cell processes - Detoxification; PMID:7781769, PMID:8591033, PMID:1657179" /codon_start=1 /transl_table=11 /product="cytochrome C551 peroxidase" /protein_id="YP_002343492.1" /db_xref="GI:218561713" /db_xref="GOA:Q0PCA5" /db_xref="InterPro:IPR004852" /db_xref="InterPro:IPR009056" /db_xref="UniProtKB/TrEMBL:Q0PCA5" /db_xref="GeneID:904360" /translation="MKKIIMILCLSYANIVFAVDMITPIPNSISYDKEKAKLGKSLYM DKSLSKDGKVSCNTCHRLDQHGVDGLEFSIGVDNQLDKPFNTPTTFNSVFNFVQFWNG RAKDLAEQATVPFFNPKEMGLSPELLLQKVNSNENYVKTFKKLYGEVTVENIALAVAE FEKTLITPNSPFDRYLSGDQNAISTQAKKGYEDFKANGCISCHQGQNIGGNMFQKIGI FEEYPNQEDLGRYEITKREADKMVFKVPSLRNIAKTAPYFHDGSIPTLDACVQFMAYY QLGKFLDQETVDNIVAFLESLTGEYHDK" sig_peptide complement(25433..25486) /locus_tag="Cj0020c" /note="Signal peptide predicted for signalp2embl_unknown_000009_25433_26347 by SignalP 2.0 HMM (Signal peptide probability 0.836) with cleavage site probability 0.680 between residues 18 and 19" misc_feature complement(25454..25786) /locus_tag="Cj0020c" /inference="protein motif:Pfam:PF00034" /note="HMMPfam hit to PF00034, Cytochrome c, score 0.0083" misc_feature complement(25736..25753) /locus_tag="Cj0020c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" misc_feature complement(25799..26311) /locus_tag="Cj0020c" /inference="protein motif:Pfam:PF03150" /note="HMMPfam hit to PF03150, Di-haem cytochrome c peroxidase, score 3.8e-69" misc_feature complement(26165..26182) /locus_tag="Cj0020c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" gene complement(26411..27289) /locus_tag="Cj0021c" /db_xref="GeneID:904361" CDS complement(26411..27289) /locus_tag="Cj0021c" /inference="protein motif:Pfam:PF01557" /note="Original (2000) note: Cj0021c, unknown, len: 292 aa; similar to hypothetical proteins e.g. TR:O06724 (EMBL:Z99109) B. subtilis yisK (301 aa), fasta scores; opt: 665 z-score: 1018.0 E(): 0, 43.1% identity in 255 aa overlap, and to C-terminal half of HPCE_ECOLI 2-hydroxyhepta-2,4-diene-1,7-dioate isomeraase/5-carboxymethyl-2-oxo-hex-3-ene-1,7-dioate decarboxylase (405 aa), fasta scores; opt: 328 z-score: 381.2 E(): 5.6e-14, 31.2% identity in 199 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF01557 Fumarylacetoacetate (FAA) hydrolase family identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation with acceptable identity score has been carried out yet. Thus, putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative fumarylacetoacetate (FAA) hydrolase family protein" /protein_id="YP_002343493.1" /db_xref="GI:218561714" /db_xref="GOA:Q0PCA4" /db_xref="InterPro:IPR002529" /db_xref="InterPro:IPR011234" /db_xref="UniProtKB/TrEMBL:Q0PCA4" /db_xref="GeneID:904361" /translation="MKFVNFIQGQKPNLGVLNSSGKIVSFDDLGIETNDMNEFIIHFD KFKHKLTDLDSKIAYEIPQENYLAPIIEPRQDIICLGINFLDHAKESAKFKGEKFEER EYPVYFGKRCNQATAPFGDIPLHADVTSQLDYECELAFILSKDAYKIKAKDAKDYIFG YTIINEISARELQKRHKQFYRAKSLEGSTIMGPYITSVDEISYPPKLQLQSYVNDELR QNSNTQLFIFDIAYVLEELSAGMLLKAGSIISMGTPSGVGMGLNPPTFLKSGDKVRCV IENLGELCNKIKNINY" misc_feature complement(26504..27007) /locus_tag="Cj0021c" /inference="protein motif:Pfam:PF01557" /note="HMMPfam hit to PF01557, Fumarylacetoacetate (FAA) hydrolase fam, score 1.4e-44" gene complement(27402..28304) /locus_tag="Cj0022c" /db_xref="GeneID:904362" CDS complement(27402..28304) /locus_tag="Cj0022c" /EC_number="4.2.1.70" /inference="protein motif:Pfam:PF00849" /inference="protein motif:Prosite:PS01129" /note="Original (2000) note: Cj0022c, possible ribosomal pseudouridine synthase, len: 300 aa; similar to e.g. RLUD_ECOLI ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70) (326 aa), fasta scores; opt: 344 z-score: 412.1 E(): 1.2e-15, 29.6% identity in 243 aa overlap. 41.1% identity to HP0347. Contains PS01129 Hypothetical yabO/yceC/sfhB family signature and Pfam match to entry PF00849 YABO, Hypothetical yabO/yceC/sfhB family, score 182.90, E-value 5e-51. Also similar to Cj1280c (31.0% identity) and Cj0708 (28.0% identity); Updated (2006) note: Characterisation has been carried out within Escherichia coli, however, identity score was marginal. Pfam domain PF00849 RNA pseudouridylate synthase was identified within CDS. This Pfam motif has been updated from the previous designation. Further support given to product function. Putative kept within product function. Functional classification -Synthesis and modification of macromolecules - Ribosome maturation and modification; PMID:11453071, PMID:11087118, PMID:9814761,PMID:14501142" /codon_start=1 /transl_table=11 /product="putative ribosomal pseudouridine synthase" /protein_id="YP_002343494.1" /db_xref="GI:218561715" /db_xref="GOA:Q0PCA3" /db_xref="InterPro:IPR002942" /db_xref="InterPro:IPR006145" /db_xref="InterPro:IPR006224" /db_xref="UniProtKB/TrEMBL:Q0PCA3" /db_xref="GeneID:904362" /translation="MAYIKIKLSNNGKKAFQVLMENLKISINEAQKLIDKKRLFCDGI LVEEKNKILNGLVELIVYENNPKGVEIVFENEDFAILEKESGILSHPNGRHCKYSLSD EIWHLWGKEACVAHRLDKETSGLILIAKNKKAQIDLKSLFEKKLVQKEYLALAHGKIE ENFIVDKAINLTKNYDDVKTRMQICKEGKQAITEFEILEYFPKINATLLLCKPLTGRQ HQIRVHLHYKNHTILGDPLYGLSKQQIESILDEKLNPKERLKLTGALRLCLHSYRLKF QYKNQNFDINSKINIKEIFNNSIK" misc_feature complement(27624..28076) /locus_tag="Cj0022c" /inference="protein motif:Pfam:PF00849" /note="HMMPfam hit to PF00849, RNA pseudouridylate synthase, score 7.1e-43" misc_feature complement(27918..27962) /locus_tag="Cj0022c" /inference="protein motif:Prosite:PS01129" /note="PS01129 Rlu family of pseudouridine synthase signature" gene 28382..29710 /gene="purB" /locus_tag="Cj0023" /db_xref="GeneID:904425" CDS 28382..29710 /gene="purB" /locus_tag="Cj0023" /EC_number="4.3.2.2" /inference="protein motif:Pfam:PF00206" /inference="protein motif:Prosite:PS00163" /note="Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide" /codon_start=1 /transl_table=11 /product="adenylosuccinate lyase" /protein_id="YP_002343495.1" /db_xref="GI:218561716" /db_xref="GOA:Q0PCA2" /db_xref="InterPro:IPR000362" /db_xref="InterPro:IPR003031" /db_xref="InterPro:IPR004769" /db_xref="UniProtKB/TrEMBL:Q0PCA2" /db_xref="GeneID:904425" /translation="MVERYSREIMAKKWDMQAKYDAWLKVELAAVKAWNKLGLIDDTD CEKILKNAKFDIARIDEIEKTTKHDVIAFLTSVSESLGEESRFVHYAMTSSDCIDTAV ALQIKESLELILEDVSLLLEAIKKRALEHKNTLMVGRSHGIHGEPITFGLVLAIWYDE ISHAKELLEHAKEVISYGKISGAMGNFAHAPLEFEEEVCKNLGLKAAPVSNQVIQRDR YAQVISAIAILASSCEQIAVAIRHFQRTEVYEAEEYFSVGQKGSSAMPHKRNPVLSEN ITGLCRVLRSFVTPALENVALWHERDISHSSVERFILPDAFITADFMLMRLTNLIDKL LVYPENMMKNLNLTGGLVFSGRVLLELPFKGISREEAYKIVQRNAMKVWADLQNGKAA INEKNESLFLLALLSDEDLRKSLSEEDVRKCFDYNYYTKNVDAIFKRTFK" misc_feature 28388..29239 /gene="purB" /locus_tag="Cj0023" /inference="protein motif:Pfam:PF00206" /note="HMMPfam hit to PF00206, Lyase, score 3.7e-45" misc_feature 29048..29080 /gene="purB" /locus_tag="Cj0023" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 29162..29191 /gene="purB" /locus_tag="Cj0023" /inference="protein motif:Prosite:PS00163" /note="PS00163 Fumarate lyases signature" gene 29726..32095 /gene="nrdA" /locus_tag="Cj0024" /db_xref="GeneID:904363" CDS 29726..32095 /gene="nrdA" /locus_tag="Cj0024" /EC_number="1.17.4.1" /inference="protein motif:Pfam:PF00317" /inference="protein motif:Prosite:PS00089" /note="Catalyzes the rate-limiting step in dNTP synthesis" /codon_start=1 /transl_table=11 /product="ribonucleotide-diphosphate reductase subunit alpha" /protein_id="YP_002343496.1" /db_xref="GI:218561717" /db_xref="GOA:Q0PCA1" /db_xref="InterPro:IPR000788" /db_xref="InterPro:IPR005144" /db_xref="InterPro:IPR013346" /db_xref="InterPro:IPR013509" /db_xref="UniProtKB/TrEMBL:Q0PCA1" /db_xref="GeneID:904363" /translation="MKVIKRNGRTEELDVSKIKKCTSDAVKDLEGVNLSELELDAKIQ FRDGISTEEIQKTLIKTAVDKIDIDCPNWTFVAARLFLFDLYKKVNGMNRYNHLREYF QKGEKEGRILLGLKEKYDLDDLNAYIKPERDMQFTYLGIKTLYDRYLIKDSKGMPIEL PQQMFMAIAMFLAQNEFNPQEWAKKFYDLISKFELMLATPTLSNARTTRHQLSSCYIG STPDNIEGIFDSYQEMALLSKFGGGIGWDWSKVRAMGGSIDGHKNAAGGIIPFLKITN DIAVAVDQLGTRKGAIAVYIEPWHMDISDFIDLRKNSGEERRRAHELFPALWINDLFM KRVRANDKWTLFDPADTADLCDLYGEAFEKRYEEYEKDESITKEIVEAKELWKKILLN YFETGLPFLCFKDSANRANPNAHVGIIRSSNLCTEIFQNTEPNYYQIKVVFENGDELH FDEEQKVVIDGGYEKPAKKISTLDSIEGNKVYIVEKYKNDGKTAVCNLASINLSKVYT KEDIERVVPTAIRMLDNVIDLNFYPHRKVKDTNLKSRAIGLGVMGEAQMLAEAKIHWG SDEHLNKIDEIMEQISFEAINASSNLALEKGSYEDFEGSNWSKGIFPIDVASPKAKAL TLREGLFDQSECDWVKLREKVKKDGMRNGYLMAIAPTSSISILVGTTQTIEPVYKRKW FEQNLSGMIPVVVPNLSLDTWQYYTPAYELDQKILVKAAAVRGKWIDQGQSLNIFLSL DKASGGYLNEIYQLAWELGVKSTYYLRSESPDSEKVNVADRSIECEGCQ" misc_feature 29726..29995 /gene="nrdA" /locus_tag="Cj0024" /inference="protein motif:Pfam:PF03477" /note="HMMPfam hit to PF03477, ATP cone domain, score 6.2e-18" misc_feature 30125..30355 /gene="nrdA" /locus_tag="Cj0024" /inference="protein motif:Pfam:PF00317" /note="HMMPfam hit to PF00317, Ribonucleotide reductase,all-alpha d, score 3.2e-35" misc_feature 30359..32035 /gene="nrdA" /locus_tag="Cj0024" /inference="protein motif:Pfam:PF02867" /note="HMMPfam hit to PF02867, Ribonucleotide reductase,barrel doma, score 7.5e-129" misc_feature 31637..31705 /gene="nrdA" /locus_tag="Cj0024" /inference="protein motif:Prosite:PS00089" /note="PS00089 Ribonucleotide reductase large subunit signature" gene complement(32134..33519) /locus_tag="Cj0025c" /db_xref="GeneID:904364" CDS complement(32134..33519) /locus_tag="Cj0025c" /inference="protein motif:Pfam:PF00375" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0025c, probable transmembrane symporter (possibly glutamate), len: 461 aa; similar to many e.g. YB54_HAEIN hypothetical symporter HI1154 (440 aa), fasta scores; opt: 650 z-score: 890.6 E(): 0, 33.7% identity in 454 aa overlap, and TR:Q46202 (EMBL:X86516) Clostridium perfringens gluT-R gene (fragment) (132 aa), fasta scores; opt: 406 z-score: 569.0 E(): 1.9e-24, 49.6% identity in 119 aa overlap. No Hp match. Contains Pfam match to entry PF00375 SDF,Sodium:dicarboxylate symporter family, score 142.20,E-value 9.4e-39; Updated (2006) note: Pfam domain PF00375 Sodium:dicarboxylate symporter family identified within CDS. Eleven probable transmembrane helices predicted by TMHMM2.0. Product modified to more specific family member due to motif match. No specific characterisation with acceptable identity score has been carried out yet. Thus,putative kept within product function. Functional classification - Transport/binding proteins - Other" /codon_start=1 /transl_table=11 /product="putative sodium:dicarboxylate family transmembrane symporter" /protein_id="YP_002343497.1" /db_xref="GI:218561718" /db_xref="GOA:Q0PCA0" /db_xref="InterPro:IPR001991" /db_xref="UniProtKB/TrEMBL:Q0PCA0" /db_xref="GeneID:904364" /translation="MDKQFFQDFLMLSQAHTIATLAILCVVFYALKKMRDIKINFSLR MLFALLMGLGFGFALQYLANFPDAEEASNILWYSETKHWFAFVSSVFVAFIKMLVVPL VSICIIKVIIEIDKNIKISSLLGISLFWILFSTAIAATLGIFLGYSFDLGSNFAIYEG DKQIREIQTFSNIILGLIPSNIITAINKENIIAIVIFSFFIGISAKKISKKEEYEQAF KSFHNFILTFYNIMMNMTATVIRFMPYAVVCMMANVLLSNGFEAIKTAGLFIMLIYIA MFIMFGVHFLLLASQGLNPIKYAKKAFPVWLFAFSSRSSLGTLPMTTSTLQNKFGVNS AIANFVASIGTTTGLNGCAGYFPALAAVFVAFATHTHIDFTFALMIVLVAVIGSLGIA GVPGSATMAASIMLAGIGFGNNFVMLSLILAIDPIIDMARTASNVSGAMTSALCTAKN LKALDKEIYNS" misc_feature complement(32170..33399) /locus_tag="Cj0025c" /inference="protein motif:Pfam:PF00375" /note="HMMPfam hit to PF00375, Sodium:dicarboxylate symporter family, score 2.4e-40" gene complement(33639..34262) /gene="thyX" /locus_tag="Cj0026c" /db_xref="GeneID:904365" CDS complement(33639..34262) /gene="thyX" /locus_tag="Cj0026c" /EC_number="2.1.1.148" /inference="protein motif:Pfam:PF02511" /note="flavin dependent thymidylate synthase; ThyX; thymidylate synthase complementing protein; catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate; the enzyme from Mycobacterium tuberculosis forms homotetramers; uses FAD as a cofactor" /codon_start=1 /transl_table=11 /product="FAD-dependent thymidylate synthase" /protein_id="YP_002343498.1" /db_xref="GI:218561719" /db_xref="GOA:Q9PJ85" /db_xref="HSSP:Q9WYT0" /db_xref="InterPro:IPR003669" /db_xref="UniProtKB/Swiss-Prot:Q9PJ85" /db_xref="GeneID:904365" /translation="MQITLLFHTPLSVCSHATRTCWQSFEKGDCGGEKDKELIDRVGN KFKHASTLEHLNYTFYIQGISRACLQEVARHRHTSPSVKSTRYTLKELRNEAEFKIGD FENASRYLVLCGNEEVDNASIKALENLRTILQKSISLDIAKYCLPESYKTELTLTINA RSLQNFISLRSSKSALWEIRNLANALFEALPQEHKFIFEHCLHKDIE" misc_feature complement(33663..34262) /gene="thyX" /locus_tag="Cj0026c" /inference="protein motif:Pfam:PF02511" /note="HMMPfam hit to PF02511, Thymidylate synthase complementing protein, score 6.3e-43" gene 34382..36013 /gene="pyrG" /locus_tag="Cj0027" /db_xref="GeneID:904367" CDS 34382..36013 /gene="pyrG" /locus_tag="Cj0027" /EC_number="6.3.4.2" /inference="protein motif:Pfam:PF00117" /inference="protein motif:Pfam:PF06418" /inference="protein motif:Prosite:PS00442" /note="CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer" /codon_start=1 /transl_table=11 /product="CTP synthetase" /protein_id="YP_002343499.1" /db_xref="GI:218561720" /db_xref="GOA:Q9PJ84" /db_xref="InterPro:IPR000991" /db_xref="InterPro:IPR004468" /db_xref="InterPro:IPR012998" /db_xref="InterPro:IPR017456" /db_xref="UniProtKB/Swiss-Prot:Q9PJ84" /db_xref="GeneID:904367" /translation="MKQTKYIFVTGGVLSSLGKGIAAASIATLLKNSGLKVSILKADP YINVDPGTMSPFEHGEVFVTDDGAETDLDLGHYERFLDESLSQDNNFTTGRVYQSVIE KERRGEYLGKTIQVIPHIVGEIKDRIKKAGEGKDILIVEIGGTVGDIEGLPFLEAIRA LRLEVGKNNAMNIHLTLVPFIKAAGELKTKPTQHSVGELRRIGISPDMIICRSEKALD RDLKDKIAISCGVEKNCVIESVDAASIYQIPLNFLKQDILSPIAEILDLKNLKPNMEN WDSLVKRVIAPSNEVKIAFVGKYVDLKESYKSLTEAIIHAGAALDTKVELKWVDSEKL ENMESSEVFKDVSGILVAGGFGYRGVEGKIKAIQYARENKIPFLGICLGMQLALVEFA RNVLKLKDVNSSEFNEKCQNPVVYLIDEFMDTNGEKQIRTAKTPLGGTMRLGAYKCDI KEKSLLAKVYNEVKSVKERHRHRYEANPKYRADFEKYGLIVSGESKGLIEAVELNCHP FFLAVQFHPEFTSRLEHVNPVICSFIKAAINYEDN" sig_peptide 34382..34453 /gene="pyrG" /locus_tag="Cj0027" /note="Signal peptide predicted for pyrG by SignalP 2.0 HMM (Signal peptide probability 0.989) with cleavage site probability 0.881 between residues 24 and 25" misc_feature 34391..35218 /gene="pyrG" /locus_tag="Cj0027" /inference="protein motif:Pfam:PF06418" /note="HMMPfam hit to PF06418, CTP synthase N-terminus,score 4.3e-204" misc_feature 34400..34468 /gene="pyrG" /locus_tag="Cj0027" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0027 by TMHMM2.0 at aa 7-29" misc_feature 35282..35989 /gene="pyrG" /locus_tag="Cj0027" /inference="protein motif:Pfam:PF00117" /note="HMMPfam hit to PF00117, Glutamine amidotransferase class-I, score 3.5e-57" misc_feature 35507..35542 /gene="pyrG" /locus_tag="Cj0027" /inference="protein motif:Prosite:PS00442" /note="PS00442 Glutamine amidotransferases class-I active site" gene 36000..37571 /gene="recJ" /locus_tag="Cj0028" /db_xref="GeneID:904450" CDS 36000..37571 /gene="recJ" /locus_tag="Cj0028" /EC_number="3.1.-.-" /inference="protein motif:Pfam:PF01368" /inference="protein motif:Pfam:PF02272" /note="Original (2000) note: Cj0028, recJ, probable single-stranded-DNA-specific exonuclease, len: 523 aa; similar to e.g. RECJ_ECOLI single-stranded-DNA-specific exonuclease (EC 3.1.-.-) (577 aa), fasta scores; opt: 385 z-score: 861.6 E(): 0, 29.8% identity in 526 aa overlap. 39.0% identity to HP0348; Updated (2006) note: Pfam domain HMMPfam PF01368 DHH family and HMMPfam PF02272 DHHA1 domain were identified within CDS. Further support given to product function. Characterised within Escherichia coli, however,marginal identity score was obtained. Putative kept within product function. Functional classification - Synthesis and modification of macromolecules - DNA replication,restriction/modification, recombination and repair; PMID:2649886" /codon_start=1 /transl_table=11 /product="putative single-stranded-DNA-specific exonuclease" /protein_id="YP_002343500.1" /db_xref="GI:218561721" /db_xref="GOA:Q0PC97" /db_xref="InterPro:IPR001667" /db_xref="InterPro:IPR003156" /db_xref="InterPro:IPR004610" /db_xref="UniProtKB/TrEMBL:Q0PC97" /db_xref="GeneID:904450" /translation="MKIINKNEIKKILASRFEKDLHTKLCDLPLPCCLKDAYKAANRI KEAVEKNEKVAIVGDYDVDGIISCVIMAEFFDDIGFDYIIRIPNRFKDGYGLNAEIIN ELDVNLIITVDNGIAALEAAKLCKEKNIDLIITDHHMPQDILPDAFAIINPKQKDCDF PEIEICGAQVAWYLIAALKEVCKLKYDMCKFLELLAIAIVADMMELRDLNRALVRRGI DHINKSKRAAFRAIKHYYQKDKFALDNIGFLIAPLINSAGRMDDASISYEFLHTKDFN KALEYLEQIVSFNESRKDEEKQLFEDSLNQIDENDSCIVVSGLNWHEGVLGIVASRLA KHFNKPAFVFSQNEEHLKGSARSVGKIDILALISKTNSILSNYGGHKGAAGISLNSEN FEQFKNKIKKECSQISESEFLDTDEILGILEPSEIDFEMLEILESFEPFGHKNPRPFF VLENLCVKNKKLLGKDEKHLKLVLTKENKTIEALFFNFDKEPELNQNISLLGSISKNE FRGMVTPQFVVKEIL" misc_feature 36138..36599 /gene="recJ" /locus_tag="Cj0028" /inference="protein motif:Pfam:PF01368" /note="HMMPfam hit to PF01368, DHH family, score 1e-48" misc_feature 37011..37205 /gene="recJ" /locus_tag="Cj0028" /inference="protein motif:Pfam:PF02272" /note="HMMPfam hit to PF02272, DHHA1 domain, score 1.5e-16" gene 37667..38662 /gene="ansA" /locus_tag="Cj0029" /db_xref="GeneID:904872" CDS 37667..38662 /gene="ansA" /locus_tag="Cj0029" /EC_number="3.5.1.1" /inference="protein motif:Pfam:PF00710" /inference="protein motif:Prosite:PS00144" /inference="protein motif:Prosite:PS00917" /note="Original (2000) note: Cj0029, ansA, probable cytoplasmic L-asparaginase, len: 331 aa; similar to many e.g. ASG2_ECOLI L-asparaginase II precursor (EC 3.5.1.1) (348 aa), fasta scores; opt: 1044 z-score: 1510.6 E(): 0,52.0% identity in 327 aa overlap, but with no signal sequence. 45.8% identity to HP0723. Contains PS00144 and PS00917 Asparaginase/glutaminase active site signatures 1 and 2 and Pfam match to entry PF00710 Asparaginase,Asparaginase, score 449.90, E-value 2.2e-131; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Thus,putative not added to product function. Functional classification - Degradation - Amino acids; PMID:2407723, PMID:1287659, PMID:8706862" /codon_start=1 /transl_table=11 /product="cytoplasmic L-asparaginase" /protein_id="YP_002343501.1" /db_xref="GI:218561722" /db_xref="GOA:Q0PC96" /db_xref="InterPro:IPR004550" /db_xref="InterPro:IPR006034" /db_xref="UniProtKB/TrEMBL:Q0PC96" /db_xref="GeneID:904872" /translation="MKKAKSRIAILGTGGTIAGFIDSTIATTGYAAGAIDIDVLIKAV PQIRDLADISWEQIANIDSSNMCDEIWLRLAKKIAKLFAEGIDGVVITHGTDTMEETA YFLNLTIKSDKPVVLVGAMRPSTAISADGPKNLYNAVALVVNKEAKNKGVMVAINDKI LSARGVVKTHSLNVDAFSSPDFGDLGYIVDGKVFFYNNVIKAHTKNAPFDVSKLTSLP KVDILYSYSNDGSGVAAKALFEHGTKGIVVAGSGAGSIHKNQKDVLKELLKKGLKVVV SSRVVAGCVAVSDSDEKLGFISAEDLNPQKARVLLMLALTKTSDPKKIQEYFLKY" sig_peptide 37667..37759 /gene="ansA" /locus_tag="Cj0029" /note="Signal peptide predicted for ansA by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.939 between residues 31 and 32" misc_feature 37694..37720 /gene="ansA" /locus_tag="Cj0029" /inference="protein motif:Prosite:PS00144" /note="PS00144 Asparaginase / glutaminase active site signature 1" misc_feature 37712..38644 /gene="ansA" /locus_tag="Cj0029" /inference="protein motif:Pfam:PF00710" /note="HMMPfam hit to PF00710, Asparaginase, score 1.5e-132" misc_feature 37928..37960 /gene="ansA" /locus_tag="Cj0029" /inference="protein motif:Prosite:PS00917" /note="PS00917 Asparaginase / glutaminase active site signature 2" gene 39249..40761 /locus_tag="Cjr01" /db_xref="GeneID:3245054" rRNA 39249..40761 /locus_tag="Cjr01" /product="16S ribosomal RNA" /db_xref="GeneID:3245054" gene 40866..40941 /gene="tRNAAla" /locus_tag="Cjp01" /db_xref="GeneID:904368" tRNA 40866..40941 /gene="tRNAAla" /locus_tag="Cjp01" /product="tRNA-Ala" /note="tRNA Ala anticodon TGC, Cove score 92.14" /db_xref="GeneID:904368" gene 40950..41026 /gene="tRNAIle" /locus_tag="Cjp02" /db_xref="GeneID:904458" tRNA 40950..41026 /gene="tRNAIle" /locus_tag="Cjp02" /product="tRNA-Ile" /note="tRNA Ile anticodon GAT, Cove score 93.24" /db_xref="GeneID:904458" gene 41568..44457 /locus_tag="Cjr02" /db_xref="GeneID:3245050" rRNA 41568..44457 /locus_tag="Cjr02" /product="23S ribosomal RNA" /db_xref="GeneID:3245050" gene 44741..44860 /locus_tag="Cjr03" /db_xref="GeneID:3245045" rRNA 44741..44860 /locus_tag="Cjr03" /product="5S ribosomal RNA" /db_xref="GeneID:3245045" gene 44966..46363 /locus_tag="Cj0030" /db_xref="GeneID:904369" CDS 44966..46363 /locus_tag="Cj0030" /note="Original (2000) note: Cj0030, unknown, len: 465 aa. No Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Functional classification -Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343502.1" /db_xref="GI:218561723" /db_xref="UniProtKB/TrEMBL:Q0PC95" /db_xref="GeneID:904369" /translation="MEKFIERLLEEDIKFEKDVNNGLSDINIFDALNIETKENYHSKF IAYLIDINKDHYQKNFAKVFLEKLGKSLVNTKFENLNIEDIKSVETEACIKDNRRIDI LITLSDKRYIIIENKIYAKDQKNQLKDYINFVRKNIKNIKDCYKNILTIYLHQDECAS PSDYSLGNFTIKTNLIKDKNENNVSYYLKMDYMWIKEWIDECIKIYEEKSTKDQKFIL DIQNIIFTLNQYKSILQWYIADEYTQRDDVLEFIFQDIIKMQNLKNAMILYRYNKNKS ELKNLNEEKYKKAKDIIQHKWSNICEYIIEEFFDSFEHKEIKIGDITFIGNKIEENRV NHGVFIFYPVDYKNESIYPCIYIYFKKKYYDIIGLTFEISNDDEEDIENEKYKECLKL FKDVKEENVRKYQNHYYCDKLINNEKLEGEYAFIYWLIENQNSKKDFIQILNDFFIKK PIQEAYKGINDILNS" gene join(46424..49000,49002..50156) /locus_tag="Cj0031" /db_xref="GeneID:904370" CDS join(46424..49000,49002..50156) /locus_tag="Cj0031" /inference="protein motif:Prosite:PS00092" /note="Original (2000) note: Cj0031, probable DNA restriction/modification enzyme, N-terminal half, len: 867 aa; similar to N-terminus of T257_ECOLI type IIS restriction enzyme Eco57I (which contains an adenine-specific methyltransferase activity) (997 aa),fasta scores; opt: 126 z-score: 218.0 E(): 6.9e-05, 24.0% identity in 516 aa overlap. 40.9% identity to N-terminus of HP1517. Some similarity to N-terminus of Cj0690c (24.8% identity in 858 aa overlap). Contains PS00092 N-6 Adenine-specific DNA methylases signature. Note that there is a polymorphic poly-G tract at the C-terminus of this ORF with 8, 9, or 10 bases. G10 (the most common in our shotgun) causes a termination here, G9 causes a termination 6 aa earlier. G8 allows translation to continue into Cj0032; Original (2000) note: Cj0032, probable DNA restriction/modification enzyme, C-terminal half, len: 867 aa; similar to C-terminus of MTB3_BACAR modification methylase BanIII (580 aa), fasta scores; opt: 132 z-score: 220.8 E(): 4.9e-05, 24.6% identity in 402 aa overlap. 47.4% identity to C-terminus of HP1517. Note that there is a polymorphic poly-G tract at the N-terminus of this ORF with 8, 9, or 10 bases. G10 (the most common in our shotgun) or G9 will not allow translation into this ORF,G8 allows translation to continue from Cj0031. Alternative downstram start at 49059; Updated (2006) note: Coding sequences have been merged to reflect the complete amino acid sequence for this gene regardless of phase. Previous annotation gave N-terminal and C-terminal portions as seperate CDS. Merging of these CDSs has lead to loss of the downstream CDS. Functional classification - Synthesis and modification of macromolecules - DNA replication,restriction/modification, recombination and repair" /codon_start=1 /transl_table=11 /product="putative type IIS restriction/modification enzyme" /protein_id="YP_002343503.1" /db_xref="GI:218561724" /db_xref="GOA:Q0PC94" /db_xref="InterPro:IPR002052" /db_xref="InterPro:IPR002296" /db_xref="UniProtKB/TrEMBL:Q0PC94" /db_xref="GeneID:904370" /translation="MHFTLLNEKDFFNPYYRKKQIMQNEFDIFSKALMQYLERLESSQ SENEDYLVANALSPFLTMLNFKTHIKTKQKGKSEIDLSISKDEFSKDLEVLIEAKKPN SKEFITHTKVNSKALHETILYYFRNREYSFSLKFIIITDFYKFYIFKISEFEELFYKN PSFKKLFEEFCNPNSLFKGNTEEFYKEVAKLIENSKENLKGFLIDLTFLKDKQKSNFK NLASIYKTFHRDFLLSEFNPNDANSLNNAFYKELLYILGLYESKQNSKLIIAKSEESK EEQGTFYTAINSKLKEENFETILKLLILWLNRILFLKLIESNLVRFNDDKNLKFLNFK KIPDFDKLSELFFEVLAKEKSTRKKSEFTYLPYLNSSLFEKQSIENTLEISSLSNDLK LFYYKNTVLKDDKCKAKKGQVGLLEYLFEFLDSFDFGSDDEQSEILSQKELISSSVLG NVFEKLNGYKEGSFYTPSFITSYMCKESITKVVLDKFNAQFDLDAKDISELRKSLRKE DKKAQKELLNSIKICDPAVGSGHFLVSALNVMLSIYDELNLFDEEFYLEVQNDEILIT GRKGEFIEYKRPSTPKDKTHLIQQELFHTKKDIIENNLFGVDINPNSCEITKLRLWIE LLKHSFYQSFDDGNYHDLKTLPNIDINIKCGNSLVSYFETGKSLNHYPNIKERMGKYK RIVKDYKEGFYTDKSHINQEIKNLKISFKNFCFADKFKKEMKSFNDKCEKYSKKYGNF LAVDDENLKFFVSANLTLFDFDEKEAIKEFANLKKEYDNIFNLESNHPFEWRFEFPEI LDDDGNFKGFDLIIGNPPYIRQEELKELKPHLAKNYKVYKGTSDIYTYFYELGFNVLK DRGGVLSYITSNKYTRAGYGEALREFLLKNVKFLEYTDLNGIKVFDSATVDTSILCFE KSKSKDNKFKYLALSNEILKTCAYDIGLYKDFAEFSQNSLSKESFTFSDENTSALKAK IERIGTPLKEWYGLNINYGIKTGLNEAFIITTEKRNEILANCKDEAEKERTAKLIRKM LRGRDIKRYSYEWAGLWVIGTFPSLKIDIEQYPALKQYLSQFLPHIEQSGEKGCRKKT SNKWFETQDNIAYYEEFEKEKIVWAEMTKEACFVYDNSNFFTNQTCYFFTHCDYKYLL AILNSRLIVYYMQYISSHLGQGAFRWIRQYIEKLPIPKINSKNEKLADELINLVDEIL KAKEQDKNANTQELENKINSLVYKLYNLTEEEIKIIEGK" gene 50156..51937 /locus_tag="Cj0033" /db_xref="GeneID:904331" CDS 50156..51937 /locus_tag="Cj0033" /note="Original (2000) note: Cj0033, probable integral membrane protein, len: 593 aa; contains 6 possible transmembrane domains in C-terminal half. No Hp match. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343504.1" /db_xref="GI:218561725" /db_xref="UniProtKB/TrEMBL:Q0PC93" /db_xref="GeneID:904331" /translation="MEELTKEQRQIIEEEIKKEIKKANTFLKPELINKIIQDIIGDIK GKINNKFKCPKNLEEILSSIPQKVYVSLGKEEIKQILKLDFCCFVDNVFYIDSAPKIE PYEHNQNKTAIEEQRIIQCSYDDLLYLFKTYPLIFNHCIFDYKIDKKTPIEQIKKLSF LNCNFKKEVYLNFQECLDSFQMDNCVFEDRVTIKGKFNDNVYFNNSIFKNYADFHECE FEKTANFYGVRFNKTPNFSQAIFRGNLNAVNANLNFTFDDLQERIKQEYEDFNKNIEN KKSLDKFANDFRDSFRTFKNALIKDNNLLDASNFHKYELYCKEIELKQNWDKRGENVK NTTDLEKNVSRIRDFMDFLLLGFYRKLCDHHTDFLKVFNNLILLIALYALFVFGFTWL HDDKLEDTRAILTLFGFFDKFRLYFDIISTIFVVFGCGFFVCKLDSYEKKNNVSKKQN INFIYIIGDFLNLIKSLLFASFIPCVFYVLFSLFGFFLNLGKDFGYSLLINTLFVSLY ICLVYTKSLFFGRYVVLIFSYIVFIIMLIKQPNVIHPLIGKIANESDKFFNYPSLIVL NILYTILLALVLFSLQKTARKNSIVPS" misc_feature order(51266..51334,51398..51457,51554..51622,51635..51694, 51707..51766,51824..51892) /locus_tag="Cj0033" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0033 by TMHMM2.0 at aa 371-393, 415-434, 467-489,494-513, 518-537 and 557-579" misc_feature 51410..51442 /locus_tag="Cj0033" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(51967..52668) /locus_tag="Cj0034c" /db_xref="GeneID:904372" CDS complement(51967..52668) /locus_tag="Cj0034c" /note="Original (2000) note: Cj0034c, probable periplasmic protein, len: 233 aa; similar to e.g. TR:O50817 (EMBL:AE000788) Borrelia burgdorferi conserved hypothetical protein BBK13 (238 aa), fasta scores; opt: 306 z-score: 257.5 E(): 4.4e-07, 28.1% identity in 231 aa overlap. No Hp match. Contains possible N-terminal signal sequence. Functional classification - Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343505.1" /db_xref="GI:218561726" /db_xref="GOA:Q0PC92" /db_xref="InterPro:IPR007497" /db_xref="InterPro:IPR016907" /db_xref="UniProtKB/TrEMBL:Q0PC92" /db_xref="GeneID:904372" /translation="MKTNNIFMALAIVLASLILAFGFNKALSDFKTLERSVSVKGLSQ KEVEADTLILPIKFTRSNNNLTNLYEELEQDKENIIKFLEKQGIKEDEISYNSPNIID RLSDPYSNDTQAAYRYIGTANLLIYTQNVKLGKSILENISSLAKFGIVTKIDDYDIEY LYTKLNDIKPQMIEEATLNARNAAIKFAQDSNSHLGKIKKASQGQFSISNRDKNTPYI KTIRVVSTIEYYLKD" sig_peptide complement(51967..52032) /locus_tag="Cj0034c" /note="Signal peptide predicted for signalp2embl_unknown_000015_51967_52668 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.425 between residues 22 and 23" misc_feature complement(51973..52572) /locus_tag="Cj0034c" /inference="protein motif:Pfam:PF04402" /note="HMMPfam hit to PF04402, Protein of unknown function (DUF541), score 2.4e-60" misc_feature complement(52600..52656) /locus_tag="Cj0034c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0034c by TMHMM2.0 at aa 5-23" gene complement(52665..53867) /locus_tag="Cj0035c" /db_xref="GeneID:904517" CDS complement(52665..53867) /locus_tag="Cj0035c" /inference="protein motif:Pfam:PF07690" /note="Original (2000) note: Cj0035c, possible efflux protein, len: 400 aa; similar to many members of the bcr/cmlA subfamily of the major facilitator family e.g. BCR_ECOLI bicyclomycin resistance protein (396 aa), fasta scores; opt: 717 z-score: 1046.3 E(): 0, 28.1% identity in 398 aa overlap. No Hp ortholog. Contains 12 possible transmembrane domains. Also similar to Cj1375 (25.5% identity in 373 aa overlap); Updated (2006) note: Pfam domain PF07690 Major Facilitator Superfamily was identified within CDS. Further support given to product function. Some characterisation work within different bacteria, however, identity scores were marginal. Thus, putative kept within product function. Functional classification - Antibiotic resistance; PMID:2694948, PMID:8486276" /codon_start=1 /transl_table=11 /product="putative efflux protein" /protein_id="YP_002343506.1" /db_xref="GI:218561727" /db_xref="GOA:Q0PC91" /db_xref="InterPro:IPR004812" /db_xref="InterPro:IPR007114" /db_xref="InterPro:IPR011701" /db_xref="UniProtKB/TrEMBL:Q0PC91" /db_xref="GeneID:904517" /translation="MQKHTKIHGFAKFKLIVILALMSSIAPLSTDMYLPALSHVEQSF QTNSFLTQLSIASFFIAFALGQLIYGPLSDIFGRKIPALVGIFFFIVSSLFCVIIDDI YAFIALRFFEALGGCAGVVIARAIVNDLFEIKEAAGIFALMMVFSSLAPMLSPTFGGI LLEYFSWHSIFATLFALGILLFLMILFGLKESAPHLKNKKFSHHEAMKSYKFVLSDKR FLVYILCASFALAAMFAYITGSSFVFTQFFSLSEQKFALLFGANALGFVICANINARL VLKYESEKILAKALMIMFISTVILLVNAFFHPNFLLFELSIFTSIAMLGFIAPNTTTL AMARFKEHSGTASAVLGTVQFGFAGLISFVVGAINANTPIILAFVMCACVLVANMIYF LIKIKEKK" sig_peptide complement(52665..52784) /locus_tag="Cj0035c" /note="Signal peptide predicted for signalp2embl_unknown_000016_52665_53867 by SignalP 2.0 HMM (Signal peptide probability 0.901) with cleavage site probability 0.388 between residues 40 and 41" misc_feature complement(52719..52751) /locus_tag="Cj0035c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature complement(52758..53813) /locus_tag="Cj0035c" /inference="protein motif:Pfam:PF07690" /note="HMMPfam hit to PF07690, Major Facilitator Superfamily, score 4.8e-52" gene 53970..55319 /locus_tag="Cj0036" /db_xref="GeneID:904813" CDS 53970..55319 /locus_tag="Cj0036" /note="Original (2000) note: Cj0036, unknown, len: 449 aa; 37.8% identity to HP1143 hypothetical protein. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343507.1" /db_xref="GI:218561728" /db_xref="UniProtKB/TrEMBL:Q0PC90" /db_xref="GeneID:904813" /translation="MQNLNQNEQIKCPSCGSFIDISTALYAQILDKAKQEMLKQKKEF DDEVNAKRAEYTKALNDLKTQKIEQEKLINEQVSQKLLLEKQKFEQELLIQKQNFQKE FSEKFNKEHENEMKIMQEELEKKSKELSEFLSIKAENERLKREQKENEERLKFQAKEE AFKEFKEQESKNLEFEREKMRLEFQKSTQEQDLKYKELETNFKSVAQKLEDAQRRIEQ GSQQLQGEAAELLIEEYIQSEYLSDEVKEVPKGVNGADCLHIVKDNFGNICGSILYES KRTKEFNKEWLDKLKLDSIAAKSDIAVLITKTMPKDKEKTHFKEGILICTFNEFKGVL AVLRESIINAYKLKNALQNKDEKNHILYEYLNSKEFNTQITFILKTYQNMKEELEVEK RALQNIWKKRERAIENLSFNSTAIVSSLNAIFSDLQGGNLIGEEGIKSLENLAKDED" gene complement(55343..56386) /locus_tag="Cj0037c" /db_xref="GeneID:904547" CDS complement(55343..56386) /locus_tag="Cj0037c" /inference="protein motif:Pfam:PF00034" /inference="protein motif:Prosite:PS00190" /note="Original (2000) note: Cj0037c, possible cytochrome C, len: 347 aa; weak simlarity to e.g. TR:O69780 (EMBL:U76906) di-heme cytochrome c (fixP) from Rhizobium etli (287 aa), fasta scores; opt: 97 z-score: 205.7 E(): 0.00034, 27.2% identity in 151 aa overlap. No Hp match. Contains 2x PS00190 Cytochrome c family heme-binding site signature and Pfam match to entry PF00034 cytochrome_c,Cytochrome c, score 5.90, E-value 0.11; Updated (2006) note: No specific characterisation with acceptable identity scores has been carried out yet. Thus, putative kept within product function. Functional classification - Energy metabolism - Respiration -Electron transport" /codon_start=1 /transl_table=11 /product="putative cytochrome C" /protein_id="YP_002343508.1" /db_xref="GI:218561729" /db_xref="GOA:Q0PC89" /db_xref="InterPro:IPR003088" /db_xref="InterPro:IPR009056" /db_xref="InterPro:IPR011031" /db_xref="UniProtKB/TrEMBL:Q0PC89" /db_xref="GeneID:904547" /translation="MKKHILLLGLCLSLSLSAKSVSDYKVGEELSDKEGVEYFKELSK RPVQEWPNKNLSINDVPKGKQGDLIRYGIELLSKTESTLGPYSKLKKTSNEVNCISCH MDNDGNGLPGTKKYVIPFLNILNNYPRLDIETMKIISVEDRIRGMGGTDSHRFPNDSK EMKAILAYFKWLKEAYGIKDGVKLEGDFFAKMNFPNRPADPVRGKKLFEENCVACHGE RGLGVKNDNYEQGSGHLYPSLLIYPDGGHMAMIPFLARFLKSAMPFGASADNPILSDE DALDIAAYVNTGFVRMPITTTENRAGLDTAYSKSPSLKPEYFASPQQNLDPKEYIKVK YGPWKNPNHFPGE" sig_peptide complement(55343..55402) /locus_tag="Cj0037c" /note="Signal peptide predicted for signalp2embl_unknown_000018_55343_56386 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.378 between residues 20 and 21" misc_feature complement(55520..55783) /locus_tag="Cj0037c" /inference="protein motif:Pfam:PF00034" /note="HMMPfam hit to PF00034, Cytochrome c, score 0.0012" misc_feature complement(55736..55753) /locus_tag="Cj0037c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" misc_feature complement(56078..56095) /locus_tag="Cj0037c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" gene complement(56564..57211) /locus_tag="Cj0038c" /db_xref="GeneID:904373" CDS complement(56564..57211) /locus_tag="Cj0038c" /EC_number="2.7.7.-" /inference="protein motif:Pfam:PF01743" /note="Original (2000) note: Cj0038c, possible membrane protein, len: 215 aa; no HP match. Contains two possible transmembrane domains at the N-terminus; Updated (2006) note: Pfam domain PF01743 Poly A polymerase family identified within CDS by carrying out own Pfam search. This family includes nucleic acid independent RNA polymerases, such as Poly(A) polymerase,which adds the poly(A) tail to mRNA (EC:2.7.7.19). This family also includes the tRNA nucleotidyltransferase that adds the CCA to the 3' of the tRNA (EC:2.7.7.25). Product modified to more specific family member due to motif match. No specific characterisation has been carried out yet. Thus, putative kept within product function. Functional classification - Synthesis and modification of macromolecules - DNA replication,restriction/modification, recombination and repair" /codon_start=1 /transl_table=11 /product="putative poly(A) polymerase family protein" /protein_id="YP_002343509.1" /db_xref="GI:218561730" /db_xref="GOA:Q0PC88" /db_xref="UniProtKB/TrEMBL:Q0PC88" /db_xref="GeneID:904373" /translation="MDLKSLENNRLYILKRLGILKFLSIIEALLVGFLAFVFIRDALI AVILAVFVGVFFFRFTAKKLKLAQKELQINALNLFLRRFGAKFKKQSLSQKDFLKLGL TKDLKEFKSQNCFEFKDFKIYDIQFLDENKRFFCGILLEISKANKNPSFENEEQIYIK LTDKNFTLNHIFSKENHYLITTLSNPFFIDIKKDLESNFKDLEENLNSIKNKLFK" gene complement(57211..59019) /gene="typA" /locus_tag="Cj0039c" /db_xref="GeneID:904374" CDS complement(57211..59019) /gene="typA" /locus_tag="Cj0039c" /inference="protein motif:Pfam:PF00009" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00301" /note="Original (2000) note: Cj0039c, typA, GTP-binding protein typA homolog, len: 602 aa; similar to TYPA_ECOLI GTP-binding protein typA/bipA (591 aa), fasta scores; opt: 2145 z-score: 2659.1 E(): 0, 54.2% identity in 592 aa overlap, and to many EF-G proteins e.g. EFG_AGRTU elongation factor G (EF-G) (699 aa), fasta scores; opt: 344 z-score: 797.3 E(): 0, 26.2% identity in 715 aa overlap. 77.3% identity to HP0480. Contains PS00017 ATP/GTP-binding site motif A (P-loop), PS00301 GTP-binding elongation factors signature and Pfam match to entry PF00009 GTP_EFTU, Elongation factor Tu family (contains ATP/GTP binding P-loop), score 282.90, E-value 4e-81; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Thus,putative not added to product function. Homolog designation kept within product function. Functional classification - Synthesis and modification of macromolecules - Protein translation and modification; PMID:7783627, PMID:9642082, PMID:14560797" /codon_start=1 /transl_table=11 /product="GTP-binding protein TypA homolog" /protein_id="YP_002343510.1" /db_xref="GI:218561731" /db_xref="GOA:Q0PC87" /db_xref="InterPro:IPR000640" /db_xref="InterPro:IPR000795" /db_xref="InterPro:IPR004161" /db_xref="InterPro:IPR005225" /db_xref="InterPro:IPR006298" /db_xref="UniProtKB/TrEMBL:Q0PC87" /db_xref="GeneID:904374" /translation="MENIRNIAVIAHVDHGKTTMVDELLKQSGTFSEREQISERVMDS NDIEKERGITILSKNTAINYKGTKINIIDTPGHADFGGEVERVLKMIDGVLLLVDAQE GVMPQTKFVVKKALSLGLKPIVVINKIDKPAADPERVINEIFDLFVALDANDEQLDFA IVYAAAKNGYAKLDLNDESDNMEPLFKTILERVPAPSGSDENPLQLQVFTLGYDNFVG KIGIARIFNGVVKKNQSVMLAKADGTKVNGRISKLIGFMGLEKMDIEEAGSGDIVAIA GFEALDVGDSVVDPNNPMPLDPLHIEEPTLSIVFSVNDGPLAGTEGKHVTSNKIAERL EAEMKTNIAMKYESTGEGKFKVSGRGELQITILAENMRREGFEFCMGRPEVIVKVEDG VKTEPFEHLVIDVPEEFSGAVIEKLGKRKAEMKTMAPTGDGQTRLEFEIPARGLIGFR SQFLTDTKGEGVMNHSFLEFRPFSGAVEKRNNGALISMENGVALGYSLFNLQERGVLF IEPQTKVYTGMIIGEHSRPNDLDVNPIKGKNLTNVRASGSDDAIKLVPPRKLSLERAL EWIEEDELVEVTPVNVRVRKRYLDPTQRKRMEKAKS" misc_feature complement(57580..57843) /gene="typA" /locus_tag="Cj0039c" /inference="protein motif:Pfam:PF00679" /note="HMMPfam hit to PF00679, Elongation factor G C-terminus, score 7.8e-30" misc_feature complement(58156..58368) /gene="typA" /locus_tag="Cj0039c" /inference="protein motif:Pfam:PF03144" /note="HMMPfam hit to PF03144, Elongation factor Tu domain, score 6.7e-12" misc_feature complement(58429..59016) /gene="typA" /locus_tag="Cj0039c" /inference="protein motif:Pfam:PF00009" /note="HMMPfam hit to PF00009, Elongation factor Tu GTP binding domain, score 6.7e-70" misc_feature complement(58846..58893) /gene="typA" /locus_tag="Cj0039c" /inference="protein motif:Prosite:PS00301" /note="PS00301 GTP-binding elongation factors signature" misc_feature complement(58966..58989) /gene="typA" /locus_tag="Cj0039c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 59154..59477 /locus_tag="Cj0040" /db_xref="GeneID:904375" CDS 59154..59477 /locus_tag="Cj0040" /note="Original (2000) note: Cj0040, unknown, len: 107 aa; no Hp match; Updated (2006) note: Literature search identified paper giving clues to product function. Functional classification - Unknown; PMID:14985343" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343511.1" /db_xref="GI:218561732" /db_xref="UniProtKB/TrEMBL:Q0PC86" /db_xref="GeneID:904375" /translation="MSKPLNEEIFVEFKSDLAERKNEVLLQVLELLETFRSDENEKMA RISSELTEILENEENLEKILNAKNLEELLNILTALNEDKMIKVYEDSYLKEKFPNVMV DKFLK" gene 59493..61289 /gene="fliK" /locus_tag="Cj0041" /db_xref="GeneID:904378" CDS 59493..61289 /gene="fliK" /locus_tag="Cj0041" /note="Original (2000) note: Cj0041, unknown, len: 598 aa; 25.2% identity to HP0906, but shorter at N-term; Updated (2006) note: Literature search identified papers linking product function to be involved in motility and invasion. Unpublished observation by N.Kamal & C. Penn have predicted this CDS to be fliK. Literature search identified work carried out in Campylobacter jejuni,Helicobacter pylori and Escherichia coli. Product function modified to more specific family member. Putative was kept in product function as not fully characterised. Functional classification - Surface structures; PMID:12379703, PMID:14985343, PMID:15812042,PMID:11895937, PMID:16077121, PMID:15276839" /codon_start=1 /transl_table=11 /product="putative flagellar hook-length control protein" /protein_id="YP_002343512.1" /db_xref="GI:218561733" /db_xref="GOA:Q0PC85" /db_xref="UniProtKB/TrEMBL:Q0PC85" /db_xref="GeneID:904378" /translation="MMSNLAPQNDVLNLTPSKTSTTSSSFSKTSKNKEHESSDSKNST QDDTESFLNSLLNSINETNEFLPDHMKISQKEVVNEAMSRLQKGAFDESDKISIFESA SFMQILSLLDKLKTDTADVKLANLSTQLSSLIKTEANFNALKGASNLSELLDIAKDLG LNVKNIKVDRLLDLKATFPNLDKADFFKGAVDNVFKEIINNKISNVSKNLNHNLENTT HTTSTHSMQKTNSKDSGSLLSQTLKNLDSILSSKESKHEKNDKVKSKIEEDTTDAKNT LKNIKNDEFAKNLTEELNIKDKKNQDNLNKESKDLNKDFNKELNKNQEKNNLNQENIQ DQNKNLKNNDQNLNLDKNLNKEIVKDTQKLVSNLTQKDFNLNKEPKNNNKENKDIKQN FFDQKLNFENLNKTQVVQNKENNANFNNNNTNNKETFTQEQTKTHSENVDKNSLDELN SLVKDLNKVTQNNARNITPKETLQYFSQDLKEAVDQYKAPITKLSITLNPNNLGEVEV TLIQRGNNLHINFNSNANAMNLFIQNQAEFKNSLVNMGFTGLEMNFSDQGKREQNQNQ GKNRSGYGFKDALDGKNESEKVNLELVLAKYF" gene 61343..62227 /gene="flgD" /locus_tag="Cj0042" /db_xref="GeneID:904379" CDS 61343..62227 /gene="flgD" /locus_tag="Cj0042" /inference="protein motif:Pfam:PF03963" /note="acts as a scaffold for the assembly of hook proteins onto the flagellar basal body rod" /codon_start=1 /transl_table=11 /product="flagellar basal body rod modification protein" /protein_id="YP_002343513.1" /db_xref="GI:218561734" /db_xref="GOA:Q0PC84" /db_xref="InterPro:IPR005648" /db_xref="UniProtKB/TrEMBL:Q0PC84" /db_xref="GeneID:904379" /translation="MISSSDWNLNTTATTSGTTSSGSTSGTTRTDSSSSSGIVSNPNA TLDKDAFLKLLLIELQHQDPTDPMDSDKMLTQTSQLSALEMQQNTNTTMQKMVETMQK LSDSFSTSMSTSALGAIGKMATVSDNKIKLTGADELIALKMYLPEDSDENGVTLEIYD SNNKLVFSEKSDAKSISQGLFTMEWPGRNNDGVYAGDGEYTVKMVYNNKNGEKITANY GTYPIEGVVFKDGVAYAKMAGQEVPFDAIQEITDYKLGSSSSTGGSGSSGDSSGGSSD GDSSGSGSTEDGDKEEKA" misc_feature 61382..61852 /gene="flgD" /locus_tag="Cj0042" /inference="protein motif:Pfam:PF03963" /note="HMMPfam hit to PF03963, Flagellar hook capping protein, score 1.4e-60" gene 62231..63868 /gene="flgE" /locus_tag="Cj0043" /db_xref="GeneID:906016" CDS 62231..63868 /gene="flgE" /locus_tag="Cj0043" /inference="protein motif:Pfam:PF00460" /inference="protein motif:Prosite:PS00588" /note="Original (2000) note: Cj0043, flgE, probable flagellar hook protein, len: 545 aa; similar to e.g. FLGE_BORBU flagellar hook protein flgE (442 aa), fasta scores; opt: 350 z-score: 665.8 E(): 7.9e-30, 27.5% identity in 553 aa overlap. 24.5% identity to HP0908. Contains PS00588 Flagella basal body rod proteins signature and Pfam match to entry PF00460 flg_bb_rod,Flagella basal body rod proteins, score 37.00, E-value 6.7e-08; Updated (2006) note: Characterised within Borrilia burgdorferi and also some work within Campylobacter jejuni. Identity scores were marginal. Appropriate motifs were present and alignments covered full length of sequence. Thus, putative not added to product function. Functional classification - Surface structures; PMID:9658019, PMID:9244248, PMID:9079915" /codon_start=1 /transl_table=11 /product="flagellar hook protein" /protein_id="YP_002343514.1" /db_xref="GI:218561735" /db_xref="GOA:Q0PC83" /db_xref="InterPro:IPR001444" /db_xref="InterPro:IPR010930" /db_xref="InterPro:IPR011491" /db_xref="UniProtKB/TrEMBL:Q0PC83" /db_xref="GeneID:906016" /translation="MMNSFYNGISGVKSNSFGIDITANNIANVNTTGFKYSDAQFKDI FYTTITTQSTNPAQGGYGSGAASSQVVFEQGSPVASDGEFDVALQGKGFFGVLGADGN AYYTRNGSFRRDANGYLVDSYGNFVLGTMNPAFTGINYSDRVAGLMGDYLNTGTPVNN GFTVNSNNSFSIGTTASQGAIKVPVNMYLPPQVTQNVKWSGSLNTNTTTEVVKVDLDP SKFNITKTEDGKYVVSGSVSKEDVFSAKAGDRIILNFTDDNGVKTSFEATLDENLNFK SNELDLKGLDENSIKLDTAQISTEQQKANKDILESPIYNADGSKSTLRVTLERVLPQE GDNIQYKAIAQIYDSNGNAVGNPTEGNMVFDKNGALLQNNITSIANPNGGTINIDLGS PYDANKPGSGYSGIYIKQGVEKNVVTQQDGVAEGFFEQYNISDDGSIVAQFSNGKNAI VGKLALYNFINEQGLVAMGDNIFAATANSGDASFIMKDGQVVNTAKFKGGFLEQSNVD LSAELSNLIVTQKAFDASSKSITTSDQMIQKAINMKR" misc_feature 62243..62335 /gene="flgE" /locus_tag="Cj0043" /inference="protein motif:Pfam:PF00460" /note="HMMPfam hit to PF00460, Flagella basal body rod protein, score 1.4e-08" misc_feature 62261..62323 /gene="flgE" /locus_tag="Cj0043" /inference="protein motif:Prosite:PS00588" /note="PS00588 Flagella basal body rod proteins signature" misc_feature 63140..63439 /gene="flgE" /locus_tag="Cj0043" /inference="protein motif:Pfam:PF07559" /note="HMMPfam hit to PF07559, Flagellar basal body protein FlaE, score 1.9e-29" misc_feature 63743..63859 /gene="flgE" /locus_tag="Cj0043" /inference="protein motif:Pfam:PF06429" /note="HMMPfam hit to PF06429, Domain of unknown function (DUF1078), score 8.8e-18" gene complement(63872..65743) /locus_tag="Cj0044c" /db_xref="GeneID:904380" CDS complement(63872..65743) /locus_tag="Cj0044c" /note="Original (2000) note: Cj0044c, unknown, len: 623 aa; no Hp ortholog, Also similar to Cj0800c (28.5% identity in 625 aa overlap). Preceeded by a C(9-11) polymorphic region; C11 would allow the translation of Cj0045c to extend by another 15aa, overlapping the start of this CDS; C9 and C10 (consensus) have no effect; Updated (2006) note: Literature search identified paper giving further clues to product function. Functional classification - Conserved hypothetical proteins; PMID:14985343" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343515.1" /db_xref="GI:218561736" /db_xref="UniProtKB/TrEMBL:Q0PC82" /db_xref="GeneID:904380" /translation="MNFQVKTLETFNPFESLNHEQANTEQILDFRVIDFKLLCSSVKP AKTKTYERKDFDLFYADDFFVKNYNTIVQKFLIEIYPKTQSFPFTVKLRSNSNLTHLK ASINLTENFKYYPNLKFDILQNIYKIMIKQKFLILRLDKNLFDKIDDFILSIQKSPSI KEIELEIAKGVDKIEHKSDEIIYHRDVNEECFDENINYDEGNYCKPIEKNELLFEYIY RILGKEGRNLRGEILHLNPIAFLDNPFIIKDESIYTEELEDRIKYFSANYGFLNKDHT GYCIANNLKLSQIGLKTTGSIKTNTDENINLEITNFDISDDAIKSGIVNVQASNIKVN GNVGATKLYGKNISIKGLTHAKSEIFAQDIFITTHKGTLQADTVYIKNLENGTIIAKN VFVENCMGGKIEAENIYICNLLTDNTLYPRKNLIITNNIKFKNNIVVSPLVSIENNSD TECENLKNLSLKIKSKLDDTISKMQNYYDYLIKNQIKIIKLQKTKNPSAIEMKFSNLY HDIIKKYNHLSISYKKLVKLKYQIDAKLNFLNEMVYNVKIYIKAENIGEDNFLKFYPN TNTNLELKHHINLKDYEKVLYLEKGQQVSYIKSSHNYSESDIEEIKIIFKKLEKDNS" gene complement(65744..66466) /locus_tag="Cj0045c" /db_xref="GeneID:904381" CDS complement(65744..66466) /locus_tag="Cj0045c" /inference="protein motif:Pfam:PF01814" /note="Original (2000) note: Cj0045c, possible iron-binding protein, len: 240 aa; weak similarity to members of the eukaryotic iron-binding hemerythrin family,e.g. HEMT_LINUN hemerythrin alpha chain (117 aa), fasta scores; opt: 105 z-score: 137.1 E(): 2.5, 23.8% identity in 122 aa overlap. Note that all of the iron-binding residues are conserved. No Hp match, similar to Cj0072c (pseudogene), Cj0241c (30.9% identity in 123 aa overlap) and Cj1224 (27.7% identity in 202 aa overlap). Contains a C(9-11) polymorphic region at the N-terminus; C11 would allow the translation of this CDS to extend by another 15aa, overlapping the start of Cj0044c; C9 and C10 (consensus) have little effect; Updated (2006) note: Pfam domain PF01814 Hemerythrin HHE cation binding domain identified within CDS. No specific characterisation with acceptable identity score has been carried out yet. Thus, putative kept within product function. Literature search identified paper giving further clues to product function. Functional classification - Transport/binding proteins - Cations; PMID:14985343" /codon_start=1 /transl_table=11 /product="putative iron-binding protein" /protein_id="YP_002343516.1" /db_xref="GI:218561737" /db_xref="GOA:Q0PC81" /db_xref="InterPro:IPR012312" /db_xref="InterPro:IPR012827" /db_xref="InterPro:IPR016131" /db_xref="UniProtKB/TrEMBL:Q0PC81" /db_xref="GeneID:904381" /translation="MKVKWSRDFSIKNMQLDKQHELIFEITNLANDLALNIQDNNTQH KNDLKQILVKLFQYIKIHFKDEEKFMESIDFPLIEEHKKSHQILVEKTKELLEHSNDI VKMSQELSILTKDWILDHFANEDLWIANFTKKTLHLQEIHYTLEQYIKLKSIKQDLRA EKTYDYICNCSLRIHAVPQTIHQELVSKENTLKCEKCGQILVHLDYFDLNQNFEKFNA IFEDALQNHHFTTQENDMRGGG" misc_feature complement(66074..66238) /locus_tag="Cj0045c" /inference="protein motif:Pfam:PF01814" /note="HMMPfam hit to PF01814, Hemerythrin HHE cation binding domain, score 0.0046" misc_feature complement(66248..66433) /locus_tag="Cj0045c" /inference="protein motif:Pfam:PF01814" /note="HMMPfam hit to PF01814, Hemerythrin HHE cation binding domain, score 0.0029" gene 66646..66744 /locus_tag="Cjs03" /db_xref="GeneID:7133895" misc_RNA 66646..66744 /locus_tag="Cjs03" /note="Bacterial signal recognition particle RNA; Updated (2006) note: Running Rfam search revealed new non-coding RNA families within Campylobacter jejuni. Rfam RF00169, Bacterial signal recognition particle RNA was identified within CDS. This SRP is a univerally conserved ribonucleoprotein involved in the co-translational targeting of proteins to membranes" /db_xref="GeneID:7133895" gene join(66985..67113,67229..67940,67942..68203,68205..68504) /locus_tag="Cj0046" /pseudo /db_xref="GeneID:904382" misc_feature join(66985..67113,67229..67411,67411..67602,67602..67940, 67942..68203,68205..68278,68277..68504) /locus_tag="Cj0046" /inference="protein motif:Pfam:PF00939" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0046, probable transmembrane transport protein pseudogene, len: 1559 bp; fragmentary similarity in all three reading frames to members of the SODIT1 subfamily of the NADC/P/PHO87 family of transporters e.g. SOT1_SPIOL 2-oxoglutarate/malate translocator precursor (spinach) (569 aa), fasta scores; opt: 278 z-score: 498.4 E(): 1.7e-20, 45.0% identity in 80 aa overlap, and YBHI_ECOLI (477 aa) fasta scores; opt: 196 z-score: 361.3 E(): 7.2e-13, 34.6% identity in 78 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF00939 Sodium:sulfate symporter transmembrane identified within CDS. Also, ten probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. No specific characterisation with acceptable identity scores yet. Thus, putative added to product function. Coding sequence has been updated to reflect the complete amino acid sequence for the encoded protein regardless of its expression. This will cause differences from the amino acid sequence of the previous annotation. Functional classification - Transport/binding proteins - Other" /pseudo misc_feature order(66985..67113,67229..67411,67411..67602,67602..67940, 67942..68203,68205..68277,68278..68492) /locus_tag="Cj0046" /inference="protein motif:Pfam:PF00939" /note="HMMPfam hit to PF00939, Sodium:sulfate symporter transmembrane, score 8.5e-118" /pseudo misc_feature order(67012..67080,67289..67357,67719..67787,67875..67940, 67942..67944,67957..68025,68050..68118,68161..68203, 68205..68230,68249..68277,68278..68315,68328..68396, 68415..68483) /locus_tag="Cj0046" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj0046 by TMHMM2.0 at aa 10-32, 64-86, 208-230, 260-282,287-309, 318-340, 355-377, 384-406, 411-433 and 440-462" /pseudo stem_loop 68496..68544 gene complement(68532..69548) /gene="mnmA" /locus_tag="Cj0053c" /db_xref="GeneID:904383" CDS complement(68532..69548) /gene="mnmA" /locus_tag="Cj0053c" /EC_number="2.1.1.61" /note="catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs" /codon_start=1 /transl_table=11 /product="tRNA-specific 2-thiouridylase MnmA" /protein_id="YP_002343517.1" /db_xref="GI:218561738" /db_xref="GOA:Q9PJ66" /db_xref="InterPro:IPR004506" /db_xref="InterPro:IPR014729" /db_xref="UniProtKB/Swiss-Prot:Q9PJ66" /db_xref="GeneID:904383" /translation="MKILVAMSGGVDSTVTAYKLKNLGHEVIGCYMKLHGKPNYHEEN IKKVEKVANFLQIPYHILDLQEDFKNKVYMPFVDTYKEGKTPNPCALCNRFIKLGKLL EFAKSLGCEKLATGHYARLENNLIKTAVDESKDQSYFLASADKEALKYLIFPLGEMKK EDVKKFASTIEVLKSFATQKESSEICFVEDTYVQVLDQFMDTKIPGEVLDSSGKVVGK HEGYMHYTIGKRRGFEVRGAHEPHFVLKINPKQNQIIVGTKEELKISEFNLKNINLFI DAKELDCEVKIRYRSKSTPCKVEIYEDKSAKIILKDPVYGLASGQMAVFYDHDKVIAS GFIE" misc_feature complement(68538..69548) /gene="mnmA" /locus_tag="Cj0053c" /inference="protein motif:Pfam:PF03054" /note="HMMPfam hit to PF03054, tRNA methyl transferase,score 1.3e-132" gene complement(69548..70153) /locus_tag="Cj0054c" /db_xref="GeneID:904384" CDS complement(69548..70153) /locus_tag="Cj0054c" /inference="protein motif:Pfam:PF03641" /note="Original (2000) note: Cj0054c, unknown, len: 201 aa; similar to hypothetical proteins e.g. TR:Q46063 (EMBL:X81379) Corynebacterium glutamicum hypothetucal protein (211 aa), fasta scores; opt: 426 z-score: 696.2 E(): 1.6e-31, 44.2% identity in 156 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF03641 possible lysine decarboxylase family identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation with acceptable identity score has been carried out yet. Thus, putative kept within product function. Functional classification -Misc" /codon_start=1 /transl_table=11 /product="putative lysine decarboxylase family protein" /protein_id="YP_002343518.1" /db_xref="GI:218561739" /db_xref="InterPro:IPR005269" /db_xref="UniProtKB/TrEMBL:Q0PC79" /db_xref="GeneID:904384" /translation="MNEKISQDLEKFANIPNLKNAVTFFGSARLKEDNFYYQQAKILA QKCVQNGFCVISGGGGGIMRAANEGAFSQNNNTNSMSSVGFNIFLPHEQKLNDFVEYN ITFESLAIRKMALIEKSLAFVIFPGGFGTLDELCEILTLKQLEFKKDVPIILFGSEFW RGFDEFVRNSLLKLEVISKGDELKYKITDDLDFIINTLKEI" misc_feature complement(69551..69967) /locus_tag="Cj0054c" /inference="protein motif:Pfam:PF03641" /note="HMMPfam hit to PF03641, Possible lysine decarboxylase, score 2.2e-53" gene complement(70274..71098) /locus_tag="Cj0055c" /db_xref="GeneID:904386" CDS complement(70274..71098) /locus_tag="Cj0055c" /inference="protein motif:Prosite:PS01164" /note="Original (2000) note: Cj0055c, unknown, len: 274 aa; no Hp match, similar in C-terminus to Cj0122 (46.6% identity in 148 aa overlap); Updated (2006) note: Contains Prosite match PS01164 COPPER_AMINE_OXID, Copper amine oxidase. Amine oxidases are enzymes that catalyze the oxidation of different biogenic amines e.g. neurotransmitters. Copper-containing amine oxidases are found in bacteria. This particular form binds one copper ion per subunit as well as a 2,4,5-trihydroxyphenylalanine quinone (or topaquinone) (TPQ) cofactor (PMID:8591028). Functional classification -Unknown; PMID:8591028" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343519.1" /db_xref="GI:218561740" /db_xref="InterPro:IPR000269" /db_xref="UniProtKB/TrEMBL:Q0PC78" /db_xref="GeneID:904386" /translation="MVGILSSKEEKLMINSLNSNLNYDYNTSNFKQDKNIDFKINKHG VAVITGEGALPYRGKKFEYNPKIFGLDESISKKDMQEFNNFMKSNALKDPNKIEKSPL KDFNPAYTKWDPTTEKMMLGFFVSYSKMFHLGYDIIKKADEFYKEFDALISKDLSLNE FKTKYIDFKQRYDEFVKEYEMAMGDKMLLSSDDEIITQQSEKPFKAIQGESKNKETYK DDSTRNELVKKLLEGKFSTSKELELLFGMKFSDDDAGEFNKILSLNSTPKSIDIKA" misc_feature complement(71024..71065) /locus_tag="Cj0055c" /inference="protein motif:Prosite:PS01164" /note="PS01164 Copper amine oxidase topaquinone signature" gene complement(71155..71571) /locus_tag="Cj0056c" /db_xref="GeneID:904387" CDS complement(71155..71571) /locus_tag="Cj0056c" /note="Original (2000) note: Cj0056c, unknown, len: 138 aa. No Hp match; Updated (2006) note: Literature search identified paper giving clues to product function. Functional classification - Unknown; PMID:14702320" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343520.1" /db_xref="GI:218561741" /db_xref="UniProtKB/TrEMBL:Q0PC77" /db_xref="GeneID:904387" /translation="MKEVKGGYITYLKRLSDNEVIAFAKPDWNLELTLFQDSNGDQYY WNREGLVRFGGMCGIETTNCLVNSKHSYINQKRLWETMSIVGDDPYRNFLGYTVKRNI GISNLGKRFVYFSYGVAVINEQSGSWYRVKSSPVFE" gene 72005..72859 /locus_tag="Cj0057" /db_xref="GeneID:904388" CDS 72005..72859 /locus_tag="Cj0057" /note="Original (2000) note: Cj0057, possible periplasmic protein, len: 284 aa; no Hp match. Contains possible N-terminal signal sequence. Functional classification -Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343521.1" /db_xref="GI:218561742" /db_xref="UniProtKB/TrEMBL:Q0PC76" /db_xref="GeneID:904388" /translation="MKKIFLTFMVLVNCVFASDELNIDSLFKKQIGLRSITSFSLLST GNANSYSLYPNITIGGDPTIWNDTKQVFLTQTFIYTLTPKFDILISGGGSYARQEYTN FFTNAYSHKDRIGFDNLWLGFIYTGDSIADLIPQITFQTAVVQREKAINQTKNFYLKS QSLQASLRGYSDPVVYSIYTGFGYNQSRKFKTLKIEYGNSIYVGGDLSIILSPKITLD LGAEQRFQMKQKINGYQNSEVRSIPTLSLGSTYSINSDTAVSVNASFGGSSASPDSIF GISLWKKF" sig_peptide 72005..72055 /locus_tag="Cj0057" /note="Signal peptide predicted for signalp2embl_unknown_000026_72005_72859 by SignalP 2.0 HMM (Signal peptide probability 0.783) with cleavage site probability 0.723 between residues 17 and 18" gene 72844..73443 /locus_tag="Cj0058" /db_xref="GeneID:904390" CDS 72844..73443 /locus_tag="Cj0058" /inference="protein motif:Pfam:PF03412" /note="Original (2000) note: Cj0058, possible periplasmic protein, len: 199 aa; no Hp match. Contains possible N-terminal signal sequence; Updated (2006) note: Pfam domain PF03412 Peptidase C39 family identified within CDS. Product modified to more specific family member based on motif match. No specific characterisation with acceptable identity scores carried out yet. Thus, putative kept within product function. Functional classification - Degradation of macromolecules - Proteins, peptides and glycopeptides" /codon_start=1 /transl_table=11 /product="putative peptidase C39 family protein" /protein_id="YP_002343522.1" /db_xref="GI:218561743" /db_xref="GOA:Q0PC75" /db_xref="InterPro:IPR005074" /db_xref="UniProtKB/TrEMBL:Q0PC75" /db_xref="GeneID:904390" /translation="MEKILKILLFLPILALSTKAEWVVKSYQEIKNERVIRQTYEQSC GASSLATLLNILDDQKKFDELELLKIMSGQELYTDMVSFADLNDAVKKLGFQSNSYQI NRENLDKLVNIPMLVKIEDDPRFPHFVIIINHKGNYLQVLDPSHGEYISSKSQFFSIW DRYNKGGYALIVAPKKELKPFKLNTPKSLHFDFSPFSLF" misc_feature 72949..73374 /locus_tag="Cj0058" /inference="protein motif:Pfam:PF03412" /note="HMMPfam hit to PF03412, Peptidase C39 family, score 4.5e-11" gene complement(73492..74334) /gene="fliY" /locus_tag="Cj0059c" /db_xref="GeneID:904391" CDS complement(73492..74334) /gene="fliY" /locus_tag="Cj0059c" /inference="protein motif:Pfam:PF01052" /note="One of three proteins involved in switching the direction of the flagellar rotation" /codon_start=1 /transl_table=11 /product="flagellar motor switch protein FliY" /protein_id="YP_002343523.1" /db_xref="GI:218561744" /db_xref="GOA:Q0PC74" /db_xref="InterPro:IPR001172" /db_xref="InterPro:IPR001543" /db_xref="InterPro:IPR012826" /db_xref="UniProtKB/TrEMBL:Q0PC74" /db_xref="GeneID:904391" /translation="MINDFLKMFTNECISTIEGLTGKSAEFSEYKEFDVNTSDTLKAP LVYAIFNIANGGKIGILAGAILMSAIGEWMMGEEEITKNDKLGPDEMDAAKEAIQNII SAFSTTLGAQKDIPKMDFSIESCEFVPESVDFKDFKKLFLYDVKIGDLEEQVSLAMDQ TLHNILSGKPAETGNTSTDSNHNTEEKAIMLSEELKNINLIMDVRLPVRVRIGNKKML LKDVLTMDIGSVVELNQLANDPLEILIGDKRIAYGEVVIVDGNFGVQITEIGSKKERL EQLR" misc_feature complement(73516..73746) /gene="fliY" /locus_tag="Cj0059c" /inference="protein motif:Pfam:PF01052" /note="HMMPfam hit to PF01052, Surface presentation of antigens (SPOA) prot, score 6.1e-24" gene complement(74331..75410) /gene="fliM" /locus_tag="Cj0060c" /db_xref="GeneID:904392" CDS complement(74331..75410) /gene="fliM" /locus_tag="Cj0060c" /inference="protein motif:Pfam:PF01052" /inference="protein motif:Pfam:PF02154" /note="with FliG and FliN makes up the switch complex which is involved in switching the direction of the flagella rotation" /codon_start=1 /transl_table=11 /product="flagellar motor switch protein FliM" /protein_id="YP_002343524.1" /db_xref="GI:218561745" /db_xref="GOA:Q0PC73" /db_xref="InterPro:IPR001543" /db_xref="InterPro:IPR001689" /db_xref="UniProtKB/TrEMBL:Q0PC73" /db_xref="GeneID:904392" /translation="MAEILSQEEIDALLEVVDDNTDTPIASNSKDEKDERNIVVYDFK RPNRVSKEQLRTIKGIHDKLARNLASQISSMMRSIVETKLHSVDQMTYGEFLMSLPSP TSFNVFSIKPLDGNCVLEINPSIAFPMIDRLLGGQGDSYEASRELTDIELNLLDSILR IIMQRLKESWATVTEIYPSIEAKESSPNVVQIVSQNEIVIMVVMEIIIGNSSGMVNIC YPVVHLESILSRLANRDIMMGETSAKKSRNKELKTLIGRAEVVYEAILGKTLINVHEF LELKQGDILRLDREADDKAIVSIDKKDVFLAQIGLHRFRKSIKILELIRTDKDEIKEI LEKYEEERKAKASVYDEPEEEDEEI" misc_feature complement(74430..74660) /gene="fliM" /locus_tag="Cj0060c" /inference="protein motif:Pfam:PF01052" /note="HMMPfam hit to PF01052, Surface presentation of antigens (SPOA) prot, score 0.00022" misc_feature complement(74718..75290) /gene="fliM" /locus_tag="Cj0060c" /inference="protein motif:Pfam:PF02154" /note="HMMPfam hit to PF02154, Flagellar motor switch protein FliM, score 8.3e-105" gene complement(75410..76126) /gene="fliA" /locus_tag="Cj0061c" /db_xref="GeneID:904393" CDS complement(75410..76126) /gene="fliA" /locus_tag="Cj0061c" /inference="protein motif:Pfam:PF00140" /inference="protein motif:Prosite:PS00716" /note="sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor directs late flagellar biosynthesis genes" /codon_start=1 /transl_table=11 /product="flagellar biosynthesis sigma factor" /protein_id="YP_002343525.1" /db_xref="GI:218561746" /db_xref="GOA:Q0PC72" /db_xref="InterPro:IPR000943" /db_xref="InterPro:IPR007627" /db_xref="InterPro:IPR007630" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR012845" /db_xref="InterPro:IPR014284" /db_xref="UniProtKB/TrEMBL:Q0PC72" /db_xref="GeneID:904393" /translation="MNSKKDEEMLKEPPKAYAQMLKKEQDELVLSYMPALRAMAFRLK ERLPSSIDVNDLISIGVEEMIKLSRRYDKEQNDNFWGFARKRVNGSMLDYLRSLDVMS RNNRKIIKDIDAIMDEYFLEHECEPDDEYLAKKLDLDVEKIKEVRTAHAISYTLPIDE QIELYNEDNTLEKIEKEELLEKIHEVLDDLKERDQLIIQLYYYEELSLKEISEILQIS ESRISQIHKKLLKKLRERLV" misc_feature complement(75422..75571) /gene="fliA" /locus_tag="Cj0061c" /inference="protein motif:Pfam:PF04545" /note="HMMPfam hit to PF04545, Sigma-70, region, score 5.8e-19" misc_feature complement(75428..75508) /gene="fliA" /locus_tag="Cj0061c" /inference="protein motif:Prosite:PS00716" /note="PS00716 Sigma-70 factors family signature 2" misc_feature complement(75827..76045) /gene="fliA" /locus_tag="Cj0061c" /inference="protein motif:Pfam:PF04542" /note="HMMPfam hit to PF04542, Sigma-70 region, score 3.3e-12" gene complement(76083..76439) /locus_tag="Cj0062c" /db_xref="GeneID:904394" CDS complement(76083..76439) /locus_tag="Cj0062c" /note="Original (2000) note: Cj0062c, probable integral membrane protein, len: 118 aa; no Hp match. Contains two possible transmembrane domains. Functional classification - Cell envelope - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343526.1" /db_xref="GI:218561747" /db_xref="UniProtKB/TrEMBL:Q0PC71" /db_xref="GeneID:904394" /translation="MRPENYVAFFTVCGFFIGLAFSIISIDEAFDILIFTCFITFMFY VFVHIAIMNFIDVKKISGRIFNKHDYEKTSNNIINDLVIREKKMDIILEKLNEEREEL KKNEFKERRRNAKRAA" gene complement(76458..77324) /locus_tag="Cj0063c" /db_xref="GeneID:904395" CDS complement(76458..77324) /locus_tag="Cj0063c" /inference="protein motif:Pfam:PF00991" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0063c, probable ATP-binding protein, len: 288 aa; similar to hypothetical proteins in other flagellar operons e.g. YLXH_BACSU hypothetical 33.2 kd protein in flhF-cheB intergenic region (298 aa), fasta scores; opt: 390 z-score: 493.5 E(): 3.1e-20, 29.0% identity in 293 aa overlap, and to cell division proteins e.g. MIND_BACSU septum site-determining protein minD (268 aa), fasta scores; opt: 323 z-score: 417.6 E(): 5.3e-16,32.9% identity in 249 aa overlap. 45.7% identity to HP1034. Contains PS00017 ATP/GTP-binding site motif A (P-loop) and Pfam match to entry PF00991 ParA, ParA family ATPase, score 34.80, E-value 1.3e-06; Updated (2006) note: No specific characterisation with acceptable identity score carried out yet. Thus,putative kept within product function. Functional classification - Cell envelope - Surface structures" /codon_start=1 /transl_table=11 /product="putative ATP-binding protein" /protein_id="YP_002343527.1" /db_xref="GI:218561748" /db_xref="GOA:Q0PC70" /db_xref="InterPro:IPR002586" /db_xref="UniProtKB/TrEMBL:Q0PC70" /db_xref="GeneID:904395" /translation="MNNQANKLRNLMSQNGTKKSQNTHFIAITSGKGGVGKSTISANL ANVLANNGYKVGLFDADIGLANLDVILNVRIQKNLLHVLRGECSLEDILIEVKPNLWL IPGESGDEILKYNDKNIYERFLNQASILDELDFLIIDTGAGIGGNILNFLEMADEVIV VTVPDPAAITDAYATIKTTSKTKENLLMLFNVVKNENEALKVFENIKKVADANIKNPL NLEFLGHLSASKDVSGSIKKRTLFSDENTASSDEIKALASKLLYRLERKVLDNVSNRS FSSFFRKIIERF" misc_feature complement(76623..77249) /locus_tag="Cj0063c" /inference="protein motif:Pfam:PF01656" /note="HMMPfam hit to PF01656, CobQ/CobB/MinD/ParA nucleotide binding domai, score 5.8e-21" misc_feature complement(77211..77234) /locus_tag="Cj0063c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(77317..78771) /gene="flhF" /locus_tag="Cj0064c" /db_xref="GeneID:904464" CDS complement(77317..78771) /gene="flhF" /locus_tag="Cj0064c" /inference="protein motif:Pfam:PF00448" /inference="protein motif:Prosite:PS00017" /note="positive regulator of class III flagellar genes" /codon_start=1 /transl_table=11 /product="flagellar biosynthesis regulator FlhF" /protein_id="YP_002343528.1" /db_xref="GI:218561749" /db_xref="GOA:O52908" /db_xref="HSSP:P70722" /db_xref="InterPro:IPR000897" /db_xref="InterPro:IPR003593" /db_xref="UniProtKB/Swiss-Prot:O52908" /db_xref="GeneID:904464" /translation="MGQLIHTFTVEDTEQIIPKVKEDYGDKALIITNKQIRPKTLNRS ALYEVMVAIEESDYEEHLKKQGKSLPAKKSSPKPSSTSLAEEKIRSQIPQEDEDVVLD FSNTRLNTNLNTVKNNDLAKKTYQDFPQNKINPHQNKTLGFDDFKEKLSEVSNEISKV TNTPLENYTPNPNYNKKIENFEKQFEKQINKLNDKIDLLADMMWDDKAEARKNLMIPP EFASIYKQAKESGMLENHLEAIMKATIENMPAAMKTNKDAVQRYFHSLLRNILPCRVE SDIKKQKIMMLVGPTGVGKTTTLAKLAFRYAYGDKRYKTGIITLDTYRIGAVEQLFQY AKMMKLPIIDSIEPKDLDEAIKSLNNCEVILVDTIGNSQYDQSKLAKTKEFLMHSNAE IDVNLVVSANTKHEDLMEIYKNFSFLNIDTLIITKFDETKVFGNIFSLVYETNIPLSF FSIGQEVPDDLEVANSDFLVHCILEGFNKGKNNE" misc_feature complement(77347..77931) /gene="flhF" /locus_tag="Cj0064c" /inference="protein motif:Pfam:PF00448" /note="HMMPfam hit to PF00448, SRP54-type protein, GTPase domain, score 1.9e-40" misc_feature complement(77884..77907) /gene="flhF" /locus_tag="Cj0064c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(78781..79254) /gene="folK" /locus_tag="Cj0065c" /db_xref="GeneID:904396" CDS complement(78781..79254) /gene="folK" /locus_tag="Cj0065c" /EC_number="2.7.6.3" /inference="protein motif:Pfam:PF01288" /note="Original (2000) note: Cj0065c, folK, possible 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase, len: 157 aa, similar to e.g. HPPK_BACSU 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase (EC 2.7.6.3) (167 aa), fasta scores; opt: 194 z-score: 370.0 E(): 2.4e-13, 28.7% identity in 129 aa overlap. 35.6% identity to HP1036. Contains Pfam match to entry PF01288 HPPK,7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK), score 4.10, E-value 1.1e-06; Updated (2006) note: Characterised within Bacillus subtilis and Escherichia coli, however, identity scores were marginal. Thus, putative kept within product function. Functional classification - Biosynthesis of cofactors, prosthetic groups and carriers - Folic acid; PMID:1325970" /codon_start=1 /transl_table=11 /product="putative 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase" /protein_id="YP_002343529.1" /db_xref="GI:218561750" /db_xref="GOA:Q9PJ54" /db_xref="InterPro:IPR000550" /db_xref="UniProtKB/Swiss-Prot:Q9PJ54" /db_xref="GeneID:904396" /translation="MLKIQGVKHFEKSRFFPFFSQNIRSFKYLALIGLGSNIEPEKKR FDMLFRVMMDDKRFKILSTSPMLINEAFGFKEQKDFTNAVMLIQTNLHARALLKVLLY YEVKFKRKRTFKNAPRTLDLDLLYFSQKVKRDKWCEVPHKGAKERVSVILPLGMI" misc_feature complement(78784..79164) /gene="folK" /locus_tag="Cj0065c" /inference="protein motif:Pfam:PF01288" /note="HMMPfam hit to PF01288,7,8-dihydro-6-hydroxymethylpterin-pyrophosph, score 3.1e-25" misc_feature complement(78880..78915) /gene="folK" /locus_tag="Cj0065c" /inference="protein motif:Prosite:PS00794" /note="PS00794 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase signature" gene complement(79257..79736) /gene="aroQ" /locus_tag="Cj0066c" /db_xref="GeneID:904397" CDS complement(79257..79736) /gene="aroQ" /locus_tag="Cj0066c" /EC_number="4.2.1.10" /inference="protein motif:Pfam:PF01220" /note="catalyzes the formation of 3-dehydroshikimate from 3-dehydroquinate in chorismate biosynthesis" /codon_start=1 /transl_table=11 /product="3-dehydroquinate dehydratase" /protein_id="YP_002343530.1" /db_xref="GI:218561751" /db_xref="GOA:Q9PJ53" /db_xref="HSSP:Q48255" /db_xref="InterPro:IPR001874" /db_xref="UniProtKB/Swiss-Prot:Q9PJ53" /db_xref="GeneID:904397" /translation="MKIMIIQGPNVNMLGVREVGIYGAMKMEEIHEQMKLAASQNNVE LDFFQSNFEGEIVDKIQECLGTVDGIIINAAGYTHTSVAIRDAIAAVALPTIEVHISN VYRREEFRQKSLIAPVCSGTIVGFGPFGYHLALMGIIQICEQIKNLRAMQQAQQTNK" misc_feature complement(79305..79730) /gene="aroQ" /locus_tag="Cj0066c" /inference="protein motif:Pfam:PF01220" /note="HMMPfam hit to PF01220, Dehydroquinase class II,score 1.4e-74" gene 79827..81056 /locus_tag="Cj0067" /db_xref="GeneID:904398" CDS 79827..81056 /locus_tag="Cj0067" /inference="protein motif:Pfam:PF01979" /note="Catalyzes the hydrolytic cleavage of a carbon-halogen bond in N-ethylammeline" /codon_start=1 /transl_table=11 /product="chlorohydrolase" /protein_id="YP_002343531.1" /db_xref="GI:218561752" /db_xref="GOA:Q0PC66" /db_xref="InterPro:IPR006680" /db_xref="UniProtKB/TrEMBL:Q0PC66" /db_xref="GeneID:904398" /translation="MFIVAARYLFLCDEDFTILENQAFVFEDKILELGELDNLKKKYP KAKIIKTPKNSVILPAFINPHTHLEFSANSTTLHFGEFLIWLKSVINSRSILNAQAKE ELILQSIKKMQKSGIGTIGEISSFGSDLDPCLKASHKGMRIVFFNEILGTNENQVEDK KQEFLKRFENSLKFKNDFFIPAISIHSPYSTHPSLAHFALDLAKKQNLLASTHFLESK AENIWLRESKGGFKKWLENFTLHPKPLYTPKDFVKLFKGVRTLFTHCVYLKEYEWLDK NLHSITHCAFSNRLLSQKSLDLKTALKSGLNIHLGTDGLSSNISLSLLDEMRANLLIH KNFDLLELASKLLQMVTLYPARALNLNLGELKKGKIADFNVFELGECDKKQAPLQFIL NAKEVDKLFIKGKECKF" misc_feature 79992..80957 /locus_tag="Cj0067" /inference="protein motif:Pfam:PF01979" /note="HMMPfam hit to PF01979, Amidohydrolase family,score 1.8e-68" gene 81044..81940 /gene="pspA" /locus_tag="Cj0068" /db_xref="GeneID:905251" CDS 81044..81940 /gene="pspA" /locus_tag="Cj0068" /inference="protein motif:Pfam:PF01343" /note="Original (2000) note: Cj0068, pspA, probable protease required for pilus-like appendage formation, len: 298 aa; almost identical to TR:P71127 (EMBL:U38524) pspA (298 aa) (99.0% identity in 298 aa overlap) and similar to the C-terminus of e.g. SPPA_ECOLI protease IV (618 aa),fasta scores; opt: 285 z-score: 266.8 E(): 1.3e-07, 24.7% identity in 251 aa overlap. 42.0% identity to HP1435; Updated (2006) note: Pfam domain PF01343 Peptidase family S49 identified within CDS. Product function based on direct submission with paper (PMID:8793884). Putative not added to product function due to characterisation work within Campylobacter jejuni. Functional classification -Degradation of macromolecules - Surface structures; PMID:8793884, PMID:3522590" /codon_start=1 /transl_table=11 /product="protease" /protein_id="YP_002343532.1" /db_xref="GI:218561753" /db_xref="GOA:Q0PC65" /db_xref="InterPro:IPR002142" /db_xref="InterPro:IPR004635" /db_xref="UniProtKB/TrEMBL:Q0PC65" /db_xref="GeneID:905251" /translation="MQILKSFFKALGCGIKFINTYFKTFVLLLIVIWILIPSANSSSN LANLERIDLKGEIFDSSAVLEKIINAKNDSNIKGVLFVIDSPGGAFAPSMELALAIKD LKIKKPVLVYASGTMASGSYLAGVGANKILANPASFIGSIGVIMQGADLSGLANKLGI KEQTIQAGEFKSAGTFARAWNENERNFLQGLIDQSYDLFTGFVAKERALDLNKKDQWA NARVFLAAKAKELGLIDELSNYENAKKELEKLANVSNPVWKEEDKIDKFLNRLEGQTS SLISKSLIEIAYKTNSSFINAR" sig_peptide 81044..81166 /gene="pspA" /locus_tag="Cj0068" /note="Signal peptide predicted for pspA by SignalP 2.0 HMM (Signal peptide probability 0.973) with cleavage site probability 0.320 between residues 41 and 42" misc_feature 81080..81148 /gene="pspA" /locus_tag="Cj0068" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0068 by TMHMM2.0 at aa 13-35" misc_feature 81344..81805 /gene="pspA" /locus_tag="Cj0068" /inference="protein motif:Pfam:PF01343" /note="HMMPfam hit to PF01343, Peptidase family S49, score 1.4e-74" gene 82019..83050 /locus_tag="Cj0069" /db_xref="GeneID:905192" CDS 82019..83050 /locus_tag="Cj0069" /note="Original (2000) note: Cj0069, unknown, len: 343 aa; no Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Literature search identified paper giving further clues to product function. Functional classification - Unknown; PMID:14702320" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343533.1" /db_xref="GI:218561754" /db_xref="UniProtKB/TrEMBL:Q0PC64" /db_xref="GeneID:905192" /translation="MKKNIVFFEVKGGSDKGEDGYRKDTMPMVNALKAKGWNAEVIFF EVGKKDEIYKYVKENFDGYVSRINPGNLKEENEYFDMLRKLCADKLVGMPHPDAMIGY GAKDALTKLADTDLVPSDTYAYYDIKTFKENFPKSLAKGERVLKQNRGSTGEGIWRVS VEGNVSGDSLPLNTKIKCTEAKDNHVEHRELGEFMDFCEQYIIGDNGMLVDMTFLPRI KEGEIRLLMLYNTPVNVVHKKPAEDADAFSATLFSGAKYRYDKPEDWKTLVDMFLGEL PKVREKLGNYDLPLIWTADFILDTDEKGNDKYVLGEINCSCVGFTSHLELADEVASNI INIVSKTKA" gene complement(83047..83205) /locus_tag="Cj0070c" /db_xref="GeneID:904429" CDS complement(83047..83205) /locus_tag="Cj0070c" /note="Original (2000) note: Cj0070c, questionable CDS,len: 52 aa; no Hp match; Updated (2006) note: Similar to proteins in other bacteria. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343534.1" /db_xref="GI:218561755" /db_xref="UniProtKB/TrEMBL:Q0PC63" /db_xref="GeneID:904429" /translation="MDKFDYSYPILTKDTKCSFCENFFSIEYSSNLKTIEKECPFYNN KMDIKLKD" gene complement(83292..83893) /locus_tag="Cj0072c" /pseudo /db_xref="GeneID:904399" misc_feature complement(join(83292..83654,83654..83893)) /locus_tag="Cj0072c" /inference="protein motif:Pfam:PF01814" /note="Original (2000) note: Cj0072c, possible iron-binding protein pseudogene, len: 98 aa; Weak similarity to members of the eukaryotic iron-binding hemerythrin family, e.g. HEMM_THEZO myohemerythrin (118 aa). Note that all of the iron-binding residues are conserved. No Hp match. Also similar to N-terminus of Cj1224 (50.5% identity in 91 aa overlap), Cj0241c (40.5% identity in 79 aa overlap) and Cj0045c (32.5% identity in 83 aa overlap). Contains one frameshift; Updated (2006) note: Pfam domains x2 PF01814 Hemerythrin HHE cation binding domain identified within CDS. Further support given to product function. Similar to many Campylobacter species designated as putative methy-accepting chemotaxis protein and also iron-binding proteins. No specific characterisation with acceptable identity score has been carried out yet. Thus, putative kept within product function. Coding sequence has been updated to reflect the complete amino acid sequence for the encoded protein regardless of its expression. This will cause differences from the amino acid sequence of the previous annotation. Functional classification -Transport/binding proteins - Cations" /pseudo misc_feature complement(order(83654..83686,83523..83654)) /locus_tag="Cj0072c" /inference="protein motif:Pfam:PF01814" /note="HMMPfam hit to PF01814, Hemerythrin HHE cation binding domain, score 2.9" /pseudo misc_feature complement(83696..83866) /locus_tag="Cj0072c" /inference="protein motif:Pfam:PF01814" /note="HMMPfam hit to PF01814, Hemerythrin HHE cation binding domain, score 0.007" /pseudo gene complement(84087..84743) /locus_tag="Cj0073c" /db_xref="GeneID:904400" CDS complement(84087..84743) /locus_tag="Cj0073c" /inference="protein motif:Pfam:PF02589" /note="Original (2000) note: Cj0073c, unknown, len: 218 aa; similar to hypothetical proteins e.g. YKGG_ECOLI (282 aa), fasta scores; opt: 215 z-score: 231.0 E(): 1.3e-05,32.2% identity in 146 aa overlap. 41.8% identity to HP0137; Updated (2006) note: Pfam domain PF02589 Uncharacterized ACR, YkgG family COG1556 identified within CDS. Conserved added to product function. Literature search identified paper giving further clues to product function. Functional classification - Conserved hypothetical proteins; PMID:15773975" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343535.1" /db_xref="GI:218561756" /db_xref="InterPro:IPR003741" /db_xref="UniProtKB/TrEMBL:Q0PC62" /db_xref="GeneID:904400" /translation="MSKIDEISSKSKANILEHLKKAYKETTFTRIESIDPVEHIQTTQ DMLTEMKQKMSDNKYIVENATKDTLEEKINEIVAKYSFKSMIYGADLNLNLEQIKAEK KICFDKEIENLRSEVFHSDFSIIHARAGVSSHGVALIPSSKTQPRMLSLAPKLCIVLL KKENVVKSLSEALNLVKKENEILPTNILFIAGPSRTADIELITVFGVHGPQIAHIIIY" misc_feature complement(84090..84470) /locus_tag="Cj0073c" /inference="protein motif:Pfam:PF02589" /note="HMMPfam hit to PF02589, Uncharacterized ACR, YkgG family COG1556, score 1.2e-29" gene complement(84736..86175) /locus_tag="Cj0074c" /db_xref="GeneID:904401" CDS complement(84736..86175) /locus_tag="Cj0074c" /inference="protein motif:Pfam:PF00037" /inference="protein motif:Prosite:PS00198" /note="Original (2000) note: Cj0074c, probable iron-sulfur protein, len: 479 aa; similar to hypothetical proteins e.g. YKGF_ECOLI (475 aa), fasta scores; opt: 1142 z-score: 1335.9 E(): 0, 38.3% identity in 462 aa overlap. 58.1% identity to HP0138. Contains 2x PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature and 2x Pfam match to entry PF00037 fer4, 4Fe-4S ferredoxins and related iron-sulfur cluster binding domains., scores 13.80, E-value 0.0095, and 12.30, E-value 0.026; Updated (2006) note: No specific characterisation with acceptable identity scores. Thus, putative kept within product function. Functional classification -Energy metabolism - Electron transport; PMID:15773975" /codon_start=1 /transl_table=11 /product="putative iron-sulfur protein" /protein_id="YP_002343536.1" /db_xref="GI:218561757" /db_xref="GOA:Q0PC61" /db_xref="InterPro:IPR001450" /db_xref="InterPro:IPR002048" /db_xref="InterPro:IPR003741" /db_xref="InterPro:IPR004452" /db_xref="InterPro:IPR012285" /db_xref="UniProtKB/TrEMBL:Q0PC61" /db_xref="GeneID:904401" /translation="MSQKIPHEQIVQIKLNDKQMQENLMTAMHTLQKNRLNVIDARFK DWQGLRAKAKQAKNNALMSLEERLLEFEKNATKNGIKVHWASSDEDACEIVYEIMKEK NITKLLKGKSMASEEIGLNHYLEKKGLKAIETDLGELILQLNEEPPLHIVVPAIHRNR HEIGEIFKEKLGANLENDEPESLNAVAREHLRKDFEGLKLGLSGVNFAMSREGAFWLI ENEGNGRMCTTAPDIHIALCGIEKIMESFEDAATMVSLLTPSATGQFIPTYNNIITGP RKNGDLDGPKEVHVILFDHNRSKMLAHEDYYEALRCIRCGACMNFCPVYDQIGGHAYQ TTYPGPIGEVISPNIFGIDHTGDILNFCSLCGRCSEVCPVQIPLADLIRKLRCDKIGQ GKNPPLGANNVHHNALEAFAFKQFKNIATNGDKWRFSLSKAHYFNWTVQNFASILPVI KKWYAFKELPQIKMDLYKEVQKLEGVSYE" misc_feature complement(85042..85113) /locus_tag="Cj0074c" /inference="protein motif:Pfam:PF00037" /note="HMMPfam hit to PF00037, 4Fe-4S binding domain,score 0.00065" misc_feature complement(85057..85092) /locus_tag="Cj0074c" /inference="protein motif:Prosite:PS00198" /note="PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature" misc_feature complement(85192..85263) /locus_tag="Cj0074c" /inference="protein motif:Pfam:PF00037" /note="HMMPfam hit to PF00037, 4Fe-4S binding domain,score 0.0015" misc_feature complement(85207..85242) /locus_tag="Cj0074c" /inference="protein motif:Prosite:PS00198" /note="PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature" misc_feature complement(85258..85296) /locus_tag="Cj0074c" /inference="protein motif:Prosite:PS00018" /note="PS00018 EF-hand calcium-binding domain" gene complement(86172..86912) /locus_tag="Cj0075c" /db_xref="GeneID:904402" CDS complement(86172..86912) /locus_tag="Cj0075c" /inference="protein motif:Pfam:PF02754" /note="Original (2000) note: Cj0075c, possible oxidoreductase iron-sulfur subunit, len: 246 aa; similar to hypothetical proteins and to the C-terminus of e.g. TR:O53142 (EMBL:AJ000942) Methanobacterium thermoautotrophicum strain Marburg, Thiol:fumarate reductase subunit B (488 aa), fasta scores; opt: 217 z-score: 476.0 E(): 3e-1, 24.3% identity in 235 aa overlap. 60.7% identity to HP0139; Updated (2006) note: Pfam domain x2 PF02754 Cysteine-rich domain identified within CDS. Further support given to product function. No specific characterisation with acceptable identity score. Thus,putative kept within product function. Functional classification - Energy metabolism - Electron transport; PMID:15773975" /codon_start=1 /transl_table=11 /product="putative oxidoreductase iron-sulfur subunit" /protein_id="YP_002343537.1" /db_xref="GI:218561758" /db_xref="InterPro:IPR004017" /db_xref="UniProtKB/TrEMBL:Q0PC60" /db_xref="GeneID:904402" /translation="MMKKVYFYATCLGSTAMQQSVLNAIKLLRREGIEVIFKKNQTCC AQPSFNSGYFDESREIALYNVDLFDKDYPIVVPSGSCAGMMSHDYKELFKNRPEFSKI KTFSSRVIELSQYLDEVLKVDYEDKGVPIKVTWHSNCHALRVQKSIQASKNLIKKLKN VELVELQYEEECCGFGGTFSVKEPEISNAMVRSKIKDIQNSGAKYLISGDGGCLLNID GTMKRMGLDIKGIHLYDFLLKRLEGGRL" misc_feature complement(86259..86447) /locus_tag="Cj0075c" /inference="protein motif:Pfam:PF02754" /note="HMMPfam hit to PF02754, Cysteine-rich domain, score 7.2e-19" misc_feature complement(86655..86831) /locus_tag="Cj0075c" /inference="protein motif:Pfam:PF02754" /note="HMMPfam hit to PF02754, Cysteine-rich domain, score 5.1e-12" gene complement(87036..88718) /gene="lctP" /locus_tag="Cj0076c" /db_xref="GeneID:904403" CDS complement(87036..88718) /gene="lctP" /locus_tag="Cj0076c" /inference="protein motif:Pfam:PF02652" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0076c, lctP, probable L-lactate permease, len: 560 aa; highly similar to many e.g. LLDP_ECOLI L-lactate permease (551 aa), fasta scores; opt: 1957 z-score: 2614.5 E(): 0, 54.0% identity in 556 aa overlap. 61.2% identity to HP0141 and 60.6% identity to HP0140; Updated (2006) note: Pfam domain PF02652 L-lactate permease identified within CDS. Thirteen probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Characterised within Escherichia coli with acceptable identity score. Thus,putative not added to product function. Functional classification - Transport/binding proteins -Carbohydrates, organic acids and alcohols; PMID:8407843, PMID:11283302, PMID:11785976" /codon_start=1 /transl_table=11 /product="L-lactate permease" /protein_id="YP_002343538.1" /db_xref="GI:218561759" /db_xref="GOA:Q0PC59" /db_xref="InterPro:IPR003804" /db_xref="UniProtKB/TrEMBL:Q0PC59" /db_xref="GeneID:904403" /translation="MEQILTWQQIYDPFSNIWLSALVAFLPILCFLVCLVVLKLKGYQ AGFLTVILATLVALFAYKMPWNLVGASFIQGFTNGMWPIAWIIIAAIFLYKLSIKSGS FEIIKKSVMSITPDHRIQVILIGFCFGSFLEGAIGFGGPVAITAALLVGLGLRPLQAA GLCLIANTAPVAFGAVGIPIIAMANLVGIEQHSVSAMVGRMLVPLSLTIPFFIVFLMD GFKGIKETFPAILVAALSFTTTQFLSSNHLGAELPDIISAVVSLAVTTVFLKFWKPKN IFRFDNESNFTQDNTLSFNQILKAWSPFILLIVCIIIWTQPWFKALFDKDGILSYTSI TLQFSNITTGILSPSITGIGEAKPLSLALGVDLINGKTVAQAGTAILLAAFLTIAILK IKAEDAAECFWVTLKEMAIPCITIGLVVAFAFISKNSGMSTTLGLAFAHTGDAFSFFS PIIGWIGVFLTGSDTSANLLFGTLQQVSAQKLGISEALFLAANSVGGVVGKMISPQSI AIACAAVGLVGKESDLFKFTLKYSVAFIILIGIWTCIIAFFLQGIIPEVIVK" misc_feature complement(87081..88664) /gene="lctP" /locus_tag="Cj0076c" /inference="protein motif:Pfam:PF02652" /note="HMMPfam hit to PF02652, L-lactate permease, score 1.2e-268" misc_feature complement(87183..87215) /gene="lctP" /locus_tag="Cj0076c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(88890..89459) /gene="cdtC" /locus_tag="Cj0077c" /db_xref="GeneID:904404" CDS complement(88890..89459) /gene="cdtC" /locus_tag="Cj0077c" /inference="protein motif:Pfam:PF03499" /note="Original (2000) note: Cj0077c, cdtC, cytolethal distending toxin, len: 189 aa, identical to TR:Q46102 (EMBL:U51121) cdtC (189 aa). No Hp match. Contains N-terminal signal sequence; Updated (2006) note: Pfam domain PF03499 Cytolethal distending toxin C identified within CDS. Product modified to more specific family member due to motif match. Characterised within Campylobacter jejuni, so putative not added to product function. Functional classification -Pathogenicity; PMID:10688204, PMID:8675309, PMID:11083762" /codon_start=1 /transl_table=11 /product="cytolethal distending toxin C" /protein_id="YP_002343539.1" /db_xref="GI:218561760" /db_xref="GOA:Q46102" /db_xref="InterPro:IPR003558" /db_xref="UniProtKB/TrEMBL:Q46102" /db_xref="GeneID:904404" /translation="MKKIITLFFMFITLAFATPTGDLKDFTEMVSIRSLETGIFLSAF RDTSKDPIDQNWNIKEIVLSDELKQKDKLADELPFGYVQFTNPKESDLCLAILEDGTF GAKSCQDDLKDGKLETVFSIMPTTTSAVQIRSLVLESDECIVTFFNPNIPIQKRFGIA PCTLDPIFFAEVNELMIITPPLTAATPLE" sig_peptide complement(88890..88940) /gene="cdtC" /locus_tag="Cj0077c" /note="Signal peptide predicted for cdtC by SignalP 2.0 HMM (Signal peptide probability 0.983) with cleavage site probability 0.852 between residues 17 and 18" misc_feature complement(89040..89438) /gene="cdtC" /locus_tag="Cj0077c" /inference="protein motif:Pfam:PF03499" /note="HMMPfam hit to PF03499, Cytolethal distending toxin C, score 3.6e-81" gene complement(89470..90267) /gene="cdtB" /locus_tag="Cj0078c" /db_xref="GeneID:904405" CDS complement(89470..90267) /gene="cdtB" /locus_tag="Cj0078c" /note="Original (2000) note: Cj0078c, cdtB, cytolethal distending toxin, len: 265 aa; identical toTR:Q46101 (EMBL:U51121) cdtB (265 aa) and similar to e.g. TR:Q47089 (EMBL:U03293) Escherichia coli cdtB (273 aa), fasta scores; opt: 946 z-score: 1533.6 E(): 0, 55.2% identity in 268 aa overlap. No Hp match. Contains N-terminal signal sequence; Updated (2006) note: Prosite domain PRO1388 CDTOXINB, Cytolethal distending toxin B signature identified within CDS. Product modified to more specific family member due to motif match. Characterised within Campylobacter jejuni, so putative not added to product function. Functional classification - Pathogenicity; PMID:10688204, PMID:8675309, PMID:11083762" /codon_start=1 /transl_table=11 /product="cytolethal distending toxin B" /protein_id="YP_002343540.1" /db_xref="GI:218561761" /db_xref="GOA:Q46101" /db_xref="InterPro:IPR003539" /db_xref="InterPro:IPR005135" /db_xref="UniProtKB/TrEMBL:Q46101" /db_xref="GeneID:904405" /translation="MKKIICLFLSFNLAFANLENFNVGTWNLQGSSAATESKWSVSVR QLVSGANPLDILMIQEAGTLPRTATPTGRHVQQGGTPIDEYEWNLGTLSRPDRVFIYY SRVDVGANRVNLAIVSRMQAEEVIVLPPPTTVSRPIIGIRNGNDAFFNIHALANGGTD VGAIITAVDAHFANMPQVNWMIAGDFNRDPSTITSTVDRELANRIRVVFPTSATQASG GTLDYAITGNSNRQQTYTPPLLAAILMLASLRSHIVSDHFPVNFRKF" sig_peptide complement(89470..89568) /gene="cdtB" /locus_tag="Cj0078c" /note="Signal peptide predicted for cdtB by SignalP 2.0 HMM (Signal peptide probability 0.926) with cleavage site probability 0.740 between residues 33 and 34" misc_feature complement(89476..90207) /gene="cdtB" /locus_tag="Cj0078c" /inference="protein motif:Pfam:PF03372" /note="HMMPfam hit to PF03372,Endonuclease/Exonuclease/phosphatase fa, score 7.8e-23" gene complement(90264..91070) /gene="cdtA" /locus_tag="Cj0079c" /db_xref="GeneID:904406" CDS complement(90264..91070) /gene="cdtA" /locus_tag="Cj0079c" /inference="protein motif:Pfam:PF03498" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0079c, cdtA, cytolethal distending toxin, len: 268 aa; identical to TR:Q46100 (EMBL:U51121) cdtB (268 aa) and similar to e.g. TR:Q47088 (EMBL:U03293) Escherichia coli cdtA (237 aa), fasta scores; opt: 310 z-score: 408.0 E(): 1.8e-15, 32.7% identity in 159 aa overlap. No Hp match. Contains N-terminal signal sequence and appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site; Updated (2006) note: Pfam domain PF03498 Cytolethal distending toxin A identified within CDS. Product modified to more specific family member due to motif match. Characterised within Campylobacter jejuni, so putative not added to product function. Functional classification -Pathogenicity; PMID:10688204, PMID:8675309, PMID:11083762" /codon_start=1 /transl_table=11 /product="cytolethal distending toxin A" /protein_id="YP_002343541.1" /db_xref="GI:218561762" /db_xref="GOA:Q0PC56" /db_xref="InterPro:IPR000772" /db_xref="InterPro:IPR003558" /db_xref="InterPro:IPR015957" /db_xref="UniProtKB/Swiss-Prot:Q0PC56" /db_xref="GeneID:904406" /translation="MQKIIVFILCCFMTFFLYACSSKFENVNPLGRSFGEFEDTDPLK LGLEPTFPTNQEIPSLISGADLVPITPITPPLTRTSNSANNNAANGINPRFKDEAFND VLIFENRPAVSDFLTILGPSGAALTVWALAQGNWIWGYTLIDSKGFGDARVWQLLLYP NDFAMIKNAKTNTCLNAYGNGIVHYPCDASNHAQMWKLIPMSNTAVQIKNLGNGKCIQ APITNLYGDFHKVFKIFTVECAKKDNFDQQWFLTTPPFTAKPLYRQGEVR" sig_peptide complement(90264..90344) /gene="cdtA" /locus_tag="Cj0079c" /note="Signal peptide predicted for cdtA by SignalP 2.0 HMM (Signal peptide probability 0.852) with cleavage site probability 0.451 between residues 27 and 28" misc_feature complement(90420..90704) /gene="cdtA" /locus_tag="Cj0079c" /inference="protein motif:Pfam:PF03498" /note="HMMPfam hit to PF03498, Cytolethal distending toxin A, score 1.6e-33" misc_feature complement(91005..91058) /gene="cdtA" /locus_tag="Cj0079c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0079c by TMHMM2.0 at aa 5-22" misc_feature complement(91011..91043) /gene="cdtA" /locus_tag="Cj0079c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 91147..91416 /locus_tag="Cj0080" /db_xref="GeneID:904407" CDS 91147..91416 /locus_tag="Cj0080" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0080, possible membrane protein, len: 267 aa; no Hp match; Contains one possible transmembrane domain; Updated (2006) note: Two probable transmembrane helices predicted by TMHMM2.0" /codon_start=1 /transl_table=11 /product="putative membrane protein. Functional classification-Membranes, lipoproteins and porins" /protein_id="YP_002343542.1" /db_xref="GI:218561763" /db_xref="GOA:Q0PC55" /db_xref="UniProtKB/TrEMBL:Q0PC55" /db_xref="GeneID:904407" /translation="MFYFVVFKGRIYMYLKHLYFSISQIFNFYKEGFKNLTLGKTLWK IIFIKLFVMFVILKLFVFDVNFNSIFKSDKEKSTFVLKNLTLEGK" misc_feature order(91174..91233,91270..91338) /locus_tag="Cj0080" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0080 by TMHMM2.0 at aa 10-29 and 42-64" gene 91417..92979 /gene="cydA" /locus_tag="Cj0081" /db_xref="GeneID:904408" CDS 91417..92979 /gene="cydA" /locus_tag="Cj0081" /EC_number="1.10.3.-" /inference="protein motif:Pfam:PF01654" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0081, cydA, probable cytochrome bd oxidase subunit I, len: 520 aa;similar to many e.g. APPC_ECOLI cytochrome bd-ii oxidase subunit I (EC 1.10.3.-) (514 aa), fasta scores; opt: 1412 z-score: 1888.2 E(): 0, 45.7% identity in 530 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF01654 Bacterial Cytochrome Ubiquinol Oxidase identified within CDS. Also,nine probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Characterised within Escherichia coli with acceptable identity score. Thus, putative not added to product function. Functional classification - Energy metabolism - Electron transport; PMID:8626304, PMID:9068659, PMID:9852001" /codon_start=1 /transl_table=11 /product="cytochrome bd oxidase subunit I" /protein_id="YP_002343543.1" /db_xref="GI:218561764" /db_xref="GOA:Q0PC54" /db_xref="InterPro:IPR002585" /db_xref="UniProtKB/TrEMBL:Q0PC54" /db_xref="GeneID:904408" /translation="MNELSSVDWSRAQFALTALYHFLFVPLTLGLSFMIAIMETIYVK TKNERWKKITKFWLSLFAINFAIGVATGIIMEFEFGTNWANYSWFVGDIFGAPLAVEG IMAFFLEATFFAVMFFGWDKVSKGFHLLSTWCVAIGSNLSAFWILVANGWMQYPVGMS FNPDTARNEMQSFFEVALSPVAISKFLHTIGSGYVISALFVMGISAWFMLKGRHIIEA KKSLVVGASFGLVCSIFLFFSGDESAYRVTQTQPMKLAAMEGVYQGEHRAGLVPFGIL NPKKTIDNNESVFLFDITIPYALSILGNRDPNSFVPGIEDLIYGNESKGIEPMQNRID RGKIAIQTLKDYKLAKENNDTIAMANHKSILETHFKDFGYGYLEKPSDTIPPVALTFY SFHIMVALGSFFFLLFIVTLYLTMANDIEKFRKVLWVCLLSIPLGYIAAEAGWIVAEV GRQPWAIQDLLPVHIAATQLGKVNVQISFWIFAVLFTALLIAEVKIMLTQIKKGFDAH AGHTPLMGKGEK" misc_feature 91441..92952 /gene="cydA" /locus_tag="Cj0081" /inference="protein motif:Pfam:PF01654" /note="HMMPfam hit to PF01654, Bacterial Cytochrome Ubiquinol Oxidase, score 3.3e-191" misc_feature order(91459..91527,91582..91650,91708..91776,91795..91863, 91972..92040,92077..92136,92587..92655,92692..92760, 92845..92913) /gene="cydA" /locus_tag="Cj0081" /inference="protein motif:TMHMM:2.0" /note="9 probable transmembrane helices predicted for Cj0081 by TMHMM2.0 at aa 15-37, 56-78, 98-120, 127-149,186-208, 221-240, 391-413, 426-448 and 477-499" gene 92979..94103 /gene="cydB" /locus_tag="Cj0082" /db_xref="GeneID:904409" CDS 92979..94103 /gene="cydB" /locus_tag="Cj0082" /EC_number="1.10.3.-" /inference="protein motif:Pfam:PF02322" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0082, cydB, probable cytochrome bd oxidase subunit II, len: 520 aa;similar to many e.g. CYDB_ECOLI cytochrome d ubiquinol oxidase subunit II (EC 1.10.3.-) (379 aa), fasta scores; opt: 466 z-score: 449.6 E(): 8.7e-18, 27.7% identity in 386 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF02322 Cytochrome oxidase subunit II identified within CDS. Also, nine probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Characterised within Escherichia coli with marginal identity score. Putative not added to product function. Functional classification - Energy metabolism - Electron transport; PMID:8626304, PMID:9068659, PMID:9852001,PMID:15470119" /codon_start=1 /transl_table=11 /product="cytochrome bd oxidase subunit II" /protein_id="YP_002343544.1" /db_xref="GI:218561765" /db_xref="GOA:Q0PC53" /db_xref="InterPro:IPR003317" /db_xref="UniProtKB/TrEMBL:Q0PC53" /db_xref="GeneID:904409" /translation="MFFGLELEGLQIYWWLILSLLGGLLVFMFFVQGGQTLIDELSKD ELEKTMLVNSLGRKWELGFTTLVLFGGAAFAAFPLFYSTSFGGAYWAWLCILFCFILQ AVAYEYRKKENNVYGSKTYEIFLKINGYLGVFLIGVAVSSFFSGSEFILNEHNFVSWQ NPLHGLELLLNPFNYLLGLALVFLARLLGAAYFMNNINDENIKIRAMKKLMINSILFL PFFLGFLAWIFLKDGFSVDTNGVVSMSANLYLYNFLNQMIFAVLLVIGVILVLLGMVQ GTKGCSKAIFTLGLGTVLTVFALLSSIGLGQSAFYPSLSDLQSSLTLKNASSSYYTLS VMAYVSLLVPFVLAYIIYVWNAMDKVKITREEIANDDHAY" misc_feature 93000..94061 /gene="cydB" /locus_tag="Cj0082" /inference="protein motif:Pfam:PF02322" /note="HMMPfam hit to PF02322, Cytochrome oxidase subunit II, score 3.5e-13" misc_feature order(93006..93071,93153..93221,93234..93302,93363..93431, 93501..93569,93606..93665,93723..93791,93828..93896, 93972..94040) /gene="cydB" /locus_tag="Cj0082" /inference="protein motif:TMHMM:2.0" /note="9 probable transmembrane helices predicted for Cj0082 by TMHMM2.0 at aa 10-31, 59-81, 86-108, 129-151,175-197, 210-229, 249-271, 284-306 and 332-354" gene complement(94297..94992) /locus_tag="Cj0085c" /db_xref="GeneID:904410" CDS complement(94297..94992) /locus_tag="Cj0085c" /inference="protein motif:Pfam:PF01177" /inference="protein motif:Prosite:PS00924" /note="Original (2000) note: Cj0085c, probable amino acid recemase, len: 231 aa; similar to members of the aspartate/glutamate racemases family e.g. YGEA_ECOLI (230 aa), fasta scores; opt: 667 z-score: 1155.6 E(): 0, 46.7% identity in 225 aa overlap, and RACD_STRTR aspartate racemase (243 aa), fasta scores; opt: 254 z-score: 230.9 E(): 1.3e-05, 25.4% identity in 232 aa overlap. No Hp match. Contains PS00924 Aspartate and glutamate racemases signature 2 andPfam match to entry PF01177 Asp_Glu_race,Aspartate / glutamate racemase, score 108.40, E-value 1.3e-28; Updated (2006) note: Pfam domain PF01177 Asp/Glu/Hydantoin racemase identified within CDS. No specific characterisation with acceptable identity score identified. Thus, putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative amino acid recemase" /protein_id="YP_002343545.1" /db_xref="GI:218561766" /db_xref="GOA:Q0PC52" /db_xref="InterPro:IPR001920" /db_xref="InterPro:IPR004380" /db_xref="InterPro:IPR015942" /db_xref="UniProtKB/TrEMBL:Q0PC52" /db_xref="GeneID:904410" /translation="MKTIGIIGGMSFESTITYYKTINQAINDKLKSLNSAKILLYSVN FEEIENLQSQDKWQEAAQILTQCAKKLELAGANFIIIATNTMHKVFDEIQQNINIPIL HIAKSSAKALKQENIQKIGLLGTKYTMTQDFYKKMLIEENISVITPSDEDIKIVNDII FNELCKGEIKQDSKEKYLNIIKKLQEKGAKGVLLACTEIGLLISKNDTNIKIFDTSLI HALDAANEALKDL" misc_feature complement(94309..94986) /locus_tag="Cj0085c" /inference="protein motif:Pfam:PF01177" /note="HMMPfam hit to PF01177, Asp/Glu/Hydantoin racemase,score 4.8e-67" misc_feature complement(94387..94419) /locus_tag="Cj0085c" /inference="protein motif:Prosite:PS00924" /note="PS00924 Aspartate and glutamate racemases signature 2" gene complement(95108..95803) /gene="ung" /locus_tag="Cj0086c" /db_xref="GeneID:904411" CDS complement(95108..95803) /gene="ung" /locus_tag="Cj0086c" /EC_number="3.2.2.-" /inference="protein motif:Pfam:PF00315" /inference="protein motif:Prosite:PS00130" /note="Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine" /codon_start=1 /transl_table=11 /product="uracil-DNA glycosylase" /protein_id="YP_002343546.1" /db_xref="GI:218561767" /db_xref="GOA:Q9PJ40" /db_xref="HSSP:P13051" /db_xref="InterPro:IPR002043" /db_xref="InterPro:IPR005122" /db_xref="UniProtKB/Swiss-Prot:Q9PJ40" /db_xref="GeneID:904411" /translation="MEEITINIDKIKINDDWKEFLRDEFQKKYFLEIKKQYLNAINQN IIIYPPANLIFNAFNLCPLKEIKIIILGQDPYHQPNQAMGLSFSVPKNVKIPPSLNNI FKELQNDLNITPAKSGDLSSWAKQGVLLLNSILSVEANKAASHSSWGWQEFSDAIIHK LSNEKSGLVFMLWGNYAKNKEILIDNTKHLILKAAHPSPLARTGFLGCKHFSKANEFL KKVGKIPIDWKIV" misc_feature complement(95147..95623) /gene="ung" /locus_tag="Cj0086c" /inference="protein motif:Pfam:PF03167" /note="HMMPfam hit to PF03167, Uracil DNA glycosylase superfamily, score 1.6e-73" misc_feature complement(95576..95605) /gene="ung" /locus_tag="Cj0086c" /inference="protein motif:Prosite:PS00130" /note="PS00130 Uracil-DNA glycosylase signature" gene 96074..97480 /gene="aspA" /locus_tag="Cj0087" /db_xref="GeneID:904412" CDS 96074..97480 /gene="aspA" /locus_tag="Cj0087" /EC_number="4.3.1.1" /inference="protein motif:Pfam:PF00206" /inference="protein motif:Prosite:PS00163" /note="catalyzes the formation of fumarate from aspartate" /codon_start=1 /transl_table=11 /product="aspartate ammonia-lyase" /protein_id="YP_002343547.1" /db_xref="GI:218561768" /db_xref="GOA:Q0PC50" /db_xref="InterPro:IPR000362" /db_xref="InterPro:IPR003031" /db_xref="InterPro:IPR004708" /db_xref="UniProtKB/TrEMBL:Q0PC50" /db_xref="GeneID:904412" /translation="MGTRKEHDFIGELEISDEVYYGVQTFRAVENFDISHDRLKDFPR FVRALARVKKAAAMANHELGLLDKNIQDAIIKACDKILEGGYYDQFVVDMIQGGAGTS TNMNANEVIANIGLELMGHKKGEYQYLHPNDHVNLSQSTNDAYPTALHLALHDYLSDL AKAMEHLKKAYERKAEEFKDVLKMGRTQLQDAVPMTLGREFKTFAVMIGEDIQRVLEA RKLILEINLGGTAIGTGINSHPDYPKVVERKIREVTGFEYTVAEDLIEATQDTGAYVQ ISGVLKRVATKLSKVCNDLRLLSSGPKCGLNEINLPKMQPGSSIMPGKVNPVIPEVVN QVCYFVIGADVTVTFACEGGQLQLNVFEPVVAYSLFNSVVMLEKAMYTLADKCIDGIT ANEKICSDFVYNSVGIVTALNPYIGYENSASIAKEAMNTGKRVADIALERGLLSKEQI DEILTPSNMLNPHMEAKK" misc_feature 96104..97099 /gene="aspA" /locus_tag="Cj0087" /inference="protein motif:Pfam:PF00206" /note="HMMPfam hit to PF00206, Lyase, score 1.2e-151" misc_feature 97022..97051 /gene="aspA" /locus_tag="Cj0087" /inference="protein motif:Prosite:PS00163" /note="PS00163 Fumarate lyases signature" gene 97496..98833 /gene="dcuA" /locus_tag="Cj0088" /db_xref="GeneID:904413" CDS 97496..98833 /gene="dcuA" /locus_tag="Cj0088" /inference="protein motif:Pfam:PF03605" /inference="protein motif:TMHMM:2.0" /note="functions in anaerobic transport of C4-dicarboxylate compounds such as fumarate; similar to dcuB" /codon_start=1 /transl_table=11 /product="anaerobic C4-dicarboxylate transporter" /protein_id="YP_002343548.1" /db_xref="GI:218561769" /db_xref="GOA:Q0PC49" /db_xref="InterPro:IPR004668" /db_xref="UniProtKB/TrEMBL:Q0PC49" /db_xref="GeneID:904413" /translation="MDIMIILQVIVLLGAIFIGIRLGGIAIGYAGGLGVVILGLVLGM KPGNIPWDVILIIAAAIAAISAMQQAGGLDYMVRVTEKILRSSPKFINYLAPACGWLL TILAGTGNAVFSLMPVVVDVAKSQNIKPSVPLSLMVVSSQIGITASPVSAAVVYMSGV LEPLGWNYPTLIGIWISTTFVACMLAAFIVSLITPMDLSKDSVYQERLKAGLVKDAGA VLHGEDKPGAKLSVVIFLITVLAVVLYATAISSNIKWIDPVVVSRDAAIMSFLLTAAT LITWLCKVEPGKILDTSVFKSGMTACVCVFGVAWLGNTFVAGHEASIKEVAGDWVKQT PAMLAVAFFFASMLLYSQAATAKAIVPVIITALGISAANPHDSYMLVACFAAVSALFV LPTYPTLLGAVQMDDTGTTRIGKFIFNHSFFIPGVLAIAIAVALGFVLAPMLI" misc_feature order(97502..97555,97568..97621,97640..97708,97766..97834, 97895..97963,98006..98074,98183..98242,98270..98338, 98396..98464,98507..98575,98633..98701,98759..98827) /gene="dcuA" /locus_tag="Cj0088" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0088 by TMHMM2.0 at aa 3-20, 25-42, 49-71, 91-113,134-156, 171-193, 230-249, 259-281, 301-323, 338-360,380-402 and 422-444" misc_feature 97517..98608 /gene="dcuA" /locus_tag="Cj0088" /inference="protein motif:Pfam:PF03605" /note="HMMPfam hit to PF03605, Anaerobic c4-dicarboxylate membrane transpo, score 3.9e-245" misc_feature 98012..98044 /gene="dcuA" /locus_tag="Cj0088" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 98941..100302 /locus_tag="Cj0089" /db_xref="GeneID:904416" CDS 98941..100302 /locus_tag="Cj0089" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0089, probable lipoprotein,len: 453 aa; 27.4% identity to HP0018. Contains N-terminal signal sequence and appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="YP_002343549.1" /db_xref="GI:218561770" /db_xref="UniProtKB/TrEMBL:Q0PC48" /db_xref="GeneID:904416" /translation="MKIKVGLIFSGIACLFLTACVNQVKQNTTFENTLTQKYCGDDFF NQNLEKIKKNDDVIYTGLNAGLIARNCGDFNKSNVFFDAVEESYKYDVDLENVSPKAA KFIGTTLLNDNIVDYDGSLYERIMVNIYKALNYMEEDDYENARVEFNRVLMRQDKAKE YFAKEIEKNRADLDKAKEDKNYDKNMNENSKVIEAQYDNLFKEFDTTKNFINPYATYL ASIFFFMDKDYRKAADLFREVAIIYPKNKTIKKEAKIFKEYATKIKVKKAKKYVFVVY ENGFGVVKDEFALTLPFIVDKKIISTNIALQTLKKREASFANLNINGQNTNDFVDLDN IVATEFKINMPAMIAKALAQTIIKTTLNVAVANNDSTGGWLSLATAVATAATNKADVR SWRGLPKSIAIATIENDGNLEIKDPQGNILFQKSLDKNKNALVIVRSFAPYLPASVAI MEK" sig_peptide 98941..99018 /locus_tag="Cj0089" /note="Signal peptide predicted for signalp2embl_unknown_000038_98941_100302 by SignalP 2.0 HMM (Signal peptide probability 0.998) with cleavage site probability 0.724 between residues 26 and 27" misc_feature 98968..99000 /locus_tag="Cj0089" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 99313..99414 /locus_tag="Cj0089" /inference="protein motif:Pfam:PF07719" /note="HMMPfam hit to PF07719, Tetratricopeptide repeat,score 1.4" misc_feature 99577..99678 /locus_tag="Cj0089" /inference="protein motif:Pfam:PF07719" /note="HMMPfam hit to PF07719, Tetratricopeptide repeat,score 0.12" gene 100312..100680 /locus_tag="Cj0090" /db_xref="GeneID:904418" CDS 100312..100680 /locus_tag="Cj0090" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0090, probable lipoprotein,len: 122 aa; no Hp match. Contains N-terminal signal sequence and appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="YP_002343550.1" /db_xref="GI:218561771" /db_xref="UniProtKB/TrEMBL:Q0PC47" /db_xref="GeneID:904418" /translation="MKKNILFILMFLLSACAPSYQINSNQNTVILGSNLPKSLVKQFQ KRINSNGYLEFEVILRSTFAKDVIYKVDWLDKDGFVLRDVLNEDYQALRIPAGQEVIL RKLASDTRANDFRLEIKAKN" sig_peptide 100312..100383 /locus_tag="Cj0090" /note="Signal peptide predicted for signalp2embl_unknown_000039_100312_100680 by SignalP 2.0 HMM (Signal peptide probability 0.997) with cleavage site probability 0.247 between residues 24 and 25" misc_feature 100327..100359 /locus_tag="Cj0090" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 100704..101327 /locus_tag="Cj0091" /db_xref="GeneID:904419" CDS 100704..101327 /locus_tag="Cj0091" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0091, probable lipoprotein,len: 207 aa; 33.5% identity to HP1457. Contains N-terminal signal sequence and appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="YP_002343551.1" /db_xref="GI:218561772" /db_xref="GOA:Q0PC46" /db_xref="InterPro:IPR014094" /db_xref="UniProtKB/TrEMBL:Q0PC46" /db_xref="GeneID:904419" /translation="MKKTKILGTALIGALLFSGCAQTAYTDGKASQVKKGDALTLGLD RQDFESAAETMINSMLSDPAFANIKPGTRKVIAIGRVVNDTPQRIDTEKLTAKITSAL RKSGKFVLTSAVAAGGALDSMSEDVRELRDNDEFNQKTIAKKGTLVSPDFSLAGKIRQ DNVKLSNGKTQVEYFFLLRLTDLTSGLVYWEDEQTIDKTGSSKSVTW" sig_peptide 100704..100781 /locus_tag="Cj0091" /note="Signal peptide predicted for signalp2embl_unknown_000040_100704_101327 by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.579 between residues 26 and 27" misc_feature 100722..100781 /locus_tag="Cj0091" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0091 by TMHMM2.0 at aa 7-26" misc_feature 100731..100763 /locus_tag="Cj0091" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 101410..102747 /locus_tag="Cj0092" /db_xref="GeneID:904420" CDS 101410..102747 /locus_tag="Cj0092" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0092, probable periplasmic protein, len: 445 aa; no Hp match. Contains probable N-terminal signal sequence and PS00017 ATP/GTP-binding site motif A (P-loop). Functional classification -Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343552.1" /db_xref="GI:218561773" /db_xref="GOA:Q0PC45" /db_xref="UniProtKB/TrEMBL:Q0PC45" /db_xref="GeneID:904420" /translation="MKKILFIGSLVMASLLYAQGSQPVEITQQDINTQNEMSDASTKD ITPKSIEDFFEEFADNFGIEYGITKDGKTFYTGKSTVAVNDTDPQFAQALQNAYQKAM LNLQSEFIRDAFGRIATSKIQNYEADNSTNAKEFDELPKGDKVDQILNKLTQLAGAQL DKALKDLGIDTNSLSEDRKKTLLKQEFLNKTMTNAIGSMSGLVPVQTIVTQRRGEYDV GVVAVISNKTRQLAKDMALARQSAIKGKGKAISEYLPKDTKGFLNEYGIRLVYDENGA PIILSYGNWGYVADPSNAKKTNILEDRAKETALTMADAAIIEFINTNLSLKDERTTGD TYEEIIKQSINVNDSSTQEQTQNITNIIDKVNSKIKASASGKIRGIRTLKKWSYTSEN GIEHVGAVRFYSYENLANTNEALNSKSNATKNEAKKSSSIQRSSNVVNSMDDF" sig_peptide 101410..101469 /locus_tag="Cj0092" /note="Signal peptide predicted for signalp2embl_unknown_000041_101410_102747 by SignalP 2.0 HMM (Signal peptide probability 0.988) with cleavage site probability 0.408 between residues 20 and 21" misc_feature 101605..101628 /locus_tag="Cj0092" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 102757..103959 /locus_tag="Cj0093" /db_xref="GeneID:904421" CDS 102757..103959 /locus_tag="Cj0093" /note="Original (2000) note: Cj0093, probable periplasmic protein, len: 400 aa; no Hp match. Contains probable N-terminal signal sequence. Functional classification -Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343553.1" /db_xref="GI:218561774" /db_xref="GOA:Q0PC44" /db_xref="UniProtKB/TrEMBL:Q0PC44" /db_xref="GeneID:904421" /translation="MKIIKILFLGLFLSLSLNAKVITTTSTKSSTGEGTGLTREDAIN NAIIEAIGKMSGVSINSLKKSNTSVSTDNSGSNIQDNYSEQISKATKGRADTYEINSV EQDANGKYTANVTIFKTTTTKKYQAPGLSADNRRSITVFDSTPDAAKRGIGSALQQKI ISDLLQSRKFNVLDRDSSGYYEMEKALIKSGDAASDEVYKLKNMLATDYILLFSISGL EGKQKTSNLTGKSKTEIEVIVDYRVLLFATRQIKFSNTLSMKVNLKDNSLSANETALK QIANRIAGDILNAIYPLKVASVENNEVIFSQSLNQGDVYECFALGKVIKDTYTKENTG RVESKTGSIEITRTSPKFSYAKITEGSVKVGDICRPLSNTGSGNGYTIGRDANYQTQE GGGVNLGF" sig_peptide 102757..102819 /locus_tag="Cj0093" /note="Signal peptide predicted for signalp2embl_unknown_000042_102757_103959 by SignalP 2.0 HMM (Signal peptide probability 0.992) with cleavage site probability 0.294 between residues 21 and 22" gene 104118..104426 /gene="rplU" /locus_tag="Cj0094" /db_xref="GeneID:904422" CDS 104118..104426 /gene="rplU" /locus_tag="Cj0094" /inference="protein motif:Pfam:PF00829" /inference="protein motif:Prosite:PS01169" /note="Original (2000) note: Cj0094, rplU, 50S ribosomal protein L21, len: 102 aa; similar to many e.g. RL21_ECOLI 50S ribosomal protein L21 (103 aa), fasta scores; opt: 268 z-score: 457.7 E(): 3.1e-18, 40.8% identity in 103 aa overlap. 58.8% identity to HP0296. Contains PS01169 Ribosomal protein L21 signature and Pfam match to entry PF00829 Ribosomal_L21p, Ribosomal prokaryotic L21 protein,score 152.80, E-value 5.7e-42; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Thus,putative not added to product function. Functional classification - Ribosomal protein synthesis and modification; PMID:378941, 8312607" /codon_start=1 /transl_table=11 /product="50S ribosomal protein L21" /protein_id="YP_002343554.1" /db_xref="GI:218561775" /db_xref="GOA:Q0PC43" /db_xref="InterPro:IPR001787" /db_xref="UniProtKB/Swiss-Prot:Q0PC43" /db_xref="GeneID:904422" /translation="MYAIIKHSGKQYKVSVGDELKLDHFEAESKASIEVSEVLAINDK ELKVGAPFVAGAKVVLEVINHGKDKKVVIYKKRRRKDSKLKRGFRRQFTRVVVKDIKA" misc_feature 104118..104402 /gene="rplU" /locus_tag="Cj0094" /inference="protein motif:Pfam:PF00829" /note="HMMPfam hit to PF00829, Ribosomal prokaryotic L21 protein, score 3.6e-48" misc_feature 104328..104396 /gene="rplU" /locus_tag="Cj0094" /inference="protein motif:Prosite:PS01169" /note="PS01169 Ribosomal protein L21 signature" gene 104437..104691 /gene="rpmA" /locus_tag="Cj0095" /db_xref="GeneID:904423" CDS 104437..104691 /gene="rpmA" /locus_tag="Cj0095" /inference="protein motif:Pfam:PF01016" /inference="protein motif:Prosite:PS00831" /note="involved in the peptidyltransferase reaction during translation" /codon_start=1 /transl_table=11 /product="50S ribosomal protein L27" /protein_id="YP_002343555.1" /db_xref="GI:218561776" /db_xref="GOA:Q9PJ31" /db_xref="InterPro:IPR001684" /db_xref="UniProtKB/Swiss-Prot:Q9PJ31" /db_xref="GeneID:904423" /translation="MAHKKGQGSTQNNRDSIGRRLGVKKFGGEFVRAGNIIIRQRGTA THAGNNVGMGKDHTIFALIDGFVKFERKDKDRKKVSVYPA" misc_feature 104440..104682 /gene="rpmA" /locus_tag="Cj0095" /inference="protein motif:Pfam:PF01016" /note="HMMPfam hit to PF01016, Ribosomal L27 protein,score 3.7e-54" misc_feature 104536..104580 /gene="rpmA" /locus_tag="Cj0095" /inference="protein motif:Prosite:PS00831" /note="PS00831 Ribosomal protein L27 signature" stem_loop 104722..104783 gene 104798..105850 /gene="obgE" /locus_tag="Cj0096" /db_xref="GeneID:905891" CDS 104798..105850 /gene="obgE" /locus_tag="Cj0096" /inference="protein motif:Pfam:PF01018" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00905" /note="essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication" /codon_start=1 /transl_table=11 /product="GTPase ObgE" /protein_id="YP_002343556.1" /db_xref="GI:218561777" /db_xref="GOA:Q0PC41" /db_xref="InterPro:IPR002917" /db_xref="InterPro:IPR006073" /db_xref="InterPro:IPR006074" /db_xref="InterPro:IPR006169" /db_xref="InterPro:IPR014100" /db_xref="UniProtKB/TrEMBL:Q0PC41" /db_xref="GeneID:905891" /translation="MFIDSVKITLASGDGGKGAVSFRREKHVPLGGPDGGDGGNGGDI IFVCDNNTHTLVNFKGKRELRAQNGAGGMGRNKNGKKGENLELIVPEGTQVIDAQTNE ILLDLTKEGQRELFLKGGKGGLGNTHFKHATNQRPDYAQPGIKGESRLVRLELKLIAD VGLVGFPNVGKSTLISVVSNAKPEIANYEFTTLTPKLGLVDVNEYNSFVMADIPGIIE GASGGKGLGLAFLKHIERTSFLLFVLDPMRQMPLKEQFIVLRKELEKFSNELFGRKFG IMISKSDSVRLGEEFAEQIALNINELDNYLKEINNPQSFLIKVSSLEKTGLKELKFML LEEIKTLRNNKKNLTI" misc_feature 104801..105268 /gene="obgE" /locus_tag="Cj0096" /inference="protein motif:Pfam:PF01018" /note="HMMPfam hit to PF01018, GTP1/OBG, score 2.7e-75" misc_feature 105272..105646 /gene="obgE" /locus_tag="Cj0096" /inference="protein motif:Pfam:PF01926" /note="HMMPfam hit to PF01926, GTPase of unknown function,score 2.7e-33" misc_feature 105290..105313 /gene="obgE" /locus_tag="Cj0096" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 105431..105472 /gene="obgE" /locus_tag="Cj0096" /inference="protein motif:Prosite:PS00905" /note="PS00905 GTP1/OBG family signature" gene 105955..106710 /gene="proB" /locus_tag="Cj0097" /db_xref="GeneID:904426" CDS 105955..106710 /gene="proB" /locus_tag="Cj0097" /EC_number="2.7.2.11" /note="catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis" /codon_start=1 /transl_table=11 /product="gamma-glutamyl kinase" /protein_id="YP_002343557.1" /db_xref="GI:218561778" /db_xref="GOA:Q9PJ29" /db_xref="InterPro:IPR001048" /db_xref="InterPro:IPR001057" /db_xref="InterPro:IPR005715" /db_xref="InterPro:IPR011529" /db_xref="PDB:2AKO" /db_xref="UniProtKB/Swiss-Prot:Q9PJ29" /db_xref="GeneID:904426" /translation="MKRIVVKVGSHVISEENTLSFERLKNLVAFLAKLMEKYEVILVT SAAISAGHTKLDIDRKNLINKQVLAAIGQPFLISVYNELLAKFNKLGGQILLTGKDFD SRKATKHAKNAIDMMINLGILPIINENDATAIEEIVFGDNDSLSAYATHFFDADLLVI LSDIDGFYDKNPSEFSDAKRLEKITHIKEEWLQATIKTGSEHGTGGIVTKLKAAKFLL EHNKKMFLASGFDLSVAKTFLLEDKQIGGTLFE" misc_feature 105958..106638 /gene="proB" /locus_tag="Cj0097" /inference="protein motif:Pfam:PF00696" /note="HMMPfam hit to PF00696, Amino acid kinase family,score 1e-41" gene 106784..107701 /gene="fmt" /locus_tag="Cj0098" /db_xref="GeneID:904427" CDS 106784..107701 /gene="fmt" /locus_tag="Cj0098" /EC_number="2.1.2.9" /inference="protein motif:Pfam:PF00551" /note="modifies the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet) which is important in translation initiation; inactivation of this gene in Escherichia coli severely impairs growth" /codon_start=1 /transl_table=11 /product="methionyl-tRNA formyltransferase" /protein_id="YP_002343558.1" /db_xref="GI:218561779" /db_xref="GOA:Q9PJ28" /db_xref="HSSP:P23882" /db_xref="InterPro:IPR001555" /db_xref="InterPro:IPR002376" /db_xref="InterPro:IPR005793" /db_xref="InterPro:IPR005794" /db_xref="InterPro:IPR015518" /db_xref="UniProtKB/Swiss-Prot:Q9PJ28" /db_xref="GeneID:904427" /translation="MKKIIFMGTPSYATCILKALVENENFKLVALFTQPDKAVGRKQI LTPSDTKAFLSQNYPSIPIFTPSSLKDKNIIREIKDLNPDFIVVAAYGKILPKAILDL APCVNLHASLLPKYRGASPIQSAILNKDEKSGVCTMLMEEGLDTGAILESLECDIKDK NSSEVFELLANLAAKIILSTLLNFDKITPKKQEESLATLCRKIKKEDGLINLQNAREL YQKYLAFTPWPGVFLENGLKFLELELVDELKQNAKMGEILELEKESFLLACKQGVLRI KKLQESGKKALDGRTYLNGKRLKSEDSLC" misc_feature 106787..107326 /gene="fmt" /locus_tag="Cj0098" /inference="protein motif:Pfam:PF00551" /note="HMMPfam hit to PF00551, Formyl transferase, score 4.4e-36" misc_feature 107393..107674 /gene="fmt" /locus_tag="Cj0098" /inference="protein motif:Pfam:PF02911" /note="HMMPfam hit to PF02911, Formyl transferase,C-terminal domain, score 8e-24" gene 107664..108317 /gene="birA" /locus_tag="Cj0099" /db_xref="GeneID:904428" CDS 107664..108317 /gene="birA" /locus_tag="Cj0099" /EC_number="6.3.4.15" /inference="protein motif:Pfam:PF03099" /note="catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon" /codon_start=1 /transl_table=11 /product="biotin--protein ligase" /protein_id="YP_002343559.1" /db_xref="GI:218561780" /db_xref="GOA:Q0PC38" /db_xref="InterPro:IPR004143" /db_xref="InterPro:IPR004408" /db_xref="UniProtKB/TrEMBL:Q0PC38" /db_xref="GeneID:904428" /translation="MEKGLKVKIVCVESIDSTHLFLCKQIRNGKIDENFAIYALEQIN GVGSRENSWQSSKGNLHLSFCIKEEDLPKDLPLASVSIYFAYLLKEVLQEKGSKIWLK WPNDLYLDDKKAGGVISAKISNFIIGGMGLNLKFAPQNTALCDIEISLKDLVSEFLQK VEKKILWKNIFSKYMLEFEKSRKFSVHHEGKVFSLENSFLYEDGSILLGDKRVYSLR" misc_feature 107694..108083 /gene="birA" /locus_tag="Cj0099" /inference="protein motif:Pfam:PF03099" /note="HMMPfam hit to PF03099, Biotin/lipoate A/B protein ligase famil, score 2e-13" gene 108314..109099 /locus_tag="Cj0100" /db_xref="GeneID:904430" CDS 108314..109099 /locus_tag="Cj0100" /inference="protein motif:Pfam:PF00991" /inference="protein motif:Pfam:PF01656" /note="Original (2000) note: Cj0100, putative parA family protein, len: 261 aa; similar to members of the parA family e.g. SOJ_BACSU soj protein (253 aa) fasta scores; opt: 762 z-score: 1251.6 E(): 0, 46.3% identity in 259 aa overlap. 61.1% identity to HP1139. Contains Pfam match to entry PF00991 ParA, ParA family ATPase, score 118.40,E-value 1.3e-31; Updated (2006) note: Pfam domain PF01656 CobQ/CobB/MinD/ParA nucleotide binding domain identified within CDS. This family consists of putative cobyrinic acid a,c-diamide synthases family protein. Some characterisation work within Bacillus subtilis with acceptable identity score. Putative not added to product function. Functional classification - Cell division; PMID:8071208" /codon_start=1 /transl_table=11 /product="parA family protein" /protein_id="YP_002343560.1" /db_xref="GI:218561781" /db_xref="GOA:Q0PC37" /db_xref="InterPro:IPR002586" /db_xref="UniProtKB/TrEMBL:Q0PC37" /db_xref="GeneID:904430" /translation="MSEIITIANQKGGVGKTTTAVNLAASLAVAEKKVLLIDVDPQAN ATTGLGFNRNNYEYNIYHVFIGRKKLSDIILKTELPQLHLAPSNIGLVGIEQELAKGE NNEKKMLLKNQIQEVIDEYDFIIIDSPPALGSITINAFAASDSVIIPIQCEFYALEGV AMVLNTIKIIKKTINSKLRVRGFLPTMYSSQNNLSKDVVDDLKQNFKKQLFTINGNED DFIVIPRNVKLAESPSFGKPIILYDIKSPGSVAYQNLAYSILG" misc_feature 108326..109006 /locus_tag="Cj0100" /inference="protein motif:Pfam:PF01656" /note="HMMPfam hit to PF01656, CobQ/CobB/MinD/ParA nucleotide binding domai, score 9.4e-53" gene 109105..109941 /locus_tag="Cj0101" /db_xref="GeneID:904366" CDS 109105..109941 /locus_tag="Cj0101" /inference="protein motif:Pfam:PF02195" /note="Original (2000) note: Cj0101, putative parB family protein, len: 278 aa; similar to members of the parB family e.g.SP0J_BACSU stage 0 sporulation protein J (282 aa), fasta scores; opt: 563 z-score: 842.8 E(): 0, 36.1% identity in 288 aa overlap. 41.7% identity to HP1138 plasmid replication-partition related protein. Contains helix-turn-helix motif (Score 1486, +4.25 SD); Updated (2006) note: Pfam domain PF02195 ParB-like nuclease domain identified within CDS. Some characterisation within Bacillus subtilis with acceptable identity score. Putative not added to product function. Functional classification - Cell division; PMID:1900505, PMID:8071208" /codon_start=1 /transl_table=11 /product="parB family protein" /protein_id="YP_002343561.1" /db_xref="GI:218561782" /db_xref="GOA:Q9PJ25" /db_xref="InterPro:IPR003115" /db_xref="InterPro:IPR004437" /db_xref="UniProtKB/Swiss-Prot:Q9PJ25" /db_xref="GeneID:904366" /translation="MGLNKDRGLSSLISDMDTVYSKELGFDKNQSTMIEIDQISPNPF QPRKNFDQEALDELANSIKEFGLIQPIIVFKKNNKFILIAGERRLRAVKALGKKEILA FIADIDENKLRELALIENIQRENLNPIELANSYKDLMQVHKITQENLAELIHKSRTQI TNTLRLLNLDIRTQELIASGKISQGHAKVLVGLDQKDEKMLVDSIIGQKLNVRDTEKI VKKIKNNESLPNQEFEDEIKKLKQILNRFGFDCKNKNNDFVIHLENIDKIKKLIKMLE KL" misc_feature 109198..109467 /locus_tag="Cj0101" /inference="protein motif:Pfam:PF02195" /note="HMMPfam hit to PF02195, ParB-like nuclease domain,score 2.7e-34" gene 110002..110427 /gene="atpF'" /locus_tag="Cj0102" /db_xref="GeneID:904431" CDS 110002..110427 /gene="atpF'" /locus_tag="Cj0102" /EC_number="3.6.3.14" /inference="protein motif:Pfam:PF00430" /note="Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B' is part of the membrane proton channel." /codon_start=1 /transl_table=11 /product="F0F1 ATP synthase subunit B'" /protein_id="YP_002343562.1" /db_xref="GI:218561783" /db_xref="GOA:Q0PC35" /db_xref="InterPro:IPR002146" /db_xref="UniProtKB/TrEMBL:Q0PC35" /db_xref="GeneID:904431" /translation="MFEDMHPSIMLATMAIFLAMIVILNSMLYKPLLKFMDERNDSIK NDENKVKENSQEVLGVNDELEAIHINTREEIQKIKQSAIAAAKEEAEQILRSKKEELE RKMASFYADLAVQKKELQEHLNIHLSELKQALQNNIKKI" misc_feature 110026..110418 /gene="atpF'" /locus_tag="Cj0102" /inference="protein motif:Pfam:PF00430" /note="HMMPfam hit to PF00430, ATP synthase B/B' CF(0),score 1.5e-06" misc_feature 110029..110088 /gene="atpF'" /locus_tag="Cj0102" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0102 by TMHMM2.0 at aa 10-29" gene 110438..110950 /gene="atpF" /locus_tag="Cj0103" /db_xref="GeneID:904432" CDS 110438..110950 /gene="atpF" /locus_tag="Cj0103" /EC_number="3.6.3.14" /note="Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel." /codon_start=1 /transl_table=11 /product="F0F1 ATP synthase subunit B" /protein_id="YP_002343563.1" /db_xref="GI:218561784" /db_xref="GOA:Q0PC34" /db_xref="InterPro:IPR002146" /db_xref="UniProtKB/TrEMBL:Q0PC34" /db_xref="GeneID:904432" /translation="MSKLFFIIFLLPLYAFGASNGSGEYDIIPRTINFLIFVAILYYF VATPFKNFYKNRIVKISSKLDEIQKKLLESKAKKLDTMKKLEEAKASAAAALITAKKE AEILVQNIKKETQDELDLLQKHFEEQKDYEFRKMEKELVSNTLNEIFSDPNMTLKQSE IIELMMKKVS" sig_peptide 110438..110488 /gene="atpF" /locus_tag="Cj0103" /note="Signal peptide predicted for atpF by SignalP 2.0 HMM (Signal peptide probability 0.903) with cleavage site probability 0.564 between residues 17 and 18" misc_feature order(110450..110503,110516..110584) /gene="atpF" /locus_tag="Cj0103" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0103 by TMHMM2.0 at aa 5-22 and 27-49" misc_feature 110513..110923 /gene="atpF" /locus_tag="Cj0103" /inference="protein motif:Pfam:PF00430" /note="HMMPfam hit to PF00430, ATP synthase B/B' CF(0),score 0.00034" gene 110953..111474 /gene="atpH" /locus_tag="Cj0104" /db_xref="GeneID:904434" CDS 110953..111474 /gene="atpH" /locus_tag="Cj0104" /EC_number="3.6.3.14" /inference="protein motif:Pfam:PF00213" /note="Produces ATP from ADP in the presence of a proton gradient across the membrane. The delta subunit is part of the catalytic core of the ATP synthase complex" /codon_start=1 /transl_table=11 /product="F0F1 ATP synthase subunit delta" /protein_id="YP_002343564.1" /db_xref="GI:218561785" /db_xref="GOA:Q0PC33" /db_xref="InterPro:IPR000711" /db_xref="UniProtKB/TrEMBL:Q0PC33" /db_xref="GeneID:904434" /translation="MENIIARRYAKAIASRADINDFYQNLCILNSAFVLPKFKNIIES NEIKKERKMEFLDSFFDIKNSSFQNFLRLLIENSRLECIPQIVKELERQKAFKENIFV GIVYSKEKLSQENLKDLEVKLNKKFDANIKLNNKISQDDSVKIELEELGYELSFSMKA LQNKLNEYILKII" misc_feature 110965..111414 /gene="atpH" /locus_tag="Cj0104" /inference="protein motif:Pfam:PF00213" /note="HMMPfam hit to PF00213, ATP synthase delta (OSCP) subunit, score 1.1e-07" gene 111488..112993 /gene="atpA" /locus_tag="Cj0105" /db_xref="GeneID:904435" CDS 111488..112993 /gene="atpA" /locus_tag="Cj0105" /EC_number="3.6.3.14" /inference="protein motif:Pfam:PF00006" /inference="protein motif:Pfam:PF00422" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00152" /note="produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit" /codon_start=1 /transl_table=11 /product="F0F1 ATP synthase subunit alpha" /protein_id="YP_002343565.1" /db_xref="GI:218561786" /db_xref="GOA:Q9PJ21" /db_xref="HSSP:P09219" /db_xref="InterPro:IPR000194" /db_xref="InterPro:IPR000793" /db_xref="InterPro:IPR004100" /db_xref="InterPro:IPR005294" /db_xref="InterPro:IPR017458" /db_xref="UniProtKB/Swiss-Prot:Q9PJ21" /db_xref="GeneID:904435" /translation="MKFKADEISSIIKERIENFDLNLEIEETGKIISVADGVAKVYGL KNIMAGEMVEFENGDKGMALNLEESSVGIVILGKGEGLKEGASVKRLKKLLKVPVGEA LIGRVVNALGEPIDAKGVINANEYRFVEEKAKGIMARKSVHEPLHTGIKAIDALVPIG RGQRELIIGDRQTGKTTVAVDTIISQRGQGVICIYVAIGQKQSTVAQVVKRLEEHGAM EYTIVVNAGASDPAALQYLAPYTGVTMGEFFRDNAKHALIVYDDLSKHAVAYREMSLI LRRPPGREAYPGDVFYLHSRLLERASKLNDELGAGSLTALPIIETQAGDVSAYIPTNV ISITDGQIFLETDLFNSGIRPAINVGLSVSRVGGAAQIKATKQVSGTLRLDLAQYREL QAFAQFASDLDEASRKQLERGQRMVELLKQPPYSPLSVEKQVVLIFAGTKGFLDDIAV SRIKEFEDGIYPFIEAKHPDIFEQIRSKKALDSDLEEKLAKAINEFKANHL" misc_feature 111557..111763 /gene="atpA" /locus_tag="Cj0105" /inference="protein motif:Pfam:PF02874" /note="HMMPfam hit to PF02874, ATP synthase alpha/beta family, beta-ba, score 7.9e-19" misc_feature 111929..112579 /gene="atpA" /locus_tag="Cj0105" /inference="protein motif:Pfam:PF00006" /note="HMMPfam hit to PF00006, ATP synthase alpha/beta family, nucleot, score 3.4e-115" misc_feature 111992..112015 /gene="atpA" /locus_tag="Cj0105" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 112550..112579 /gene="atpA" /locus_tag="Cj0105" /inference="protein motif:Prosite:PS00152" /note="PS00152 ATP synthase alpha and beta subunits signature" misc_feature 112613..112927 /gene="atpA" /locus_tag="Cj0105" /inference="protein motif:Pfam:PF00306" /note="HMMPfam hit to PF00306, ATP synthase alpha/beta chain, C termin, score 2.5e-36" gene 113002..113886 /gene="atpG" /locus_tag="Cj0106" /db_xref="GeneID:904436" CDS 113002..113886 /gene="atpG" /locus_tag="Cj0106" /EC_number="3.6.3.14" /inference="protein motif:Pfam:PF00231" /note="Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit" /codon_start=1 /transl_table=11 /product="F0F1 ATP synthase subunit gamma" /protein_id="YP_002343566.1" /db_xref="GI:218561787" /db_xref="GOA:Q9PJ20" /db_xref="InterPro:IPR000131" /db_xref="UniProtKB/Swiss-Prot:Q9PJ20" /db_xref="GeneID:904436" /translation="MSNLKEIKRKIKSVHNTQKTTNAMKLVSTAKLKKAEEAAKRSKI YAQKIDEILSEISFQINKIVHNEDDVRLSLFHKKEQIKTVDLIFITADKGLCGGFNIK TLKTVSEMLKEYEAKNINIRLRAIGKTGIEYFNFQKIELLEKYFHLSSSPDYEKACEV IHAAVDDFLNGNTDEVILVHNGYKNMITQELKINHLIPVEPKSIEQTHNSLLELEPEG TELLKDLMKTYFEYNMYYALIDSLAAEHSARMQAMDNATNNAKARVKQLNLAYNKARQ ESITTELIEIISGVESMK" misc_feature 113005..113880 /gene="atpG" /locus_tag="Cj0106" /inference="protein motif:Pfam:PF00231" /note="HMMPfam hit to PF00231, ATP synthase, score 2.8e-83" gene 113912..115309 /gene="atpD" /locus_tag="Cj0107" /db_xref="GeneID:904437" CDS 113912..115309 /gene="atpD" /locus_tag="Cj0107" /EC_number="3.6.3.14" /inference="protein motif:Pfam:PF00306" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00152" /note="Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit" /codon_start=1 /transl_table=11 /product="F0F1 ATP synthase subunit beta" /protein_id="YP_002343567.1" /db_xref="GI:218561788" /db_xref="GOA:Q0PC30" /db_xref="InterPro:IPR000194" /db_xref="InterPro:IPR000793" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR004100" /db_xref="InterPro:IPR005722" /db_xref="UniProtKB/Swiss-Prot:Q0PC30" /db_xref="GeneID:904437" /translation="MQGFISQVLGPVVDVDFNDYLPQINEAIVVNFESEGKKHKLVLE VAAHLGDNRVRTIAMDMTDGLVRGLKAEALGAPISVPVGEKVLGRIFNVTGDLIDEGE EISFDKKWAIHRDPPAFEDQSTKSEIFETGIKVVDLLAPYAKGGKVGLFGGAGVGKTV IIMELIHNVAFKHSGYSVFAGVGERTREGNDLYNEMKESNVLDKVALCYGQMNEPPGA RNRIALTGLTMAEYFRDEMGLDVLMFIDNIFRFSQSGSEMSALLGRIPSAVGYQPTLA SEMGKFQERITSTKKGSITSVQAVYVPADDLTDPAPATVFAHLDATTVLNRAIAEKGI YPAVDPLDSTSRMLDPNIIGEEHYKVARGVQSVLQKYKDLQDIIAILGMDELSEEDKL VVERARKIEKFLSQPFFVAEVFTGSPGKYISLEDTIAGFKGILEGKYDHLPENAFYMV GNIDEAIAKADKLKG" misc_feature 113924..114136 /gene="atpD" /locus_tag="Cj0107" /inference="protein motif:Pfam:PF02874" /note="HMMPfam hit to PF02874, ATP synthase alpha/beta family, beta-ba, score 4.3e-21" misc_feature 114302..114946 /gene="atpD" /locus_tag="Cj0107" /inference="protein motif:Pfam:PF00006" /note="HMMPfam hit to PF00006, ATP synthase alpha/beta family, nucleot, score 1e-94" misc_feature 114365..114388 /gene="atpD" /locus_tag="Cj0107" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 114917..114946 /gene="atpD" /locus_tag="Cj0107" /inference="protein motif:Prosite:PS00152" /note="PS00152 ATP synthase alpha and beta subunits signature" misc_feature 114983..115306 /gene="atpD" /locus_tag="Cj0107" /inference="protein motif:Pfam:PF00306" /note="HMMPfam hit to PF00306, ATP synthase alpha/beta chain, C termin, score 7.2e-55" gene 115313..115702 /gene="atpC" /locus_tag="Cj0108" /db_xref="GeneID:904438" CDS 115313..115702 /gene="atpC" /locus_tag="Cj0108" /EC_number="3.6.3.14" /inference="protein motif:Pfam:PF00401" /note="part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane" /codon_start=1 /transl_table=11 /product="F0F1 ATP synthase subunit epsilon" /protein_id="YP_002343568.1" /db_xref="GI:218561789" /db_xref="GOA:Q9PJ18" /db_xref="HSSP:P00832" /db_xref="InterPro:IPR001469" /db_xref="UniProtKB/Swiss-Prot:Q9PJ18" /db_xref="GeneID:904438" /translation="MNDLINFEIVTPLGVIYQGEVKSVTLPGSEGEFGVLKGHAALVS SLKSGVIDIEKADLNHELIAIDAGHAKVDEDKICVLAKGAVWVCGSDESEIEKNLAQA KDLIKSMSSDNAALAATFSKLDNARMH" misc_feature 115322..115570 /gene="atpC" /locus_tag="Cj0108" /inference="protein motif:Pfam:PF02823" /note="HMMPfam hit to PF02823, ATP synthase, Delta/Epsilon chain, beta, score 2.6e-21" gene 115702..116256 /gene="exbB3" /locus_tag="Cj0109" /db_xref="GeneID:904439" CDS 115702..116256 /gene="exbB3" /locus_tag="Cj0109" /inference="protein motif:Pfam:PF01618" /note="Original (2000) note: Cj0109, exbB3, probable exbB/tolQ family transport protein, len: 184 aa; similar to members of the exbB/tolQ family, e.g. EXBB_ECOLI biopolymer transport exbB protein (244 aa), fasta scores; opt: 208 z-score: 287.0 E(): 9.9e-09, 33.6% identity in 128 aa overlap, and TOLQ_ECOLI tolQ protein (230 aa),fasta scores; opt: 187 z-score: 280.1 E(): 2.4e-08, 48.4% identity in 62 aa overlap. 42.6% identity to HP1130. Also similar to Cj0179 (30.6% identity in 186 aa overlap) and Cj1628 (44.4% identity in 81 aa overlap); Updated (2006) note: Pfam domain PF01618,MotA/TolQ/ExbB proton channel family identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation has been carried out yet. Thus, putative kept within product function. Functional classification - Transport/binding proteins - Other; PMID:8437515, PMID:9371459" /codon_start=1 /transl_table=11 /product="putative MotA/TolQ/ExbB proton channel family protein" /protein_id="YP_002343569.1" /db_xref="GI:218561790" /db_xref="GOA:Q0PC28" /db_xref="InterPro:IPR002898" /db_xref="InterPro:IPR017269" /db_xref="UniProtKB/TrEMBL:Q0PC28" /db_xref="GeneID:904439" /translation="MNFEAIFHFFNSSSIITYIVLLWLSLYFILAFSILFARLTYLAT WRNKEKESLETLLLGEKDLSRTDSILRKCNDTTSNHLEIYKNLASRRASAGLTWLSII ASTSPFIGLFGTVISILETFGGLGTQNSLSIIAPKISEALVATGCGILVAIPAYTFHL IIKRKAFELLSIIDSEIKVISSSK" misc_feature order(115744..115812,115987..116055,116113..116181) /gene="exbB3" /locus_tag="Cj0109" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0109 by TMHMM2.0 at aa 15-37, 96-118 and 138-160" misc_feature 115837..116235 /gene="exbB3" /locus_tag="Cj0109" /inference="protein motif:Pfam:PF01618" /note="HMMPfam hit to PF01618, MotA/TolQ/ExbB proton channel family, score 1e-24" gene 116265..116654 /gene="exbD3" /locus_tag="Cj0110" /db_xref="GeneID:904440" CDS 116265..116654 /gene="exbD3" /locus_tag="Cj0110" /inference="protein motif:Pfam:PF02472" /note="Original (2000) note: Cj0110, exbD3, probable exbD/tolR family transport protein, len: 129 aa; similar to members of the exbD/tolR family, e.g. EXBD_ECOLI biopolymer transport exbD protein (141 aa), fasta scores; opt: 225 z-score: 240.1 E(): 4e-06, 31.1% identity in 132 aa overlap, and TOLR_ECOLI tolR protein (142 aa), fasta scores; opt: 191 z-score: 240.1 E(): 4.1e-06, 27.7% identity in 130 aa overlap. 46.8% identity to HP1129. Also similar to Cj0180 (34.1% identity in 126 aa overlap) and Cj1629 (26.4% identity in 121 aa overlap); Updated (2006) note: Pfam domain PF02472 Biopolymer transport protein ExbD/TolR identified within CDS. Further support given to product function. No specific characterisation with acceptable identity scores were identified. Thus, putative kept within product function. Functional classification - Transport/binding proteins -Other; PMID:9371459" /codon_start=1 /transl_table=11 /product="putative exbD/tolR family transport protein" /protein_id="YP_002343570.1" /db_xref="GI:218561791" /db_xref="GOA:Q0PC27" /db_xref="InterPro:IPR003400" /db_xref="InterPro:IPR014168" /db_xref="UniProtKB/TrEMBL:Q0PC27" /db_xref="GeneID:904440" /translation="MPFDDEKPELNITPLVDIMLVLLAILMVTAPSITYEEKINLPQG SQKNTSTPTVKSLIISINAKKEIFLNQEKYDFISFADNLAQRKAQFNTEDPVFIRADK SLKYDDVISVLRSVKNLGFNKVALQTE" misc_feature 116271..116651 /gene="exbD3" /locus_tag="Cj0110" /inference="protein motif:Pfam:PF02472" /note="HMMPfam hit to PF02472, Biopolymer transport protein ExbD/TolR, score 7.2e-16" misc_feature 116292..116360 /gene="exbD3" /locus_tag="Cj0110" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0110 by TMHMM2.0 at aa 10-32" gene 116657..117436 /locus_tag="Cj0111" /db_xref="GeneID:904442" CDS 116657..117436 /locus_tag="Cj0111" /note="Original (2000) note: Cj0111, possible periplasmic protein, len: 259 aa; no Hp match. Contains possible N-terminal signal sequence; Updated (2006) note: Literature search identified paper (PMID:15231804) suggesting a number of differentially expressed genes (e.g. Cj0111) in microarray experiments may be co-trasncribed. Cj0111 seems to be iron induced and based on RT-PCR seems to be co-transcribed with Cj1658. Functional classification - Miscellaneous periplasmic proteins; PMID:15231804" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343571.1" /db_xref="GI:218561792" /db_xref="UniProtKB/TrEMBL:Q0PC26" /db_xref="GeneID:904442" /translation="MKNYGLSNLNSFLLALAIYISIVILVFFRLVSEVEPAIQYTDIK DSFVDIELAEPSKQVITQSNTPKEIQKPTEQIDIEKLFAQTTNKTVKTEDIDQKASNF NELFGNIKEIQEEKTTKIQSSAKSGISSAPKPQASELVKQLNDSLLQEESSTQGESTK AQKIGIYDEFLGKVVRIITQRWTQYYPNSEKISVKVKIFIDENGKFGYTSVEKSGNPL YDAKVAEFLESQKGKFITYPPQNKNISITMNLRDEVKVKND" sig_peptide 116657..116758 /locus_tag="Cj0111" /note="Signal peptide predicted for signalp2embl_unknown_000046_116657_117436 by SignalP 2.0 HMM (Signal peptide probability 0.888) with cleavage site probability 0.573 between residues 34 and 35" misc_feature 116681..116749 /locus_tag="Cj0111" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0111 by TMHMM2.0 at aa 9-31" gene 117446..118654 /gene="tolB" /locus_tag="Cj0112" /db_xref="GeneID:904443" CDS 117446..118654 /gene="tolB" /locus_tag="Cj0112" /inference="protein motif:Pfam:PF04052" /note="forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA" /codon_start=1 /transl_table=11 /product="translocation protein TolB" /protein_id="YP_002343572.1" /db_xref="GI:218561793" /db_xref="GOA:Q9PJ14" /db_xref="InterPro:IPR007195" /db_xref="InterPro:IPR011042" /db_xref="InterPro:IPR011659" /db_xref="InterPro:IPR014167" /db_xref="UniProtKB/Swiss-Prot:Q9PJ14" /db_xref="GeneID:904443" /translation="MKKIVAIFLVFLGSLWAEDPVIDVVNSGVVLPKIIVKDNSNLSD ENLKKSFYNIIVNDLKVSSNFEVVANATETSNYIFEYTLNKNGNTLSLNVKIKAGGSD KSEQTYTLNGLEQYPFLAHKSVKASVNALGLAPVDWMDHKILIARNSSSKKSQIIMAD YTLTYQKVIVDGGLNLFPKWGNKEQTLFYYTAYDHDKPTLYRYDLNTNKASKILSSGG MVVASDVNVDGSKLLVTMAPKDQPDVYLYDLNTKNLTQLTNYSGIDVNGNFIGSDDSK VVFVSDRLGYPNIFMQDLNSNSAEQVVFHGRNNSAVSTYKDFLVYSSREPNQAGVFNI YLMSINSDYIRQLTANGKNLFPRFSSDGGSIVFIKYLGAQSALGVIRVNANKTFYFPL RVGKIQSIDW" sig_peptide 117446..117496 /gene="tolB" /locus_tag="Cj0112" /note="Signal peptide predicted for tolB by SignalP 2.0 HMM (Signal peptide probability 0.904) with cleavage site probability 0.791 between residues 17 and 18" misc_feature 117455..117889 /gene="tolB" /locus_tag="Cj0112" /inference="protein motif:Pfam:PF04052" /note="HMMPfam hit to PF04052, TolB amino-terminal domain,score 4e-51" misc_feature 118589..118621 /gene="tolB" /locus_tag="Cj0112" /inference="protein motif:Prosite:PS00284" /note="PS00284 Serpins signature" gene 118731..119228 /gene="pal" /locus_tag="Cj0113" /db_xref="GeneID:904444" CDS 118731..119228 /gene="pal" /locus_tag="Cj0113" /inference="protein motif:Pfam:PF00691" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0113, pal, peptidoglycan associated lipoprotein (omp18), len: 165 aa; identical to TR:Q46123 (EMBL:X83374) precursor of peptidoglycan associated lipoprotein (165 aa), almost identical to TR:Q46099 omp18 (165 aa) (93.9% identity). Similar to e.g. PAL_ECOLI peptidoglycan-associated lipoprotein precursor (173 aa), fasta scores; opt: 322 z-score: 491.5 E(): 4e-20, 38.5% identity in 169 aa overlap. 42.2% identity (in 109 aa overlap) to HP1125. Contains N-terminal signal sequence with appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site and Pfam match to entry PF00691 OmpA, OmpA family, score 100.60, E-value 3.2e-26; Updated (2006) note: Characterised within Campylobacter jejuni (PMID:8576327). Putative not added to product function. Functional classification - Membranes,lipoproteins and porins; PMID:8576327" /codon_start=1 /transl_table=11 /product="peptidoglycan associated lipoprotein (omp18)" /protein_id="YP_002343573.1" /db_xref="GI:218561794" /db_xref="GOA:Q46123" /db_xref="HSSP:P07176" /db_xref="InterPro:IPR006664" /db_xref="InterPro:IPR006665" /db_xref="InterPro:IPR014169" /db_xref="UniProtKB/TrEMBL:Q46123" /db_xref="GeneID:904444" /translation="MKKILFTSIAALAVVISGCSTKSTSVSGDSSVDSNRGSGGSDGW DIDSKISQLNDTLNKVYFDFDKFNIRPDMQNVVSTNANIFNTEVSGVSITVEGNCDEW GTDEYNQALGLKRAKAVKEALIAKGVNADRIAVKSYGETNPVCTEKTKACDAQNRRAE FKLSR" sig_peptide 118731..118814 /gene="pal" /locus_tag="Cj0113" /note="Signal peptide predicted for pal by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.827 between residues 28 and 29" misc_feature 118755..118787 /gene="pal" /locus_tag="Cj0113" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 118911..119201 /gene="pal" /locus_tag="Cj0113" /inference="protein motif:Pfam:PF00691" /note="HMMPfam hit to PF00691, OmpA family, score 2.1e-27" gene 119232..120179 /locus_tag="Cj0114" /db_xref="GeneID:904445" CDS 119232..120179 /locus_tag="Cj0114" /inference="protein motif:Prosite:PS50005" /note="Original (2000) note: Cj0114, possible periplasmic protein, len: 315 aa; similar to hypothetical protein YBGF_ECOLI hypothetical 28.2 kd protein in pal-lysT intergenic region (263 aa), fasta scores; opt: 144 z-score: 238.8 E(): 4.8e-06, 21.3% identity in 249 aa overlap. 28.6% identity to HP1124. Contains possible N-terminal signal sequence; Updated (2006) note: Prosite PS50005 TPR_REPEAT,Tetratricopeptide region identified within CDS. Supporting paper identifies protein as a glycoprotein. Functional classification - Miscellaneous periplasmic proteins; PMID:12186869" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343574.1" /db_xref="GI:218561795" /db_xref="GOA:Q0PC23" /db_xref="InterPro:IPR011990" /db_xref="UniProtKB/TrEMBL:Q0PC23" /db_xref="GeneID:904445" /translation="MKKIFTVALLGATLLYAESSAFGAGDITSNSSYGLTSNEKLFKE KLDNLNNENIQTNARINEINERIEGLQSTLEGINSQYAKSNSRLSQVEENNQNIENNF TSEIQKLKAYVEESRKIQEANNKQVKKVLAELSSLVDAINANYVSKNELNDANLSVKT ITPSVVVSTTDSNSTIENNNTQNTQDDKAKQIDESWKKKKNNEILELAIKDVDKNAFE DSKAKLNFLITKQYKPARANFWLGEIEYKQKNYNNAIVYYKKSSSLSTKGDYFPKLLY HTAISLDKTGDTKTANGFYKALKTNYPNSPEAKASPNRK" sig_peptide 119232..119300 /locus_tag="Cj0114" /note="Signal peptide predicted for signalp2embl_unknown_000047_119232_120179 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.874 between residues 23 and 24" misc_feature 119934..120035 /locus_tag="Cj0114" /inference="protein motif:Pfam:PF07719" /note="HMMPfam hit to PF07719, Tetratricopeptide repeat,score 0.012" gene 120194..120763 /gene="slyD" /locus_tag="Cj0115" /db_xref="GeneID:904446" CDS 120194..120763 /gene="slyD" /locus_tag="Cj0115" /EC_number="5.2.1.8" /inference="protein motif:Prosite:PS50059" /note="Original (2000) note: Cj0115, slyD, probable peptidyl-prolyl cis-trans isomerase, len: 189 aa; similar to many of the FKBP-type e.g. SLYD_ECOLI FKBP-type peptidyl-prolyl cis-trans isomerase (196 aa), fasta scores; opt: 478 z-score: 296.9 E(): 2.8e-09, 38.5% identity in 200 aa overlap. 39.2% identity to HP1123; Updated (2006) note: Prosite PS50059 FKBP_PPIASE,Peptidylprolyl isomerase, FKBP-type domain identified within CDS. Product modified to more specific family member due to motif match. Characterised within Escherichia coli with acceptable identity score. Putative not added to product function. Functional classification -Protein translation and modification; PMID:9188461" /codon_start=1 /transl_table=11 /product="FKBP-type peptidyl-prolyl cis-trans isomerase" /protein_id="YP_002343575.1" /db_xref="GI:218561796" /db_xref="GOA:Q0PC22" /db_xref="InterPro:IPR001179" /db_xref="UniProtKB/TrEMBL:Q0PC22" /db_xref="GeneID:904446" /translation="MAIEKNSVVSMFYELKDANTNEVLESNLYSQPISFILGKGQILE SLEEEVMKLDCPSNADVVIKKEKGLGEYDENAVQTLPKEQFAGIDLKVGMELFGEGEN GETVRVTVKEIGENDVTIDYNHPYAGRDLLFSLNIVDARAASEDEILTGIIAGSHSCG CGSGHGHDHHHGHGHGGGGCCGGGGCGCH" misc_feature 120701..120733 /gene="slyD" /locus_tag="Cj0115" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 120763..121683 /gene="fabD" /locus_tag="Cj0116" /db_xref="GeneID:904447" CDS 120763..121683 /gene="fabD" /locus_tag="Cj0116" /EC_number="2.3.1.39" /inference="protein motif:Pfam:PF00698" /note="Original (2000) note: Cj0116, fabD, probable malonyl CoA-acyl carrier protein transacylase, len: 306 aa; similar to many e.g. FABD_ECOLI malonyl CoA-acyl carrier protein transacylase (EC 2.3.1.39) (308 aa), fasta scores; opt: 555 z-score: 655.2 E(): 3.1e-29, 36.1% identity in 296 aa overlap. 49.5% identity to HP0090. Contains Pfam match to entry PF00698 Acyl_transf, Acyl transferase domain, score 58.10, E-value 1.9e-13; Updated (2006) note: Characterised within Escherichia coli with acceptable identity scores. Thus,putative not added to product function. Functional classification - Fatty acid biosynthesis; PMID:1339356, PMID:7768883, PMID:8759840" /codon_start=1 /transl_table=11 /product="malonyl CoA-acyl carrier protein transacylase" /protein_id="YP_002343576.1" /db_xref="GI:218561797" /db_xref="GOA:Q0PC21" /db_xref="InterPro:IPR001227" /db_xref="InterPro:IPR004410" /db_xref="InterPro:IPR014043" /db_xref="UniProtKB/TrEMBL:Q0PC21" /db_xref="GeneID:904447" /translation="MNAAFIFPGQGSQSLGMGKDFYENSIKAKELLQNASDFCKIDFK HLLFEENEKLNQSEFTQPAIVLNSLMAYSVLLEKKPDLSSKFALGHSLGEFSALAVNG AFDFLEALSLVNKRGLFMQEDCAKVEAGMMVVLGLDDEKVEELCQKAQKENKQIFAAN YNCDGQIVVAGLKPDLASYESVFKEAGAKRAMLLNMSVASHCPLLENASAKLCVELEK VLKPNFKAVISNANAKIYTSKEEALELLKAQLISPVLYKQSIKACENEVDYFIEFGAS VLKGLNKKITSKETYALTNMNDIDEFLKVV" misc_feature 120772..121680 /gene="fabD" /locus_tag="Cj0116" /inference="protein motif:Pfam:PF00698" /note="HMMPfam hit to PF00698, Acyl transferase domain,score 6.7e-07" gene 121680..122369 /gene="pfs" /locus_tag="Cj0117" /db_xref="GeneID:904448" CDS 121680..122369 /gene="pfs" /locus_tag="Cj0117" /EC_number="3.2.2.9" /inference="protein motif:Pfam:PF01048" /note="enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine" /codon_start=1 /transl_table=11 /product="5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase" /protein_id="YP_002343577.1" /db_xref="GI:218561798" /db_xref="GOA:Q0PC20" /db_xref="InterPro:IPR000845" /db_xref="InterPro:IPR010049" /db_xref="UniProtKB/TrEMBL:Q0PC20" /db_xref="GeneID:904448" /translation="MMKIAILGAMSEEITPLLETLKDYTKIEHANNTYYFAKYKNHEL VLAYSKIGKVNSTLSASVMIEKFGAQALLFTGVAGAFNPELEIGDLLYATKLAQYDLD ITAFGHPLGFVPGNEIFIKTDEKLNNLALEVAKELNIKLRAGIIATGDEFICDEAKKA KIREIFNADACEMEGASVALVCDALKVPCFILRAMSDKAGEKAEFDFDEFVINSAKIS ANFVLKMCEKL" misc_feature 121686..122357 /gene="pfs" /locus_tag="Cj0117" /inference="protein motif:Pfam:PF01048" /note="HMMPfam hit to PF01048, Phosphorylase family, score 1.9e-56" gene 122366..123121 /locus_tag="Cj0118" /db_xref="GeneID:904449" CDS 122366..123121 /locus_tag="Cj0118" /inference="protein motif:Pfam:PF01171" /note="Original (2000) note: Cj0118, unknown, len: 251 aa; similar to hypothetical proteins from many organisms e.g. YDAO_ECOLI (311 aa), fasta scores; opt: 447 z-score: 465.6 E(): 1.1e-18, 32.5% identity in 240 aa overlap. 49.4% identity to HP1182. Contains Pfam match to entry PF01171 UPF0021, Uncharacterized protein family UPF0021, score -88.80, E-value 9.9e-05; Updated (2006) note: Pfam domain PF01171 PP-loop family identified within CDS. No specific characterisation has been carried out. Thus, putative kept within product function. Conserved added to product function. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343578.1" /db_xref="GI:218561799" /db_xref="InterPro:IPR011063" /db_xref="InterPro:IPR012089" /db_xref="InterPro:IPR014729" /db_xref="UniProtKB/TrEMBL:Q0PC19" /db_xref="GeneID:904449" /translation="MINLSKKLIRQVAQANAKFGLIKDGDRVLLGLSGGKDSLALAHL LNRMQAHAPFKFELEAVTLSYGMGEDYSHLHAHCEEHGIKHSVLDSNIYEVSGDTIRE NSSFCSYFSRMRRGALYTYALEKGFNKLAIAHHLDDAAESFFMNFIHNGALRTLAPIY QSKRGITVIRPLIFVRERQLRDNATQNELSVIGNEFCPGMKLSEKNVKFPHAREEAKQ LLANLEKDHPKLFTSLKTAFANLHTESFWLQKA" misc_feature 122444..123043 /locus_tag="Cj0118" /inference="protein motif:Pfam:PF01171" /note="HMMPfam hit to PF01171, PP-loop family, score 4e-14" gene 123126..123647 /locus_tag="Cj0119" /db_xref="GeneID:904451" CDS 123126..123647 /locus_tag="Cj0119" /note="Original (2000) note: Cj0119, unknown, len: 173 aa; similar to a hypothetical protein from B. subtilis TR:O32091 (EMBL:Z99120) YUEJ protein (183 aa), fasta scores; opt: 172 z-score: 282.5 E(): 1.8e-08, 29.5% identity in 166 aa overlap. No Hp match; Updated (2006) note: Motif match (IPR000868) identified link to hydrolase. Product modified to more specific family member based on motif match. No specific characterisation with acceptable identity score has been carried out yet. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative hydrolase" /protein_id="YP_002343579.1" /db_xref="GI:218561800" /db_xref="GOA:Q0PC18" /db_xref="InterPro:IPR000868" /db_xref="UniProtKB/TrEMBL:Q0PC18" /db_xref="GeneID:904451" /translation="MKKAFVLVDYQNDFIDGSLGFDKALKIKENILKALNQIDFNNTH LLLTYDTHDEHYLQSKEGLNLPVKHCIKESLGWQMPKEFEPFLQKAHKIFYKNTFGSL ELANFIQKSDYEELHFAGLVSHICVFCNIILAFGAKPNARIILHQNLSASFDENLEKS AFDILRAYGIEIV" gene 123647..124261 /locus_tag="Cj0120" /db_xref="GeneID:904452" CDS 123647..124261 /locus_tag="Cj0120" /note="Original (2000) note: Cj0120, unknown, len: 204 aa; 41.7% identity to HP0951. Functional classification -Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="putative recombination protein RecO" /protein_id="YP_002343580.1" /db_xref="GI:218561801" /db_xref="UniProtKB/TrEMBL:Q0PC17" /db_xref="GeneID:904452" /translation="MQGFILHTQKVKDEDLIVYILSPKMLIKAYRFYGLRHSSILSGY KIDFALEENPSFLPRLKDVLHLGFLWIMQRDKMLIWQEFIRLLYRHLKDVEELDSFYF DLLDECVKRFEKQNPKRVIVDAYLKILEFEGRLHKDFFCFACDEKIQNSITLLRAFLP SHSQCALGFEFEEKKLKQFYSSKNCAIFDDEEIENLYHLIKEGL" gene 124258..124665 /locus_tag="Cj0121" /db_xref="GeneID:904453" CDS 124258..124665 /locus_tag="Cj0121" /inference="protein motif:Pfam:PF02130" /note="Original (2000) note: Cj0121, unknown, len: 135 aa; similar to hypothetical proteins from many organisms e.g. YBEY_ECOLI (155 aa) fasta scores; opt: 218 z-score: 353.9 E(): 1.9e-12, 37.8% identity in 111 aa overlap. 59.8% identity to HP1160; Updated (2006) note: Pfam PF02130 Uncharacterized protein family UPF0054 was present within CDS. Conserved added to product function. Functional classification -Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="putative metalloprotease" /protein_id="YP_002343581.1" /db_xref="GI:218561802" /db_xref="GOA:Q9PJ06" /db_xref="InterPro:IPR002036" /db_xref="UniProtKB/Swiss-Prot:Q9PJ06" /db_xref="GeneID:904453" /translation="MILSDEKCDFLESIASFLSPKDVELVFVDSKEMQEINLEQRKQD KTTDVLSFPLENIDESLPLGSVVINVDLAKEKAKELGHSYEEEISLLFIHAMLHLLGF DHENDNGEMREKEKELIEHFNLPKSLIVRTLED" misc_feature 124339..124602 /locus_tag="Cj0121" /inference="protein motif:Pfam:PF02130" /note="HMMPfam hit to PF02130, Uncharacterized protein family UPF0054, score 6.5e-36" gene 124789..125478 /locus_tag="Cj0122" /db_xref="GeneID:904454" CDS 124789..125478 /locus_tag="Cj0122" /note="Original (2000) note: Cj0122, unknown, len: 229 aa; no Hp match. Similar in C-terminus to Cj0055c (46.6% identity in 148 aa overlap), and in N-terminus to Cj0416 (88.2% identity in 34 aa overlap); Updated (2006) note: Similar to hypothetical proteins from other bacteria. Functional classification -Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343582.1" /db_xref="GI:218561803" /db_xref="UniProtKB/TrEMBL:Q0PC15" /db_xref="GeneID:904454" /translation="MIVFPLSSFNRYFGNNPLQTLTKIRDESIENGNPELTKKQREEL GNDLIDLYKISKKFSDKIELVEGSIEDKLRNNELPESEVKNLFQWMDENAKHPRWMHI DGVSYDEAYVKIFHTSKSIDEFKEKYLELQKKYFVDFNNIDSSQKKLQETSEEDKKAF KPIQVESKSETYKDDNKMNELLRKLLETKFGTSDELEILFGMNFSNDNAGEFNKILSQ NTSAKIIDIKA" gene complement(125503..126429) /locus_tag="Cj0123c" /db_xref="GeneID:904455" CDS complement(125503..126429) /locus_tag="Cj0123c" /inference="protein motif:Pfam:PF01207" /note="Original (2000) note: Cj0123c, possible transcriptional regulator, len: 308 aa; similar to hypothetical proteins e.g. YACF_BACSU (333 aa), fasta scores; opt: 566 z-score: 916.8 E(): 0, 37.2% identity in 312 aa overlap, and to e.g. NIR3_RHOCA nitrogen regulation protein nifR3 (324 aa), fasta scores; opt: 517 z-score: 616.2 E(): 4.6e-27, 34.4% identity in 317 aa overlap. 49.5% identity to HP0727. Contains Pfam match to entry PF01207 UPF0034, Uncharacterized protein family UPF0034,score 260.90, E-value 1.7e-74; Updated (2006) note: Pfam domain PF01207 Dihydrouridine synthase (Dus) identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation with acceptable identity scores carried out yet. Thus, putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative tRNA-dihydrouridine synthase" /protein_id="YP_002343583.1" /db_xref="GI:218561804" /db_xref="GOA:Q0PC14" /db_xref="InterPro:IPR001269" /db_xref="InterPro:IPR013785" /db_xref="UniProtKB/TrEMBL:Q0PC14" /db_xref="GeneID:904455" /translation="MIDFSKKPLFLAPMAGFSDLPFRNVVKKFGADITISEMISSNAL VYESSKTLHMLERAELENPYIVQIAGGDKEVLKKAVQMLNEMDFVDGIDFNCGCPVNK VVKQCAGSALLENLELFKNLVGVIKENNKKSLTSVKFRLGFNEKYPEKMAKICESLGV DFISIHGRTRKQLYSGKADYGSIASAKASVKIPVIANGDINAQNAKEVYKITKCDGLM IGRASVGNPWIFYEIKSGKSVDEKLKKEIILTHFDEMIKHYKDQGVSIFRKHLHEYSK GHKDASTFRDTVNRIDNVEEMRKKIEEFFSLT" misc_feature complement(125515..126402) /locus_tag="Cj0123c" /inference="protein motif:Pfam:PF01207" /note="HMMPfam hit to PF01207, Dihydrouridine synthase (Dus), score 3.1e-75" gene complement(126426..127412) /locus_tag="Cj0124c" /db_xref="GeneID:904457" CDS complement(126426..127412) /locus_tag="Cj0124c" /note="Original (2000) note: Cj0124c, probable membrane protein, len: 328 aa; 21.1% identity to HP0948. Contains two possible transmembrane domains. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343584.1" /db_xref="GI:218561805" /db_xref="GOA:Q0PC13" /db_xref="UniProtKB/TrEMBL:Q0PC13" /db_xref="GeneID:904457" /translation="MKIKLFLLASFIYIALIFAFAWHLELGSYTLNISTYTFELPIMI WLVIPLFIYMILAVLHIAFYGFLRYLKFKHFFKDAAKFEAYTQDLLLEKDLKTTFQTK EFRSVAQLFKTIKTHEKIPHSNKINEILDLIDGLNKNEFFNLSKFKLENNNVLYLQNE KNHLKNDANYAYNKLKNLNEIKDEFEEIAFNTLIEKASYEQIKNVKIPKKPSEVLTLI KRFKEGNLELSVAEYEVLLSHNILSEKDYLNAAKLSTKLLNPDAILGIFNKIKNEKSE ALRAYLYLLAEFGLLDELREQIHNDDKKFNDFKAFLALREKNIKIDLNQLIQ" sig_peptide complement(126426..126488) /locus_tag="Cj0124c" /note="Signal peptide predicted for signalp2embl_unknown_000054_126426_127412 by SignalP 2.0 HMM (Signal peptide probability 0.978) with cleavage site probability 0.782 between residues 21 and 22" gene complement(127402..127764) /locus_tag="Cj0125c" /db_xref="GeneID:904459" CDS complement(127402..127764) /locus_tag="Cj0125c" /inference="protein motif:Pfam:PF01258" /inference="protein motif:Prosite:PS01102" /note="Original (2000) note: Cj0125c, unknown, len: 120 aa; some similarity to e.g. DKSA_ECOLI dnaK suppressor protein (151 aa), fasta scores; opt: 186 z-score: 276.6 E(): 3.8e-08, 26.3% identity in 118 aa overlap. No Hp match. Contains PS01102 Prokaryotic dksA/traR C4-type zinc finger and Pfam match to entry PF01258 zf_dskA_traR,Prokaryotic dksA/traR C4-type zinc finger, score 39.20,E-value 9.7e-08; Updated (2006) note: No specific characterisation has been carried out yet. Functional classification -Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343585.1" /db_xref="GI:218561806" /db_xref="GOA:Q0PC12" /db_xref="InterPro:IPR000962" /db_xref="UniProtKB/TrEMBL:Q0PC12" /db_xref="GeneID:904459" /translation="MKKNEIQNFKNILEERKKAILENLQSNSNEIEALHNSVPSDSVD FSVIETGSQIDFAISTNLKEELIEIEDSLDKIKNGTYGICESCDDEIDSQRLKVKPHA RYCITCRQIAEQGKKHEN" misc_feature complement(127417..127617) /locus_tag="Cj0125c" /inference="protein motif:Pfam:PF01258" /note="HMMPfam hit to PF01258, Prokaryotic dksA/traR C4-type zinc finge, score 6.8e-09" misc_feature complement(127441..127515) /locus_tag="Cj0125c" /inference="protein motif:Prosite:PS01102" /note="PS01102 Prokaryotic dksA/traR C4-type zinc finger" gene complement(127776..128237) /locus_tag="Cj0126c" /db_xref="GeneID:904460" CDS complement(127776..128237) /locus_tag="Cj0126c" /inference="protein motif:Pfam:PF02590" /note="Original (2000) note: Cj0126c, unknown, len: 153 aa; similar to hypotheticals e.g. YBEA_ECOLI (155 aa),fasta scores; opt: 189 z-score: 288.6 E(): 8.1e-09, 28.1% identity in 153 aa overlap. 37.2% identity to HP0949; Updated (2006) note: Pfam PF02590 Uncharacterized ACR family was present within CDS. Conserved added to product function. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein Cj0126c" /protein_id="YP_002343586.1" /db_xref="GI:218561807" /db_xref="InterPro:IPR003742" /db_xref="UniProtKB/Swiss-Prot:Q9PJ01" /db_xref="GeneID:904460" /translation="MENNLQVNIFCIQKSDEFKTCSEKYSKLISKYATLKEINVFNKK IALAQNLNAIEAKKSYEEAFMPYKKGYCIALDEKGKDLTSIEFAKLIQDKNELSFFIG GAYGLREEFNQSLDFRLSLSKLTLAHQFVKTLLLEQIYRAFCINNNHPYHK" misc_feature complement(127782..128225) /locus_tag="Cj0126c" /inference="protein motif:Pfam:PF02590" /note="HMMPfam hit to PF02590, Uncharacterized ACR,COG1576, score 9.2e-69" gene complement(128227..129069) /gene="accD" /locus_tag="Cj0127c" /db_xref="GeneID:904461" CDS complement(128227..129069) /gene="accD" /locus_tag="Cj0127c" /EC_number="6.4.1.2" /note="catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits" /codon_start=1 /transl_table=11 /product="acetyl-CoA carboxylase subunit beta" /protein_id="YP_002343587.1" /db_xref="GI:218561808" /db_xref="GOA:Q0PC10" /db_xref="InterPro:IPR000022" /db_xref="InterPro:IPR000438" /db_xref="InterPro:IPR011762" /db_xref="UniProtKB/TrEMBL:Q0PC10" /db_xref="GeneID:904461" /translation="MNFADIFSKIRRQQPSVKEAPNHWVKCQSCHALMYYKEIESCFN VCPKCNYHMRISADERIKLLSDEGSFIEYDANLEAIDPLKFVDSKSYKKRLSEGESKT GRKSSVISGECEINGLKTQLVVFDFSFMGGSLGSVEGEKIVRAIQRAITSKTSLVIVS ASGGARMQESTYSLMQMSKTSAALKLLSKEKLPYISILTDPTMGGVSASFAWLGDLII AEPEALVGFAGARVIKQTIGADLPEGFQKAEFLLEHGLIDAIVERGEQKQYLSDVLKF FSGK" misc_feature complement(128974..128991) /gene="accD" /locus_tag="Cj0127c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" gene complement(129078..129800) /locus_tag="Cj0128c" /db_xref="GeneID:904462" CDS complement(129078..129800) /locus_tag="Cj0128c" /inference="protein motif:Pfam:PF00459" /note="Original (2000) note: Cj0128c, unknown, len: 240 aa; some similarity to e.g. SUHB_ECOLI extragenic suppressor protein suhB (267 aa), fasta scores; opt: 168 z-score: 229.0 E(): 1.7e-05, 29.9% identity in 134 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF00459 Inositol monophosphatase family identified within CDS. Product modified to more specific family member due to motif match. Characterised within Escherichia coli, however,identity scores were not acceptable. Functional classification - Misc; PMID:10747806, PMID:8002619" /codon_start=1 /transl_table=11 /product="putative inositol monophosphatase family protein" /protein_id="YP_002343588.1" /db_xref="GI:218561809" /db_xref="GOA:Q0PC09" /db_xref="InterPro:IPR000760" /db_xref="UniProtKB/TrEMBL:Q0PC09" /db_xref="GeneID:904462" /translation="MKEFLDACLNANLQIRKYLNNIPQNDLKLCSKLGYDKNQGYELD LKCEQIFIKYLSCFGQIFSEESGLIGKASPKQMILDPLDGSSNFVSKIPFYGTSIALM EKDQAKSAFVCNLVSQEIFAFNNKQAFKSNLSDPKYSPLTPNLFSKIGIVEKISLYPE LLDFLTKNQLKFRSLGATALSLAYASYFSFVLILGKTRIFDTAAALAIHQNLYIEKNE NFLLLSQDKKIFDIILEFLKNN" misc_feature complement(129096..129800) /locus_tag="Cj0128c" /inference="protein motif:Pfam:PF00459" /note="HMMPfam hit to PF00459, Inositol monophosphatase family, score 1.2e-06" misc_feature complement(129219..129287) /locus_tag="Cj0128c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0128c by TMHMM2.0 at aa 172-194" gene complement(129800..132019) /locus_tag="Cj0129c" /db_xref="GeneID:904463" CDS complement(129800..132019) /locus_tag="Cj0129c" /inference="protein motif:Pfam:PF01103" /inference="protein motif:Pfam:PF07244" /note="Original (2000) note: Cj0129c, probable outer membrane protein, len: 739 aa; similar to e.g. TR:O30912 (EMBL:AF021245) Neisseria meningitidis outer membrane protein omp85 (797 aa), fasta scores; opt: 643 z-score: 886.3 E(): 0, 25.3% identity in 782 aa overlap, and D152_HAEIN protective surface antigen d15 precursor (795 aa), fasta scores; opt: 523 z-score: 548.2 E(): 2.8e-23,24.3% identity in 807 aa overlap. 34.2% identity to HP0655. Contains N-terminbal signal sequence and Pfam match to entry PF01103 Bac_suface_Ag, Bacterial surface antigen, score 404.10, E-value 1.3e-117; Updated (2006) note: Pfam domains PF01103 Surface antigen and x5 PF07244 Surface antigen variable number repeat were identified within CDS. Further support given to product function. Literature search identified papers giving further clues to product function. Characterisation has been carried out within Escherichia coli, however,identity scores were marginal. Appropriate motifs were present. Putative not added to product function. Functional classification - Membranes, lipoproteins and porins; PMID:11422558, PMID:16102012" /codon_start=1 /transl_table=11 /product="outer membrane protein" /protein_id="YP_002343589.1" /db_xref="GI:218561810" /db_xref="GOA:Q0PC08" /db_xref="InterPro:IPR000184" /db_xref="InterPro:IPR010827" /db_xref="InterPro:IPR016474" /db_xref="UniProtKB/TrEMBL:Q0PC08" /db_xref="GeneID:904463" /translation="MKKHLISICALVAMANAATIKDIKFIGLNHLSNTSAINIAGLKI GEEINPAKINTAILNLYKQNYFENIAVENNNGILEIIVTEKPTIAKVTITGIASNDRK QVESILGIKRGTLLDEGNIKEAIERIKAYYEAKSYFDTIVEYKKKTLENTDGLELEFI VNRGENIIIDNVHLSGAKKFSYSDIEPAVVNKEKEFMGWMWGRNDGKLKVFELSNDSS RIADEYMKKGYLDVQVSSPYLKTYTDTYQANLTYFIKEGKPYKIKSISIENPLFDDKQ NAQTVKDLRSSAGKTINIEDIRKDVKTIETQSADLGYAFVEVYPDIQKNDQTQEATVV FKVIPHDKVYIRNVIISGNSRTVDRVIRRELYITEGNLYNRTDLSESKNALKRTSYFD DVNIKEEKVDDTHIDLIVDVKEASTGAISGGIGYGSSDGILLNASLSDTNIFGSGIKS SVSVDKSDDTLSGRISLVNPRVLDSQYSLGGTLYSNDYEWDNYSEKNYGFDITIGRQF ARYYNVSLTYNLEQSDIYHLSPTLLRTGYELGKSIKSSITPAITFNDTDDYYLPRSGI IASTSLEYAGLGGDQEFISSSSKFNFYQGLQDYIGYDLIYRYKASFYKVWDEGYLPIN QRIYLGGIRSIRGFESRTVSPKNQWGDEIGGTIAFANSVELSFPLIDRIKLRGSVFFD YGMIGRKNLDEIKRMSTGIGIEWITPIGPLQLVFAKPLNDKKGDDTNSFEFNLGTRF" sig_peptide complement(129800..129850) /locus_tag="Cj0129c" /note="Signal peptide predicted for signalp2embl_unknown_000058_129800_132019 by SignalP 2.0 HMM (Signal peptide probability 0.997) with cleavage site probability 0.981 between residues 17 and 18" misc_feature complement(129803..130726) /locus_tag="Cj0129c" /inference="protein motif:Pfam:PF01103" /note="HMMPfam hit to PF01103, Surface antigen, score 3e-78" misc_feature complement(130760..130921) /locus_tag="Cj0129c" /inference="protein motif:Pfam:PF07244" /note="HMMPfam hit to PF07244, Surface antigen variable number repeat, score 5.9e-08" misc_feature complement(130991..131164) /locus_tag="Cj0129c" /inference="protein motif:Pfam:PF07244" /note="HMMPfam hit to PF07244, Surface antigen variable number repeat, score 3e-07" misc_feature complement(131234..131416) /locus_tag="Cj0129c" /inference="protein motif:Pfam:PF07244" /note="HMMPfam hit to PF07244, Surface antigen variable number repeat, score 1.7e-07" misc_feature complement(131519..131692) /locus_tag="Cj0129c" /inference="protein motif:Pfam:PF07244" /note="HMMPfam hit to PF07244, Surface antigen variable number repeat, score 1.3e-07" misc_feature complement(131756..131896) /locus_tag="Cj0129c" /inference="protein motif:Pfam:PF07244" /note="HMMPfam hit to PF07244, Surface antigen variable number repeat, score 3.7e-07" gene 132096..132923 /gene="tyrA" /locus_tag="Cj0130" /db_xref="GeneID:904465" CDS 132096..132923 /gene="tyrA" /locus_tag="Cj0130" /EC_number="1.3.1.12" /note="catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate" /codon_start=1 /transl_table=11 /product="prephenate dehydrogenase" /protein_id="YP_002343590.1" /db_xref="GI:218561811" /db_xref="GOA:Q0PC07" /db_xref="InterPro:IPR003099" /db_xref="UniProtKB/TrEMBL:Q0PC07" /db_xref="GeneID:904465" /translation="MKIAIIGLGLMGGSLGLCLKENKLISCVYGMDLSKENEKDALQL GLIHELIEFKDLALCDMIFVATPVNAIIEILQKLVDLPSNVTIIELGSTKRKIIESLP KNLIKQTLFAHPMTGTENSGPKAAFKELYKDAVCVLCDSEIADDLHQKRAVEIFSHLG MKIVFMDSKAHDHHAAIISHLPHVISFSLANFVMKEEDKRNIVHLAGGSFKGMSRIAK SSPQMWESIFLQNKDNLLSSIDFFQQELERCKQMIQLDKNDELREWMKQANTLREIL" misc_feature 132108..132911 /gene="tyrA" /locus_tag="Cj0130" /inference="protein motif:Pfam:PF02153" /note="HMMPfam hit to PF02153, Prephenate dehydrogenase,score 1.2e-83" gene 133003..134376 /locus_tag="Cj0131" /db_xref="GeneID:904466" CDS 133003..134376 /locus_tag="Cj0131" /inference="protein motif:Pfam:PF01551" /note="Original (2000) note: Cj0131, probable periplasmic protein, len: 457 aa; similar to hypothetical proteins e.g.TR:O25694 (EMBL:AE000754) Aquifex aeolicus AQ_1743 (422 aa), fasta scores; opt: 401 z-score: 635.2 E(): 4e-28, 30.0% identity in 420 aa overlap. 30.0% identity to HP1054. Contains probable N-terminal signal sequence. Also similar in C-terminus to Cj1235 (30.2% identity in 222 aa overlap); Updated (2006) note: Pfam domain PF01551 Peptidase family M23 identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation with acceptable identity scores identified yet. Thus, putative kept within product function. Functional classification - Degradation of macromolecules - Proteins, peptides and glycopeptides" /codon_start=1 /transl_table=11 /product="putative peptidase M23 family protein" /protein_id="YP_002343591.1" /db_xref="GI:218561812" /db_xref="GOA:Q0PC06" /db_xref="InterPro:IPR002886" /db_xref="InterPro:IPR016047" /db_xref="UniProtKB/TrEMBL:Q0PC06" /db_xref="GeneID:904466" /translation="MAKRKGKTYLSVLILVLIAILIFFISRLSIFEKNPPQILMPDVV YTDLKKPILVHIKDDESSIKNVQIILHKDDNTSAMVIADEKISNLKDITLQVALPKFG YKENVKSFVLEVIAKDSSFWNFFSGNEARKQIAVLVDNTAPKINIISNSYQIEQGGAG AVVFKADDANLDKVYIETNKGKIFKATPYVKEGYYAALIAWDARDEEFRAFVIATDKA GNISKERIRYYFVNRKYRVSNINLTDKFLDGKIENLANQYAPKDNNLNRYEKFKFVNE TLRNSNEKLIHEITSKVPEEKIDNFDLNLFLPLKNGMKVADFADHRYYSYNGQFVSDS YHMGLDLASVAQAPIISNNAGKVVFAAENGIYGLNLIVYHGFGVYSLYGHCSSKNVDL DEMINKQSIIGKTGTSGLALGDHLHFGVLVQGVETRPEQWQDKKWIENNIYNVLNDGK KIILGKN" sig_peptide 133003..133098 /locus_tag="Cj0131" /note="Signal peptide predicted for signalp2embl_unknown_000059_133003_134376 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.745 between residues 32 and 33" misc_feature 133027..133095 /locus_tag="Cj0131" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0131 by TMHMM2.0 at aa 9-31" misc_feature 134002..134289 /locus_tag="Cj0131" /inference="protein motif:Pfam:PF01551" /note="HMMPfam hit to PF01551, Peptidase family M23, score 5.2e-27" gene 134376..135260 /gene="lpxC" /locus_tag="Cj0132" /db_xref="GeneID:904467" CDS 134376..135260 /gene="lpxC" /locus_tag="Cj0132" /EC_number="3.5.1.-" /inference="protein motif:Pfam:PF03331" /note="zinc-dependent; catalyzes the deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis" /codon_start=1 /transl_table=11 /product="UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase" /protein_id="YP_002343592.1" /db_xref="GI:218561813" /db_xref="GOA:Q9PIZ5" /db_xref="HSSP:O67648" /db_xref="InterPro:IPR004463" /db_xref="InterPro:IPR011334" /db_xref="InterPro:IPR015870" /db_xref="UniProtKB/Swiss-Prot:Q9PIZ5" /db_xref="GeneID:904467" /translation="MKQLTLAKTVKGVGIGLHKGEPIEITLEPLEANSGIVFFRSDLN ASYKASPENVINTQMATVLGDDRGFISTIEHLMSAINAYGIDNVRIVLNANEAPVMDG SSISFCMMLDEAGVKELDAPKKIMVIKKPIEVRDGNKFVRLTPTKEPRINYTIKFDNA VIGEQSYNFEFSKKNYIENIARARTFGFLKDVQALRSMNLALGGSLENTIVVDENRIL NPEGLRFKDEFVRHKILDAIGDLTLLGYRVFGDYTSYAGSHHLNHLLTKEVLKDKDAY EIVSLEKTTQKAYEKVFA" misc_feature 134376..135197 /gene="lpxC" /locus_tag="Cj0132" /inference="protein motif:Pfam:PF03331" /note="HMMPfam hit to PF03331, UDP-3-O-acyl N-acetylglycosamine deacetylase, score 5.5e-135" gene 135299..135700 /locus_tag="Cj0133" /db_xref="GeneID:904469" CDS 135299..135700 /locus_tag="Cj0133" /inference="protein motif:Pfam:PF00814" /note="Original (2000) note: Cj0133, unknown, len: 133 aa; 33.6% identity to HP1051; Updated (2006) note: Pfam domain PF00814 Glycoprotease family identified within CDS. Further support given to product function. No specific characterisation with acceptable identity score carried out yet. Putative kept within product function. Functional classification - Degradation of macromolecules - Proteins,peptides and glycopeptides" /codon_start=1 /transl_table=11 /product="putative glycoprotease family protein" /protein_id="YP_002343593.1" /db_xref="GI:218561814" /db_xref="GOA:Q0PC04" /db_xref="UniProtKB/TrEMBL:Q0PC04" /db_xref="GeneID:904469" /translation="MIGIYQDDKLIKTYKSEEKASEFLPKILDELLKEYDFTSLIYAN GPGSYMGIKISYVSLSTLSIVKNIPLFAVSAFELNGYKPISANKNFCFVYKEGEICLE QNIPAEFFLPKNLQELKLNNDNLPFYFLDAI" misc_feature 135323..135550 /locus_tag="Cj0133" /inference="protein motif:Pfam:PF00814" /note="HMMPfam hit to PF00814, Glycoprotease family, score 1e-18" gene 135709..136587 /gene="thrB" /locus_tag="Cj0134" /db_xref="GeneID:904490" CDS 135709..136587 /gene="thrB" /locus_tag="Cj0134" /EC_number="2.7.1.39" /inference="protein motif:Pfam:PF00288" /inference="protein motif:Prosite:PS00627" /note="catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate" /codon_start=1 /transl_table=11 /product="homoserine kinase" /protein_id="YP_002343594.1" /db_xref="GI:218561815" /db_xref="GOA:Q9PIZ3" /db_xref="InterPro:IPR000870" /db_xref="InterPro:IPR006203" /db_xref="InterPro:IPR006204" /db_xref="InterPro:IPR014721" /db_xref="UniProtKB/Swiss-Prot:Q9PIZ3" /db_xref="GeneID:904490" /translation="MKILVPATSANLGPGFDCLGLSLKLFNETQIQKSGVFSISIGGE GSDNIFLKKNNIFVNIFYEIYEKLSGKKDNFRFIFQNNIPLSRGLGSSSAVIVGAIAS AYYMSGFKVEKECILDEALIYENHPDNIAPATLGGFVCSLVEKNKVYSIKKEIDKDLA AVVVIPNLAMSTEQSRQALAKNLSFNDAVFNLSHASFLTACFLEKKYEFLKFASQDKL HEINRMKNLPELFEVQKFALENKALMSTLSGSGSSFFSLAFKDDALALAKKIQTKFKD FRVQYLEFDDNGFEIC" misc_feature 135928..136494 /gene="thrB" /locus_tag="Cj0134" /inference="protein motif:Pfam:PF00288" /note="HMMPfam hit to PF00288, GHMP kinases putative ATP-binding protei, score 6e-28" misc_feature 135955..135990 /gene="thrB" /locus_tag="Cj0134" /inference="protein motif:Prosite:PS00627" /note="PS00627 GHMP kinases putative ATP-binding domain" misc_feature 136279..136311 /gene="thrB" /locus_tag="Cj0134" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 136612..136869 /locus_tag="Cj0135" /db_xref="GeneID:904470" CDS 136612..136869 /locus_tag="Cj0135" /inference="protein motif:Pfam:PF04296" /note="Original (2000) note: Cj0135, unknown, len: 85 aa; 44.6% identity to HP1049; Updated (2006) note: Pfam PF04296 Protein of unknown function (DUF448) was present within CDS. Conserved added to product function. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343595.1" /db_xref="GI:218561816" /db_xref="InterPro:IPR007393" /db_xref="UniProtKB/TrEMBL:Q0PC02" /db_xref="GeneID:904470" /translation="MKKHIPIRMCIVCKNRFEQNMLFRFKVVLGDIVPKAEHGRSGYL CQNCIEREDKVLQKAFSKICKNLNTKITQQGLKEIFLNGKD" misc_feature 136624..136857 /locus_tag="Cj0135" /inference="protein motif:Pfam:PF04296" /note="HMMPfam hit to PF04296, Protein of unknown function (DUF448), score 5.8e-31" gene 136856..139471 /gene="infB" /locus_tag="Cj0136" /db_xref="GeneID:904471" CDS 136856..139471 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Pfam:PF00009" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS01176" /note="Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex" /codon_start=1 /transl_table=11 /product="translation initiation factor IF-2" /protein_id="YP_002343596.1" /db_xref="GI:218561817" /db_xref="GOA:Q9PIZ1" /db_xref="HSSP:O26359" /db_xref="InterPro:IPR000178" /db_xref="InterPro:IPR000795" /db_xref="InterPro:IPR004161" /db_xref="InterPro:IPR005225" /db_xref="InterPro:IPR006847" /db_xref="InterPro:IPR015760" /db_xref="UniProtKB/Swiss-Prot:Q9PIZ1" /db_xref="GeneID:904471" /translation="MAKIRIHEIAKELGYDSKEIIEKANELGLGIKTASNAVEPEIAA AIYEYIQTREIPEAFKKNIKTPTAKKPKKENIKEQEKLNESEKKEPKKEEKLKQEVKK EELKIEKENAKEEEKQEIIDAHKPQSLASATLAKRRGLVIVKKKKDEEEIQVKKEEVK NSNDISINNEERLSLKTMFSNADESLKKKKKEKKSFVASKKESTEKMNFLDEHDFGDI SLDDEDEVVLPDFSVKEQEKPQNINKKQPNFIRQAVGNSAGFGFEGGIQRRSRKKPSK KIEKKEVEEVGSVAISKEIRVYEFADKIGKSTSEVISKLFMLGMMTTKNDFLDEDAIE ILAAEFGIEINIINEADEFDYVKDYEEETDEKDLVTRAPVITIMGHVDHGKTSLLDYI RKSRVASGEAGGITQHVGAYMVEKNGRKITFIDTPGHEAFTAMRARGASITDIVIIVV AADDGVKPQTKEAINHAKAAGVPIIIAINKMDKEAANPDMVKTQLAEMEIMPVEWGGS YEFVGVSAKTGMGIEDLLEIVLLQADILELKANPKSFAKASIIESSVQKGRGAVATVI VQNGTLTVGSTVVAGEAYGKVRAMSDDQGKALKEIKPGECGVIVGLSEVADAGEILIA VKTDKEAREYANKRHEYNRQKELSKSTKVSIDELGAKIKEGNLKALPVILKADVQGSL EALKASLEKLRNDEIKVNIIHSGVGGITQSDIELASASENSIVLGFNIRPTGEVKERA KDKGVEIKTYNVIYNLLDDVKALLGGMMSPIISEEQLGQAEIRQVINVPKIGQIAGCM VTEGVINRGAKIRLIRDGVVVYEGNVSSLKRFKDDAKEVAKGYECGVGIEGCDDMRVG DYIESYKEVEEQASL" misc_feature 136856..137014 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Pfam:PF04760" /note="HMMPfam hit to PF04760, Translation initiation factor IF-2, N-ter, score 8.4e-15" misc_feature 137729..137884 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Pfam:PF04760" /note="HMMPfam hit to PF04760, Translation initiation factor IF-2, N-ter, score 1.2e-20" misc_feature 137963..138466 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Pfam:PF00009" /note="HMMPfam hit to PF00009, Elongation factor Tu GTP binding domain, score 2.5e-54" misc_feature 137972..138301 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Pfam:PF01926" /note="HMMPfam hit to PF01926, GTPase of unknown function,score 8.6e-10" misc_feature 137990..138013 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 138533..138724 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Pfam:PF03144" /note="HMMPfam hit to PF03144, Elongation factor Tu domain, score 1.3e-08" misc_feature 139229..139435 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Pfam:PF03144" /note="HMMPfam hit to PF03144, Elongation factor Tu domain, score 1.4e-08" misc_feature 139319..139387 /gene="infB" /locus_tag="Cj0136" /inference="protein motif:Prosite:PS01176" /note="PS01176 Initiation factor 2 signature" gene 139468..139830 /gene="rbfA" /locus_tag="Cj0137" /db_xref="GeneID:904468" CDS 139468..139830 /gene="rbfA" /locus_tag="Cj0137" /inference="protein motif:Prosite:PS01319" /note="associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock" /codon_start=1 /transl_table=11 /product="ribosome-binding factor A" /protein_id="YP_002343597.1" /db_xref="GI:218561818" /db_xref="GOA:Q9PIZ0" /db_xref="InterPro:IPR000238" /db_xref="InterPro:IPR015946" /db_xref="UniProtKB/Swiss-Prot:Q9PIZ0" /db_xref="GeneID:904468" /translation="MNPSEIKKLRTESILKELIPEALANLDDENLKNLCVVDVECKKG RYDAFVYLDKMFFNVHEQEKILSSLKKASRALQNYCMSEQGWYRCPNFHFKFDDRLEY QNHMDALFEKIKKDKNES" gene 139820..140242 /locus_tag="Cj0138" /db_xref="GeneID:904546" CDS 139820..140242 /locus_tag="Cj0138" /inference="protein motif:Pfam:PF02576" /note="Original (2000) note: Cj0138, unknown, len: 140 aa; similar to hypothetical proteins e.g. YHBC_ECOLI (152 aa),fasta scores; opt: 272 z-score: 436.7 E(): 4.5e-17, 41.4% identity in 116 aa overlap. 38.9% identity to HP1046; Updated (2006) note: Pfam PF02576 Uncharacterised BCR, YhbC family was present within CDS. Conserved added to product function. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein Cj0138" /protein_id="YP_002343598.1" /db_xref="GI:218561819" /db_xref="HSSP:Q97S61" /db_xref="InterPro:IPR003728" /db_xref="UniProtKB/Swiss-Prot:Q9PIY9" /db_xref="GeneID:904546" /translation="MNLEALCKEAGLSFYDDELVSENGRKIYRIYVQKEGGVNLDDCA RLSEILSPIFDVESPVNGEYFLEVSSPGLERKLSKIEHFAKSIGELVKITTNEKEKFE AKIIAVDDENITLENLENKEKTTINFNDIKKARTFVEW" misc_feature 139823..140227 /locus_tag="Cj0138" /inference="protein motif:Pfam:PF02576" /note="HMMPfam hit to PF02576, Uncharacterised BCR, YhbC family COG0779, score 1e-62" gene 140289..142640 /locus_tag="Cj0139" /db_xref="GeneID:904929" CDS 140289..142640 /locus_tag="Cj0139" /inference="protein motif:Pfam:PF07728" /note="Original (2000) note: Cj0139, possible endonuclease, len: 783 aa; similar in part to MCRB_ECOLI 5-methylcytosine-specific restriction enzyme B (465 aa),fasta scores; opt: 305 z-score: 505.4 E(): 6.7e-21, 40.9% identity in 186 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF07728 ATPase family associated with various cellular activities was identified within CDS. Characterised within Eschereichia coli with acceptable identity scores. Sequence alignment was only partial. Thus, putative kept within product function. Functional classification - DNA replication,restriction/modification, recombination and repair; PMID:7781618" /codon_start=1 /transl_table=11 /product="putative endonuclease" /protein_id="YP_002343599.1" /db_xref="GI:218561820" /db_xref="GOA:Q0PBZ8" /db_xref="InterPro:IPR011704" /db_xref="UniProtKB/TrEMBL:Q0PBZ8" /db_xref="GeneID:904929" /translation="MWNLDEKKLQEMLDGFLNFQEVWTLEKVKNMTLEEYTNIKKDNP NRDDFTFWIESKLDNLGSIWGGSAFKFGIYRRNDESQKESSSGRLYSQNYAWIAKYGN NENEAFNNIKEKIIQIIQASQDNNLKTIEKIDFGDAIKWKIAFHYQDVKNIKIVNIFS KNVLDLISLNEFKEKLKIYQIHKKLLENKNLSLVKMIENIAIPLWNKYGMDSQNYIDK MKNLFSEYLNKKKLDKNTINKYIQVIENISKEFLKENLYSCDLFSFDQNINKLNKNEE FKLKNSNGHNMYSSALNYYRAFLIDYYEQDIFITERVQSEESNMKIIPLNQILYGPPG TGKTYHTIDKALEILGENLESRDEKKAKFDEYVRKGQIVFTTFHQSYGYEEFVEGIKP IIDNDENSQEVKYDVKDGIFKELCDKSLKNYILSMQNENEIDLDKLIFEFANYINQDF LNKGNEFPLENKVSIKKILLNFKDEYRSFSLGGSIKSPQSLTIDIIKRDYLNFKNKKI LSFKDIKPKYDSQSDYHGNAIYYFMFYNKLKEFENIQNEKFKIKKEILKSYIIIIDEI NRGNVSKIFGELITLIEPSKRIGEKEELKVTLPYSGEKFGVPKNVYIIGTMNTADRSI TSLDTALRRRFEFVEMMPDVSKLSMDCEGINLQELLKAINTRIEYLLDREKTIGHAFF VSVENLEDLKKVFQNKIIPLLQEYFYNDYALINAVLNDNDMIFEDKKDDKYLQKIKNL DSVNSERSIYNIASFDDKIWDKIEIYQAIYNDEIANKLKNENE" misc_feature 141279..141302 /locus_tag="Cj0139" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 142633..143964 /locus_tag="Cj0140" /db_xref="GeneID:904472" CDS 142633..143964 /locus_tag="Cj0140" /note="Original (2000) note: Cj0140, unknown, len: 443 aa; no Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Functional classification -Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343600.1" /db_xref="GI:218561821" /db_xref="UniProtKB/TrEMBL:Q0PBZ7" /db_xref="GeneID:904472" /translation="MNSIFSIIEHQAFSKEDLKEIFKEKAEGFYKELEDFAKNNENLL GFKNKNSLKAKNYVGIIQTKSGVLEILPKCTNLDSYKKEDSSSNHDKEKLRRCYELDN ISKNNDFYEKDFKFNPKNLLINMLKTLKNSPFKKSQISSLQSSKIPLFEVFITMFLDE FDSVYKKGLMRSYLSCEENRAFLKGKLLFNEHIKQNLIHKERFFTSNDEFVLDIAPNR LIKSTLNFLKSKTSLNKFRLIKAMQMLDEVEFSKNYEKDFSYKISRHFDYYENLLLWC KIFLKNESFMPYHGKNEAFALLFPMEKIFEDYVAYMLKKVNSTQDIKVQNNGKYLISK NDENCFMLKPDLYIKNKMILDTKWKIPNDSEDEKKQGIAQSDLYQMFAYACKFKIYDI KLVYPLCEKTQDLQRKIAEKFFVFKASEHLYFKEQGQKDIKVQVFFAPLPF" gene complement(143953..144756) /locus_tag="Cj0141c" /db_xref="GeneID:904473" CDS complement(143953..144756) /locus_tag="Cj0141c" /inference="protein motif:Pfam:PF00950" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0141c, ABC transporter integral membrane protein, len: 267 aa; similar to many e.g. MNTB_SYNY3 manganese transport system membrane protein (306 aa), fasta scores; opt: 425 z-score: 449.6 E(): 8.7e-18, 25.8% identity in 264 aa overlap. No Hp match. Contains Pfam match to entry PF00950 ABC-3, ABC 3 transport family, score 276.20, E-value 4.3e-79; Updated (2006) note: Seven probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. No specific characterisation with acceptable identity score identified. Thus, putative added to product function. Functional classification -Transport/binding proteins - Other" /codon_start=1 /transl_table=11 /product="putative ABC transporter integral membrane protein" /protein_id="YP_002343601.1" /db_xref="GI:218561822" /db_xref="GOA:Q0PBZ6" /db_xref="InterPro:IPR001626" /db_xref="UniProtKB/TrEMBL:Q0PBZ6" /db_xref="GeneID:904473" /translation="MLEILNFTFFQNALLGAILVSIACGIIGTLVMINRLFSMAGGIT HGAFGGIGIAFYFSLPILLSTGIFTLFLAFLVAFLAKRYEHRSDSIIAVIWAFGMAVG IILIDLSPSYNTDLMAYLFGSILAVGTQDLWLMALVDSVMVLLIFLFYRQFEALSFDV EFTKVRGINTSFFHYLLIALMAFCIVISIRLVGLILVMALLSIPSFIAENFTKRLGFI MILASFLSMIFCILGLILSYYLNLSSGACIIAIACFGFLVHLIGKFLKR" sig_peptide complement(143953..144066) /locus_tag="Cj0141c" /note="Signal peptide predicted for signalp2embl_unknown_000065_143953_144756 by SignalP 2.0 HMM (Signal peptide probability 0.645) with cleavage site probability 0.464 between residues 38 and 39" misc_feature complement(143968..144741) /locus_tag="Cj0141c" /inference="protein motif:Pfam:PF00950" /note="HMMPfam hit to PF00950, ABC 3 transport family,score 7.6e-82" misc_feature complement(144016..144048) /locus_tag="Cj0141c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature complement(144685..144717) /locus_tag="Cj0141c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(144749..145603) /locus_tag="Cj0142c" /db_xref="GeneID:904475" CDS complement(144749..145603) /locus_tag="Cj0142c" /inference="protein motif:Pfam:PF00005" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00211" /note="Original (2000) note: Cj0142c, ABC transporter ATP-binding protein, len: 284 aa; simlar to many e.g. MNTA_SYNY3 manganese transport system ATP-binding protein (260 aa), fasta scores; opt: 417 z-score: 613.7 E(): 6.2e-27, 32.9% identity in 252 aa overlap. No Hp ortholog but 30.4% identity to HP0250 oligopeptide ABC transporter. Contains PS00017 ATP/GTP-binding site motif A (P-loop),PS00211 ABC transporters family signature and Pfam match to entry PF00005 ABC_tran, ABC transporters, score 165.90,E-value 6.9e-46; Updated (2006) note: Some characterisation within Bacillus subtilis with acceptable identity score. Sequence alignment was only partial. Thus, putative added to product function. Functional classification -Transport/binding proteins - Other; PMID:10760146" /codon_start=1 /transl_table=11 /product="putative ABC transporter ATP-binding protein" /protein_id="YP_002343602.1" /db_xref="GI:218561823" /db_xref="GOA:Q0PBZ5" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="UniProtKB/TrEMBL:Q0PBZ5" /db_xref="GeneID:904475" /translation="MLFFEISNLNYAYDNEIILKNINLSYDNKDFLSIIGPNGAGKST LVKLILGLLKSKNEIHFKALQRKEIGYVPQHTLANPNFCPRVLEIVLMGLVSKKIFGF YGKKDKEKAMQALKSVGMEKFWNKTIDSLSGGQRQRVFIARALASECKMLILDEPTAS VDNKSAIQIFELLISLHQKGMGILLICHDINLVLAYSDKIAHLNKELFLHTNTKEKEK SSFLKHLYENHSHFCDVEMSLNTCFCNEENCDSKKLCEQEFTRRNLKKTEFKKENFCL KFSKENNA" misc_feature complement(144986..145519) /locus_tag="Cj0142c" /inference="protein motif:Pfam:PF00005" /note="HMMPfam hit to PF00005, ABC transporter, score 7.4e-49" misc_feature complement(145169..145213) /locus_tag="Cj0142c" /inference="protein motif:Prosite:PS00211" /note="PS00211 ABC transporters family signature" misc_feature complement(145475..145498) /locus_tag="Cj0142c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(145616..146506) /locus_tag="Cj0143c" /db_xref="GeneID:904476" CDS complement(145616..146506) /locus_tag="Cj0143c" /inference="protein motif:Pfam:PF01297" /note="Original (2000) note: Cj0143c, probable periplasmic solute binding protein for ABC transport system, len: 296 aa; similar to e.g. ZNUA_ECOLI high-affinity zinc uptake system protein znuA (328 aa), fasta scores; opt: 386 z-score: 471.6 E(): 5.2e-19, 26.4% identity in 288 aa overlap. No Hp match. Contains probable N-terminal signal sequence and Pfam match to entry PF01297 Lipoprotein_4,score 133.20, E-value 4.6e-36; Updated (2006) note: Pfam domain PPF01297 Periplasmic solute binding protein identified within CDS. Further support given to product function. Some characterisation within Eschericia coli, however, identity score was marginal. Thus, putative kept within product function. Paper identified linking protein to glycoprotein (PMID:12186869). Also, found to have adhesin family signature. Functional classification - Transport/binding proteins - Other; PMID:9680209, PMID:12186869" /codon_start=1 /transl_table=11 /product="putative periplasmic solute binding protein for ABC transport system" /protein_id="YP_002343603.1" /db_xref="GI:218561824" /db_xref="GOA:Q0PBZ4" /db_xref="InterPro:IPR006127" /db_xref="UniProtKB/TrEMBL:Q0PBZ4" /db_xref="GeneID:904476" /translation="MKKIILFILSLGIFYTFTQAKNLEQEQNTSSNLVSVSIAPQAFF VKKIAANTLDVNVILPPNSNEHNFEFKPSTMKKLEKSDIYFTIGLEFEKVFTDKFKQN FPKLQVINMQKNIALIQTHDTHEHSHEHEHHEHGHFDPHTWLDPILVQTMALNIYDTL IQKYPQNENLYKENLDKFLAELDSLNLQIASKLEKLKNREFVVYHPSWTYFAKRYNLT QIPVEILGKEPKSKDLQKLITLMKDKNLKVIFVQNGFPENAAKTLAKECDAKIYKIDH LSYDWENELLKTADAFSHNL" sig_peptide complement(145616..145690) /locus_tag="Cj0143c" /note="Signal peptide predicted for signalp2embl_unknown_000067_145616_146506 by SignalP 2.0 HMM (Signal peptide probability 0.895) with cleavage site probability 0.415 between residues 25 and 26" misc_feature complement(145628..146494) /locus_tag="Cj0143c" /inference="protein motif:Pfam:PF01297" /note="HMMPfam hit to PF01297, Periplasmic solute binding protein family, score 6.1e-62" gene 146705..148684 /locus_tag="Cj0144" /db_xref="GeneID:904478" CDS 146705..148684 /locus_tag="Cj0144" /inference="protein motif:Pfam:PF00015" /note="Original (2000) note: Cj0144, probable methyl-accepting chemotaxis signal transduction protein,len: 659 aa; similar to mnay e.g. MCPS_ENTAE methyl-accepting chemotaxis serine transducer (557 aa),fasta scores; opt: 297 z-score: 493.4 E(): 3.2e-20, 28.6% identity in 377 aa overlap. No Hp ortholog. C-terminus contains repeat1, and is identical to the other repeat 1-containing genes Cj0262c and Cj1564. Contains N-terminal signal sequence and transmembrane anchor around aa 300. Also contains Pfam match to entry PF00015 MCPsignal,Methyl-accepting chemotaxis protein (MCP) signaling domain, score 110.60, E-value 4.1e-30; Updated (2006) note: Some characterisation work within Bacillus subtilis and Escherichia coli, however,identity scores were unnacceptable. Thus, putative kept within product function. Functional classification -Chemotaxis and mobility; PMID:6213619, PMID:7921238" /codon_start=1 /transl_table=11 /product="putative methyl-accepting chemotaxis signal transduction protein" /protein_id="YP_002343604.1" /db_xref="GI:218561825" /db_xref="GOA:Q0PBZ3" /db_xref="InterPro:IPR004010" /db_xref="InterPro:IPR004089" /db_xref="UniProtKB/TrEMBL:Q0PBZ3" /db_xref="GeneID:904478" /translation="MKSVKLKVSLIANLIAVVCLIILGVVTFIFVKQAIFHEVVNAEI NYVKTAKNSIESFKARNSLALESLAKSILKHPIEQLDSQDALMHYVGKDLKNFRDAGR FLAVYIAQPNGELVVSDPDSDAKNLDFGTYGKADNYDARTREYYIEAVKTNKLYITPS YIDVTTNLPCFTYSIPLYKDGKFIGVLAVDILAADLQAEFENLPGRTFVFDEENKVFV STDKALLQKGYDISAIANLAKTKEDLEPFEYTRPKDGNERFAVCTKVSGIYTACVGEP IEQIEAPVYKIAFIQTAIVIFTSIISVILLYFIVSKYLSPLAAIQTGLTSFFDFINYK TKNVSTIEVKSNDEFGQISNAINENILATKRGLEQDNQAVKESVQTVSVVEGGNLTAR ITANPRNPQLIELKNVLNKLLDVLQARVGSDMNAIHKIFEEYKSLDFRNKLENASGSV ELTTNALGDEIVKMLKQSSDFANALANESGKLQTAVQSLTTSSNSQAQSLEETAAALE EITSSMQNVSVKTSDVITQSEEIKNVTGIIGDIADQINLLALNAAIEAARAGEHGRGF AVVADEVRKLAERTQKSLSEIEANTNLLVQSINDMAESIKEQTAGITQINDSVAQIDQ TTKDNVEIANESAIISSTVSDIANNILEDVKKKRF" sig_peptide 146705..146830 /locus_tag="Cj0144" /note="Signal peptide predicted for signalp2embl_unknown_000068_146705_148684 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.672 between residues 42 and 43" misc_feature order(146732..146800,147563..147631) /locus_tag="Cj0144" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0144 by TMHMM2.0 at aa 10-32 and 287-309" repeat_region 147606..148684 /note="repeat 1: identical to complement(238817..239964) and 1492913..1493990 (approximate numbers)" misc_feature 148184..148678 /locus_tag="Cj0144" /inference="protein motif:Pfam:PF00015" /note="HMMPfam hit to PF00015, Methyl-accepting chemotaxis protein (MCP) s, score 6.4e-21" gene 148819..150600 /locus_tag="Cj0145" /db_xref="GeneID:904480" CDS 148819..150600 /locus_tag="Cj0145" /inference="protein motif:Pfam:PF05787" /note="Original (2000) note: Cj0145, unknown, len: 593 aa; some similarity to a hypothetical protein from Streptomyces coelicolor TR:O69840 (EMBL:AL023517) SC1B5.12C (465 aa), fasta scores; opt: 124 z-score: 327.1 E(): 5.8e-11, 23.0% identity in 574 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF05787 Bacterial protein of unknown function (DUF83), identified within CDS. TIGRFAM TIGR01409 TAT_signal_seq, Tat (twin-arginine translocation) pathway signal sequence identified within CDS. Product modified to more specific family member based on motif search results. No specific characterisation with acceptable identity scores carried out yet. Thus, putative kept within product function. Functional classification -Misc; PMID:10766774" /codon_start=1 /transl_table=11 /product="putative TAT (Twin-Arginine Translocation) pathway signal sequence domain protein" /protein_id="YP_002343605.1" /db_xref="GI:218561826" /db_xref="InterPro:IPR006311" /db_xref="InterPro:IPR008557" /db_xref="UniProtKB/TrEMBL:Q0PBZ2" /db_xref="GeneID:904480" /translation="MERRLFLKGSALGSMVAFFASSNLSAAMLKDKDLLGFKAVSAST QDKVIVPQGYEAKVLISWGDPLFSKAKPYDENKIIDMNAVKNAHLVFGDDNDGMSFFP LSKNRGILAVNNEYINPEIMFNHHGKNLSKEDILYEQASVGVSILEIEKKGDDWTVVL DSKYNRRIDANTKMQVSGAAKKEVLKNEKFVHGTFANCANGQTPWGTYITCEENFDDF FGSLDENLEFNDSLKRYGFNKTSLYGWEKFDERFDLAKNMDEANRFGWIVEINPFDAQ STPVKRTSLGRFKHENAEIIVEKDGSVIVYMGDDEMNEFIYKFVSKHKYKKGADTSKI LDEGILYVGQFNGNVGDFKGQGKWIALEYGKNSLNEKNGFKSQAQVLINTRLAASIVG ATPMDRCEWIASHKQSGSKEVFATLTNNKNRQEPNAANPRTKNVYGQILKWMPKNSHK DDDFTWEIFALAGNPDNQQGLYKGSNNITSENKFNSPDGLKFDRDGRLWIQTDGSYSN KDEYESMGNNCMLAANPKTGEIRRFLTGPIACELTGIAFSEDYTTMFVGIQHPGEGLK GSTFPYGKTPRSSVMMIRKLDGGVIGS" sig_peptide 148819..148905 /locus_tag="Cj0145" /note="Signal peptide predicted for signalp2embl_unknown_000069_148819_150600 by SignalP 2.0 HMM (Signal peptide probability 0.997) with cleavage site probability 0.477 between residues 29 and 30" misc_feature 148819..150504 /locus_tag="Cj0145" /inference="protein motif:Pfam:PF05787" /note="HMMPfam hit to PF05787, Bacterial protein of unknown function (DUF83, score 0" gene complement(150638..151576) /gene="trxB" /locus_tag="Cj0146c" /db_xref="GeneID:904481" CDS complement(150638..151576) /gene="trxB" /locus_tag="Cj0146c" /EC_number="1.8.1.9" /inference="protein motif:Pfam:PF00070" /inference="protein motif:Prosite:PS00573" /note="Original (2000) note: Cj0146c, trxB, probable thioredoxin reductase, len: 312 aa; similar to many e.g. TRXB_LISMO thioredoxin reductase (EC 1.6.4.5) (319 aa),fasta scores; opt: 749 z-score: 926.7 E(): 0, 38.0% identity in 313 aa overlap. 64.2% identity to HP0825. Contains PS00573 Pyridine nucleotide-disulphide oxidoreductases class-II active site; Updated (2006) note: Pfam domain PF00070 Pyridine nucleotide-disulphide oxidoreductase identified within CDS. Further support given to product function. Characterised within Listeria monocytogenes with acceptable identity scores. Appropriate motifs identified. Thus, putative not added to product function. Functional classification - Biosynthesis of cofactors, prosthetic groups and carriers - Thioredoxin; PMID:2644268, PMID:15358361" /codon_start=1 /transl_table=11 /product="thioredoxin reductase" /protein_id="YP_002343606.1" /db_xref="GI:218561827" /db_xref="GOA:Q0PBZ1" /db_xref="InterPro:IPR000103" /db_xref="InterPro:IPR000759" /db_xref="InterPro:IPR001327" /db_xref="InterPro:IPR005982" /db_xref="InterPro:IPR008255" /db_xref="InterPro:IPR013027" /db_xref="UniProtKB/TrEMBL:Q0PBZ1" /db_xref="GeneID:904481" /translation="MLDVAIIGGGPAGLSAGLYATRGGLKNVVMFEKGMPGGQITSSS EIENYPGVAQVMDGISFMAPWSEQCMRFGLKHEMVGVEQILKNSDGSFTIKLEGGKTE LAKAVIVCTGSAPKKAGFKGEDEFFGKGVSTCATCDGFFYKNKEVAVLGGGDTALEEA LYLANICSKIYLIHRRDEFRAAPSTVEKVKKNEKIELITSASVDEVYGDKMGVAGVKV KLKDGSIRDLNVPGIFTFVGLNVRNEILKQDDSKFLCNMEEGGQVSVDLKMQTSVAGL FAAGDLRKDAPKQVICAAGDGAVAALSAMAYIESLH" misc_feature complement(150716..151570) /gene="trxB" /locus_tag="Cj0146c" /inference="protein motif:Pfam:PF00070" /note="HMMPfam hit to PF00070, Pyridine nucleotide-disulphide oxidoreducta, score 6e-58" misc_feature complement(151115..151177) /gene="trxB" /locus_tag="Cj0146c" /inference="protein motif:Prosite:PS00573" /note="PS00573 Pyridine nucleotide-disulphide oxidoreductases class-II active site" gene complement(151710..152024) /gene="trxA" /locus_tag="Cj0147c" /db_xref="GeneID:904479" CDS complement(151710..152024) /gene="trxA" /locus_tag="Cj0147c" /inference="protein motif:Pfam:PF00085" /inference="protein motif:Prosite:PS00194" /note="Original (2000) note: Cj0147c, trxA, thioredoxin,len: 104 aa; highly similar to many e.g. THIO_ECOLI thioredoxin 1 (108 aa), fasta scores; opt: 344 z-score: 590.5 E(): 1.2e-25, 45.7% identity in 105 aa overlap. 68.6% identity to HP0824. Contains PS00194 Thioredoxin family active site and Pfam match to entry PF00085 thiored, Thioredoxins, score 144.20, E-value 3.6e-42; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Thus,putative not added to product function. Appropiate motifs present. Paper identified linking protein to glycoprotein. Functional classification - Biosynthesis of cofactors,prosthetic groups and carriers - Thioredoxin; PMID:12186869, PMID:15358361" /codon_start=1 /transl_table=11 /product="thioredoxin" /protein_id="YP_002343607.1" /db_xref="GI:218561828" /db_xref="GOA:Q0PBZ0" /db_xref="InterPro:IPR005746" /db_xref="InterPro:IPR006662" /db_xref="InterPro:IPR012335" /db_xref="InterPro:IPR013766" /db_xref="InterPro:IPR015467" /db_xref="UniProtKB/TrEMBL:Q0PBZ0" /db_xref="GeneID:904479" /translation="MGKYIELTSDNFAQAKEGVALVDFWAPWCGPCRMLAPVIDELSN DFDGKAKICKVNTDEQGDLAAEFGVRSIPTLIFFKNGEVVDQLVGAQSKQAISDKLNS LL" misc_feature complement(151713..152018) /gene="trxA" /locus_tag="Cj0147c" /inference="protein motif:Pfam:PF00085" /note="HMMPfam hit to PF00085, Thioredoxin, score 6.9e-39" misc_feature complement(151908..151964) /gene="trxA" /locus_tag="Cj0147c" /inference="protein motif:Prosite:PS00194" /note="PS00194 Thioredoxin family active site" gene complement(152081..152419) /locus_tag="Cj0148c" /db_xref="GeneID:904489" CDS complement(152081..152419) /locus_tag="Cj0148c" /inference="protein motif:Pfam:PF02021" /note="Original (2000) note: Cj0148c, unknown, len: 112 aa; similar to hypothetical proteins e.g. TR:G3323225 (EMBL:AE001259) Treponema pallidum TP0913 (126 aa), fasta scores; opt: 156 z-score: 253.1 E(): 7.6e-07, 31.0% identity in 100 aa overlap. 47.1% identity to HP0823; Updated (2006) note: Pfam PF02021 Uncharacterised protein family was present within CDS. Conserved added to product function. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343608.1" /db_xref="GI:218561829" /db_xref="GOA:Q9PIX9" /db_xref="InterPro:IPR003509" /db_xref="UniProtKB/Swiss-Prot:Q9PIX9" /db_xref="GeneID:904489" /translation="MGVKAYLDGILGEDKACKFLKKQGFEILKRNFHSKFGEIDIIAK KDEILHFIEVKFTQNDYEVSERLDRKKLEKILKTIEFYHLKNGISSDFQIDLICIKND VIQFCENISF" misc_feature complement(152120..152389) /locus_tag="Cj0148c" /inference="protein motif:Pfam:PF02021" /note="HMMPfam hit to PF02021, Uncharacterised protein family UPF0102, score 6e-16" gene complement(152419..153666) /gene="hom" /locus_tag="Cj0149c" /db_xref="GeneID:904482" CDS complement(152419..153666) /gene="hom" /locus_tag="Cj0149c" /EC_number="1.1.1.3" /inference="protein motif:Pfam:PF00742" /inference="protein motif:Prosite:PS01042" /note="catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine" /codon_start=1 /transl_table=11 /product="homoserine dehydrogenase" /protein_id="YP_002343609.1" /db_xref="GI:218561830" /db_xref="GOA:Q0PBY8" /db_xref="InterPro:IPR001342" /db_xref="InterPro:IPR002912" /db_xref="InterPro:IPR005106" /db_xref="InterPro:IPR016204" /db_xref="UniProtKB/TrEMBL:Q0PBY8" /db_xref="GeneID:904482" /translation="MKVAILGYGTVGSAVVKFLLENDKLIRARCGQSITPVIALARSP KKNALIPITHSVAEILNADVDVFVELMGGVDEAFKIVSEILKKKKAVVTANKAMLAYH RYELENLAKNLAFGYEASVAGGIPIIKVLKEGLSANNILAIKGILNGTSNYILSSMSQ KNMSFKQALQIAQNLGYAEADPTFDIEGQDAAHKLLVLSSIAYNLKAKPEDILIEGIS EIAPEDMYFANEFEFTIKLLGIAKVRENKVELRVHPTMIDKEKMLAKVDGVMNAISIN GDLLGESLYYGAGAGGEATASAVISDLMDIARDQVKAPMLGFVNTLEYKLLSKDEIYT KYYLRVKVEDKIGILSKITQLMSENNISIDSFLQKPKKNDENYSTLFFTTHLTYEKSI QNLLEILRKQDFIKTKPFMMRIE" misc_feature complement(152437..152661) /gene="hom" /locus_tag="Cj0149c" /inference="protein motif:Pfam:PF01842" /note="HMMPfam hit to PF01842, ACT domain, score 2e-10" misc_feature complement(152755..153291) /gene="hom" /locus_tag="Cj0149c" /inference="protein motif:Pfam:PF00742" /note="HMMPfam hit to PF00742, Homoserine dehydrogenase,score 2.7e-73" misc_feature complement(153085..153153) /gene="hom" /locus_tag="Cj0149c" /inference="protein motif:Prosite:PS01042" /note="PS01042 Homoserine dehydrogenase signature" misc_feature complement(153295..153666) /gene="hom" /locus_tag="Cj0149c" /inference="protein motif:Pfam:PF03447" /note="HMMPfam hit to PF03447, Homoserine dehydrogenase,NAD binding d, score 3.1e-13" gene complement(153670..154872) /locus_tag="Cj0150c" /db_xref="GeneID:904483" CDS complement(153670..154872) /locus_tag="Cj0150c" /EC_number="2.6.1.1" /inference="protein motif:Pfam:PF00155" /note="catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate" /codon_start=1 /transl_table=11 /product="aspartate aminotransferase" /protein_id="YP_002343610.1" /db_xref="GI:218561831" /db_xref="GOA:Q0PBY7" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="UniProtKB/TrEMBL:Q0PBY7" /db_xref="GeneID:904483" /translation="MFDEIRFNTIERLPNYVFAEVNAIKMAARRAGEDIIDFSMGNPN GKTPQHIIDKLCESANKDKTSGYSTSMGIYKLRLAICNWYKRKYNVNLDPENEVVATM GSKEGFVNLARAIINPGDVAIVPTPAYPIHTQAFIIAGGNVAKMPLAYNEKFELDENQ FFENLHKTLNESIPCPKYVVVNFPHNPTTVTCEKSFYERLIATAKKERFYIISDIAYA DLTYDDYKTPSILEIEGAKDVAVETYTLSKSYNMAGWRVGFVVGNKRLVSALKKIKSW FDYGMYTPIQVAATIALDGDQTCVDEIRATYDKRMHILLEAFENAGWKLQKPRASMFV WAKLPESKRHLKSLEFSKQLLQRASVAVSPGVGFGEAGDEYVRIALIENENRIRQAAR NIKKYLKE" misc_feature complement(153679..154629) /locus_tag="Cj0150c" /inference="protein motif:Pfam:PF00155" /note="HMMPfam hit to PF00155, Aminotransferase class I and II, score 1.3e-29" gene complement(154884..155690) /locus_tag="Cj0151c" /db_xref="GeneID:904484" CDS complement(154884..155690) /locus_tag="Cj0151c" /note="Original (2000) note: Cj0151c, possible periplasmic protein, len: 268 aa; 26.0% identity to HP0555. Contains possible N-terminal signal sequence. Functional classification - Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343611.1" /db_xref="GI:218561832" /db_xref="UniProtKB/TrEMBL:Q0PBY6" /db_xref="GeneID:904484" /translation="MVKKIIILTFWVNISFAISSLELAKNLVNNPSKNSQLELLFSNN SYIDNNGNCDIAKISQILKTNSLIALTLSNPQSLRLNFKAKADEVMFFKILSDVLTDA GYIYFIPTDLILREGNIDYTIQVESQYVLDPGTLYNLLKENSVYINNIKRIGVYDYEY DLNFSNAVLKTNTNVNLNTPKSLEKPLKDYVLDLKNATNLIIDANDLDNWFPKIFFLD KNLNLIKAVKSENKNNHFSELIPNGAIYAIVSDMYSLDNIRRGLKITLKK" sig_peptide complement(154884..154934) /locus_tag="Cj0151c" /note="Signal peptide predicted for signalp2embl_unknown_000072_154884_155690 by SignalP 2.0 HMM (Signal peptide probability 0.634) with cleavage site probability 0.438 between residues 17 and 18" gene complement(155684..156622) /locus_tag="Cj0152c" /db_xref="GeneID:904485" CDS complement(155684..156622) /locus_tag="Cj0152c" /note="Original (2000) note: Cj0152c, possible membrane protein, len: 312 aa; 25.0% identity to HP0554. Contains one probable transmembrane domain around aa 110. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343612.1" /db_xref="GI:218561833" /db_xref="UniProtKB/TrEMBL:Q0PBY5" /db_xref="GeneID:904485" /translation="MLNWKKIQELNLKEVAAKTQIELDFLEALVEKNFAVLSRFNVKG FVKILSREYELDFSDFNEEYEAYLNENNPTPQTKSKMITPKLDAYSQKSFNTWPFLIV LIVLVIIGSGIYYFDTLKTFFKDEQNNTSATVIDIIGQAQENLKSLGGNNVVVIDNNK AQETNRTESVLPSQNISLQENDKNISIENNISENNTTLLDEEKNTQIQEDTNTPKTDS LKEAHFKTSTKIWIGLIDLKSLKKTSFVKEKDFNISLDKDQLILTGAAALTMFDQENK EQKFPAGISKRFLIKDGKITSISAAEFVKLNKGKEW" misc_feature complement(156275..156343) /locus_tag="Cj0152c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0152c by TMHMM2.0 at aa 94-116" gene complement(156615..157298) /locus_tag="Cj0153c" /db_xref="GeneID:904486" CDS complement(156615..157298) /locus_tag="Cj0153c" /inference="protein motif:Pfam:PF00588" /note="Original (2000) note: Cj0153c, probable rRNA methylase, len: 227 aa; similar to members of the spoU family e.g. NHS_STRAS 23S rRNA methyltransferase (274 aa), fasta scores; opt: 197 z-score: 247.9 E(): 1.5e-06,29.9% identity in 157 aa overlap. 42.7% identity to HP0553. Contains Pfam match to entry PF00588 SpoU_methylase, SpoU rRNA Methylase family, score 106.90,E-value 3.8e-28; Updated (2006) note: Characterised within Escherichia coli with marginal identity score. Putative kept within product function. Functional classification -RNA synthesis, RNA modification and DNA transcription; PMID:11698387" /codon_start=1 /transl_table=11 /product="putative rRNA methylase" /protein_id="YP_002343613.1" /db_xref="GI:218561834" /db_xref="GOA:Q0PBY4" /db_xref="InterPro:IPR001537" /db_xref="InterPro:IPR013123" /db_xref="UniProtKB/TrEMBL:Q0PBY4" /db_xref="GeneID:904486" /translation="MIVYGKQIFFYILEYHKDCINELYLAKECDKITFSKIAKSGFKI KKLDFKTAQAYAKGGNHQGFLLDIKESSFANLNEIKKNDFIVMLYGISDVGNIGAITR TAYALGVGALIFIGEKLAMEGVIRTSSGAALDLPIVISNDALSVINELKQVGFYFYAS DGSGKEIHSVKISNGKKVLVLGSEGFGLSSKIVKKCDECVGIAMKNNFDSLNVSAAFA ILCDRMLNA" misc_feature complement(156633..157052) /locus_tag="Cj0153c" /inference="protein motif:Pfam:PF00588" /note="HMMPfam hit to PF00588, SpoU rRNA Methylase family,score 7e-28" gene complement(157312..158136) /locus_tag="Cj0154c" /db_xref="GeneID:904487" CDS complement(157312..158136) /locus_tag="Cj0154c" /inference="protein motif:Pfam:PF00590" /inference="protein motif:Prosite:PS01296" /note="Original (2000) note: Cj0154c, possible methylase,len: 274 aa; similar to hypotehtical proteins e.g. YABC_BACSU (292 aa), fasta scores; opt: 453 z-score: 741.0 E(): 0, 32.9% identity in 289 aa overlap. 42.3% identity to HP0552. Contains PS01296 Uncharacterized protein family UPF0011 signature and Pfam match to entry PF00590 TP_methylase, Tetrapyrrole (Corrin/Porphyrin) Methylases.,score 81.20, E-value 2.2e-20; Updated (2006) note: Pfam domain PF00590 Tetrapyrrole (Corrin/Porphyrin) Methylase was identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation with acceptable identity score has yet been carried out. Thus, putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative tetrapyrrole methylase family protein" /protein_id="YP_002343614.1" /db_xref="GI:218561835" /db_xref="GOA:Q0PBY3" /db_xref="InterPro:IPR000878" /db_xref="InterPro:IPR008189" /db_xref="InterPro:IPR014777" /db_xref="UniProtKB/TrEMBL:Q0PBY3" /db_xref="GeneID:904487" /translation="MLYFIPTPIGNLSDISFRALELLKTCDLVFCEDTRVSKSLISLL NTKFHTDIHISKFIALHSHNEKEVLASIDLKIFEKNVAYLSDAGMPGISDPGKALVEF AQENNITYEILPGANAALVALVSSAFCQKEFIFIGFLANKGKERQKDIEKILNFPYPS IIYESPKRILSLVEQIMILDNQREIFLIKEISKKFEKKFKGNAKELSEILKKSNLNGE WVVVLQSKEQNFLQNTLCEKDIMDLELSLKAKAKLLSKINGKNAKEIYQKLLLSQD" misc_feature complement(157516..158136) /locus_tag="Cj0154c" /inference="protein motif:Pfam:PF00590" /note="HMMPfam hit to PF00590, Tetrapyrrole (Corrin/Porphyrin) Methylas, score 9.6e-20" misc_feature complement(157849..157884) /locus_tag="Cj0154c" /inference="protein motif:Prosite:PS01296" /note="PS01296 Uncharacterized protein family UPF0011 signature" gene complement(158139..158339) /gene="rpmE" /locus_tag="Cj0155c" /db_xref="GeneID:904488" CDS complement(158139..158339) /gene="rpmE" /locus_tag="Cj0155c" /inference="protein motif:Pfam:PF01197" /inference="protein motif:Prosite:PS01143" /note="RpmE; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome" /codon_start=1 /transl_table=11 /product="50S ribosomal protein L31" /protein_id="YP_002343615.1" /db_xref="GI:218561836" /db_xref="GOA:Q9PIX2" /db_xref="InterPro:IPR002150" /db_xref="UniProtKB/Swiss-Prot:Q9PIX2" /db_xref="GeneID:904488" /translation="MKKEIHPEYVECKVSCACGNTFTTKSNKAELRVDICSNCHPFFT GSEKIVDAAGRVEKFKKKYAMQ" misc_feature complement(158142..158339) /gene="rpmE" /locus_tag="Cj0155c" /inference="protein motif:Pfam:PF01197" /note="HMMPfam hit to PF01197, Ribosomal protein L31,score 4.2e-40" misc_feature complement(158166..158222) /gene="rpmE" /locus_tag="Cj0155c" /inference="protein motif:Prosite:PS01143" /note="PS01143 Ribosomal protein L31 signature" misc_feature complement(158217..158234) /gene="rpmE" /locus_tag="Cj0155c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" gene complement(158418..159074) /locus_tag="Cj0156c" /db_xref="GeneID:904493" CDS complement(158418..159074) /locus_tag="Cj0156c" /inference="protein motif:Pfam:PF04452" /note="in Escherichia coli RsmE methylates the N3 position of the U1498 base in 16S rRNA; cells lacking this function can grow, but are outcompeted by wild-type; SAM-dependent m(3)U1498 methyltransferase" /codon_start=1 /transl_table=11 /product="16S ribosomal RNA methyltransferase RsmE" /protein_id="YP_002343616.1" /db_xref="GI:218561837" /db_xref="InterPro:IPR006700" /db_xref="UniProtKB/TrEMBL:Q0PBY1" /db_xref="GeneID:904493" /translation="MQFLYNKQAGEEFIQLQGENFNHLKVRRVKENSELNLRNLQDNF LYNYTITNLTRNSCTLKFLNKKSQNIKQSELNLALAIIDIKILEKTLPFLNELGVKKL HLVFTNFSQRNFKIDLERFEKIIISSCEQCGRNTKMDLIIHQSTQEFVQKFPNAIMVD FQGEQQSHFDEKELYFIGPEGGFNNDERLLFNRKISLKSSNILKSQTAIIAIASKILL" misc_feature complement(158424..158711) /locus_tag="Cj0156c" /inference="protein motif:Pfam:PF04452" /note="HMMPfam hit to PF04452, Protein of unknown function (DUF558), score 1.2e-28" gene complement(159076..159483) /locus_tag="Cj0157c" /db_xref="GeneID:904494" CDS complement(159076..159483) /locus_tag="Cj0157c" /note="Original (2000) note: Cj0157c, probable integral membrane protein, len: 135 aa; no Hp match. Contains four probable transmembrane domains. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343617.1" /db_xref="GI:218561838" /db_xref="GOA:Q0PBY0" /db_xref="UniProtKB/TrEMBL:Q0PBY0" /db_xref="GeneID:904494" /translation="MDQSYEFFLALHLYSLYASGFLMLFYLILTQGNFKTEFIFIRRI RLFLPIYYLFLALIIFTGCLLSAMKQFQMNVNIWVMIFSWILIFALAIFHFVCFKKAR RFRKYATFRWISCLILPFEIFLLFLPFLIERYL" misc_feature complement(159295..159327) /locus_tag="Cj0157c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(159483..159908) /locus_tag="Cj0158c" /db_xref="GeneID:904474" CDS complement(159483..159908) /locus_tag="Cj0158c" /inference="protein motif:Pfam:PF00034" /inference="protein motif:Prosite:PS00013" /inference="protein motif:Prosite:PS00190" /note="Original (2000) note: Cj0158c, possible haem-binding lipoprotein, len: 141 aa; no Hp match. Contains N-terminal signal sequence with appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site, PS00190 Cytochrome c family heme-binding site signature, and Pfam match to entry PF00034 cytochrome_c, Cytochrome c, score -3.00, E-value 0.87; Updated (2006) note: No specific characterisation with acceptable identity scores identified yet. Putative kept within product function. Functional classification -Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative haem-binding lipoprotein" /protein_id="YP_002343618.1" /db_xref="GI:218561839" /db_xref="GOA:Q0PBX9" /db_xref="UniProtKB/TrEMBL:Q0PBX9" /db_xref="GeneID:904474" /translation="MQKAKILIALSFFLLVLSACSNDEKNISKTQNTDQEVVQIEQND EKTELSDSNLPLPVDDEAQSSNDEHEVNPSIINSLYKQKCATCHGEKGELKPKNSTAI KTLSNKIFIQKIKTIKDKNHSFLSDEQIQNLADFINKGK" sig_peptide complement(159483..159560) /locus_tag="Cj0158c" /note="Signal peptide predicted for signalp2embl_unknown_000078_159483_159908 by SignalP 2.0 HMM (Signal peptide probability 0.997) with cleavage site probability 0.495 between residues 26 and 27" misc_feature complement(159486..159689) /locus_tag="Cj0158c" /inference="protein motif:Pfam:PF00034" /note="HMMPfam hit to PF00034, Cytochrome c, score 0.041" misc_feature complement(159642..159659) /locus_tag="Cj0158c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" misc_feature complement(159849..159881) /locus_tag="Cj0158c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(159908..160489) /locus_tag="Cj0159c" /db_xref="GeneID:904501" CDS complement(159908..160489) /locus_tag="Cj0159c" /EC_number="4.2.3.12" /inference="protein motif:Pfam:PF01242" /note="Original (2000) note: Cj0159c, unknown, len: 193 aa; similar in N-terminus to hypothetical proteins e.g.TR:O27296 (EMBL:AE000890) Methanobacterium thermoautotrophicum MTH1228 (161 aa), fasta scores; opt: 140 z-score: 234.0 E(): 8.9e-06, 37.9% identity in 66 aa overlap. 35.8% identity to HP0933; Updated (2006) note: Pfam domain PF01242 6-pyruvoyl tetrahydropterin synthase was identified within CDS. Product modified to more specific family member due to motif match with own search. No specific characterisation with acceptable identity scores carried out yet. Thus,putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative 6-pyruvoyl tetrahydropterin synthase" /protein_id="YP_002343619.1" /db_xref="GI:218561840" /db_xref="GOA:Q0PBX8" /db_xref="InterPro:IPR007115" /db_xref="UniProtKB/TrEMBL:Q0PBX8" /db_xref="GeneID:904501" /translation="MIIRKLFEFENAHIVRFCSSKRCKSSIHGHSYKVEVLLESKYLD NAGMVYDFGLLKTYIRQIIDSFDHAITLFKYDDAKYLEEMKKYSSRWICLPVNVSAEN FCRVFFILIDALLKQTKMVNGEQGVTLQSIIVHETRTGYAQGFREDAYSELMPKISLQ DIEFSNGIKAEWNDIDFYNKLKNEEIFINPKEI" gene complement(160486..161229) /locus_tag="Cj0160c" /db_xref="GeneID:904496" CDS complement(160486..161229) /locus_tag="Cj0160c" /inference="protein motif:Pfam:PF04055" /note="Original (2000) note: Cj0160c, unknown, len: 247 aa; similar to hypothetical proteins e.g. TR:O67826 (EMBL:AE000769) Aquifex aeolicus AQ_2035 (219 aa), fasta scores; opt: 130 z-score: 282.9 E(): 1.7e-08, 28.8% identity in 233 aa overlap. 43.1% identity to HP0934; Updated (2006) note: Pfam domain PF04055 Radical SAM superfamily was identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation carried out yet, so putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative radical SAM domain protein" /protein_id="YP_002343620.1" /db_xref="GI:218561841" /db_xref="GOA:Q0PBX7" /db_xref="InterPro:IPR007197" /db_xref="UniProtKB/TrEMBL:Q0PBX7" /db_xref="GeneID:904496" /translation="MQLVESFLSIQGEGKYNGKLAIFMRFAGCNFNCLGFNVKISKND KTLIGCDTIRAVFTKDFKESYETLNANELLKRVIKLKKDFDPIVVITGGEPLIHYENP EFIEFIQMLLKNKFEIHFESNGSIEIDFDRYPFYKECIFALSVKLQNSGIKKDKRLNF KALKAFKNYAKDSFYKFVLDANTLDNSFLEINEILKEAPNQIFCMPMGENEQNLKKNA QKIAEFCIKNGYNYSDRIHIRLWNDKEGV" misc_feature complement(160567..161163) /locus_tag="Cj0160c" /inference="protein motif:Pfam:PF04055" /note="HMMPfam hit to PF04055, Radical SAM superfamily,score 3.1e-08" gene complement(161232..162194) /gene="moaA" /locus_tag="Cj0161c" /db_xref="GeneID:904499" CDS complement(161232..162194) /gene="moaA" /locus_tag="Cj0161c" /inference="protein motif:Pfam:PF04055" /inference="protein motif:Pfam:PF06463" /inference="protein motif:Prosite:PS01305" /note="together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z" /codon_start=1 /transl_table=11 /product="molybdenum cofactor biosynthesis protein A" /protein_id="YP_002343621.1" /db_xref="GI:218561842" /db_xref="GOA:Q9PIW6" /db_xref="InterPro:IPR000385" /db_xref="InterPro:IPR006638" /db_xref="InterPro:IPR007197" /db_xref="InterPro:IPR010505" /db_xref="InterPro:IPR013483" /db_xref="InterPro:IPR013785" /db_xref="UniProtKB/Swiss-Prot:Q9PIW6" /db_xref="GeneID:904499" /translation="MLIDQFGRKINYLRISVTQRCNFRCLYCMPKIPFDYQPKENLLS FEELFLFVKAAIDEGIEKIRITGGEPLLRKDLSIFIKMISDYKSDIDLAITTNGFLLK DFAKDLKNAGLKRLNISLDTLDHKKAKTLAQKDVLDSVLSGIDEALNLDLKVKLNTVA LKNLNDDELISLLEFAKSKKAQIRFIEFMENTHAYGKLQGLKRDEIIQILSQKYQIQL IKKDEKAPVSIYKADDYEFGIIDPHSHEFCDSCNRIRLSAEGLLIPCLYFDEALSIKE AVRKGDIKAAVEILQEVLRNKPEKNKWSVVDNETSSRAFYQTGG" misc_feature complement(161286..161654) /gene="moaA" /locus_tag="Cj0161c" /inference="protein motif:Pfam:PF06463" /note="HMMPfam hit to PF06463, Molybdenum Cofactor Synthesis C, score 1.5e-47" misc_feature complement(161667..162152) /gene="moaA" /locus_tag="Cj0161c" /inference="protein motif:Pfam:PF04055" /note="HMMPfam hit to PF04055, Radical SAM superfamily,score 5.8e-38" misc_feature complement(162111..162146) /gene="moaA" /locus_tag="Cj0161c" /inference="protein motif:Prosite:PS01305" /note="PS01305 moaA / nifB / pqqE family signature" gene complement(162207..162722) /locus_tag="Cj0162c" /db_xref="GeneID:904500" CDS complement(162207..162722) /locus_tag="Cj0162c" /note="Original (2000) note: Cj0162c, probable periplasmic protein, len: 171 aa; no Hp match. Contains probable N-terminal signal sequence. Functional classification -Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343622.1" /db_xref="GI:218561843" /db_xref="GOA:Q0PBX5" /db_xref="UniProtKB/TrEMBL:Q0PBX5" /db_xref="GeneID:904500" /translation="MSDDVLYLVFIIVLLIAMLAYMNIKERENNAKIAKLQNVIEDIT KELHYFRKELGVKDDSEEDEDYKTSLLKEEIMIELDKQISSKITPVLRTLKTMEHIIE DFQNEQQNRLLNLEQKAQSMAKLTPNYDTEEQKIENLFKEGKSIEQIAKDLRIGTGNV ELVLKFKKLIK" misc_feature complement(162651..162710) /locus_tag="Cj0162c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0162c by TMHMM2.0 at aa 5-24" gene complement(162719..163216) /locus_tag="Cj0163c" /db_xref="GeneID:904502" CDS complement(162719..163216) /locus_tag="Cj0163c" /note="Original (2000) note: Cj0163c, unknown, len: 165 aa; no Hp match. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343623.1" /db_xref="GI:218561844" /db_xref="GOA:Q0PBX4" /db_xref="UniProtKB/TrEMBL:Q0PBX4" /db_xref="GeneID:904502" /translation="MELALFKAGFEAHLECCEIENNRFLGEYLKLGAISQILKWKKLA LRIDFDEGEKIIFDLLLSLKEDILRLENSLDKNKELIPLKQKGVIESLNFEYLNFLDT ILEEDKEYYLRFDLNNQKIAIFIKAQSQTLAKIIKIKPEDKMAFDAFVVEIQRNMIRN KKGQE" gene complement(163207..164091) /gene="ubiA" /locus_tag="Cj0164c" /db_xref="GeneID:904503" CDS complement(163207..164091) /gene="ubiA" /locus_tag="Cj0164c" /EC_number="2.5.1.-" /inference="protein motif:Pfam:PF01040" /inference="protein motif:TMHMM:2.0" /note="UbiA prenyltransferase family catalyzes the transfer of a prenyl group to various acceptors with hydrophobic ring structures in the biosynthesis of respiratory quinones, hemes, chlorophylls, vitamin E, and shikonin" /codon_start=1 /transl_table=11 /product="prenyltransferase" /protein_id="YP_002343624.1" /db_xref="GI:218561845" /db_xref="GOA:Q0PBX3" /db_xref="InterPro:IPR000537" /db_xref="InterPro:IPR006371" /db_xref="UniProtKB/TrEMBL:Q0PBX3" /db_xref="GeneID:904503" /translation="MNTFWIKFKDILELVVFKHSIFALPFLFSSMIVASKLANDTAWF GFKALILGIICAVSARNFAMATNRLMDEDIDKDNPRCANRPNVSGKIGRKSVWIFIII NALIFISCSYFINTLAFYLSFPVLLVLAIYSAFKRFSSLAHLVLGFCLGLAPIAGSVI IMGEIHIYSVILCLGVTFWTAGFDLLYSLQDMEYDKKIGLHSIPAKFGSKATLFISSF CHILAVLFWLLFVWEVWGVALGKIALIGVIISGIILALEHKIVHKNFAHIDRAFFTLN GYLSIIFFIFIWIDLLWN" misc_feature complement(163219..164034) /gene="ubiA" /locus_tag="Cj0164c" /inference="protein motif:Pfam:PF01040" /note="HMMPfam hit to PF01040, UbiA prenyltransferase family, score 3.1e-52" misc_feature complement(163762..163794) /gene="ubiA" /locus_tag="Cj0164c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 164162..165031 /gene="miaA" /locus_tag="Cj0166" /db_xref="GeneID:904521" CDS 164162..165031 /gene="miaA" /locus_tag="Cj0166" /EC_number="2.5.1.75" /inference="protein motif:Pfam:PF01715" /inference="protein motif:Prosite:PS00017" /note="IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity" /codon_start=1 /transl_table=11 /product="tRNA delta(2)-isopentenylpyrophosphate transferase" /protein_id="YP_002343625.1" /db_xref="GI:218561846" /db_xref="GOA:Q9PIW2" /db_xref="InterPro:IPR002627" /db_xref="UniProtKB/Swiss-Prot:Q9PIW2" /db_xref="GeneID:904521" /translation="MFFEIALIGTTASGKTYIANTLAREFNAVVLSLDSLCVYKEINI ASAKPSQDDLASIKYFGVNLLSVNEHFNVELFIREYQKAKEFALARNLPLIIVGGTGF YLKTMIDGLSEKTLESKSSLNNDEIYALLLNIDPNYKIEKNDTYRLKKWLGIYEQTRE IPSEFLKRTQKTGVLKDIEIYELAWDKEILKKRIKTRTKEMLDNGLLDEAKILFSKFD HKLKALNSIGLKECKEYLDGEISFKELENLITIHTTQLAKRQRTFNKKFQSKALEFDK ALATLRMKFSIEK" misc_feature 164186..164209 /gene="miaA" /locus_tag="Cj0166" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 164267..164986 /gene="miaA" /locus_tag="Cj0166" /inference="protein motif:Pfam:PF01715" /note="HMMPfam hit to PF01715, IPP transferase, score 5.9e-46" gene complement(165017..165580) /locus_tag="Cj0167c" /db_xref="GeneID:904504" CDS complement(165017..165580) /locus_tag="Cj0167c" /inference="protein motif:Pfam:PF02659" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0167c, probable integral membrane protein, len: 187 aa; similar to hypothetical proteins e.g. YEBN_ECOLI (206 aa), fasta scores; opt: 451 z-score: 792.0 E(): 0, 38.1% identity in 197 aa overlap. No Hp match; Updated (2006) note: Six probable transmembrane helices predicted by TMHMM2.0. Also, Pfam domains x2 PF02659 Domain of unknown function DUF were identified within CDS. This family consists of hypothetical transmembrane proteins with unknown function. Further support given to product function. No specific characterisation yet, so putative included in product function. Functional classification - Membranes,lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343626.1" /db_xref="GI:218561847" /db_xref="GOA:Q9PIW1" /db_xref="InterPro:IPR003810" /db_xref="UniProtKB/Swiss-Prot:Q9PIW1" /db_xref="GeneID:904504" /translation="MDFYSLIFLSCALGMDAFAVSLCKGFSVKKLHLKHYLIVGIYFG GFQALMPTIGYFIGITFASFIASIDHWIAFILLSLIGLKMIKESLENENCDSNANQFG FKTMLALAIATSIDALAVGVSFAFLNVNLLLAIFLIGIITFILCIIALKIGNKFGIYL KNKAELLGGLVLIILGVKILIEHLFFD" misc_feature complement(165050..165265) /locus_tag="Cj0167c" /inference="protein motif:Pfam:PF02659" /note="HMMPfam hit to PF02659, Domain of unknown function DUF, score 1.5e-17" misc_feature complement(165335..165565) /locus_tag="Cj0167c" /inference="protein motif:Pfam:PF02659" /note="HMMPfam hit to PF02659, Domain of unknown function DUF, score 4.5e-15" gene 165728..165802 /gene="tRNAGlu" /locus_tag="Cjp03" /db_xref="GeneID:904506" tRNA 165728..165802 /gene="tRNAGlu" /locus_tag="Cjp03" /product="tRNA-Glu" /note="tRNA Glu anticodon TTC, Cove score 66.15" /db_xref="GeneID:904506" gene complement(165938..166105) /locus_tag="Cj0168c" /db_xref="GeneID:904507" CDS complement(165938..166105) /locus_tag="Cj0168c" /note="Original (2000) note: Cj0168c, probable periplasmic protein, len: 55 aa; No Hp ortholog. Some similarity in C-term to Cj0909 (35.0% identity in 40 aa overlap). Contains probable N-terminal signal sequence; Updated (2006) note: Literature search identified paper giving further support to product function. N-terminal matches to Yersinia pestis, acid shock protein 2 precursor. Functional classification - Miscellaneous periplasmic proteins; PMID:15632442" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343627.1" /db_xref="GI:218561848" /db_xref="GOA:Q0PBX0" /db_xref="UniProtKB/TrEMBL:Q0PBX0" /db_xref="GeneID:904507" /translation="MKKVVLISALLGAFAANVFAANTPSDVNQTHTKAKADKKHEAKT HKKTKEQTPAQ" sig_peptide complement(165938..165997) /locus_tag="Cj0168c" /note="Signal peptide predicted for signalp2embl_unknown_000084_165938_166105 by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.552 between residues 20 and 21" misc_feature complement(166043..166096) /locus_tag="Cj0168c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0168c by TMHMM2.0 at aa 4-21" gene 166373..167035 /gene="sodB" /locus_tag="Cj0169" /db_xref="GeneID:904414" CDS 166373..167035 /gene="sodB" /locus_tag="Cj0169" /EC_number="1.15.1.1" /inference="protein motif:Pfam:PF00081" /inference="protein motif:Prosite:PS00088" /note="Original (2000) note: Cj0169, sodB, superoxide dismutase (Fe), len: 220 aa; 99.1% identical to SODF_CAMJE, and highly simlar to many e.g. SODF_ECOLI superoxide dismutase (Fe) (EC 1.15.1.1) (192 aa), fasta scores; opt: 740 z-score: 1209.9 E(): 0, 57.9% identity in 195 aa overlap. 61.6% identity to HP0389. Contains PS00088 Manganese and iron superoxide dismutases signature and Pfam match to entry PF00081 sodfe, Iron/manganese superoxide dismutases (SODM), score 275.90, E-value 5.2e-79; Updated (2006) note: Characterised within Campylobacter jejuni, so putative not added. Paper identified linking protein to glycoprotein (PMID:12186869). Functional classification -Detoxification; PMID:12186869, PMID:8025686, PMID:8005660" /codon_start=1 /transl_table=11 /product="superoxide dismutase (Fe)" /protein_id="YP_002343628.1" /db_xref="GI:218561849" /db_xref="GOA:Q0PBW9" /db_xref="HSSP:P09157" /db_xref="InterPro:IPR001189" /db_xref="UniProtKB/Swiss-Prot:Q0PBW9" /db_xref="GeneID:904414" /translation="MFELRKLPYDTNAFGDFLSAETFSYHHGKHHNTYVTNLNNLIKD TEFAGKDLVSIIKTSNGGVFNNAAQVYNHDFYFDCIKPSTGCGCGGSCQSIDANLQAA LEKEFGSLENFKAEFIKGATGVFGSGWFWLVYNTKNQKLEFVGTSNAATPITEDKVPL LVVDVWEHAYYVDHRNARPAYLEKFYAHINWEFVAKAYEWALKEGMGSVSFYANELHP VK" misc_feature 166373..166615 /gene="sodB" /locus_tag="Cj0169" /inference="protein motif:Pfam:PF00081" /note="HMMPfam hit to PF00081, Iron/manganese superoxide dismutases, alpha-, score 2.8e-30" misc_feature 166637..166966 /gene="sodB" /locus_tag="Cj0169" /inference="protein motif:Pfam:PF02777" /note="HMMPfam hit to PF02777, Iron/manganese superoxide dismutases, C-term, score 3.3e-45" misc_feature 166862..166885 /gene="sodB" /locus_tag="Cj0169" /inference="protein motif:Prosite:PS00088" /note="PS00088 Manganese and iron superoxide dismutases signature" gene 167050..167794 /locus_tag="Cj0170" /db_xref="GeneID:904508" CDS join(167050..167295,167297..167794) /locus_tag="Cj0170" /note="Original (2000) note: Cj0171, unknown, len: 166 aa; no Hp match. Contains polyporphic sequence G(9,11) at N-terminus; G11 allows translation from the upstream CDS Cj0170, G9 (consensus) would only allow this CDS to start at aa 47. Similar to Cj1326 (51.9% identity in 135 aa overlap), which also contains a polymorphic sequence allowing possible translation from Cj1325; Original (2000) note: Cj0170, unknown, len: 90 aa; no Hp match. Contains polyporphic sequence G(9,11) at C-terminus; G9 (consensus) gives this translation stop,G11 allows translation into the downstream CDS Cj0171. Similar to Cj1325 (73.8% identity in 61 aa overlap), which also contains a polymorphic sequence allowing possible translation into Cj1326; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Coding sequences have been merged to reflect the complete amino acid sequence for this gene regardless of phase. Previous annotation gave Cj0170 and Cj0171 as seperate CDS. Merging of these CDSs has lead to loss of the downstream CDS. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343629.1" /db_xref="GI:218561850" /db_xref="UniProtKB/TrEMBL:Q0PBW8" /db_xref="GeneID:904508" /translation="MLEWILTLSQHSTQKGAKMDNSLSAYTQKYDKEGYGLQYPDGHV IRFYERILKYKLSKTSGKLLDFGCGNGVHSKYFKNITGGGIEPYGIDIVPSLKKVWEK DPCLDSKNFHIISPNSSFKKLFNTKMDFIFANQSLYYLTKQAFKEAVQEFYELCNEGA IIFATMMSDKGYSMYERGELMDNSLREVKGCPSGRLSGSSYIRFTKDIEELKEDFKPF KPLFWGDYELINLYNFEGSVEHFIYIGQK" gene complement(167807..169012) /locus_tag="Cj0172c" /db_xref="GeneID:904510" CDS complement(167807..169012) /locus_tag="Cj0172c" /EC_number="1.5.1.7" /inference="protein motif:Pfam:PF03435" /note="Original (2000) note: Cj0172c, unknown, len: 401 aa; similar to hypothetical proteins e.g. TR:Q55131 (EMBL:D64001) Synechocystis sp. SLR0049 (398 aa), fasta scores; opt: 1534 z-score: 2324.2 E(): 0, 55.7% identity in 397 aa overlap. 63.8% identity to HP1507 conserved hypothetical ATP-binding protein; Updated (2006) note: Pfam domain PF03435 Saccharopine dehydrogenase was identified within CDS. Product modified to more specific family member due to motif match. No specific characterisation has yet been carried out. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative saccharopine dehydrogenase" /protein_id="YP_002343630.1" /db_xref="GI:218561851" /db_xref="GOA:Q0PBW7" /db_xref="InterPro:IPR005097" /db_xref="UniProtKB/TrEMBL:Q0PBW7" /db_xref="GeneID:904510" /translation="MKNLLIIGAGGVSRVATVKCAMNSDTFSKITLASRTKSKCDEIA AFIKERLGVQIETAQIDADDSNAVVELIKKTEAQILLNVALPYQDLSLMDACIKAGID YIDTANYEHPDLAKFEYKEQWARNDEFKQAGILGLLGSGFDPGVTNVFCAYAQQNLFD EISYIDILDCNAGDHGYAFATNFNPEINLREVSAKGRYWENGKWIETQPMEIKMEWDY PEVGVKDSYLLYHEELESLVKNIKGLKRIRFFMTFGQSYLTHMKCLENVGMLGIKPVI HQGKEIIPIEFLKTLLPDPASLGPRTKGYTNIGCVIRGKKDGKDKQVYIYNVCNHEEC YKETGAQAVSYTTGVPAMIGTKLIAKGIWQGKGVFNMEEFDAKPFMEELNSQGLPWKI IEMTPSLGE" misc_feature complement(167837..169003) /locus_tag="Cj0172c" /inference="protein motif:Pfam:PF03435" /note="HMMPfam hit to PF03435, Saccharopine dehydrogenase,score 2e-236" gene complement(169054..169962) /gene="cfbpC" /locus_tag="Cj0173c" /db_xref="GeneID:904511" CDS complement(169054..169962) /gene="cfbpC" /locus_tag="Cj0173c" /inference="protein motif:Pfam:PF00005" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00211" /note="Original (2000) note: Cj0173c, possible iron-uptake ABC transport system ATP-binding protein, len: 302 aa; similar to many e.g. HITC_HAEIN iron(iii)-transport ATP-binding protein hitC (356 aa), fasta scores; opt: 389 z-score: 783.2 E(): 0, 38.0% identity in 250 aa overlap. Contains PS00017 ATP/GTP-binding site motif A (P-loop),PS00211 ABC transporters family signature and Pfam match to entry PF00005 ABC_tran, ABC transporters, score 163.10,E-value 4.9e-45. No Hp ortholog; Updated (2006) note: Literature search identified many supporting papers within Campylobacter jejuni (PMID:12069882) and also paper carrying out the original work within Serratia marcescens. Designated as Campylobacter ferric binding protein (Cfbp) system. Characterisation with acceptable identity score yet to be carried out. Thus, putative kept within product function. Functional classification - Transport/binding proteins -Cations; PMID:15231804, PMID:12069882, PMID:15731081,PMID:2644190, PMID:7927717" /codon_start=1 /transl_table=11 /product="putative iron-uptake ABC transport system ATP-binding protein" /protein_id="YP_002343631.1" /db_xref="GI:218561852" /db_xref="GOA:Q0PBW6" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="UniProtKB/TrEMBL:Q0PBW6" /db_xref="GeneID:904511" /translation="MMLEIKNLSKNFGKIQALENINLHVKEGEFLSILGGSGSGKSTL LRIIAKLEQASSYDLFSCKGEVALMFQNYALFPHLNVEKNILFALYDKKDKNQILNHL LKTFEIEDLRYKKIDEISGGQAQRVAFARAMARGCKLLLLDEPFSNLDQNLKQDLRRE LKKMIENQGITAIMVTHDIEDAYCMSDQIAFLEKGKILAHANPKELYFKPDFKSAQIL PDLNIIEEKLDLEDEFFAWIASKNYIFGYAELKIGNRFEAKILQKEFLGAFCRLKLLY KNIIFFILVSSSYDLEEKISFDIINF" misc_feature complement(169378..169881) /gene="cfbpC" /locus_tag="Cj0173c" /inference="protein motif:Pfam:PF00005" /note="HMMPfam hit to PF00005, ABC transporter, score 2.3e-45" misc_feature complement(169564..169608) /gene="cfbpC" /locus_tag="Cj0173c" /inference="protein motif:Prosite:PS00211" /note="PS00211 ABC transporters family signature" misc_feature complement(169837..169860) /gene="cfbpC" /locus_tag="Cj0173c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(169946..171562) /gene="cfbpB" /locus_tag="Cj0174c" /db_xref="GeneID:904512" CDS complement(169946..171562) /gene="cfbpB" /locus_tag="Cj0174c" /inference="protein motif:Pfam:PF00528" /note="Original (2000) note: Cj0174c, possible iron-uptake ABC transport system permease protein, len: 538 aa; similar to e.g. SFUB_SERMA iron(iii)-transport system permease protein (527 aa), fasta scores; opt: 333 z-score: 335.6 E(): 1.9e-11, 21.5% identity in 522 aa overlap. No Hp match. Contains Pfam match to entry PF00528 BPD_transp,Binding-protein-dependent transport systems inner membrane component, score 27.90, E-value 0.00024; Updated (2006) note: Literature search identified many supporting papers within Campylobacter jejuni (PMID:12069882) and also paper carrying out the original work within Serratia marcescens. Designated as Campylobacter ferric binding protein (Cfbp) system. Characterisation with acceptable identity score yet to be carried out. Thus, putative kept within product function. Functional classification - Transport/binding proteins -Cations; PMID:15231804, PMID:12069882, PMID:15731081,PMID:2644190, PMID:7927717" /codon_start=1 /transl_table=11 /product="putative iron-uptake ABC transport system permease protein" /protein_id="YP_002343632.1" /db_xref="GI:218561853" /db_xref="GOA:Q0PBW5" /db_xref="InterPro:IPR000515" /db_xref="UniProtKB/TrEMBL:Q0PBW5" /db_xref="GeneID:904512" /translation="MYKTLKYYKLGAILLALFLALPIFGIFAELFYILFQNFNTSDLT QFSSIKENLSHFFDYLFLKFIKDTFIISMGVLCLSLILGVSSAYLIANYDFYFCKILE KLLILPLAIPAYILAFVYVGIMDFQGFFHENFGFRIDFFNHYGVIFVLAISLYPYIYL FAKTAFKSEAKEAYEVAKIMKYSEFRIFTRVALLSARPAIFSGALLVLMETLSDYGAS AYLGVDTFSAGIFKLWYDLNDSYSSSVLSGILMLFVFLIMYVDYYYKNKHHYSFNQNL ALFIKKRKLNPIKQILSCIYCFMIAFVGFILPFIWLVYWGLKDHKLFESQFYIISFQT IILALITALITTFLAYFLMFSSRIVKNHFFNLFILKISSLGYSIPAAALGISIIVLFV FLDKFFHMSLLGNSLLVLVFAYIIRFLASAIYSLEGGYNKIHLNIDEASLNLRTSYFI LFFKIHTPLMKHFLFLAFIIVFIDTIKELPLSRILAPFGFETLSVKAFWFASDERIYD AALPSLFIVFLSLMVVVWMDKITRKDDVRN" sig_peptide complement(169946..170035) /gene="cfbpB" /locus_tag="Cj0174c" /note="Signal peptide predicted for cfbpB by SignalP 2.0 HMM (Signal peptide probability 0.942) with cleavage site probability 0.300 between residues 30 and 31" misc_feature complement(170753..171382) /gene="cfbpB" /locus_tag="Cj0174c" /inference="protein motif:Pfam:PF00528" /note="HMMPfam hit to PF00528, Binding-protein-dependent transport syst, score 5.4e-07" gene complement(171562..172566) /gene="cfbpA" /locus_tag="Cj0175c" /db_xref="GeneID:904513" CDS complement(171562..172566) /gene="cfbpA" /locus_tag="Cj0175c" /inference="protein motif:Pfam:PF01547" /note="Original (2000) note: Cj0175c, possible iron-uptake ABC transport system periplasmic iron-binding protein,len: 334 aa; similar to e.g. HITA_HAEIN iron-utilization periplasmic protein precursor (332 aa), fasta scores; opt: 466 z-score: 500.8 E(): 1.2e-20, 29.8% identity in 332 aa overlap. No Hp match. Contains N-terminal signal sequence; Updated (2006) note: Pfam domain PF01547 Bacterial extracellular solute-binding protein identified within CDS. Further support given to product function. Literature search identified many supporting papers within Campylobacter jejuni (PMID:12069882) and also paper carrying out the original work within Serratia marcescens. Designated as Campylobacter ferric binding protein (Cfbp) system. Characterisation with acceptable identity score yet to be carried out. Thus, putative kept within product function. Paper identified linked protein to glycoprotein (PMID:15231804). Functional classification -Transport/binding proteins - Cations; PMID:15613474, PMID:15231804, PMID:12069882,PMID:12186869, PMID:2644190" /codon_start=1 /transl_table=11 /product="putative iron-uptake ABC transport system,periplasmic iron-binding protein" /protein_id="YP_002343633.1" /db_xref="GI:218561854" /db_xref="GOA:Q0PBW4" /db_xref="InterPro:IPR006059" /db_xref="PDB:1Y4T" /db_xref="UniProtKB/TrEMBL:Q0PBW4" /db_xref="GeneID:904513" /translation="MKKIFFMFLTAVSFLGASELNIYSARHYNADFEIIKKFEEKTGI KVNHTQAKASELIKRLSLEGSNSPADIFITADISNLTEAKNLGLLSPVSSKYLEEFIP AHLRDKDKEWFAITKRARIIAYNKNTNIDISKMKNYEDLAKAEFKGEIVMRSATAPYS KTLLASIIANDGNKEAKAWAKGVLENLATNPKGGDRDQARQVFAGEAKFAVMNTYYIG LLKNSKNPKDVEVGNSLGIIFPNQDNRGTHINISGIAMTKSSKNQDAAKKFMEFMLSP EIQKILTDSNYEFPIRNDVELSQTVKDFGTFKEDQIPVSKIAENIKEAVKIYDEVGFR" sig_peptide complement(171562..171633) /gene="cfbpA" /locus_tag="Cj0175c" /note="Signal peptide predicted for cfbpA by SignalP 2.0 HMM (Signal peptide probability 0.944) with cleavage site probability 0.410 between residues 24 and 25" misc_feature complement(171727..172566) /gene="cfbpA" /locus_tag="Cj0175c" /inference="protein motif:Pfam:PF01547" /note="HMMPfam hit to PF01547, Bacterial extracellular solute-binding prot, score 4.7e-14" gene complement(172563..172694) /locus_tag="Cj0176c" /db_xref="GeneID:904515" CDS complement(172563..172694) /locus_tag="Cj0176c" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0176c, probable lipoprotein, len: 43 aa; no Hp match. Contains N-terminal signal sequence with appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site; Updated (2006) note: Literature search identified papers giving further clues to product function. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="YP_002343634.1" /db_xref="GI:218561855" /db_xref="UniProtKB/TrEMBL:Q0PBW3" /db_xref="GeneID:904515" /translation="MSMKKIILFLLCVGFAFACSEHSHTDFKDLNKTEYNSQLKDKI" sig_peptide complement(172563..172631) /locus_tag="Cj0176c" /note="Signal peptide predicted for signalp2embl_unknown_000086_172563_172694 by SignalP 2.0 HMM (Signal peptide probability 0.989) with cleavage site probability 0.509 between residues 23 and 24" misc_feature complement(172638..172670) /locus_tag="Cj0176c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 172916..173767 /locus_tag="Cj0177" /db_xref="GeneID:904516" CDS 172916..173767 /locus_tag="Cj0177" /inference="protein motif:Pfam:PF04187" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0177, probable lipoprotein,len: 283 aa; simlar to TR:O68876 (EMBL:AF055999) hypothetical protein PhuW from Pseudomonas aeruginosa hemin uptake locus (295 aa), fasta scores; opt: 375 z-score: 307.6 E(): 7.1e-10, 31.3% identity in 246 aa overlap. No Hp match. Contains N-terminal signal sequence with appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site; Updated (2006) note: Pfam domain PF04187 Protein of unknown function, DUF399 identified within CDS. Literature search identified papers giving further clues to product function. Product function modified to putative iron transport protein based on information from literature. No specific characterisation with acceptable identity scores has been carried out yet. Thus, putative kept within product function. Functional classification -Transport/binding proteins - Cations; PMID:12069882, PMID:15231804, PMID:15231804" /codon_start=1 /transl_table=11 /product="putative iron transport protein" /protein_id="YP_002343635.1" /db_xref="GI:218561856" /db_xref="InterPro:IPR007314" /db_xref="InterPro:IPR016773" /db_xref="UniProtKB/TrEMBL:Q0PBW2" /db_xref="GeneID:904516" /translation="MKFYTILSILFISFMLSACAVLQKSSPLQENKDFYILDTHTQKK ISFEDMILELLKADVILLGEKHDEVKHKISQVMIFNALEGNLSSQNINFDVALEMLAS TEQNHLDKAFKNKKTIKANELTNALNWDKVWKWKDYEQFVNVVFYSKSKILGANLSRS EITSIYNGAQPLKGYVSTTNEVKKQLFDIISLSHKLNPEENKELLDKLVEIQQFKDRR MADVLVHHVNKVLLLAGSYHTSKKIGIPLHIQDFKSSKKIVVVNLSYGEIDLKDSDYV LIYKGEE" sig_peptide 172916..172999 /locus_tag="Cj0177" /note="Signal peptide predicted for signalp2embl_unknown_000087_172916_173767 by SignalP 2.0 HMM (Signal peptide probability 0.995) with cleavage site probability 0.342 between residues 28 and 29" misc_feature 172916..173764 /locus_tag="Cj0177" /inference="protein motif:Pfam:PF04187" /note="HMMPfam hit to PF04187, Protein of unknown function, DUF399, score 5e-164" misc_feature 172940..172972 /locus_tag="Cj0177" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 173764..176031 /locus_tag="Cj0178" /db_xref="GeneID:904518" CDS 173764..176031 /locus_tag="Cj0178" /inference="protein motif:Pfam:PF00593" /inference="protein motif:Pfam:PF07715" /note="Original (2000) note: Cj0178, possible outer membrane siderophore receptor, len: 755 aa; similar to e.g. YC17_HAEIN probable tonB-dependent receptor HI1217 (913 aa), fasta scores; opt: 440 z-score: 1818.4 E(): 0,32.7% identity in 912 aa overlap, and TR:O68881 (EMBL:AF055999) outer membrane hemin receptor PhuR from Pseudomonas aeruginosa (764 aa), fasta scores; opt: 145 z-score: 207.4 E(): 0.00027 22.3% identity in 806 aa overlap. No Hp match. Contains N-terminal signal sequence; Updated (2006) note: Pfam domains PF07715 TonB-dependent Receptor Plug Domain and PF00593 TonB dependent receptor identified within CDS. Literature search identified papers giving further clues to product function. Product function modified to more specific family member. No specific characterisation with acceptable identity scores has been carried out yet. Thus,putative kept within product function. Functional classification - Transport/binding proteins - Cations; PMID:15731081, PMID:15632442, PMID:15231804,PMID:12069882" /codon_start=1 /transl_table=11 /product="putative TonB-denpendent outer membrane receptor" /protein_id="YP_002343636.1" /db_xref="GI:218561857" /db_xref="GOA:Q0PBW1" /db_xref="InterPro:IPR000531" /db_xref="InterPro:IPR012910" /db_xref="UniProtKB/TrEMBL:Q0PBW1" /db_xref="GeneID:904518" /translation="MKKLSLFCAVGLCFASFAFSEELEFDSLEISGSKIKNDEKPFVT PGATSTREGIGSDTQSIDSIVRSIPGTYTNTDQAQGTVQVNIRGMSGFGRVNTMIDGV TQTFYGSASDDPARFHSQTGTSAFGAVIDTNFLIGVDVTRGTFEGVGGANALMGSANF KTIGINDIVHDGNIFGFLGRFSYGSNGIGPSYMSAVAGKTELENNGYVGALFGYSAKR ITQNYTVGGGGKIGSSMVDTDGDGIADTNIAPFDPDFLTQKPNSQLFKLEYVPNSFTN TIFSYRRYQNELAGRKIHNDNYQLDFWHNPNEWLNVNTLIAYNQGIQTYGSKSTFAAN DAIANTKAKNTATTFDISDTLEGEWHRFNLNIRFGANILLNDYKNTLNTSIQGVNSIP FQPRGKQNLFTYYLDNSLNYGIFTLDTNVNLLDWNIKGHRPACDEVNFMCFPKAATDI DKNGLRLNASVMLSAAIHELITPFVSFARTNRAPNVQEMFFSNNEGNGINSFLKPEQA NTWQIGFNSFKHGLLKDDDRFGFKAVYYHTKIKDYIYNEQFYLEDPSKDPPSSQFYMH LNSADDTIFKGVELELSYDLGFAYAKAMYSRQDTSSTISQTSGPLLGSFSASKIMELP KDYANVELGFRLNDKISFGGIAKYTGKAKRVNPNTDDWNKDPNNPYYPKPTTQDLPKI PIIVDLYWNIEWFKNLTMRAEVQNLFDKNYMDALNAYNSLDNQLQYNGAGDPIYLFSN SARGRTFIVSFEYKY" sig_peptide 173764..173823 /locus_tag="Cj0178" /note="Signal peptide predicted for signalp2embl_unknown_000088_173764_176031 by SignalP 2.0 HMM (Signal peptide probability 0.998) with cleavage site probability 0.873 between residues 20 and 21" misc_feature 173881..174234 /locus_tag="Cj0178" /inference="protein motif:Pfam:PF07715" /note="HMMPfam hit to PF07715, TonB-dependent Receptor Plug Domain, score 9.2e-13" misc_feature 175135..176028 /locus_tag="Cj0178" /inference="protein motif:Pfam:PF00593" /note="HMMPfam hit to PF00593, TonB dependent receptor,score 1.5e-22" gene 176043..176804 /gene="exbB1" /locus_tag="Cj0179" /db_xref="GeneID:904520" CDS 176043..176804 /gene="exbB1" /locus_tag="Cj0179" /inference="protein motif:Pfam:PF01618" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0179, exbB1, biopolymer transport protein, len: 253 aa; highly similar to e.g. EXBB_ECOLI biopolymer transport exbB protein (244 aa),fasta scores; opt: 537 z-score: 811.2 E(): 0, 46.3% identity in 216 aa overlap. No Hp ortholog; Updated (2006) note: Pfam domain PF01618 MotA/TolQ/ExbB proton channel family identified within CDS. Also, three probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Characterised within Escherichia coli with acceptable identity score. Thus, putative not added. Cj0179-Cj0181 (exbB1, exbD1, tonB1) function as an outer-membrane energy transducer system. Functional classification -Transport/binding proteins - Other; PMID:7642501, PMID:8437515, PMID:15632442,PMID:12069882" /codon_start=1 /transl_table=11 /product="biopolymer transport protein" /protein_id="YP_002343637.1" /db_xref="GI:218561858" /db_xref="GOA:Q0PBW0" /db_xref="InterPro:IPR002898" /db_xref="UniProtKB/TrEMBL:Q0PBW0" /db_xref="GeneID:904520" /translation="MLKKCFYFVFLLLNLNAEANATDTNLSFDSSKIETEAPKIELSL SSLYQNADEVVKGVIYILVLFSILAWAVFISKLMQFYFMKKNLDLSIQKIKELKNLNE LDQTKDFAGVLSLEIQDELEKSEYKNDHIKERIELRLQNTISKQITASKNGLSLLASI GASAPFIGLFGTVWGIMNAFIGIANLGNASLAVVAPGIAEALFATAFGLIAAIPAVLF YNYLTRKNLKLMHHLDELANFVYILFHRSYFNDKN" sig_peptide 176043..176099 /gene="exbB1" /locus_tag="Cj0179" /note="Signal peptide predicted for exbB1 by SignalP 2.0 HMM (Signal peptide probability 0.911) with cleavage site probability 0.584 between residues 19 and 20" misc_feature order(176211..176264,176505..176573,176631..176699) /gene="exbB1" /locus_tag="Cj0179" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0179 by TMHMM2.0 at aa 57-74, 155-177 and 197-219" misc_feature 176322..176756 /gene="exbB1" /locus_tag="Cj0179" /inference="protein motif:Pfam:PF01618" /note="HMMPfam hit to PF01618, MotA/TolQ/ExbB proton channel family, score 8.6e-47" gene 176791..177201 /gene="exbD1" /locus_tag="Cj0180" /db_xref="GeneID:904523" CDS 176791..177201 /gene="exbD1" /locus_tag="Cj0180" /inference="protein motif:Pfam:PF02472" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0180, exbD1, biopolymer transport protein, len: 136 aa; highly similar to e.g. EXBD_ECOLI biopolymer transport exbD protein (141 aa),fasta scores; opt: 356 z-score: 629.2 E(): 8.7e-28, 42.9% identity in 119 aa overlap. No Hp ortholog; Updated (2006) note: Pfam domain PF02472 Biopolymer transport protein ExbD/TolR identified within CDS. Also,one probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Characterised within Escherichia coli with acceptable identity scores. Thus, putative not added. Cj0179-Cj0181 (exbB1, exbD1,tonB1) function as an outer-membrane energy transducer system. Functional classification - Transport/binding proteins - Other; PMID:7642501, PMID:8437515, PMID:15632442,PMID:12069882" /codon_start=1 /transl_table=11 /product="biopolymer transport protein" /protein_id="YP_002343638.1" /db_xref="GI:218561859" /db_xref="GOA:Q0PBV9" /db_xref="InterPro:IPR003400" /db_xref="UniProtKB/TrEMBL:Q0PBV9" /db_xref="GeneID:904523" /translation="MIKTEMAHKEEELSEINITPFIDIMLVLLIVFMAVTPLITSSIK IELPKSSQQAEDKLKNPIILYLNTDNTLAINDDKLSLENLSSALDIKTKGNKEEIIYF HIDKSVKYEDIMQVMQKLKENGYGKIALSSKKMD" misc_feature 176815..177195 /gene="exbD1" /locus_tag="Cj0180" /inference="protein motif:Pfam:PF02472" /note="HMMPfam hit to PF02472, Biopolymer transport protein ExbD/TolR, score 8.4e-22" misc_feature 176827..176895 /gene="exbD1" /locus_tag="Cj0180" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0180 by TMHMM2.0 at aa 13-35" gene 177203..177949 /gene="tonB1" /locus_tag="Cj0181" /db_xref="GeneID:904524" CDS 177203..177949 /gene="tonB1" /locus_tag="Cj0181" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0181, tonB1, possible tonB transport protein, len 248 aa; similar to e.g. TONB_PSEPU tonB protein (243 aa), fasta scores; opt: 220 z-score: 317.2 E(): 2.1e-10, 29.5% identity in 149 aa overlap. No Hp match; Updated (2006) note: One probable transmembrane helices predicted by TMHMM2.0. Characterised within Pseudomonas putida with marginal identity score. Putative not added. Cj0179-Cj0181 (exbB1, exbD1, tonB1) function as an outer-membrane energy transducer system. Functional classification - Transport/binding proteins - Other; PMID:7642501, PMID:8437515, PMID:15632442,PMID:12069882" /codon_start=1 /transl_table=11 /product="TonB transport protein" /protein_id="YP_002343639.1" /db_xref="GI:218561860" /db_xref="GOA:Q0PBV8" /db_xref="InterPro:IPR006260" /db_xref="UniProtKB/TrEMBL:Q0PBV8" /db_xref="GeneID:904524" /translation="MKSSVIFGFVLSLILHTLVLMFFLFSFYTQEKSSGVDFKQGAEF TSIMMVSEFPIGELKEVSIDQKKSNSQDKNKKQDERISFNSQDKNAVLKVQKKIEKQD ENQAQKEIANASENSKFKNESLSAPLQSNKDKTQTIVSGNAKEQVKSYQALLMAHLTK FKKYPQEAIMQKQEGVVRIRVSIDESGNVLSKELKKSCPYAALNDEALSLFKRASPLP KPPKEMLKNGDKISFVMPIDYNIKDYLGKK" sig_peptide 177203..177301 /gene="tonB1" /locus_tag="Cj0181" /note="Signal peptide predicted for tonB1 by SignalP 2.0 HMM (Signal peptide probability 0.715) with cleavage site probability 0.592 between residues 33 and 34" misc_feature 177221..177289 /gene="tonB1" /locus_tag="Cj0181" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0181 by TMHMM2.0 at aa 7-29" gene 177995..179200 /locus_tag="Cj0182" /db_xref="GeneID:904525" CDS 177995..179200 /locus_tag="Cj0182" /inference="protein motif:Prosite:PS50929" /inference="protein motif:TMHMM:2.0" /note="in Escherichia coli SbmA is involved in uptake of microcin J25; functions along with FhuA, TonB, and ExbB/D in this capacity; in Sinorhizobium meliloti, BacA is essential and required for symbiosis; defects appear to affect the cell envelope" /codon_start=1 /transl_table=11 /product="putative transporter" /protein_id="YP_002343640.1" /db_xref="GI:218561861" /db_xref="GOA:Q0PBV7" /db_xref="InterPro:IPR009248" /db_xref="InterPro:IPR011527" /db_xref="UniProtKB/TrEMBL:Q0PBV7" /db_xref="GeneID:904525" /translation="MIMFSSFFKSKKWALWAYLGLFLLLFFLYIQTSLNVAINSWYSD FYNVLQKPKIELLDSNSTQKIEENLENNATLIQEANQRAEQNFQKANFINKGALYYYQ NLLEYFFNSRAMIEKPNYSASDFYALILVFLAIAIPYVLIATINIYFASVYAFKWREA MTFSYLKFWKNKDDNIEGSSQRIQEDTYNFSKIVESLGLSFIKALMTLVAFIPILWSL SDVVSKALFANLSENSFFYFLKNIDGLLVYIALLISLGGLVVSWFVGIKLPGLEYNNQ KAEAAFRKELVYAEDNRKEYAKNETMIELFTGLKFNYKRLFLHYGYFNIWLILFEQMI VIVPFLIMAPGLFAGAIGLGIVMQINNAFDQVRSSFSIFITNWTTITQLRSIYKRLKE FEKNISYKS" sig_peptide 177995..178102 /locus_tag="Cj0182" /note="Signal peptide predicted for signalp2embl_unknown_000089_177995_179200 by SignalP 2.0 HMM (Signal peptide probability 0.990) with cleavage site probability 0.535 between residues 36 and 37" misc_feature order(178031..178099,178373..178441,178583..178651, 178724..178792,178940..178984,178994..179062) /locus_tag="Cj0182" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0182 by TMHMM2.0 at aa 13-35, 127-149, 197-219, 244-266,316-330 and 334-356" gene 179299..180657 /locus_tag="Cj0183" /db_xref="GeneID:904526" CDS 179299..180657 /locus_tag="Cj0183" /inference="protein motif:Pfam:PF00571" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0183, probable integral membrane protein with haemolysin domain, len: 452 aa; similar to many members of the UPF0053 family e.g. YUGS_BACSU (434 aa), fasta scores; opt: 999 z-score: 1508.9 E(): 0, 38.1% identity in 430 aa overlap. Also similar in C-terminal half to haemolysins e.g. HLYC_TREHY Treponema hyodysenteriae hemolysin C (268 aa), fasta scores; opt: 447 z-score: 468.1 E(): 8.1e-19, 32.5% identity in 237 aa overlap. 54.3% identity to HP1490. Contains 2x Pfam match to entry PF00571 CBS, CBS domain,scores 26.10, E-value 0.00082 and 40.50, E-value 3.7e-08; Updated (2006) note: Four probable transmembrane helices predicted by TMHMM2.0. No specific characterisation with acceptable identity scores identified yet. Thus, putative kept within product function. Functional classification - Pathogenicity" /codon_start=1 /transl_table=11 /product="putative integral membrane protein with haemolysin domain" /protein_id="YP_002343641.1" /db_xref="GI:218561862" /db_xref="GOA:Q0PBV6" /db_xref="InterPro:IPR000644" /db_xref="InterPro:IPR002550" /db_xref="InterPro:IPR005170" /db_xref="UniProtKB/TrEMBL:Q0PBV6" /db_xref="GeneID:904526" /translation="MDPSQVLDLNQTSTASFDAGYSILMVVVALALVFLNGFFVLSEF SIVKVRRSKLEEMVKEKKAGAKKALEVTSRLDTYLSACQLGITLSSLALGWIGEPAIA KMLEIPLINLGFSTVIIHTMAFIIAFSIITLLHVVLGELVPKSIAIAVADKAVLFIAR PLHWFWMLFLPCIKIFDFLAAISLKLFGIKPAKESELTHSEEEIKIIASESQKGGVLD EFETEIIRNAVDFSDTVAKEIMTPRKDMICLNKQKSYEENMQIICEHKHTRFPYIDGS KDTILGMIHIRDIIQNELNHKSQNLDTFVKPLILVPENISISKVLVMMNKERSHTALV VDEYGGTAGILTMEDIMEEIIGEIKSEHEEDSYKKLAENIYEFQGRCDIETVEEMLVI NYDEDLEQVTIGGYVFNLLGRLPMVGDRIEDELCYYEVKKMDGNSIERVKVVKKTNKD EE" misc_feature order(179356..179424,179521..179589,179647..179715, 179782..179850) /locus_tag="Cj0183" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0183 by TMHMM2.0 at aa 20-42, 75-97, 117-139 and 162-184" misc_feature 179368..179961 /locus_tag="Cj0183" /inference="protein motif:Pfam:PF01595" /note="HMMPfam hit to PF01595, Domain of unknown function DUF21, score 3.2e-83" misc_feature 180016..180180 /locus_tag="Cj0183" /inference="protein motif:Pfam:PF00571" /note="HMMPfam hit to PF00571, CBS domain, score 2.5e-08" misc_feature 180202..180363 /locus_tag="Cj0183" /inference="protein motif:Pfam:PF00571" /note="HMMPfam hit to PF00571, CBS domain, score 6.5e-12" misc_feature 180400..180639 /locus_tag="Cj0183" /inference="protein motif:Pfam:PF03471" /note="HMMPfam hit to PF03471, Transporter associated domain, score 1.3e-22" gene complement(180702..181856) /locus_tag="Cj0184c" /db_xref="GeneID:904527" CDS complement(180702..181856) /locus_tag="Cj0184c" /inference="protein motif:Pfam:PF00149" /note="Original (2000) note: Cj0184c, possible serine/threonine protein phosphatase, len: 384 aa; similar in part to many eukarotic serine/threonine protein phosphatases e.g. PP12_SCHPO serine/threonine protein phosphatase PP1-2 (322 aa), fasta scores; opt: 140 z-score: 290.0 E(): 6.8e-09, 31.3% identity in 131 aa overlap. No Hp match. Contains Pfam match to entry PF00149 STphosphatase, Ser/Thr protein phosphatases, score 6.90,E-value 0.39; Updated (2006) note: Pfam domain PF00149 STphosphatase was changed in Pfam database to Calcineurin-like phosphoesterase. Characterisation work has been carried out mainly in eukaryotes with marginal identity scores. Possible was changed to putative. Functional classification - Signal transduction" /codon_start=1 /transl_table=11 /product="putative serine/threonine protein phosphatase" /protein_id="YP_002343642.1" /db_xref="GI:218561863" /db_xref="GOA:Q0PBV5" /db_xref="InterPro:IPR004843" /db_xref="InterPro:IPR006186" /db_xref="UniProtKB/TrEMBL:Q0PBV5" /db_xref="GeneID:904527" /translation="MRILLVLRGNYYAGQEEFIKNNKLQNYTLDLNALRLLSGSVKNI VSEYKILNVKNDEDLSKILLKLLEMRMQKGEFSIINAYNETLKIYKDLAKQYRYKIYV IVFDSSLKQCQEKNLLEAKKNGYIIPYALLEKTQDLLKKNPKKYPILDSRDWKKCLYQ MPNLSKYKKIHHIGDLQGCYSVLKEYIKTIKEDEFYIFLGDYINRGIENGKVIKFLLK ICEKENVCLLEGNHERHLIKWANGELSNSKEFNENTLKDFRKEKLTPRDARKLYPHLK ECLYYKFQNKFIFCSHGGVNFIPSKPEKISFIPSHDFIYGVGGYEDSQKVANQFCNFT SDNLYQIFGHRNKEKLPMKIAKRVFLCEGKIDDGGYLRVVTLDEKGFECV" misc_feature complement(180813..181355) /locus_tag="Cj0184c" /inference="protein motif:Pfam:PF00149" /note="HMMPfam hit to PF00149, Calcineurin-like phosphoesterase, score 6.6e-12" gene complement(181866..182075) /locus_tag="Cj0185c" /db_xref="GeneID:904528" CDS complement(181866..182075) /locus_tag="Cj0185c" /inference="protein motif:Pfam:PF03831" /note="Original (2000) note: Cj0185c, unknown, len: 69 aa; similar to part of phnA proteins (involved in alkylphosphonate uptake) from several organisms e.g. PHNA_ECOLI phnA protein (111 aa), fasta scores; opt: 238 z-score: 482.4 E(): 1.3e-19, 55.9% identity in 68 aa overlap. 45.6% identity in 68 aa overlap to HP0872 (109 aa); Updated (2006) note: Pfam domain PF03831 PhnA protein was identified within CDS. Characterisation work within Escherichia coli has been carried out with acceptable identity scores. However, sequence alignment was only partial. Product changed from phnA-like protein to putative phnA domain protein. Functional classification - Transport/binding proteins - Other; PMID:9300819" /codon_start=1 /transl_table=11 /product="putative phnA domain protein" /protein_id="YP_002343643.1" /db_xref="GI:218561864" /db_xref="InterPro:IPR013988" /db_xref="UniProtKB/TrEMBL:Q0PBV4" /db_xref="GeneID:904528" /translation="MAKDANGIELNAGDSVSIIKDLKVKGASTTLKRGTTIKNIKLTS KEGEIEARVDKFGVIVLKTEFLKKI" misc_feature complement(181911..182075) /locus_tag="Cj0185c" /inference="protein motif:Pfam:PF03831" /note="HMMPfam hit to PF03831, PhnA protein, score 3.1e-30" gene complement(182068..182787) /locus_tag="Cj0186c" /db_xref="GeneID:904529" CDS complement(182068..182787) /locus_tag="Cj0186c" /inference="protein motif:Pfam:PF03741" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0186c, probable integral membrane protein, len: 239 aa; similar to many hypothetical proteins e.g. YGDQ_HAEIN HI0056 (237 aa),fasta scores; opt: 964 z-score: 1727.7 E(): 0, 64.3% identity in 230 aa overlap. 50.0% identity to HP1343; Updated (2006) note: Pfam domain PF03741 Integral membrane protein TerC family was identified within CDS. Seven probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Product modified to more specific family member based on motif match. No specific characterisation with acceptable identity scores has been carried out yet. Thus, putative kept within product function. Functional classification -Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative TerC family integral membrane protein" /protein_id="YP_002343644.1" /db_xref="GI:218561865" /db_xref="GOA:Q0PBV3" /db_xref="InterPro:IPR005496" /db_xref="UniProtKB/TrEMBL:Q0PBV3" /db_xref="GeneID:904529" /translation="MFEWIFSIDAWITLATLSALEIVLGIDNIIFLAILVSKLPPEHR DKGRILGLAFAMITRILLLLSLFWVMKLVTPLFSVLGNEISGRDLVLLLGGLFLIVKS IKEIKEQISHQEESQSHFKASNKLWIVVAEIAVIDIVFSLDSVITAVGIAQDVTIMII AVIIAVAVMLFASKPIADFVEKYPSIKILALAFLVLIGVVLVAESFDIHIDKAYIYTA MAFALVVQILNILDQKKEKNG" misc_feature complement(182110..182751) /locus_tag="Cj0186c" /inference="protein motif:Pfam:PF03741" /note="HMMPfam hit to PF03741, Integral membrane protein TerC family, score 2.9e-96" gene complement(182859..183425) /gene="purN" /locus_tag="Cj0187c" /db_xref="GeneID:904530" CDS complement(182859..183425) /gene="purN" /locus_tag="Cj0187c" /EC_number="2.1.2.2" /inference="protein motif:Pfam:PF00551" /note="Original (2000) note: Cj0187c, purN, probable phosphoribosylglycinamide formyltransferase, len: 188 aa; similar to e.g. PUR3_ECOLI phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) (212 aa), fasta scores; opt: 406 z-score: 654.6 E(): 3.3e-29, 38.6% identity in 189 aa overlap. No Hp ortholog. Contains Pfam match to entry PF00551 formyl_transf, Formyl transferase, score 177.90, E-value 4.4e-50; Updated (2006) note: Characterised within Escherichia coli with acceptable identity scores. Putative not added to product function. Functional classification -Purine ribonucleotide biosynthesis; PMID:3301838" /codon_start=1 /transl_table=11 /product="phosphoribosylglycinamide formyltransferase" /protein_id="YP_002343645.1" /db_xref="GI:218561866" /db_xref="GOA:Q0PBV2" /db_xref="InterPro:IPR002376" /db_xref="InterPro:IPR004607" /db_xref="UniProtKB/TrEMBL:Q0PBV2" /db_xref="GeneID:904530" /translation="MLVKLAVLFSGNGSNLENILEKLHKKTIGENTYEIVLCLCNKKD AFGIQRAKKFGLNTVIIDHKAYNTREEFDTILVQKIKESGANLTVLAGFMRILSPVFT KNIKAINLHPSLLPLFKGAHAIKESYESDMKVAGVSVHWVSEELDGGMIIAQKAFEKR NLSFEEFEEKIHSLEHEILPLSVIEIFS" misc_feature complement(182877..183419) /gene="purN" /locus_tag="Cj0187c" /inference="protein motif:Pfam:PF00551" /note="HMMPfam hit to PF00551, Formyl transferase, score 2.9e-50" gene complement(183416..184786) /locus_tag="Cj0188c" /db_xref="GeneID:904531" CDS complement(183416..184786) /locus_tag="Cj0188c" /inference="protein motif:Pfam:PF01256" /inference="protein motif:Pfam:PF03853" /inference="protein motif:Prosite:PS01050" /note="Original (2000) note: Cj0188c, unknown, len: 456 aa; similar to members of the UPF0031 family e.g. YJEF_ECOLI (515 aa), fasta scores; opt: 267 z-score: 441.8 E(): 2.4e-17, 29.9% identity in 418 aa overlap. 35.9% identity to HP1363. Contains PS01050 Uncharacterized protein family UPF0031 signature 2 and Pfam match to entry PF01256 UPF0031, Uncharacterized protein family UPF0031,score 96.30, E-value 6e-25; Updated (2006) note: Previous uncharacterised Pfam motifs have now been designated as PF01256 Carbohydrate kinase and PF03853 YjeF-related protein N-terminus. Product modified to more specific family member based on motif match. No specific characterisation has yet been carried out. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative kinase" /protein_id="YP_002343646.1" /db_xref="GI:218561867" /db_xref="GOA:Q0PBV1" /db_xref="InterPro:IPR000631" /db_xref="InterPro:IPR004443" /db_xref="UniProtKB/TrEMBL:Q0PBV1" /db_xref="GeneID:904531" /translation="MKAIIDNIKILEQNAINKGLDELILMENAGLNLAKLIKKEAKKI RIQRKIRKVKILFLLGGGNNASDGLVALRNLKHAKAYKIGFKENTLFKKQEQILQNYA FKFCKKEPNFKKFHIIIDCILGTGSNRCLDEKTSLIIQKVNQSKALKIACDIPTNLGF YPCFKADITFCMGALKEILLEDFAKEFVGRIKIANLGIRSKKFYPNSQAFLLEKKDLK TIDRKINANKGNFGHIYIVANASAGTLAGLGALNFGAGLVSLVAQKSFSPLLMLKEKI ENNASAIALGMGLENLDFLKDEILQNTPLILDANCFLSEALLWYLNRKDVVITPHPKE FIKLYKMCFDENLDIETLQKNRFFYARKFSQNYDCVLVLKGANPIIVQKEKLFVVNLG NQALAKGGSGDVLSGMIAAHLGFGFSALEAAKNATLAHGLVAKKYKFNKNSFDALKLI KGLKCL" misc_feature complement(183422..184087) /locus_tag="Cj0188c" /inference="protein motif:Pfam:PF01256" /note="HMMPfam hit to PF01256, Carbohydrate kinase, score 4.5e-26" misc_feature complement(183560..183592) /locus_tag="Cj0188c" /inference="protein motif:Prosite:PS01050" /note="PS01050 Uncharacterized protein family UPF0031 signature 2" misc_feature complement(184253..184735) /locus_tag="Cj0188c" /inference="protein motif:Pfam:PF03853" /note="HMMPfam hit to PF03853, YjeF-related protein N-terminus, score 2.1e-54" gene complement(184770..185468) /locus_tag="Cj0189c" /db_xref="GeneID:904532" CDS complement(184770..185468) /locus_tag="Cj0189c" /inference="protein motif:Pfam:PF01936" /note="Original (2000) note: Cj0189c, unknown, len: 232 aa; similar to hypothetical proteins e.g. TR:P73622 (EMBL:D90908) Synechocystis sp. (249 aa), fasta scores; opt: 351 z-score: 629.7 E(): 8.1e-28, 30.1% identity in 246 aa overlap. No Hp match; Updated (2006) note: Pfam PF01936 Protein of unknown function (DUF88) was present within CDS. Conserved added to product function. Functional classification -Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343647.1" /db_xref="GI:218561868" /db_xref="InterPro:IPR002790" /db_xref="UniProtKB/TrEMBL:Q0PBV0" /db_xref="GeneID:904532" /translation="MENKSIAIFIDAENIPAKYAKSIFDIASDYGEVIIKRIYGDWTQ KNIQGWREQIAEYSLIAMQQFNFAANKNSSDMYLITEIMSIFYEKNIDIFVIVSSDSD YTSLIQKLRENKKQVIGMGLEKSIKSYVNAFSEFFYLDKDESKKEDILSKDYLRALIN ITEQLIDEKGRAEYAQIRTNMNRKYSDFHPQNYGFKNFRALIQKFLPKMKKFEEEREK NIYFLVKKDYESYY" misc_feature complement(185037..185462) /locus_tag="Cj0189c" /inference="protein motif:Pfam:PF01936" /note="HMMPfam hit to PF01936, Protein of unknown function DUF88, score 1.1e-05" gene complement(185470..186975) /locus_tag="Cj0190c" /db_xref="GeneID:904533" CDS complement(185470..186975) /locus_tag="Cj0190c" /inference="protein motif:Pfam:PF01078" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0190c, unknown, len: 501 aa; similar to prokaryotic hypothetical proteins e.g. YIFB_ECOLI (516 aa), fasta scores; opt: 670 z-score: 1088.3 E(): 0, 34.0% identity in 497 aa overlap, and more distantly to members of the eukaryotic MCM family of DNA replication regulatory factors e.g. MCM6_RAT DNA replication licensing factor MCM6 (509 aa), fasta scores; opt: 152 z-score: 247.8 E(): 1.5e-06, 23.5% identity in 345 aa overlap. 47.7% identity to HP0792 (anotated as sigma-54 interacting protein). Contains PS00017 ATP/GTP-binding site motif A (P-loop) and Pfam match to entry PF01078 Mg_chelatase, Magnesium chelatase, subunit ChlI, score 127.80, E-value 2e-34. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343648.1" /db_xref="GI:218561869" /db_xref="GOA:Q0PBU9" /db_xref="InterPro:IPR000523" /db_xref="InterPro:IPR004482" /db_xref="UniProtKB/TrEMBL:Q0PBU9" /db_xref="GeneID:904533" /translation="MKKLKCISFHEGLDIIEVESTFTRGLPNLSIVGLASTAIKESVE RIKATLLSCDFAFPAKKITINLSPSGIPKKGSHFDLAIALLILLQNEELDDFFVVGEL GLDGSIKSTNELFSLLLFLSAKIKKAKIVVPKSIAQKASMIPNLEVYGLENLNEAIEF FKEKNYENFRFSHNHPLFANPLQIENEIFLQNMDFKLDFKDIKGQEKAKRACMIAALG MHNILFEGSPGSGKSMCAKRLVYIMPPQSLSEILMQNAYMSLDSKDCEFTKIRAFRHP HHTSTRASIFGGGTKNARIGEVALANGGVLFFDEFPHFNKQIIESLREPLEDHKIHIS RVNSKITYETKFSFIAAQNPCPCGNLFSKNLSCVCSENEIKKYKNHISAPIMDRIDLY VAMDEISKDDKTSISSKEMSEKILQAFIFSKKRGQKEFNGKLKDEDLSRFCVLEKDAK DTLDLAISRYNLSLRSLNKILKVSRSIADLEQSLNISKTHILEALSFRARN" misc_feature complement(185923..186927) /locus_tag="Cj0190c" /inference="protein motif:Pfam:PF01078" /note="HMMPfam hit to PF01078, Magnesium chelatase,subunit ChlI, score 9.4e-40" misc_feature complement(186277..186300) /locus_tag="Cj0190c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(186972..187499) /gene="def" /locus_tag="Cj0191c" /db_xref="GeneID:904534" CDS complement(186972..187499) /gene="def" /locus_tag="Cj0191c" /EC_number="3.5.1.88" /note="cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+)" /codon_start=1 /transl_table=11 /product="peptide deformylase" /protein_id="YP_002343649.1" /db_xref="GI:218561870" /db_xref="GOA:Q9PIT8" /db_xref="HSSP:Q9I7A8" /db_xref="InterPro:IPR000181" /db_xref="UniProtKB/Swiss-Prot:Q9PIT8" /db_xref="GeneID:904534" /translation="MVRKIITYPNPRLFLNSEIVNKFDTELHTLLDDMYETMIASNGV GLAAIQVDIPLRVLLVNIFDENDEQKKEDLLEIINPEIIPLDEEMITCTEGCLSVPDF FEEVKRYNHILLKYQDRFGEFKELEAKGFLAVAIQHENDHLNGHLFIEKISFAKRQKF DKEFKKKKKNHKKEK" misc_feature complement(187026..187496) /gene="def" /locus_tag="Cj0191c" /inference="protein motif:Pfam:PF01327" /note="HMMPfam hit to PF01327, Polypeptide deformylase,score 4.7e-50" gene complement(187535..188119) /gene="clpP" /locus_tag="Cj0192c" /db_xref="GeneID:906014" CDS complement(187535..188119) /gene="clpP" /locus_tag="Cj0192c" /EC_number="3.4.21.92" /inference="protein motif:Pfam:PF00574" /inference="protein motif:Prosite:PS00381" /inference="protein motif:Prosite:PS00382" /note="hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates" /codon_start=1 /transl_table=11 /product="ATP-dependent Clp protease proteolytic subunit" /protein_id="YP_002343650.1" /db_xref="GI:218561871" /db_xref="GOA:P54413" /db_xref="HSSP:P19245" /db_xref="InterPro:IPR001907" /db_xref="UniProtKB/Swiss-Prot:P54413" /db_xref="GeneID:906014" /translation="MFIPYVIEKSSRGERSYDIYSRLLKDRIIMLSGEIHDELAASIV AQLLFLEAEDPTKDIYLYINSPGGVITSGFSIYDTMNYIKPDVCTICIGQAASMGAFL LSCGAEGKRFALPNSRIMIHQPLGGARGQATDIEIQAKEILRLKTILNDILAKNTKQK VAKIAKDTERDFFMSAQEAKEYGLIDKVLEKSFK" misc_feature complement(187544..188089) /gene="clpP" /locus_tag="Cj0192c" /inference="protein motif:Pfam:PF00574" /note="HMMPfam hit to PF00574, Clp protease, score 4e-136" misc_feature complement(187748..187789) /gene="clpP" /locus_tag="Cj0192c" /inference="protein motif:Prosite:PS00382" /note="PS00382 Endopeptidase Clp histidine active site" misc_feature complement(187805..187837) /gene="clpP" /locus_tag="Cj0192c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature complement(187820..187855) /gene="clpP" /locus_tag="Cj0192c" /inference="protein motif:Prosite:PS00381" /note="PS00381 Endopeptidase Clp serine active site" gene complement(188119..189453) /gene="tig" /locus_tag="Cj0193c" /db_xref="GeneID:904535" CDS complement(188119..189453) /gene="tig" /locus_tag="Cj0193c" /EC_number="5.2.1.8" /note="Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer" /codon_start=1 /transl_table=11 /product="trigger factor" /protein_id="YP_002343651.1" /db_xref="GI:218561872" /db_xref="GOA:Q46108" /db_xref="HSSP:P47480" /db_xref="InterPro:IPR001179" /db_xref="InterPro:IPR005215" /db_xref="InterPro:IPR008880" /db_xref="InterPro:IPR008881" /db_xref="UniProtKB/Swiss-Prot:Q46108" /db_xref="GeneID:904535" /translation="MEVKAKQLDSVNATASVKIPSGMIKSEVENLAKKASKSVKMDGF RPGKVPVSAVLKRYERELTQDAEQNLFKSAVNSALQELKKENKELVGEPYFEKFDRKD GEIIAELILSFKPEIKLEGYEKLIPEYQTPKVSKKEIDEKKDELLKRFATPEAIKTKR ALKEGDFAKFDFEGFVDDKAFEGGKAENYVLEIGSKQFIPGFEDGMVGMKIGEEKDIK VTFPKEYGAAHLAGKDAVFKVKLHEIQELKIPELDDEMLKKLLPGEEKASVEVLDEKL KEQIKNEKLFKLVNDELKGKFADALIEKYNFDLPKGIVEQETDMQMRAAFNTFSEKEI EELKASKEKYQEKRDSFKEEAQKSVKLTFIIDELAKLRKIEVNDQELIQAIYFEAYRY GMNPKEHLENYKKQGALPAVKMALIEEKLFNDIFIPKTEKSEKVSKKEKEDK" misc_feature complement(188185..188727) /gene="tig" /locus_tag="Cj0193c" /inference="protein motif:Pfam:PF05698" /note="HMMPfam hit to PF05698, Bacterial trigger factor protein (TF) C-ter, score 2e-42" misc_feature complement(188728..188985) /gene="tig" /locus_tag="Cj0193c" /inference="protein motif:Pfam:PF00254" /note="HMMPfam hit to PF00254, FKBP-type peptidyl-prolyl cis-trans isomera, score 1.2e-27" misc_feature complement(188995..189453) /gene="tig" /locus_tag="Cj0193c" /inference="protein motif:Pfam:PF05697" /note="HMMPfam hit to PF05697, Bacterial trigger factor protein (TF), score 1.3e-44" gene 189596..190168 /gene="folE" /locus_tag="Cj0194" /db_xref="GeneID:904536" CDS 189596..190168 /gene="folE" /locus_tag="Cj0194" /EC_number="3.5.4.16" /inference="protein motif:Pfam:PF01227" /inference="protein motif:Prosite:PS00859" /note="involved in the first step of tetrahydrofolate biosynthesis; catalyzes the formation of formate and 2-amino-4-hydroxy-6-(erythro-1,2, 3-trihydroxypropyl)dihydropteridine triphosphate from GTP and water; forms a homopolymer" /codon_start=1 /transl_table=11 /product="GTP cyclohydrolase I" /protein_id="YP_002343652.1" /db_xref="GI:218561873" /db_xref="GOA:P51594" /db_xref="HSSP:P22288" /db_xref="InterPro:IPR001474" /db_xref="UniProtKB/Swiss-Prot:P51594" /db_xref="GeneID:904536" /translation="MQKKFEDCVKTMLEIIGENPNREGLIKTPNRVFKAYEFLTSGYT QNVKEILNDALFESSNNEMVLVRDIEFYSLCEHHLLPFFGRAHVAYIPNKKVVGLSKI PRLVEVFARRLQIQEQLTEQIAQALMENVDAKGVGVVIEARHMCVEMRGVQKANSTTT TSALRGIFLKNEKTREEFFSLINSAKQVRF" misc_feature 189779..190093 /gene="folE" /locus_tag="Cj0194" /inference="protein motif:Pfam:PF01227" /note="HMMPfam hit to PF01227, GTP cyclohydrolase I, score 9.9e-56" misc_feature 189779..189829 /gene="folE" /locus_tag="Cj0194" /inference="protein motif:Prosite:PS00859" /note="PS00859 GTP cyclohydrolase I signature 1" gene 190168..191553 /gene="fliI" /locus_tag="Cj0195" /db_xref="GeneID:904537" CDS 190168..191553 /gene="fliI" /locus_tag="Cj0195" /EC_number="3.6.3.14" /inference="protein motif:Pfam:PF00006" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00152" /note="involved in type III protein export during flagellum assembly" /codon_start=1 /transl_table=11 /product="flagellum-specific ATP synthase" /protein_id="YP_002343653.1" /db_xref="GI:218561874" /db_xref="GOA:Q0PBU4" /db_xref="InterPro:IPR000194" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR005714" /db_xref="InterPro:IPR013379" /db_xref="UniProtKB/TrEMBL:Q0PBU4" /db_xref="GeneID:904537" /translation="MNLEKLRSKLGKENLSAIFGEITKISATSIEIRGLKTGVGDIVK LVSNENENLNTLAMVVEIKEQFSYLSPFSFIEGFKIGDRAFISDAGMQIGVSDELLGR VVDPFMRPKDGKGAIEATKYMPIMRAPIDAMKRGLIEEVFPVGVKTIDALLTCGVGQK LGIFAGSGVGKSTLMGMIVKNSKAPIKVVALIGERGREIPEFIQKNLGGKLDDTVIIV ATSDDSALMRKYGAFCAMSVAEYFKEQGKDVLFIMDSVTRFAMAQREIGLALGEPPTT KGYPPSVLSLLPQLMERTGKEEGKGTITAFFTVLVDGDDMSDPIADQSRSILDGHIVL SRELTDFGIYPPINIQNSASRVMSDIISPEHKLWARKFKRLNSLLKENEVLLRIGAYQ KGSDKELDEAISKKEFMQKFLGQNPEESFEFNQTLELLSQIDTPNTPLPPTQNINVGS ASATLPNPNLK" misc_feature 190597..191229 /gene="fliI" /locus_tag="Cj0195" /inference="protein motif:Pfam:PF00006" /note="HMMPfam hit to PF00006, ATP synthase alpha/beta family, nucleotid, score 4.1e-104" misc_feature 190660..190683 /gene="fliI" /locus_tag="Cj0195" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 191200..191229 /gene="fliI" /locus_tag="Cj0195" /inference="protein motif:Prosite:PS00152" /note="PS00152 ATP synthase alpha and beta subunits signature" gene complement(191556..192893) /gene="purF" /locus_tag="Cj0196c" /db_xref="GeneID:904538" CDS complement(191556..192893) /gene="purF" /locus_tag="Cj0196c" /EC_number="2.4.2.14" /inference="protein motif:Pfam:PF00310" /inference="protein motif:Prosite:PS00103" /note="Catalyzes first step of the de novo purine nucleotide biosynthetic pathway" /codon_start=1 /transl_table=11 /product="amidophosphoribosyltransferase" /protein_id="YP_002343654.1" /db_xref="GI:218561875" /db_xref="GOA:Q0PBU3" /db_xref="InterPro:IPR000583" /db_xref="InterPro:IPR000836" /db_xref="InterPro:IPR002375" /db_xref="InterPro:IPR005854" /db_xref="UniProtKB/TrEMBL:Q0PBU3" /db_xref="GeneID:904538" /translation="MCAVVGVINSKNASTYAYYALFAMQHRGQEASGISVSNGKNIKT IKAKGEVSQIFNPDNLKTLEGEIAIGHNRYSTAGNSSLNDAQPIAATSVLGDIALAHN GNLVNKEEVRSRLIQDGAIFQTNMDTENVVHLIARSKQESLKDRFIESLKECIGAYCF VLASKDKLYVVRDPHGVRPLSLGRLKDGGYIVASETCAFDLIEAEFIRDVKPGEMLIF TQGNDKFESIELFSQTPRICAFEYIYFARPDSIVEGKSVYEVRKKMGEALAKKFAYKA DFVVPVPDSGVSAAIGFAQYLQIPLEMAIVRNHYVGRTFIEPTQELRNLKVKLKLNPM RKVLEGKEIVVIDDSLVRGTTSKKIISLLRAAGASKIHLAIACPEIKFPDTYGIDTPT FEELISANKNAEEVREYVEADTLSFLSIEELTQSIGDERKYSLISFDGDYFIK" misc_feature complement(191730..192149) /gene="purF" /locus_tag="Cj0196c" /inference="protein motif:Pfam:PF00156" /note="HMMPfam hit to PF00156, Phosphoribosyl transferase domain, score 2.2e-12" misc_feature complement(191829..191867) /gene="purF" /locus_tag="Cj0196c" /inference="protein motif:Prosite:PS00103" /note="PS00103 Purine/pyrimidine phosphoribosyl transferases signature" misc_feature complement(192306..192890) /gene="purF" /locus_tag="Cj0196c" /inference="protein motif:Pfam:PF00310" /note="HMMPfam hit to PF00310, Glutamine amidotransferases class-II, score 2.8e-27" gene complement(192895..193623) /gene="dapB" /locus_tag="Cj0197c" /db_xref="GeneID:904539" CDS complement(192895..193623) /gene="dapB" /locus_tag="Cj0197c" /EC_number="1.3.1.26" /inference="protein motif:Pfam:PF01113" /inference="protein motif:Prosite:PS01298" /note="catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis" /codon_start=1 /transl_table=11 /product="dihydrodipicolinate reductase" /protein_id="YP_002343655.1" /db_xref="GI:218561876" /db_xref="GOA:Q9PIT2" /db_xref="HSSP:P04036" /db_xref="InterPro:IPR000846" /db_xref="InterPro:IPR011770" /db_xref="InterPro:IPR016040" /db_xref="UniProtKB/Swiss-Prot:Q9PIT2" /db_xref="GeneID:904539" /translation="MIKIGIYGAKGRMGKQIEECLKSETQARISILYDKGGNLGELFE KSDVIIDFSSPSGTHELLNYARTMPKPLVIGTTGLDEKILHLMQSASEVMPIFYATNM SLGVAVLNYLASKASQMLRNFDIEILEMHHRHKKDAPSGTAMTLAQSVAKARNLELEK VRVSGRDGIIGERSKDEIAVMSLRGGDIVGRHTVGFYEDGEFLELNHTATSRATFAKG AIKIAIWLSKQEAKMYSINDFLGI" misc_feature complement(192901..193311) /gene="dapB" /locus_tag="Cj0197c" /inference="protein motif:Pfam:PF05173" /note="HMMPfam hit to PF05173, Dihydrodipicolinate reductase, C-terminus, score 1e-75" misc_feature complement(193195..193248) /gene="dapB" /locus_tag="Cj0197c" /inference="protein motif:Prosite:PS01298" /note="PS01298 Dihydrodipicolinate reductase signature" misc_feature complement(193318..193620) /gene="dapB" /locus_tag="Cj0197c" /inference="protein motif:Pfam:PF01113" /note="HMMPfam hit to PF01113, Dihydrodipicolinate reductase, N-terminus, score 1.7e-38" gene complement(193686..194867) /locus_tag="Cj0198c" /db_xref="GeneID:904540" CDS complement(193686..194867) /locus_tag="Cj0198c" /inference="protein motif:Pfam:PF00004" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0198c, unknown, len: 393 aa; similar to hypothetical proteins e.g. YCAJ_ECOLI (447 aa), fasta scores; opt: 339 z-score: 796.4 E(): 0, 32.8% identity in 381 aa overlap, and less strongly to several helicases e.g. RUVB_HELPY holliday junction DNA helicase ruvB (336 aa), fasta scores; opt: 204 z-score: 280.5 E(): 2.3e-08, 28.8% identity in 278 aa overlap. 49.9% identity to HP1026. Contains PS00017 ATP/GTP-binding site motif A (P-loop); Updated (2006) note: Pfam domain PF00004 ATPase family associated with various cellular activities (AAA),was identified within CDS. Further support given to product function. No specific characterisation has been carried out yet. Product function unchanged. Functional classification - DNA replication,restriction/modification, recombination and repair" /codon_start=1 /transl_table=11 /product="recombination factor protein RarA" /protein_id="YP_002343656.1" /db_xref="GI:218561877" /db_xref="GOA:Q0PBU1" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR003959" /db_xref="UniProtKB/TrEMBL:Q0PBU1" /db_xref="GeneID:904540" /translation="MSLALTFRPENFDDILGQYELIEIFKKFTALQKLPHSIFFGTAG SGKTTFARVVAKEFGLDFYEFDGGNFKLEELRKILDNYKNSLYKPLIFIDEIHRLSKT QQEMLLIPMENYRLILIGASTENPYFVLSSGIRSRSMLFEFKSLGAKELETLLLRVQE KMKFSIDKEAKDFLLKSADARAMLNLLEFVLVLDEKHISLENLKKLRNTINSEGVSSK DTHYILASAMIKSLRGSDVDAAIYYLARLIDAGESADFIARRLVIFSSEDVGNADPNA LNLAVSTLDAVKNIGYPEARIILAQCVVYLASTIKSNASYKAINEALNYVKNNEALEI PNYLNNNHQEKQNYLYPHDFGGWVEQKYLGKNLKFYHSKGLGEEAKLLDNLYKLKNHK A" misc_feature complement(194262..194762) /locus_tag="Cj0198c" /inference="protein motif:Pfam:PF00004" /note="HMMPfam hit to PF00004, ATPase family associated with various cellul, score 6.5e-07" misc_feature complement(194724..194747) /locus_tag="Cj0198c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(194867..195988) /locus_tag="Cj0199c" /db_xref="GeneID:904542" CDS complement(194867..195988) /locus_tag="Cj0199c" /note="Original (2000) note: Cj0199c, probable periplasmic protein, len: 373 aa; no Hp match. Contains N-terminal signal sequence. Functional classification - Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343657.1" /db_xref="GI:218561878" /db_xref="UniProtKB/TrEMBL:Q0PBU0" /db_xref="GeneID:904542" /translation="MKKWIFIVFCFILGFIIHIFYIGYTNELLFNKFIKNSNPDYTIT DIYFKKGFLTSKGSFTLNHSHTQLSTKINLKFNNYFFLNKIIKGNFTNPFDFLDEVLK NNKLGTFTLKLHDNNSKIFLNIKDINLSNEGGDTIINGGYIEVLMNKNLEIKNMKIHF DMINFSQFYTKFVLQNLNYEQFFNNPVQFYELNLFSDSQQEINFDYLVLDNNKINSFY SKNQVNFNEENSAVNLNIQGKSNEIDLKSLLGQNLNFDKTKFNITINKFFNSNFNISH FIQKNLDLKIQNLILEKNKQNISLQGNLNINNSYQAKLQVISSDEPDEIFPWTKDYGG LNQYFLKENNNFFLNLSYDSLANPQLKINGSEFSNMDLN" misc_feature complement(195917..195976) /locus_tag="Cj0199c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0199c by TMHMM2.0 at aa 5-24" gene complement(196123..196470) /locus_tag="Cj0200c" /db_xref="GeneID:904543" CDS complement(196123..196470) /locus_tag="Cj0200c" /note="Original (2000) note: Cj0200c, probable periplasmic protein, len: 115 aa; no Hp match. Contains N-terminal signal sequence; Updated (2006) note: Literature search papers giving further clues to product function. Paper (PMID:12186869) links protein to glycoprotein. Functional classification - Miscellaneous periplasmic proteins; PMID:15554967, PMID:12186869" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343658.1" /db_xref="GI:218561879" /db_xref="GOA:Q0PBT9" /db_xref="UniProtKB/TrEMBL:Q0PBT9" /db_xref="GeneID:904543" /translation="MKKSILFASALLASSMLFADSLKLEGTIAQIYDNNKTLLIDSIY GGQMAIKVLPNTEIEMDDCGIFGTDKDGTFKDLQVGNFLESKISYGTPATPNTQAIPV ARKIEIQCYKKAY" sig_peptide complement(196123..196179) /locus_tag="Cj0200c" /note="Signal peptide predicted for signalp2embl_unknown_000099_196123_196470 by SignalP 2.0 HMM (Signal peptide probability 0.998) with cleavage site probability 0.642 between residues 19 and 20" gene complement(196534..197139) /locus_tag="Cj0201c" /db_xref="GeneID:904544" CDS complement(196534..197139) /locus_tag="Cj0201c" /inference="protein motif:Prosite:PS00216" /note="Original (2000) note: Cj0201c, probable integral membrane protein, len: 201 aa; no Hp match. Contains possible transmembrane domain at N-terminus and PS00216 Sugar transport proteins signature 1. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343659.1" /db_xref="GI:218561880" /db_xref="UniProtKB/TrEMBL:Q0PBT8" /db_xref="GeneID:904544" /translation="MFYLNKILYFFLILFLLIGILGFFINSNPSNQIIKKPYLPFLEI GDLVFRAGIGSESFLIENLSQSPYSHIAMVVKTSPTILIHATTDDDKNAKNQVILSSM DDFLKLSHKIAIKRLKFDEKTKQKIVAKDLEHLGRKFIISTDKDAFYCTTFLEQSINS ITPFHLQYTLIKAPFNEGLYLFPQTFFENNQSVLIYESQNF" sig_peptide complement(196534..196629) /locus_tag="Cj0201c" /note="Signal peptide predicted for signalp2embl_unknown_000100_196534_197139 by SignalP 2.0 HMM (Signal peptide probability 0.992) with cleavage site probability 0.527 between residues 32 and 33" misc_feature complement(196711..196758) /locus_tag="Cj0201c" /inference="protein motif:Prosite:PS00216" /note="PS00216 Sugar transport proteins signature 1" misc_feature complement(197062..197121) /locus_tag="Cj0201c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0201c by TMHMM2.0 at aa 7-26" gene complement(197123..197464) /locus_tag="Cj0202c" /db_xref="GeneID:906013" CDS complement(197123..197464) /locus_tag="Cj0202c" /note="Original (2000) note: Cj0202c, unknown, len: 113 aa. No Hp match. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343660.1" /db_xref="GI:218561881" /db_xref="GOA:Q0PBT7" /db_xref="UniProtKB/TrEMBL:Q0PBT7" /db_xref="GeneID:906013" /translation="MAYGSSNPEDLAKNFTKDLYSGDTKSVMSYIDLSEAKSDEEKTF VSDKITQVVAENAAKAKRMGGVKDIQIEEKTINKDSAKIRVLVLFNNDNNQSSNVFLA KKDRKWLVLLK" gene 197707..199053 /locus_tag="Cj0203" /db_xref="GeneID:904545" CDS 197707..199053 /locus_tag="Cj0203" /inference="protein motif:Pfam:PF03600" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0203, probable transmembrane transport protein, len: 448 aa; some similarity to e.g. CITM_BACSU Mg2+/citrate complex secondary transporter (433 aa), fasta scores; opt: 702 z-score: 964.3 E(): 0, 28.7% identity in 449 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF03600 Citrate transporter was identified within CDS. Twelve probable transmembrane helices predicted by TMHMM2.0. Product modified to more specific family member due to motif match. Some characterisation work has been carried out within Bacillus subtilis, however, identity scores were marginal. Putative kept within product function. Functional classification - Transport/binding proteins -Other; PMID:8892821" /codon_start=1 /transl_table=11 /product="putative citrate transporter" /protein_id="YP_002343661.1" /db_xref="GI:218561882" /db_xref="GOA:Q0PBT6" /db_xref="InterPro:IPR004680" /db_xref="InterPro:IPR014738" /db_xref="UniProtKB/TrEMBL:Q0PBT6" /db_xref="GeneID:904545" /translation="MEIFLALLGFFSLGLIVWLLLKDYTTPALAFISVSISVACILLI LERLGFGVGVALGVKGGVFDIKTLVVFIKDGVKSVTDTAALFVFSILFFSVLNASGFF TKILNAFLSKMKANVYQVCILTVFIAAAVHLDGSGASTFLIVIPALLPIYERLGIRKT SMLLIITSAMGVMNVIPWGGPTLRAATNIGMDANLLWHHIIPIQIVGLVLSLLLAIWI AKIEIKRGAGAGNLSGINLNIEKSEHHNEKWFWLNLLVAIGVIGLLISGIIPSYICFM IGLAIILPLNYPNLKTAKKVLDRASAGAMLMYITLIGAGILIGVFDKSGIMEKMGVLI LNFVPDYLGAYIPLMVGILAVPMAIIFCTDSYFYGVMPIVLSVTKAFGAEPLTIAIIM VIARNCATFISPVVPATLLGCGLAEVNIKDHIKRSFFYIWGISIICLIFAEVAGII" sig_peptide 197707..197796 /locus_tag="Cj0203" /note="Signal peptide predicted for signalp2embl_unknown_000102_197707_199053 by SignalP 2.0 HMM (Signal peptide probability 0.691) with cleavage site probability 0.650 between residues 30 and 31" misc_feature order(197716..197769,197788..197841,197854..197922, 197956..198024,198082..198150,198187..198246, 198289..198357,198451..198552,198610..198669, 198727..198795,198823..198891,198988..199047) /locus_tag="Cj0203" /inference="protein motif:TMHMM:2.0" /note="12 probable transmembrane helices predicted for Cj0203 by TMHMM2.0 at aa 4-21, 28-45, 50-72, 84-106,126-148, 161-180, 195-217, 249-282, 302-321, 341-363,373-395 and 428-447" misc_feature 197728..198906 /locus_tag="Cj0203" /inference="protein motif:Pfam:PF03600" /note="HMMPfam hit to PF03600, Citrate transporter, score 7.1e-122" misc_feature 197794..197826 /locus_tag="Cj0203" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 198913..198945 /locus_tag="Cj0203" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 199236..201233 /locus_tag="Cj0204" /db_xref="GeneID:904548" CDS 199236..201233 /locus_tag="Cj0204" /inference="protein motif:Pfam:PF03169" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0204, probable integral membrane protein, len: 665 aa; 98.9% identity in 369 aa overlap to TR:Q46110 (EMBL:X76062) C. jejuni ORF CJO1.1 (381 aa). Similar to hypothetical proteins e.g. Y561_HAEIN HI0561/560 (633 aa), fasta scores; opt: 2119 z-score: 1501.8 E(): 0, 53.6% identity in 640 aa overlap, and in C-terminus to TR:Q51156 (EMBL:L09189) Neisseria meningitidis ORF associated with capsule gene complex (282 aa), fasta scores; opt: 880 z-score: 1097.6 E(): 0, 51.3% identity in 273 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF03169 OPT oligopeptide transporter protein was identified within CDS. Sixteen probable transmembrane helices predicted by TMHMM2.0. Product modified to more specific family member due to motif match. Putative kept within product function. Functional classification - Transport/binding proteins -Other; PMID:7489896" /codon_start=1 /transl_table=11 /product="putative oligopeptide transporter, OPT family" /protein_id="YP_002343662.1" /db_xref="GI:218561883" /db_xref="InterPro:IPR004813" /db_xref="InterPro:IPR004814" /db_xref="UniProtKB/TrEMBL:Q0PBT5" /db_xref="GeneID:904548" /translation="MMYKKQNLPELTLRGLILGSILTIIFTASNVYLGLKVGLTFSSS IPAVVISMAVLSLFKTSNILENNMVQTQASAAGTLSSVIFVIPGLFMCGYWSEFPLWQ TFMICLCGGGLGVLFTIPLRRTMVVESKLAYPEGRAAAEILKVANKDQSSKKGKQGIK EIALGSFIAAIFSLLSNGFKLAASESNFAFIWNKMAFGFSMGYSLALLGAGYLVGLAG AIALFVGMFLAWGIFTPYLSNFEFDSTKNAVDLASSVWSSKVRLIGTGAIAIAALWTL IELLKPVIEGIKEIVKNVKITNQEKNERTNIDLSLKSIFILFVLMVVGLFITFYSFVE DANLSIYYQMLFSFVGTLVSVLIGFFVAAACGYMAGLVGSSSSPISGIGLIGVIISSI VFLVLGVELFQDPMLSKFAVALAIFTTSVILATAAISNDNLQDLKTGHLVGATPWKQQ VALLVGCVFGALAIVPVLNLLYQAYGFVGAMPREGMDASSALAAPQANLMSTIAQGIF HHNIEWGYMAFGVFVGILMIIIDKILKGTQKMSLPPLAVGIGIYLPPAVNIPLVIGGI LKYIVMQHLTKKYAKNSHKEEKLASCEQRGTLFASGLIVGESIFGVIIAGITVFSVSM GGSENPLALNLANFHDSELFALIFFVGVVLYFIKRIVKKDA" misc_feature 199263..201092 /locus_tag="Cj0204" /inference="protein motif:Pfam:PF03169" /note="HMMPfam hit to PF03169, OPT oligopeptide transporter protein, score 1.1e-95" misc_feature order(199272..199340,199350..199418,199452..199520, 199530..199598,199719..199787,199797..199865, 199869..199937,200175..200234,200268..200336, 200364..200432,200451..200519,200583..200651, 200757..200825,200868..200936,201027..201095, 201138..201206) /locus_tag="Cj0204" /inference="protein motif:TMHMM:2.0" /note="16 probable transmembrane helices predicted for Cj0204 by TMHMM2.0 at aa 13-35, 39-61, 73-95, 99-121,162-184, 188-210, 212-234, 314-333, 345-367, 377-399,406-428, 450-472, 508-530, 545-567, 598-620 and 635-657" misc_feature 200298..200330 /locus_tag="Cj0204" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 201307..202110 /gene="uppP" /locus_tag="Cj0205" /db_xref="GeneID:904549" CDS 201307..202110 /gene="uppP" /locus_tag="Cj0205" /EC_number="3.6.1.27" /inference="protein motif:Pfam:PF02673" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0205, bacA, possible undecaprenol kinase (bacitracin resistance protein), len: 267 aa; 98.6% identity in 138 aa overlap to TR:Q46111 C. jejuni ORF CJO1.2 (138 aa). Simlar to e.g. BACA_ECOLI bacitracin resistance protein (putative undecaprenol kinase) (273 aa), fasta scores; opt: 483 z-score: 947.5 E(): 0, 43.7% identity in 270 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF02673 Bacitracin resistance protein BacA was identified within CDS. Seven probable transmembrane helices predicted by TMHMM2.0. Literature search identified characterisation papers within Escherichia coli that show further specification with product functionality (PMID:15778224). Product function modified to more specific family member. Identity scores were acceptable. Thus, putative not added to product function. Functional classification -Drug/analogue sensitivity; PMID:7489896, PMID:8389741, PMID:15138271,PMID:15778224" /codon_start=1 /transl_table=11 /product="undecaprenyl-diphosphatase" /protein_id="YP_002343663.1" /db_xref="GI:218561884" /db_xref="GOA:Q9PIS4" /db_xref="InterPro:IPR003824" /db_xref="UniProtKB/Swiss-Prot:Q9PIS4" /db_xref="GeneID:904549" /translation="MENLYALILGIIEGLTEFLPISSTGHMILGTTILGIDIDEFWKS FLIIIQLGSILAVIFVFWRKLFQGLDIWLKLAVGFFPTGVIGLFVAKYLNALFNGWVV VGMLIFGGVVFILIELAHKNKQYRINSLEEISFKQAFCIGIFQSLAMIPGTSRSGASI IGGLLLEFNRKVAAEFSFLLAIPTMIIATAYSIYKEPELLGNANSLIPLGIGFITAFI VAVLVIKFFLKFISKFDFIPFGIYRIILGFVFFYLYYSGILNAGSEFKL" misc_feature 201319..202056 /gene="uppP" /locus_tag="Cj0205" /inference="protein motif:Pfam:PF02673" /note="HMMPfam hit to PF02673, Bacitracin resistance protein BacA, score 3.2e-133" misc_feature order(201325..201393,201436..201504,201517..201576, 201604..201663,201820..201888,201931..201999, 202012..202080) /gene="uppP" /locus_tag="Cj0205" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0205 by TMHMM2.0 at aa 7-29, 44-66, 71-90, 100-119,172-194, 209-231 and 236-258" gene 202241..204049 /gene="thrS" /locus_tag="Cj0206" /db_xref="GeneID:904952" CDS 202241..204049 /gene="thrS" /locus_tag="Cj0206" /EC_number="6.1.1.3" /inference="protein motif:Pfam:PF00587" /inference="protein motif:Prosite:PS00179" /inference="protein motif:Prosite:PS00339" /note="catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr); catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA" /codon_start=1 /transl_table=11 /product="threonyl-tRNA synthetase" /protein_id="YP_002343664.1" /db_xref="GI:218561885" /db_xref="GOA:Q9PIS3" /db_xref="HSSP:P00955" /db_xref="InterPro:IPR002314" /db_xref="InterPro:IPR002320" /db_xref="InterPro:IPR004154" /db_xref="InterPro:IPR006195" /db_xref="InterPro:IPR012947" /db_xref="UniProtKB/Swiss-Prot:Q9PIS3" /db_xref="GeneID:904952" /translation="MEKEVIAYLDNETIIDSQSVKNTNLKEIYFDNSKESLEVIRHSC AHLMAQAIKSLYPEAKFFVGPVIEDGFYYDFRVESKIGEEDLVKIEKKMKELAEAKIE ISKYEITKSEALAKFQNDDLKQEVLLRIPDRAVSIYKQGEFEDLCRGPHVPNTKFLRF FKLTRVAGAYLGGDEKREMLTRIYGTAFADKESLKEYLTIIEEAKKRDHRKLGTELKL FTFDDEIGGGLPIWLSNGARLRSKLEHMLYKIHRLRGYEPVRGPELLKADAWKISGHY ANYKENMYFTQIDEQEYGIKPMNCVGHIKIYQSDVRSYRDLPLKFFEYGVVHRHEKSG VLHGLFRVREFTQDDAHIFCMPSQIKEQVLEILAFVDNLMKLFDFSYEMEISTKPEKA IGDDEIWEIATKALKEALDEQGLKYGIDEGGGAFYGPKIDIKITDALKRKWQCGTIQV DFNLPSRFKLEYTDSDNEKKQPVMLHRAILGSFERFIGILTEHCAGEFPFFIAPTAVG IVPIGEAHIAYAKEIQKELLELNIDSEVYEKNESLSKKIRIAEKQKLPMILVLGDDEV AKRSVALRDRRAKEQKNLSLDEFIKLVKEKMSEVHF" misc_feature 202922..203383 /gene="thrS" /locus_tag="Cj0206" /inference="protein motif:Pfam:PF00587" /note="HMMPfam hit to PF00587, tRNA synthetase class II core domain (, score 1e-48" misc_feature 203222..203287 /gene="thrS" /locus_tag="Cj0206" /inference="protein motif:Prosite:PS00179" /note="PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1" misc_feature 203678..203707 /gene="thrS" /locus_tag="Cj0206" /inference="protein motif:Prosite:PS00339" /note="PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2" misc_feature 203756..204028 /gene="thrS" /locus_tag="Cj0206" /inference="protein motif:Pfam:PF03129" /note="HMMPfam hit to PF03129, Anticodon binding domain,score 2.9e-26" gene 204046..204564 /gene="infC" /locus_tag="Cj0207" /db_xref="GeneID:904550" CDS 204046..204564 /gene="infC" /locus_tag="Cj0207" /inference="protein motif:Pfam:PF00707" /inference="protein motif:Prosite:PS00938" /note="IF-3 has several functions that are required and promote translation initiation including; preventing association of 70S by binding to 30S; monitoring codon-anticodon interactions by promoting disassociation of fMet-tRNA(fMet) from initiation complexes formed on leaderless mRNAs or incorrectly bound noninitiatior tRNAs and complexes with noncanonical start sites; stimulates codon-anticodon interactions at P-site; involved in moving mRNA to the P-site; and in recycling subunits" /codon_start=1 /transl_table=11 /product="translation initiation factor IF-3" /protein_id="YP_002343665.1" /db_xref="GI:218561886" /db_xref="GOA:Q9PIS2" /db_xref="HSSP:P02999" /db_xref="InterPro:IPR001288" /db_xref="UniProtKB/Swiss-Prot:Q9PIS2" /db_xref="GeneID:904550" /translation="MSKEKEVLLNEEIRADEIRCVGDDGKVYGIISSDEALEIANRLG LDLVMIAADAKPPVCKIMDYGKFRYQQEKKQKEAKKKQKVIDIKEIKLSVKIAQNDIN YKVKHALEFLEQGKHVRFRVFLKGREMATPEAGVALLEKIWTMIENEANRDKEPNFEG RYVNMLVTPKKA" misc_feature 204055..204282 /gene="infC" /locus_tag="Cj0207" /inference="protein motif:Pfam:PF05198" /note="HMMPfam hit to PF05198, Translation initiation factor IF-3, N-termin, score 2.5e-47" misc_feature 204223..204264 /gene="infC" /locus_tag="Cj0207" /inference="protein motif:Prosite:PS00938" /note="PS00938 Initiation factor 3 signature" misc_feature 204295..204558 /gene="infC" /locus_tag="Cj0207" /inference="protein motif:Pfam:PF00707" /note="HMMPfam hit to PF00707, Translation initiation factor IF-3, C-termin, score 3.5e-31" gene 204603..205694 /locus_tag="Cj0208" /db_xref="GeneID:904551" CDS 204603..205694 /locus_tag="Cj0208" /EC_number="2.1.1.72" /inference="protein motif:Pfam:PF02086" /inference="protein motif:Prosite:PS00092" /note="Original (2000) note: Cj0208, probable DNA modification methylase (adenine-specific methyltransferase), len: 363 aa; similar to many e.g. MTN3_NEILA modification methylase NlaIII (EC 2.1.1.72) (334 aa), fasta scores; opt: 215 z-score: 401.1 E(): 4.4e-15, 31.7% identity in 366 aa overlap. 29.6% identity to HP1208 ulcer associated adenine specific DNA methyltransferase. Contains PS00092 N-6 Adenine-specific DNA methylases signature; Updated (2006) note: Pfam domain PF02086 D12 class N6 adenine-specific DNA methyltransferase was identified within CDS. Further support given to product function. Characterised within Neisseria lactamica with marginal identity scores. Putative kept within product function. Functional classification - DNA replication,restriction/modification, recombination and repair; PMID:2277628" /codon_start=1 /transl_table=11 /product="putative DNA modification methylase (adenine-specific methyltransferase)" /protein_id="YP_002343666.1" /db_xref="GI:218561887" /db_xref="GOA:Q0PBT1" /db_xref="InterPro:IPR002052" /db_xref="InterPro:IPR002294" /db_xref="InterPro:IPR012327" /db_xref="UniProtKB/TrEMBL:Q0PBT1" /db_xref="GeneID:904551" /translation="MKENPSFLKEQIITYLGNKRALLSFLNNGFKVAKKELGKDKFSF CDIFSGSGVVSRFAKAHSNYILANDLEDYSKLINECYLANKDKDLLQNIKKYYKNLIQ NLDFQKGFISELYAPKDDDDIKKNERVFYTFKNALYLDTIRQKIENEIPKELRHFFIA PLIYEASVHSNTSGVFKGFYKGKDGIGKFGGEGQNALKRIKGEIELKMPIFSNFSCEF EVMQKDANMLAKELDFFDVVYLDPPYNQHPYSSNYFMLNLIANYKKPEEISKISGIPK DWNRSTFNKSKFAQDALFELINDLKARVILLSYNCEGFVKKEIFLKRLSTLGKCRILE QKYNTFRASRNLKNRNIHLHEQLYILVKN" misc_feature 204645..205571 /locus_tag="Cj0208" /inference="protein motif:Pfam:PF02086" /note="HMMPfam hit to PF02086, D12 class N6 adenine-specific DNA met, score 2.6e-08" misc_feature 205314..205334 /locus_tag="Cj0208" /inference="protein motif:Prosite:PS00092" /note="PS00092 N-6 Adenine-specific DNA methylases signature" gene 206063..209195 /locus_tag="Cj0223" /pseudo /db_xref="GeneID:904552" misc_feature join(206063..206308,206308..206691,206724..206939, 206939..206974,206974..207063,207095..207310, 207314..207637,207636..207770,207775..207843, 207843..207980,208012..208203,208203..208337, 208336..208473,208475..208666,208673..208846, 208852..208950,208954..209055,209055..209195) /locus_tag="Cj0223" /note="Original (2000) note: Cj0223, probable pseudogene,len: 3423 bp similar to several members of the IgA protease/haemaglutinin/sepA family e.g. IGA2_HAEIN immunoglobulin A1 protease precursor (EC 3.4.21.72),TR:Q54151 (EMBL:U35656) Shigella flexneri she hemagglutinin, and TR:Q54165 (EMBL:Z48219) Shigella flexneri sepA gene precursor. No apparent Hp match; Updated (2006) note: No specific characterisation with acceptable identity score (aligning whole sequence),has been carried out yet. Thus, putative added to product function. Coding sequence has been updated to reflect the complete amino acid sequence for the encoded protein regardless of its expression. This will cause differences from the amino acid sequence of the previous annotation. Functional classification - Pathogenicity; PMID:10225873, PMID:10531204" /pseudo gene 209279..210307 /gene="argC" /locus_tag="Cj0224" /db_xref="GeneID:906012" CDS 209279..210307 /gene="argC" /locus_tag="Cj0224" /EC_number="1.2.1.38" /inference="protein motif:Pfam:PF01118" /note="catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis and the reduction of N-acetyl-gamma-aminoadipyl-phosphate to N-acetyl-L-aminoadipate-semialdehyde in lysine biosynthesis; involved in both the arginine and lysine biosynthetic pathways; lysine is produced via the AAA pathway, lysine from alpha-aminoadipate" /codon_start=1 /transl_table=11 /product="N-acetyl-gamma-glutamyl-phosphate reductase" /protein_id="YP_002343667.1" /db_xref="GI:218561888" /db_xref="GOA:Q9PIS0" /db_xref="InterPro:IPR000534" /db_xref="InterPro:IPR000706" /db_xref="InterPro:IPR012280" /db_xref="UniProtKB/Swiss-Prot:Q9PIS0" /db_xref="GeneID:906012" /translation="MKIKVGILGASGYAGNELVRILLNHPKVEISYLGSSSSVGQNYQ DLYPNTPLNLCFENKNLDELELDLLFLATPHKFSAKLLNENLLKKMKIIDLSADFRLK NPKDYELWYKFTHPNQELLQNAVYGLCELYKEEIKKASLVANPGCYTTCSILSLYPLF KEKIIDFSSVIIDAKSGVSGAGRSAKVENLFCEVNENIKAYNLALHRHTPEIEEHLSY AAKEKITLQFTPHLVPMQRGILISAYANLKEDLQEQDIRDIYTKYYQNNKFIRLLPPQ SLPQTRWVKSSNFADINFSVDQRTKRVIVLGAIDNLIKGAAGQAVQNMNLMFDFDEDE GLKFFANL" misc_feature 209282..209707 /gene="argC" /locus_tag="Cj0224" /inference="protein motif:Pfam:PF01118" /note="HMMPfam hit to PF01118, Semialdehyde dehydrogenase,NAD bindi, score 1.1e-35" misc_feature 209744..210220 /gene="argC" /locus_tag="Cj0224" /inference="protein motif:Pfam:PF02774" /note="HMMPfam hit to PF02774, Semialdehyde dehydrogenase,dimerisat, score 2.1e-41" gene 210317..210763 /locus_tag="Cj0225" /db_xref="GeneID:904553" CDS 210317..210763 /locus_tag="Cj0225" /EC_number="2.3.-.-" /inference="protein motif:Pfam:PF00583" /note="Original (2000) note: Cj0225, probable acetyltransferase, len: 148 aa; some simlarity to STA_ECOLI streptothricin acetyltransferase (plasmid borne)(EC 2.3.-.-) (174 aa), fasta scores; opt: 118 z-score: 186.2 E(): 0.0041, 27.3% identity in 110 aa overlap. No Hp match. Contains Pfam match to entry PF00583 Acetyltransf, Acetyltransferase (GNAT) family, score 57.00, E-value 4.1e-13; Updated (2006) note: Characterisation carried out within Escherichia coil, however, identity score was marginal. Putative kept within product function. Functional classification - Misc; PMID:2157196" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="YP_002343668.1" /db_xref="GI:218561889" /db_xref="GOA:Q0PBS9" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="UniProtKB/TrEMBL:Q0PBS9" /db_xref="GeneID:904553" /translation="MLIRAMQKSDYEAVYKLWCEIKGFGIRSIDDSKENIENFLDRNP NLSVVAVIDEEIVGSILCGHDGRTGGFYHVCVHKDHRKKGIAHEMAKFCLEALKAQKI NKIALIAFKNNDLGNEFWKHYGFTLREDANYYDLSLNEYNQTSFNA" misc_feature 210458..210694 /locus_tag="Cj0225" /inference="protein motif:Pfam:PF00583" /note="HMMPfam hit to PF00583, Acetyltransferase (GNAT) family, score 4.1e-15" gene 210767..211612 /gene="argB" /locus_tag="Cj0226" /db_xref="GeneID:904554" CDS 210767..211612 /gene="argB" /locus_tag="Cj0226" /EC_number="2.7.2.8" /inference="protein motif:Pfam:PF00696" /note="catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate" /codon_start=1 /transl_table=11 /product="acetylglutamate kinase" /protein_id="YP_002343669.1" /db_xref="GI:218561890" /db_xref="GOA:Q9PIR8" /db_xref="HSSP:P11445" /db_xref="InterPro:IPR001048" /db_xref="InterPro:IPR001057" /db_xref="InterPro:IPR004662" /db_xref="InterPro:IPR011148" /db_xref="UniProtKB/Swiss-Prot:Q9PIR8" /db_xref="GeneID:904554" /translation="MIMQKYLEKANVLIEALPYIRKFNSKIILIKYGGSAMENEELKH CVMQDIALLKLVGLKPIIVHGGGKDISAMCEKLGVKSEFKNGLRVSDKATIEVASMVL NHINKNLVHSLQNLGVKAIGLCGKDGALLECVKKDENLAFVGTIQKVNSKILEELLEK DFLPIIAPIGMDENFNTYNINADDAACAIAKALRAEKLAFLTDTAGLYEDFNDKNSLI SKISLEQAKILAPKIEGGMHVKLKSCIDACENGVKKVHILDGRVKHSLLLEFFTDEGI GTLVG" misc_feature 210842..211543 /gene="argB" /locus_tag="Cj0226" /inference="protein motif:Pfam:PF00696" /note="HMMPfam hit to PF00696, Amino acid kinase family,score 3.1e-51" gene 211616..212803 /gene="argD" /locus_tag="Cj0227" /db_xref="GeneID:904555" CDS 211616..212803 /gene="argD" /locus_tag="Cj0227" /EC_number="2.6.1.11" /EC_number="2.6.1.17" /inference="protein motif:Pfam:PF00202" /note="Original (2000) note: Cj0227, argD, probable acetylornithine aminotransferase, len: 395 aa; simlar to many e.g. ARGD_ECOLI acetylornithine aminotransferase (EC 2.6.1.11) (406 aa), fasta scores; opt: 921 z-score: 1042.0 E(): 0, 36.6% identity in 385 aa overlap. No Hp ortholog. Contains Pfam match to entry PF00202 aminotran_3,Aminotransferases class-III pyridoxal-phosphate, score 378.20, E-value 5.1e-131; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Based on current literature, product function has been modified and additional EC number has been added. Putative kept within product function. Functional classification - Amino acid biosynthesis - Glutamate family; PMID:10588044, PMID:10074354" /codon_start=1 /transl_table=11 /product="putative acetylornithine/succinyldiaminopimelate aminotransferase" /protein_id="YP_002343670.1" /db_xref="GI:218561891" /db_xref="GOA:Q9PIR7" /db_xref="HSSP:P12995" /db_xref="InterPro:IPR004636" /db_xref="InterPro:IPR005814" /db_xref="InterPro:IPR015421" /db_xref="UniProtKB/Swiss-Prot:Q9PIR7" /db_xref="GeneID:904555" /translation="MKMDYKEQSHIIPTYKRFDIVLEKGQGVYLFDDKAKKYLDFSSG IGVCALGYNHAKFNAKIKAQVDKLLHTSNLYYNENIAAAAKNLAKASALERVFFTNSG TESIEGAMKTARKYAFNKGVKGGQFIAFKHSFHGRTLGALSLTANEKYQKPFKPLISG VKFAKYNDISSVEKLVNEKTCAIILESVQGEGGINPANKDFYKALRKLCDEKDILLIA DEIQCGMGRSGKFFAYEHAQILPDIMTSAKALGCGLSVGAFVINQKVASNSLEAGDHG STYGGNPLVCAGVNAVFEIFKEEKILENVNKLTPYLEQSLDELINEFDFCKKRKGLGF MQGLSLDKSVKVAKVIQKCQENALLLISCGENDLRFLPPLILQKEHIDEMSEKLRKAL KSF" misc_feature 211643..212800 /gene="argD" /locus_tag="Cj0227" /inference="protein motif:Pfam:PF00202" /note="HMMPfam hit to PF00202, Aminotransferase class-III,score 4.3e-133" gene complement(212822..213451) /gene="pcm" /locus_tag="Cj0228c" /db_xref="GeneID:906010" CDS complement(212822..213451) /gene="pcm" /locus_tag="Cj0228c" /EC_number="2.1.1.77" /inference="protein motif:Pfam:PF01135" /note="catalyzes the methyl esterification of L-isoaspartyl residues that are formed in damaged proteins" /codon_start=1 /transl_table=11 /product="protein-L-isoaspartate O-methyltransferase" /protein_id="YP_002343671.1" /db_xref="GI:218561892" /db_xref="GOA:Q0PBS6" /db_xref="InterPro:IPR000682" /db_xref="UniProtKB/TrEMBL:Q0PBS6" /db_xref="GeneID:906010" /translation="MNAFEQKRCQNMAEEIAQKVFINEELFNAFCQIPREIFSPLKAH AYRLDALPLANSQWISSPLTVAKMTMALDFKNADSILEIGCGSGYQAAILSKVIRRVF TIERIENLAKKAAQTFRELELFNINVKFDDGQNGWKNYAPYDRILFSAYATQIPEILL DQLSDDGILVAPILHNGKQFITRLRKNGTNLQKEILEECLFVPIVDGKE" misc_feature complement(212825..213439) /gene="pcm" /locus_tag="Cj0228c" /inference="protein motif:Pfam:PF01135" /note="HMMPfam hit to PF01135,Protein-L-isoaspartate(D-aspartate) O-methyl, score 1e-51" gene 213540..214088 /locus_tag="Cj0229" /db_xref="GeneID:904556" CDS 213540..214088 /locus_tag="Cj0229" /inference="protein motif:Pfam:PF00132" /note="Original (2000) note: Cj0229, possible acetyltransferase, len: 182 aa; similar to e.g. CAIE_ECOLI carnitine operon protein caiE (203 aa), fasta scores; opt: 251 z-score: 517.5 E(): 1.4e-21, 33.1% identity in 169 aa overlap. No Hp ortholog. Contains 3x Pfam match to entry PF00132 hexapep, Bacterial transferase hexapeptide (four repeats), scores 16.60, E-value 0.0071; 9.10, E-value 0.97 and 24.70, E-value 3.7e-05; Updated (2006) note: Some characterisation work within Escherichia coli, however, identity score was marginal. Putative kept within product function. Functional classification - Misc; PMID:7815937" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="YP_002343672.1" /db_xref="GI:218561893" /db_xref="GOA:Q0PBS5" /db_xref="InterPro:IPR001451" /db_xref="UniProtKB/TrEMBL:Q0PBS5" /db_xref="GeneID:904556" /translation="MLIKFKNHSPKLGQNVFVAEGAKIIGEIEIGDESSIWFNCVLRA DVNFIKIGKRTNIQDLSTVHVWHREFDEKGKLKDAGFPTIIGDDVTIGHNCVIHACVI KNRVLIGMNAVIMDNALIEEDSIVGAGSVVTKGKKFPPRSLILGNPAKFVRELNDEEV SFLKQSALNYVDFKNEFLKDLQ" misc_feature 213582..213635 /locus_tag="Cj0229" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 7.6" misc_feature 213681..213734 /locus_tag="Cj0229" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 1.1e+02" misc_feature 213783..213836 /locus_tag="Cj0229" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 0.0059" misc_feature 213837..213887 /locus_tag="Cj0229" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 21" misc_feature 213888..213941 /locus_tag="Cj0229" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 8.1" gene complement(214057..215430) /locus_tag="Cj0230c" /db_xref="GeneID:904557" CDS complement(214057..215430) /locus_tag="Cj0230c" /EC_number="2.4.2.11" /inference="protein motif:Pfam:PF04095" /note="catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate" /codon_start=1 /transl_table=11 /product="nicotinate phosphoribosyltransferase" /protein_id="YP_002343673.1" /db_xref="GI:218561894" /db_xref="GOA:Q0PBS4" /db_xref="InterPro:IPR006405" /db_xref="InterPro:IPR007229" /db_xref="InterPro:IPR015977" /db_xref="UniProtKB/TrEMBL:Q0PBS4" /db_xref="GeneID:904557" /translation="MMTSKTSLALLCDFYEFTMSQGYFKNNKKDQICYFDIFFRKIPD SGSFAIFAGLEDILDFVENLSFDAEDIEFLRKQGIFDTEFLDFLANFKFKGEIYAMRE GEVIFPNEPLLCIKATTIEAQLLETFLLLSLNHQSLIATKTNRIVRAAKDSKILEFGS RRAQGSEAALKGARAAFIGGCIGSACTLAGKIYNIPINGTMAHSWVQMFENELEAFKA YVKIYPKNPVFLIDTYDCLNSGLKNAIKVFKEFGIQEGGVRIDSGNLLELSLKIRQEL DQAGLQKCKIIVSNALDEWSIKKLKEQNAPIDIFGVGERLITASSDPIFSCVYKLAAL EDQGIKPKIKISENNEKSTLPHFKKLFRVYDKNTQKILFDELYVFDENPNQDENLERK ELLELVYKEKRLLKKSSLNTIQDYTKEQISKLDESFLDLDRFVKFEVKLSPKLQNITE DLLKTRF" misc_feature complement(214336..215409) /locus_tag="Cj0230c" /inference="protein motif:Pfam:PF04095" /note="HMMPfam hit to PF04095, Nicotinate phosphoribosyltransferase (NAPRTa, score 3.6e-11" misc_feature complement(214873..214905) /locus_tag="Cj0230c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(215417..216439) /gene="nrdF" /locus_tag="Cj0231c" /db_xref="GeneID:904558" CDS complement(215417..216439) /gene="nrdF" /locus_tag="Cj0231c" /EC_number="1.17.4.1" /inference="protein motif:Pfam:PF00268" /note="B2 or R2 protein; type 1b enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdE" /codon_start=1 /transl_table=11 /product="ribonucleotide-diphosphate reductase subunit beta" /protein_id="YP_002343674.1" /db_xref="GI:218561895" /db_xref="GOA:Q0PBS3" /db_xref="InterPro:IPR000358" /db_xref="InterPro:IPR012348" /db_xref="UniProtKB/TrEMBL:Q0PBS3" /db_xref="GeneID:904558" /translation="MQRKRIYNPSSNETLGDRKVFDGNPHGILNFTKAKYTWALKLWD LMEANTWFPKEVDTTKDALDYRCNLTAGEKRMYDLVWSQLISMDSFQTNNLADNINPY ITAPEINAVLARQAYEEANHSKSYAVMVEAICDNTDLIYEMEKHDETLREKNDFISSI YEELAGDVDDNKLLLAMVANQILEGVYFYSGFTAIYALARAGKMLGSAQMIRFIQRDE ITHLLLFQNMINSVRKERPDLFHDENINKIYDMFKKAGDLEIKWGKYITQNQIMGFTD DIIEEYIHYLVDQRLSAINLDKLYNAKHPIKWVDDFSKFNDQKSNFFESKVTNYSKGS ISFDDF" misc_feature complement(215504..216388) /gene="nrdF" /locus_tag="Cj0231c" /inference="protein motif:Pfam:PF00268" /note="HMMPfam hit to PF00268, Ribonucleotide reductase,small chain, score 1.8e-30" gene complement(216453..216863) /locus_tag="Cj0232c" /db_xref="GeneID:904559" CDS complement(216453..216863) /locus_tag="Cj0232c" /inference="protein motif:Pfam:PF06271" /note="Original (2000) note: Cj0232c, probable integral membrane protein, len: 136 aa; 37.9% identity to HP1258 (called conserved hypothetical mitochondrial protein 4). Contains three possible transmembrane domains; Updated (2006) note: Pfam domain PF06271 RDD family was identified within CDS. This family of proteins contain three highly conserved amino acids: one arginine and two aspartates, hence the name of RDD family. This region contains two predicted transmembrane regions. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343675.1" /db_xref="GI:218561896" /db_xref="GOA:Q0PBS2" /db_xref="InterPro:IPR010432" /db_xref="UniProtKB/TrEMBL:Q0PBS2" /db_xref="GeneID:904559" /translation="MKTKAKISSRWLRFRALLIDIFLIYVPILYLFYFLLGSKEAFLN NHFITTLCTFLFGLIQAIFLTKKAQSPGLKAYDLYLIDIKTGKKLSFLRILLRYVIFI ISFGLLFGLFVSFVRKDRLNLHDILTQSCIATKA" misc_feature complement(216462..216845) /locus_tag="Cj0232c" /inference="protein motif:Pfam:PF06271" /note="HMMPfam hit to PF06271, RDD family, score 1e-13" gene complement(216864..217472) /gene="pyrE" /locus_tag="Cj0233c" /db_xref="GeneID:904560" CDS complement(216864..217472) /gene="pyrE" /locus_tag="Cj0233c" /EC_number="2.4.2.10" /inference="protein motif:Pfam:PF00156" /inference="protein motif:Prosite:PS00103" /note="involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate" /codon_start=1 /transl_table=11 /product="orotate phosphoribosyltransferase" /protein_id="YP_002343676.1" /db_xref="GI:218561897" /db_xref="GOA:Q9PIR1" /db_xref="InterPro:IPR000836" /db_xref="InterPro:IPR002375" /db_xref="InterPro:IPR006273" /db_xref="UniProtKB/Swiss-Prot:Q9PIR1" /db_xref="GeneID:904560" /translation="MNLEQIYKDCGAYLEGHFLLSSGKHSQFYLQSAKVLEDPKLAAK LCDELAKIIASYKIEFDSICSPALGGILAGYELARACSKRFIFTERVNKEMTLRRGFE VKKGEKFIICEDIITTGGSALESAKIIESLGGIVVGFAALANRGFCAVENLKSPRKDN AKLPENLPLFTLGNFEFEIYDETNCPLCKKGNKAIKPGSRGN" misc_feature complement(217017..217382) /gene="pyrE" /locus_tag="Cj0233c" /inference="protein motif:Pfam:PF00156" /note="HMMPfam hit to PF00156, Phosphoribosyl transferase domain, score 2.3e-22" misc_feature complement(217110..217148) /gene="pyrE" /locus_tag="Cj0233c" /inference="protein motif:Prosite:PS00103" /note="PS00103 Purine/pyrimidine phosphoribosyl transferases signature" gene complement(217475..218038) /gene="frr" /locus_tag="Cj0234c" /db_xref="GeneID:904561" CDS complement(217475..218038) /gene="frr" /locus_tag="Cj0234c" /inference="protein motif:Pfam:PF01765" /note="Rrf; Frr; ribosome-recycling factor; release factor 4; RF4; recycles ribosomes upon translation termination along with release factor RF-3 and elongation factor EF-G; A GTPase-dependent process results in release of 50S from 70S; inhibited by release factor RF-1; essential for viability; structurally similar to tRNAs" /codon_start=1 /transl_table=11 /product="ribosome recycling factor" /protein_id="YP_002343677.1" /db_xref="GI:218561898" /db_xref="GOA:Q9PIR0" /db_xref="HSSP:Q9X1B9" /db_xref="InterPro:IPR002661" /db_xref="InterPro:IPR015998" /db_xref="UniProtKB/Swiss-Prot:Q9PIR0" /db_xref="GeneID:904561" /translation="MIMLNEIFNKQKTQSEKSLEALKKDFTTLRTGKVNIHILDHITV DYYGTQTPLNQVATVLASDASTISITPWEKPLLKTIESAIAAANIGVNPNNDGESVKL FFPPMTREQREENVKQAKAMGEKAKVSIRNIRKDANDAVKKLEKDKAISEDEAKKAYD EVQKLTDTYTTKIDEGVKSKESELLKV" misc_feature complement(217484..217978) /gene="frr" /locus_tag="Cj0234c" /inference="protein motif:Pfam:PF01765" /note="HMMPfam hit to PF01765, Ribosome recycling factor,score 4.9e-88" gene complement(218048..218419) /gene="secG" /locus_tag="Cj0235c" /db_xref="GeneID:904562" CDS complement(218048..218419) /gene="secG" /locus_tag="Cj0235c" /inference="protein motif:Pfam:PF03840" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0235c, secG, possible protein-export membrane protein, len: 123 aa; similar to e.g. SECG_PSESY protein-export membrane protein secG (126 aa), fasta scores; opt: 157 z-score: 210.5 E(): 0.00018,25.2% identity in 119 aa overlap. 48.8% identity to HP1255; Updated (2006) note: Pfam domain PF03840 Preprotein translocase SecG subunit was identified within CDS. Also,two probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. No specific characterisation with acceptable identity scores have been carried out yet. Putative kept within product function. Functional classification - Protein and peptide secretion" /codon_start=1 /transl_table=11 /product="preprotein translocase subunit SecG" /protein_id="YP_002343678.1" /db_xref="GI:218561899" /db_xref="GOA:Q0PBR9" /db_xref="InterPro:IPR004692" /db_xref="UniProtKB/TrEMBL:Q0PBR9" /db_xref="GeneID:904562" /translation="MITLLIILQFIIVVVICIAVLLQKSSSIGLGAYSGSNESLFGAK GPAGFLAKFTFVMGILLIANTIGLGYLYNKASKDSLAEKIKVENNNTTIPSAPIVPTT PNTNSIAPSAPQLPSDVNSSK" sig_peptide complement(218048..218128) /gene="secG" /locus_tag="Cj0235c" /note="Signal peptide predicted for secG by SignalP 2.0 HMM (Signal peptide probability 0.840) with cleavage site probability 0.433 between residues 27 and 28" misc_feature complement(218201..218416) /gene="secG" /locus_tag="Cj0235c" /inference="protein motif:Pfam:PF03840" /note="HMMPfam hit to PF03840, Preprotein translocase SecG subunit, score 2.8e-24" gene complement(218523..219218) /locus_tag="Cj0236c" /db_xref="GeneID:904563" CDS complement(218523..219218) /locus_tag="Cj0236c" /inference="protein motif:Pfam:PF01027" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0236c, probable integral membrane protein, len: 231 aa similar to members of the UPF0005 family e.g. YCCA_PSEAE (222 aa), fasta scores; opt: 377 z-score: 628.9 E(): 8.9e-28, 37.7% identity in 207 aa overlap. 49.1% identity to HP0920. Contains Pfam match to entry PF01027 UPF0005, Uncharacterized protein family, score 128.30, E-value 1.4e-34; Updated (2006) note: Six probable transmembrane helices predicted by TMHMM2.0. Functional classification -Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343679.1" /db_xref="GI:218561900" /db_xref="GOA:Q9PIQ8" /db_xref="InterPro:IPR006214" /db_xref="UniProtKB/Swiss-Prot:Q9PIQ8" /db_xref="GeneID:904563" /translation="MSLYDRDYSRSKEFENTRSSELSIFIKQTYQLFAASLLAATVGA YVGIFALASFFIQSQVTFWILFAVEIGLLFALQWKKREAPLNLVLLFGFTFCSGLTLT PLLISVLALPAGGIIIAQAFALTTVAFAGLSVFAMNTKKDFTVMGKALFIVLIVIVAA SLLNLFFQSSIVNLAISAVAAILFSFYILYDTQNIIRGNYETPIEGAVALYLDFVNLF VSLLNILRSFNSR" misc_feature complement(218532..219167) /locus_tag="Cj0236c" /inference="protein motif:Pfam:PF01027" /note="HMMPfam hit to PF01027, Uncharacterised protein family UPF0005, score 2.5e-36" gene 219378..220013 /gene="cynT" /locus_tag="Cj0237" /db_xref="GeneID:904564" CDS 219378..220013 /gene="cynT" /locus_tag="Cj0237" /EC_number="4.2.1.1" /inference="protein motif:Pfam:PF00484" /inference="protein motif:Prosite:PS00704" /inference="protein motif:Prosite:PS00705" /note="Original (2000) note: Cj0237, cynT, probable carbonic anyhydrase, len: 211 aa; similar to e.g. CYNT_ECOLI carbonic anhydrase (EC 4.2.1.1) (219 aa), fasta scores; opt: 541 z-score: 776.7 E(): 0, 41.2% identity in 204 aa overlap. 43.5% identity to HP0004. Contains PS00704 and PS00705 Prokaryotic-type carbonic anhydrases signatures 1 and 2, and Pfam match to entry PF00484 Pro_CA, Prokaryotic-type carbonic anhydrases, score 208.10, E-value 2.7e-59; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Putative not added to product function. Functional classification -Central intermediary metabolism - General; PMID:1740425, PMID:14563877" /codon_start=1 /transl_table=11 /product="carbonic anyhydrase" /protein_id="YP_002343680.1" /db_xref="GI:218561901" /db_xref="GOA:Q0PBR7" /db_xref="InterPro:IPR001765" /db_xref="InterPro:IPR015892" /db_xref="UniProtKB/TrEMBL:Q0PBR7" /db_xref="GeneID:904564" /translation="MENLISGAIKFMQEDFKEHEELFESLKNKQNPHTLFIGCSDSRV IPNLITNTGPGELFVIRNIANIVPPYRVGEDYLATTSAIEYALNSLHIKNIVVCGHSN CGGCNALYYSDEELNKIPNVKKWLTMLDPIKKDVMIFARDDLAMRSWLTEKLNLVNSL QNILTYPGVQEALDEGKIEVHAWYYIIETGEIYEYDFKAKIFTLIQDRKVQ" misc_feature 219456..219965 /gene="cynT" /locus_tag="Cj0237" /inference="protein motif:Pfam:PF00484" /note="HMMPfam hit to PF00484, Carbonic anhydrase, score 1.9e-45" misc_feature 219492..219515 /gene="cynT" /locus_tag="Cj0237" /inference="protein motif:Prosite:PS00704" /note="PS00704 Prokaryotic-type carbonic anhydrases signature 1" misc_feature 219627..219689 /gene="cynT" /locus_tag="Cj0237" /inference="protein motif:Prosite:PS00705" /note="PS00705 Prokaryotic-type carbonic anhydrases signature 2" gene 220010..221893 /locus_tag="Cj0238" /db_xref="GeneID:904565" CDS 220010..221893 /locus_tag="Cj0238" /inference="protein motif:Pfam:PF00924" /note="Original (2000) note: Cj0238, probable integral membrane protein, len: 627 aa; similar in C-terminus to many hypothetical proteins, e.g. YB43_METJA MJ1143 (361 aa), fasta scores; opt: 413 z-score: 535.7 E(): 1.4e-22,23.9% identity in 372 aa overlap. 36.3% identity in 608 aa overlap to HP0415. Contains Pfam match to entry PF00924 UPF0003, Uncharacterized protein family UPF0003, score 145.90, E-value 6.9e-40; Updated (2006) note: Pfam domain PF00924 Mechanosensitive ion channel was identified within CDS. Product modified to more specific family member due to motif match. Paper identified linking protein to glycoprotein. No specific characterisation has been carried out yet, so putative kept within product function. Functional classification - Transport/binding proteins -Other" /codon_start=1 /transl_table=11 /product="putative mechanosensitive ion channel family protein" /protein_id="YP_002343681.1" /db_xref="GI:218561902" /db_xref="GOA:Q0PBR6" /db_xref="InterPro:IPR006685" /db_xref="UniProtKB/TrEMBL:Q0PBR6" /db_xref="GeneID:904565" /translation="MKKIIFSLCFFILHLGAQEFKFIDANISKEDEGIYALVEKYVDL NNQIKEFKKNNDENSSTFNGILSEFEKDKKTILAKIPDMIVGQKINEEAVARFLKAKE KLLDVQKKNINKPYIYTDATLNLVYFNIVESFYSSLFEVEKLFKNTASSEDLIATVDK AMENLQNSSNVNLDSFKSKITNPEELEKITLKERYISNAVDSYSEILKYLRSNADLLE SNYIFSLLELQVWIDRINEAIGVSFVNIGKIVISALVLVFFISLRRFFANIVYFFLVQ LFYRNKNDVDDIKVIFIENIKKPVGFLLIVYAISLCLTIATYPAPLSVNLSNFFHIVY AVLIAWLILRMLDGYGVVLVSKLAQKSGKKEVVNLIIKILYFVIIIIALLYILAQLGF NISAIIASLGIGGLAVALAAKDIIANFFASILLLFDNSFNQGDWVEVSGIEGTVVETG LRKTTIRTFDNCLVFLPNSTIMGANIKNWSKRRMGRHVRMYLGVGYDATPEKLEQCVK DLREFLHTSDLVAHDEDSALKYGDHTTKYRQNLVSINDLEGYKNACYVALSEFADSSI NIELYFYIKEIGGKDFREARQSLMLEFMRIIEKNGLTFAFPSRSIYIENLPPLDLQAK AIK" misc_feature order(220721..220789,220802..220846,220907..220975, 221003..221071,221105..221173,221183..221242) /locus_tag="Cj0238" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0238 by TMHMM2.0 at aa 238-260, 265-279, 300-322,332-354, 366-388 and 392-411" misc_feature 221123..221824 /locus_tag="Cj0238" /inference="protein motif:Pfam:PF00924" /note="HMMPfam hit to PF00924, Mechanosensitive ion channel, score 2e-68" gene complement(221916..222887) /locus_tag="Cj0239c" /db_xref="GeneID:904566" CDS complement(221916..222887) /locus_tag="Cj0239c" /inference="protein motif:Pfam:PF01106" /inference="protein motif:Pfam:PF01592" /inference="protein motif:Pfam:PF04324" /note="Original (2000) note: Cj0239c, nifU protein homolog, len: 323 aa; similar to many e.g. NIFU_AZOVI nifU protein (312 aa), fasta scores; opt: 627 z-score: 910.4 E(): 0, 37.0% identity in 330 aa overlap. 68.8% identity to HP0221. Also similar in C-terminus to Cj1639 (38.2% identity in 76 aa overlap). Contains Pfam match to entry PF01106 NifU-like, NifU-like domain, score 100.40, E-value 3.5e-26; Updated (2006) note: Pfam domains PF01592 NifU-like N terminal domain and PF04324 which is a BFD-like [2Fe-2S] binding domain identified within CDS. Further support given to product function. Functional classification -Conserved hypothetical proteins; PMID:7947754, PMID:10819462" /codon_start=1 /transl_table=11 /product="NifU protein homolog" /protein_id="YP_002343682.1" /db_xref="GI:218561903" /db_xref="GOA:Q0PBR5" /db_xref="InterPro:IPR001075" /db_xref="InterPro:IPR002871" /db_xref="InterPro:IPR007419" /db_xref="InterPro:IPR016217" /db_xref="UniProtKB/TrEMBL:Q0PBR5" /db_xref="GeneID:904566" /translation="MGKNSLIGGSIWDEYSQKVQDRMNNPQHMGEFSEEDAKARNAKL IVADFGAESCGDAVRLFWLVDEKTDKIIDAKFKSFGCGTAIASSDTMVDLCIGKTVDE AVKITNLDVEFAMRDNPETPAVPPQKMHCSVMAYDVIKQAAAHYKGISPEDFEDQIIV CECARVSLGTIKEVIKLNDLHSVEEITQYTKAGAFCKSCIKPGGHEKRDYYLVDILAE TRAEIDREKLKNTMKSDVAFDEMTVVGQLKAVESVLDAEIRPMLHNDGGDLEVIDIQK AEGAAIDVYIRYLGACSGCSSGSGATLYAIETILQEELSPNIRVMPV" misc_feature complement(221919..222140) /locus_tag="Cj0239c" /inference="protein motif:Pfam:PF01106" /note="HMMPfam hit to PF01106, NifU-like domain, score 2.1e-27" misc_feature complement(222255..222416) /locus_tag="Cj0239c" /inference="protein motif:Pfam:PF04324" /note="HMMPfam hit to PF04324, BFD-like [2Fe-2S] binding domain, score 5.7e-15" misc_feature complement(222429..222848) /locus_tag="Cj0239c" /inference="protein motif:Pfam:PF01592" /note="HMMPfam hit to PF01592, NifU-like N terminal domain, score 2.9e-64" gene complement(222897..224078) /gene="iscS" /locus_tag="Cj0240c" /db_xref="GeneID:904567" CDS complement(222897..224078) /gene="iscS" /locus_tag="Cj0240c" /EC_number="2.8.1.7" /inference="protein motif:Pfam:PF00266" /inference="protein motif:Prosite:PS00132" /inference="protein motif:Prosite:PS00595" /note="Original (2000) note: Cj0240c, probable aminotransferase (nifS protein homolog), len: 393 aa; similar to many e.g. NIFS_KLEPN nifS protein (397 aa),fasta scores; opt: 1067 z-score: 1533.6 E(): 0, 47.0% identity in 383 aa overlap. 62.8% identity to HP0220. Contains PS00132 Zinc carboxypeptidases, zinc-binding region 1 signature, PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site, and Pfam match to entry PF00266 aminotran_5, Aminotransferases class-V,score 358.80, E-value 5.9e-104; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Product modified to more specific family member based on characterisation papers. Putative not added to product function. Functional classification - Misc; PMID:10908675, PMID:10781607, PMID:12860127,PMID:3040672, PMID:8464885" /codon_start=1 /transl_table=11 /product="cysteine desulfurase (NifS protein homolog)" /protein_id="YP_002343683.1" /db_xref="GI:218561904" /db_xref="GOA:Q0PBR4" /db_xref="InterPro:IPR000192" /db_xref="InterPro:IPR000834" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR016454" /db_xref="InterPro:IPR017773" /db_xref="UniProtKB/TrEMBL:Q0PBR4" /db_xref="GeneID:904567" /translation="MKVYLDNNATTMLDPNAYELMLPFLKDMYGNPNSLHQYGSATHP ALREALDKLYAGLGANDLDDIVVTSCATESINWVLKGVYFDHILDKERNEVIISSVEH PAVTAAAYFLKSLGVKVIELPVNEEGVSTVEDLRKVISDKTALVSVMWANNETGMIFD IKAMAELAHEFGALFHTDATQAVGKIKVNLTQVGVDFASFSAHKFHGPKGVGGLFIKK GLKLTPLLHGGEHMGGRRSGTLNVPYIVAMGEALRIANTMLDFEDSHIRRLRDKLEDQ ILALPDTTVVGKREHRVPNTILASIKGVEGEAMLWDLNKNGIAASTGSACASEALESN PIMEAIGAEHDLAHTALRLSLSRFNTEEEIDYAAKQIKNATQRLRAISCTYAYNPNNY K" misc_feature complement(222978..224042) /gene="iscS" /locus_tag="Cj0240c" /inference="protein motif:Pfam:PF00266" /note="HMMPfam hit to PF00266, Aminotransferase class-V,score 3.2e-105" misc_feature complement(223101..223133) /gene="iscS" /locus_tag="Cj0240c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature complement(223359..223427) /gene="iscS" /locus_tag="Cj0240c" /inference="protein motif:Prosite:PS00132" /note="PS00132 Zinc carboxypeptidases, zinc-binding region 1 signature" misc_feature complement(223437..223496) /gene="iscS" /locus_tag="Cj0240c" /inference="protein motif:Prosite:PS00595" /note="PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site" gene complement(224256..224657) /locus_tag="Cj0241c" /db_xref="GeneID:904568" CDS complement(224256..224657) /locus_tag="Cj0241c" /inference="protein motif:Pfam:PF01814" /note="Original (2000) note: Cj0241c, possible iron-binding protein, len: 133 aa; Weak similarity to members of the eukaryotic iron-binding hemerythrin family,e.g. HEMT_LINUN hemerythrin alpha chain (117 aa), fasta scores; opt: 93 z-score: 135.4 E(): 3.1, 27.3% identity in 77 aa overlap. Note that all of the iron-binding residues are conserved. No Hp match. Also similar to Cj1224 (34.7% identity in 118 aa overlap), Cj0072c (40.5% identity in 79 aa overlap) and Cj0045c (30.9% identity in 123 aa overlap); Updated (2006) note: Pfam domain PF01814 Hemerythrin HHE cation binding domain identified within CDS. No specific characterisation with acceptable identity score has been carried out yet. Thus, putative kept within product function. Functional classification -Transport/binding proteins - Cations" /codon_start=1 /transl_table=11 /product="putative iron-binding protein" /protein_id="YP_002343684.1" /db_xref="GI:218561905" /db_xref="GOA:Q9PIQ3" /db_xref="InterPro:IPR012312" /db_xref="InterPro:IPR012827" /db_xref="InterPro:IPR016131" /db_xref="UniProtKB/Swiss-Prot:Q9PIQ3" /db_xref="GeneID:904568" /translation="MTYNEKIISMNNDLLDHQHKELFEISKKLSLMNQRHVGTKELKI VLRELLIMINRHFSDEEAFMREIEYPYINHHTRIHRKIILEIEEIIISEAKFVNIMTE KLNLVVQDFIFKHTAKEDSKIVKYYEEKFKK" misc_feature complement(224280..224447) /locus_tag="Cj0241c" /inference="protein motif:Pfam:PF01814" /note="HMMPfam hit to PF01814, Hemerythrin HHE cation binding domain, score 0.0029" misc_feature complement(224457..224627) /locus_tag="Cj0241c" /inference="protein motif:Pfam:PF01814" /note="HMMPfam hit to PF01814, Hemerythrin HHE cation binding domain, score 0.0079" gene complement(224794..225960) /locus_tag="Cj0243c" /db_xref="GeneID:904569" CDS complement(224794..225960) /locus_tag="Cj0243c" /note="Original (2000) note: Cj0243c, unknown, len: 388 aa; no Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Functional classification -Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343685.1" /db_xref="GI:218561906" /db_xref="UniProtKB/TrEMBL:Q0PBR2" /db_xref="GeneID:904569" /translation="MTINSANPYQNLTLSNPLQNSSALNLIKDSKALDQEGNENSLEQ LSYIFNNTTYASEFGFRINEEGFFDKDLNKIANIPESYDINIKSVRSIAKELAKQDEN LNYNKIDLPYLLNSYHSSLKSINSEFLQDDNAYLSRDLISKLSSGFSTDNGEFLGQIS RIYNNQEEIDLALSNITNLNTLMLDNKITNFHFDKAIENTSSNEILKPYLTKNAEVSK SGLLMNFIYHDIKTQNEKEFNFFMKPATLELSSHQNLQKILKGETDIEDYIKKENEKK MSFDLYLYINGVDKKTSTQDKLSVFFQQYINYQKDMDLREFANSSSIFQIYIDQNRND FDALKKQYQNQSQDTQRLEEANQLRSSSIENFLDRRQKQANINKILNSYMSVMV" gene 226116..226307 /gene="rpmI" /locus_tag="Cj0244" /db_xref="GeneID:904570" CDS 226116..226307 /gene="rpmI" /locus_tag="Cj0244" /note="Original (2000) note: Cj0244, rpmI, 50s ribosomal protein L35, len: 63 aa; similar to many e.g. RL35_ECOLI 50s ribosomal protein L35 (64 aa), fasta scores; opt: 133 z-score: 282.3 E(): 1.8e-08. 45.6% identity in 57 aa overlap. 60.7% identity to HP0125; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Putative not added to product function. Functional classification -Ribosomal protein synthesis and modification; PMID:16272117" /codon_start=1 /transl_table=11 /product="50S ribosomal protein L35" /protein_id="YP_002343686.1" /db_xref="GI:218561907" /db_xref="GOA:Q9PIQ1" /db_xref="InterPro:IPR001706" /db_xref="UniProtKB/Swiss-Prot:Q9PIQ1" /db_xref="GeneID:904570" /translation="MPKMKSVKSAVKRFKVGKNKIKRGSAFRSHILTKKPAKRMRGLR TAKYVHSTNVKAVEKMLGI" misc_feature 226125..226298 /gene="rpmI" /locus_tag="Cj0244" /inference="protein motif:Pfam:PF01632" /note="HMMPfam hit to PF01632, Ribosomal protein L35,score 4.9e-18" gene 226401..226754 /gene="rplT" /locus_tag="Cj0245" /db_xref="GeneID:904571" CDS 226401..226754 /gene="rplT" /locus_tag="Cj0245" /inference="protein motif:Pfam:PF00453" /inference="protein motif:Prosite:PS00937" /note="binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit" /codon_start=1 /transl_table=11 /product="50S ribosomal protein L20" /protein_id="YP_002343687.1" /db_xref="GI:218561908" /db_xref="GOA:Q9PIQ0" /db_xref="HSSP:O67086" /db_xref="InterPro:IPR005812" /db_xref="InterPro:IPR005813" /db_xref="UniProtKB/Swiss-Prot:Q9PIQ0" /db_xref="GeneID:904571" /translation="MARVKTGVVRRRRHKKVLKLARGFYSGRRKHFRKAKEQLERSLV YAYRDRRRKKRDFRRLWIVRINAACRLNDLSYSRFINGLKKAGIELDRKILADLAMND AAAFAKIAEAAKKAL" misc_feature 226404..226727 /gene="rplT" /locus_tag="Cj0245" /inference="protein motif:Pfam:PF00453" /note="HMMPfam hit to PF00453, Ribosomal protein L20,score 4.5e-51" misc_feature 226560..226610 /gene="rplT" /locus_tag="Cj0245" /inference="protein motif:Prosite:PS00937" /note="PS00937 Ribosomal protein L20 signature" gene complement(226807..227934) /locus_tag="Cj0246c" /db_xref="GeneID:904572" CDS complement(226807..227934) /locus_tag="Cj0246c" /inference="protein motif:Pfam:PF00015" /note="Original (2000) note: Cj0246c, probable MCP-domain signal transduction protein, len: 375 aa; similar in C-terminus to many MCP-domain containing proteins e.g. MCPA_BACSU methyl-accepting chemotaxis protein mcpA (661 aa), fasta scores; opt: 257 z-score: 408.0 E(): 1.8e-15,33.2% identity in 205 aa overlap. No Hp ortholog. Contains Pfam match to entry PF00015 MCPsignal, Methyl-accepting chemotaxis protein (MCP) signaling domain, score 93.20,E-value 3.9e-25; Updated (2006) note: Characterisation within Bacillus subtilis, however, identity score was marginal. Putative kept within product function. Functional classification - Signal transduction; PMID:8188684" /codon_start=1 /transl_table=11 /product="putative MCP-domain signal transduction protein" /protein_id="YP_002343688.1" /db_xref="GI:218561909" /db_xref="GOA:Q0PBQ9" /db_xref="InterPro:IPR004089" /db_xref="InterPro:IPR004090" /db_xref="UniProtKB/TrEMBL:Q0PBQ9" /db_xref="GeneID:904572" /translation="MQEYTFALKIGEDYLISPMEINPNKTLFSYCDIESAQELSLLKK TNFIEAIKKDYEKFSLNKPKPLGAIFNDCILRRLHNKEHLNQIHFNDFPIVGFSSFGE IYGVGIAKSLVAIFFYEVENFNDFKPRYLKTFIQKYSDFKYYYLNIRAQKLEMTNEIN KIILNQLKQNTSEIDKNTSIFKEIFEELENIRRSLTTISESFTNFTNYLEYNLYQSEE KMNLEKEVQSSLKNIDQLNSILDLISGIAEQTILLSLNAGIEAARAGKLGRGFAVVAD EVRKLSENTQMGLGEMEGAIKLVIQTIQSIAKSSNSSTQEMNFIRDKTNEFSKIISNL INSGKEISDKLEQRSNVSEDFEKNVNQLKCYEDVLAKLNQY" misc_feature complement(226813..227370) /locus_tag="Cj0246c" /inference="protein motif:Pfam:PF00015" /note="HMMPfam hit to PF00015, Methyl-accepting chemotaxis protein (MCP) s, score 4.2e-09" gene complement(227910..228443) /locus_tag="Cj0247c" /db_xref="GeneID:904573" CDS complement(227910..228443) /locus_tag="Cj0247c" /note="Original (2000) note: Cj0247c, unknown, len: 177 aa; no Hp match; Updated (2006) note: Similar to proteins from other bacteria. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343689.1" /db_xref="GI:218561910" /db_xref="UniProtKB/TrEMBL:Q0PBQ8" /db_xref="GeneID:904573" /translation="MIENLCTNKIKLFSDIKDYTERKKLIEKEVLFINIPFEAHCINT LYYLIYDGLSQSESSLLELLYKHNPYPCALVGGGSSGNMDFSGAFIFYNGEILKNQAL SIHVQFKPKYRFNLMKSQNFNPQSNITFTILDVSLYDKTVRELINKKPFRLKLYVIIL TALLKNLKIKCKNILLL" gene 228946..229803 /locus_tag="Cj0248" /db_xref="GeneID:904574" CDS 228946..229803 /locus_tag="Cj0248" /note="Original (2000) note: Cj0248, unknown, len: 285 aa; no Hp match; Updated (2006) note: Similar to proteins from other bacteria. Literature search identified papers giving structural characterisation and clues to product function. Currently unknown function but may be some kind of hydrolase or signal-transduction protein. Cj0248 has been implicated as a virulence factor and has been shown to play a role in motility. Functional classification -Unknown; PMID:16287129, PMID:15066034, PMID:11298288" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343690.1" /db_xref="GI:218561911" /db_xref="InterPro:IPR013976" /db_xref="UniProtKB/TrEMBL:Q0PBQ7" /db_xref="GeneID:904574" /translation="MIGDMNELLLKSVEVLPPLPDTVSKLRKYVSEANSNIETMKVAE IISSDPLMTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVMADSIRDNFKID VSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAMLLRLGIVIFSNFLIQN HKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAA REKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNK AKENLNKED" gene 229831..230310 /locus_tag="Cj0249" /db_xref="GeneID:904575" CDS 229831..230310 /locus_tag="Cj0249" /note="Original (2000) note: Cj0249, unknown, len: 159 aa; no Hp match. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343691.1" /db_xref="GI:218561912" /db_xref="UniProtKB/TrEMBL:Q0PBQ6" /db_xref="GeneID:904575" /translation="MMKSLILPPNEFLDHYILNAEFHRFAGISKNAYKFWKNAEIGRY QGTRIIFLHRNCILEKHQQALRQCSGLNGFVLASAFCSFTGLAPSHLVEKNNSSIYKL LELKEICGIKFVNLKKFYDFLGLNYHQHIYIEKCHFFSPAPFEKRIKITESMCVGYY" gene complement(230279..231589) /locus_tag="Cj0250c" /db_xref="GeneID:904576" CDS complement(230279..231589) /locus_tag="Cj0250c" /inference="protein motif:Pfam:PF00083" /inference="protein motif:Pfam:PF07690" /inference="protein motif:Prosite:PS50850" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0250c, probable transmembrane transport protein, len: 436 aa; similar to many members of the sugar transport protein family, e.g. PROP_ECOLI proline/betaine transporter (500 aa), fasta scores; opt: 602 z-score: 791.3 E(): 0, 31.7% identity in 394 aa overlapCIT1_SALTY citrate-proton symport (citrate transporter) (434 aa), fasta scores; opt: 580 z-score: 734.9 E(): 0, 28.0% identity in 396 aa overlap. 50.9% identity to HP0936. Contains Pfam match to entry PF00083 sugar_tr, Sugar (and other) transporters, score 93.10,E-value 5.5e-24; Updated (2006) note: Pfam domain PF07690 Major Facilitator Superfamily was identified within CDS in addition to previous PF0083. Prosite domain PS50850 MFS,Major facilitator superfamily was also identified. Also,twelve probable transmembrane helices predicted by TMHMM2.0. Product modified to more specific family member due to motif match. Putative kept within product function. Functional classification - Transport/binding proteins -Other" /codon_start=1 /transl_table=11 /product="putative MFS (Major Facilitator Superfamily) transport protein" /protein_id="YP_002343692.1" /db_xref="GI:218561913" /db_xref="GOA:Q0PBQ5" /db_xref="InterPro:IPR007114" /db_xref="InterPro:IPR011701" /db_xref="UniProtKB/TrEMBL:Q0PBQ5" /db_xref="GeneID:904576" /translation="MSKTLNQKDIKVLGLSSLGGTLEFYDFIIFVFFANYISTNFFPK DLSSFWQMFNTYGIFAAGYLARPLGGVILAHFGDKFGRKRMFMISILLMVIPTFTLAF IPNYESIGFLCIVLLVFIRICQGIAIGGELPGAWVFVYEHAPQGQKRTYLGILTASVV GGILLGSLVFLIMNKIYTQEELHEWAWRIPFFLGGIFGIISAYLRKFLRETPVFEQMK KDKALEKFPLKEVFKKAKMGIVLSMMITWVLTGCIVVMILLMPSYMAKILQINTSIQT YLQIGGILLICLGCIISGILADKIGVIKSCVFFSVFFGIASLLYFNTLYRQNADFNLV ACLYLLVCFFSGVMNFCPLIMSEVFDAKIKFSGLSFSYNIAYAIAGGLTPQLAFFLHS FALNNLSNFWRFSLGLYVFFLAIIALLCAFIFSYLNNTQRTYSQ" misc_feature complement(230288..231556) /locus_tag="Cj0250c" /inference="protein motif:Pfam:PF00083" /note="HMMPfam hit to PF00083, Sugar (and other) transporter, score 4.5e-24" misc_feature complement(230426..231508) /locus_tag="Cj0250c" /inference="protein motif:Pfam:PF07690" /note="HMMPfam hit to PF07690, Major Facilitator Superfamily, score 3.4e-20" misc_feature complement(230834..230866) /locus_tag="Cj0250c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(231592..231747) /locus_tag="Cj0251c" /db_xref="GeneID:904577" CDS complement(231592..231747) /locus_tag="Cj0251c" /note="Original (2000) note: Cj0251c, highly acidic protein, len: 51 aa; 47.9% identity to HP0756. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="highly acidic protein" /protein_id="YP_002343693.1" /db_xref="GI:218561914" /db_xref="UniProtKB/TrEMBL:Q0PBQ4" /db_xref="GeneID:904577" /translation="MAYEDEEDLNYDDYENEDEEYPQNHHKNYNYDDDDYEYDDDNND DDFYEMD" gene 231840..232313 /gene="moaC" /locus_tag="Cj0252" /db_xref="GeneID:904578" CDS 231840..232313 /gene="moaC" /locus_tag="Cj0252" /note="MoaC; along with MoaA is involved in conversion of a guanosine derivative into molybdopterin precursor Z; involved in molybdenum cofactor biosynthesis" /codon_start=1 /transl_table=11 /product="molybdenum cofactor biosynthesis protein C" /protein_id="YP_002343694.1" /db_xref="GI:218561915" /db_xref="GOA:Q9PIP3" /db_xref="HSSP:P30747" /db_xref="InterPro:IPR002820" /db_xref="UniProtKB/Swiss-Prot:Q9PIP3" /db_xref="GeneID:904578" /translation="MKLSHLDEKNHPKMVDVSDKNITLRIATASGIIYMSQEAFDVIK NNTAKKGPVLQTAIVAAIMGVKKTSEIIPMCHPLMLSKVETNIVEFVKECAFKLIVTV KCEGKTGVEMEALSGVSIGLLTIYDMIKAIDKSMRITDIVLESKEGGKSGKFVRS" misc_feature 231879..232286 /gene="moaC" /locus_tag="Cj0252" /inference="protein motif:Pfam:PF01967" /note="HMMPfam hit to PF01967, MoaC family, score 6.3e-78" gene 232291..232554 /locus_tag="Cj0253" /db_xref="GeneID:904579" CDS 232291..232554 /locus_tag="Cj0253" /note="Original (2000) note: Cj0253, unknown, len: 87 aa; 33.8% identity to HP0495. Functional classification -Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343695.1" /db_xref="GI:218561916" /db_xref="UniProtKB/Swiss-Prot:Q9PIP2" /db_xref="GeneID:904579" /translation="MVNLCDLKKEPQINYPTFWDYKVIFEVHVKASEIFEEILGQREY KFKHSNSSASGKYQSYLLNVYVDSKKDRLDIFDKLKAKAKFVL" gene 232544..233704 /locus_tag="Cj0254" /db_xref="GeneID:904580" CDS 232544..233704 /locus_tag="Cj0254" /note="Original (2000) note: Cj0254, unknown, len: 386 aa; no Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Functional classification -Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343696.1" /db_xref="GI:218561917" /db_xref="UniProtKB/TrEMBL:Q0PBQ1" /db_xref="GeneID:904580" /translation="MYFKKEGKMKNTLIIFENSLSNLGKDEASDLLEDLSFNLAYKQI SHNPHETKKVLNSLLVEFLTILKKLDFFDDENVTKVIKALVKASIVDAQNSLYEYISE AELLNKQIENQKNLIKNQISDNFFEFENILQECSFCDEFSGGLNDAILFDIEMLGILK ETAESAFLTTLEKAEDIELTSSEIAKNLVYNAICEAHFEKERILKISSIILNTAFEIA NESMAYAKDLCLGVIKGTRDGIVLAMEKFKASLTYANFEEDVSLKSKELIGIEDDFIA LLKKEIQLQNDPCKSIVENLLEHELDNLFAKFRRLAGESREQLILVLNDIKKNPKIND FNKLTQRKLNRFKQEIFELEKIASEKYKDLNSKKAKKLGVRLWEKAKKFVKK" gene complement(233723..234481) /gene="exoA" /locus_tag="Cj0255c" /db_xref="GeneID:904581" CDS complement(233723..234481) /gene="exoA" /locus_tag="Cj0255c" /EC_number="3.1.11.2" /inference="protein motif:Pfam:PF01260" /inference="protein motif:Pfam:PF03372" /note="Original (2000) note: Cj0255c, probable exodeoxyribonuclease, len: 252 aa; similar to many e.g. EXOA_BACSU exodeoxyribonuclease (EC 3.1.11.2)(252 aa),fasta scores; opt: 676 z-score: 868.1 E(): 0, 40.5% identity in 259 aa overlap. 41.1% identity to HP1526. Contains Pfam match to entry PF01260 AP_endonulease1, AP endonucleases family 1, score 282.10, E-value 7.3e-81; Updated (2006) note: Pfam domain PF03372,Endonuclease/Exonuclease/phosphatase family identified within CDS. Further support given to product function. Characterised within Bacillus subtilis with acceptable identity score. Putative not added to product function. Functional classification - DNA replication,restriction/modification, recombination and repair; PMID:10540738" /codon_start=1 /transl_table=11 /product="exodeoxyribonuclease" /protein_id="YP_002343697.1" /db_xref="GI:218561918" /db_xref="GOA:Q0PBQ0" /db_xref="InterPro:IPR000097" /db_xref="InterPro:IPR004808" /db_xref="InterPro:IPR005135" /db_xref="UniProtKB/TrEMBL:Q0PBQ0" /db_xref="GeneID:904581" /translation="MKLLSWNVNGLRAICDKNALDWIAQEQIDFIGFQEIKAHEDKFP KKIYEYPFKHMYFNSAKRAGYSGVMSLCNFNSEVKKCEFFDDEEGRVLEHRFKNIALF NIYFPNGQKDEERLNFKMQFYADFLVYLDKLLKDGFEIIICGDVNTAHKEIDLTHPKA NANTSGFLPIERAWIDDLLKLGFIDTFREINGEIKEKYSWWSYRMKARERNVGWRIDY FFISKGLKDKLKNAFIRDDIFGSDHAPVGIEIDI" misc_feature complement(233732..234481) /gene="exoA" /locus_tag="Cj0255c" /inference="protein motif:Pfam:PF03372" /note="HMMPfam hit to PF03372,Endonuclease/Exonuclease/phosphatase fa, score 5.2e-47" gene 234599..236137 /locus_tag="Cj0256" /db_xref="GeneID:904582" CDS 234599..236137 /locus_tag="Cj0256" /inference="protein motif:Pfam:PF00884" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0256, probable integral membrane protein, len: 512 aa; similar to hypothetical proteins e.g. YJDB_ECOLI (547 aa), fasta scores; opt: 646 z-score: 1169.8 E(): 0, 38.9% identity in 530 aa overlap. 34.1% identity to HP0022; Updated (2006) note: Pfam domain PF00884 Sulfatase identified within CDS. Also, five probable transmembrane helices predicted by TMHMM2.0. Product modified to more specific family member based on motif match. No specific characterisation has been carried out yet, so putative kept within product function. Literature search identified paper giving further clues to product function. Functional classification - Misc; PMID:11895937" /codon_start=1 /transl_table=11 /product="putative sulfatase family protein" /protein_id="YP_002343698.1" /db_xref="GI:218561919" /db_xref="GOA:Q0PBP9" /db_xref="InterPro:IPR000917" /db_xref="InterPro:IPR012549" /db_xref="UniProtKB/TrEMBL:Q0PBP9" /db_xref="GeneID:904582" /translation="MLRLTWFQFTFFNSLMIVLLNFNLFYFVYEKNTQNWLITFVFIV AYFALVHVICSLLFIKFFTKFFSILFIISSFLSVYFISFYGVLIDSDMMQNVVQTDIK EVKDLLNLKLILFVVLALLLVFYVVKVKIDYYGSFKSHIKIKIINIISGLIVVCAVLI PLSKTFLPFFRNYNEIRMYNTPFYQIYAVYRYYVRFVKAKPEFKTIANDAYRENNHTK KLLVLVVGETARAANYSLGGYTKNDTNFYTKKDNVVFFDNFSSCGTATAVSLPCMFSI SKRENYSSSEFQENAMDVLYKTGVDAVWFDNNSGGCKGVCDRLAYKQKLSSDLDENLL APFKEKLNHLSDQNIIVLHLQGSHGPTYYKRYPSEFKKFTPTCDTNELSKCDSEALIN TYDNTLLYTDYLLSEIIKLLKEQKSYESSLFYLSDHGESLGENGIYLHGMPYAIAPSY QTHIPAIFWSNDKNLMNLAKEYKGLKLSQDNLFSTLLGYFDVKTSVYEPEYDLLNPKL KANP" misc_feature order(234611..234679,234707..234775,234794..234862, 234920..234979,235040..235108) /locus_tag="Cj0256" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0256 by TMHMM2.0 at aa 5-27, 37-59, 66-88, 108-127 and 148-170" misc_feature 235247..236128 /locus_tag="Cj0256" /inference="protein motif:Pfam:PF00884" /note="HMMPfam hit to PF00884, Sulfatase, score 1.3e-98" gene 236134..236490 /gene="dgkA" /locus_tag="Cj0257" /db_xref="GeneID:904583" CDS 236134..236490 /gene="dgkA" /locus_tag="Cj0257" /EC_number="2.7.1.107" /inference="protein motif:Pfam:PF01219" /inference="protein motif:Prosite:PS01069" /note="Original (2000) note: Cj0257, dgkA, probale diacylglycerol kinase, len: 118 aa; similar to many e.g. KDGL_ECOLI diacylglycerol kinase (EC 2.7.1.107) (121 aa),fasta scores; opt: 263 z-score: 425.4 E(): 1.9e-16, 41.7% identity in 108 aa overlap. 38.7% identity to HP0700. Contains PS01069 Prokaryotic diacylglycerol kinase signature and Pfam match to entry PF01219 DAGK_prokar,Prokaryotic diacylglycerol kinase, score 114.40, E-value 2.2e-30; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Putative not added to product function. Functional classification -Synthesis and modification of macromolecules -Phospholipids; PMID:2984194, PMID:3015952" /codon_start=1 /transl_table=11 /product="diacylglycerol kinase" /protein_id="YP_002343699.1" /db_xref="GI:218561920" /db_xref="GOA:Q0PBP8" /db_xref="InterPro:IPR000829" /db_xref="UniProtKB/TrEMBL:Q0PBP8" /db_xref="GeneID:904583" /translation="MKPKYHFLNNARYALEGLFALFKNEMAFRIELCIIIPAIVFSFF LKISFLEHLLLISVLILILIVEALNSAIEACVDLITNEWHEKAKIAKDCASAAVFFSV LLALFVWGFILYNIYL" misc_feature 236134..236478 /gene="dgkA" /locus_tag="Cj0257" /inference="protein motif:Pfam:PF01219" /note="HMMPfam hit to PF01219, Prokaryotic diacylglycerol kinase, score 3.3e-32" misc_feature order(236209..236268,236287..236355,236413..236481) /gene="dgkA" /locus_tag="Cj0257" /inference="protein motif:TMHMM:2.0" /note="3 probable transmembrane helices predicted for Cj0257 by TMHMM2.0 at aa 26-45, 52-74 and 94-116" misc_feature 236329..236364 /gene="dgkA" /locus_tag="Cj0257" /inference="protein motif:Prosite:PS01069" /note="PS01069 Prokaryotic diacylglycerol kinase signature" gene 236487..236732 /locus_tag="Cj0258" /db_xref="GeneID:904584" CDS 236487..236732 /locus_tag="Cj0258" /inference="protein motif:Pfam:PF01022" /note="Original (2000) note: Cj0258, possible DNA binding protein, len: 81 aa; no Hp match. Contains probable helix-turn-helix motif at aa 35-56 (Score 1128, +3.03 SD); Updated (2006) note: Pfam domain PF01022 Bacterial regulatory protein, arsR family was identified within CDS. This was found by carrying out own Pfam search. Product modified to more specific family member due to motif match. No specific characterisation has been carried out yet, so putative kept within product function. Literature search identified paper with some additional information. Functional classification - Broad regulatory functions; PMID:15231810" /codon_start=1 /transl_table=11 /product="ArsR family regulatory protein" /protein_id="YP_002343700.1" /db_xref="GI:218561921" /db_xref="UniProtKB/TrEMBL:Q0PBP7" /db_xref="GeneID:904584" /translation="MKFENLIREILGKKRFELLKFLCENADENGFIMIKISDLEEKLH QSKPTIIATFKFLEEKKLFKRLKNGFYQLNIGDKNET" gene 236722..237729 /gene="pyrC" /locus_tag="Cj0259" /db_xref="GeneID:904585" CDS 236722..237729 /gene="pyrC" /locus_tag="Cj0259" /EC_number="3.5.2.3" /inference="protein motif:Prosite:PS00482" /inference="protein motif:Prosite:PS00483" /note="catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis" /codon_start=1 /transl_table=11 /product="dihydroorotase" /protein_id="YP_002343701.1" /db_xref="GI:218561922" /db_xref="GOA:Q0PBP6" /db_xref="InterPro:IPR002195" /db_xref="InterPro:IPR004721" /db_xref="InterPro:IPR006992" /db_xref="UniProtKB/TrEMBL:Q0PBP6" /db_xref="GeneID:904585" /translation="MKLKNPLDMHLHLRDNQMLELIAPLSARDFCAAVIMPNLIPPLC NLEDLKAYKMRILKACKDENFTPLMTLFFKNYDEKFLYSAKDEIFGIKLYPAGITTNS NGGVSSFDIEYLKPTLEAMSDLNIPLLVHGETNDFVMDRESNFAKIYEKLAKHFPRLK IVMEHITTKTLCELLKDYENLYATITLHHLIITLDDVIGGKMNPHLFCKPIAKRYEDK EALCELAFSGYEKVMFGSDSAPHPKDTKECCGCAAGVFSAPVILPVLAELFKQNSSEE NLQKFLSDNTCKIYDLKFKEDKILTLEEKEWQVPNVYEDKYNQVVPYMAGEILKFQLK H" misc_feature 236725..237726 /gene="pyrC" /locus_tag="Cj0259" /inference="protein motif:Pfam:PF01979" /note="HMMPfam hit to PF01979, Amidohydrolase family,score 1.7e-60" misc_feature 236743..236769 /gene="pyrC" /locus_tag="Cj0259" /inference="protein motif:Prosite:PS00482" /note="PS00482 Dihydroorotase signature 1" misc_feature 237424..237459 /gene="pyrC" /locus_tag="Cj0259" /inference="protein motif:Prosite:PS00483" /note="PS00483 Dihydroorotase signature 2" gene complement(237761..237976) /locus_tag="Cj0260c" /db_xref="GeneID:904586" CDS complement(237761..237976) /locus_tag="Cj0260c" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0260c, unknown, len: 71 aa; no Hp match, very hydrophobic; Updated (2006) note: Two probable transmembrane helices identified by TMHMM2.0. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="small hydrophobic protein" /protein_id="YP_002343702.1" /db_xref="GI:218561923" /db_xref="UniProtKB/TrEMBL:Q0PBP5" /db_xref="GeneID:904586" /translation="MVKNLIIKFGRLILDAIAVISFVVALLYSLFMMFSIGFLAGLLS LIVSFIALFLSFFCNLSCYRYQRCSCK" gene complement(238032..238751) /locus_tag="Cj0261c" /db_xref="GeneID:904587" CDS complement(238032..238751) /locus_tag="Cj0261c" /inference="protein motif:Pfam:PF08241" /inference="protein motif:Pfam:PF08242" /inference="protein motif:Prosite:PS50193" /note="Original (2000) note: Cj0261c, unknown, len: 239 aa; some similarity in N-terminus to YC73_HAEIN hypothetical protein HI1273 (268 aa), fasta scores; opt: 208 z-score: 260.9 E(): 2.8e-07, 29.0% identity in 176 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF08241 and PF08242 Methyltransferase domains were identified within CDS. ProfileScan also identified PS50193 SAM_BIND domain. Members from methyltransferase family are SAM dependent methyltransferases. This was found by carrying out own Pfam search. Product modified to more specific family member due to motif match. No specific characterisation has been carried out yet, so putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative SAM-dependent methyltransferase" /protein_id="YP_002343703.1" /db_xref="GI:218561924" /db_xref="GOA:Q0PBP4" /db_xref="InterPro:IPR013217" /db_xref="UniProtKB/TrEMBL:Q0PBP4" /db_xref="GeneID:904587" /translation="MNLWDKKAKTYARYQNTLNTIQKQTFEYLQNLKISFQDKSIIDI GCGTGVWTLHLAKEAKEILALDSANAMLEILQEDAKKLNLNNIKCKNLSFETWMQNNP NVKFDLAFLSMSPALQNEKDYTNFLNLAKIKIYLGWADYRKSDFLDPIFKYFNTEFKG FYKKDLENYLLEKNIFFHKIVFDETRKVQRTKEEAIENALWHLSMNKITASKETVSSF VENNITETIESKIKLLIINNL" repeat_region complement(238818..239964) /note="repeat 1: identical to 147606..148684 and 1492913..1493990 (approximate numbers)" gene complement(238832..240829) /locus_tag="Cj0262c" /db_xref="GeneID:904377" CDS complement(238832..240829) /locus_tag="Cj0262c" /inference="protein motif:Pfam:PF00015" /inference="protein motif:Pfam:PF00672" /inference="protein motif:Pfam:PF02743" /inference="protein motif:Pfam:PF05581" /note="Original (2000) note: Cj0262c, probable methyl-accepting chemotaxis signal transduction protein,len: 665 aa; similar to many e.g. TR:O32443 (EMBL:D86947) Pseudomonas aeruginosa chemotactic transducer (629 aa),fasta scores; opt: 283 z-score: 635.0 E(): 4.1e-28, 25.3% identity in 667 aa overlap, and MCP1_ECOLI methyl-accepting chemotaxis protein I (551 aa), fasta scores; opt: 280 z-score: 519.1 E(): 1.2e-21. 29.1% identity in 302 aa overlap. No Hp ortholog. C-terminus contains repeat1, and is identical to the other repeat 1-containing genes Cj0262c and Cj1564. Contains N-terminal signal sequence and transmembrane anchor around aa 300. Also contains Pfam match to entry PF00015 MCPsignal,Methyl-accepting chemotaxis protein (MCP) signaling domain, score 110.60, E-value 4.1e-30; Updated (2006) note: Pfam motifs PF05581 Vibrio chemotaxis protein N terminus, PF02743 Cache domain and PF00672 HAMP domain were identified within CDS. Further support given to product function. Literature search identified supporting papers giving further clues to product function. No specific characterisation with acceptable identity score has been carried out yet. Putative kept within product function. Functional classification - Chemotaxis and mobility; PMID:14985343, PMID:15066034" /codon_start=1 /transl_table=11 /product="putative methyl-accepting chemotaxis signal transduction protein" /protein_id="YP_002343704.1" /db_xref="GI:218561925" /db_xref="GOA:Q0PBP3" /db_xref="InterPro:IPR003660" /db_xref="InterPro:IPR004010" /db_xref="InterPro:IPR004089" /db_xref="InterPro:IPR008762" /db_xref="UniProtKB/TrEMBL:Q0PBP3" /db_xref="GeneID:904377" /translation="MQSINSGKSVGISAKLTLWVGILVVLILAITSAISYFDSRNNTY ELLKDTQLKTMQDVDAFFKSYAMSKRNGIQILANELTNRPDMSDEELINLIKVIKKVN DYDLVYVGFDNTGKNYQSDDQILDLSKGYDTKNRPWYKAAKEAKKLIVTEPYKSAASG EVGLTYAAPFYDRNGNFRGVVGGDYDLANFSTNVLTVGKSDNTFTEVLDSEGTILFND EVAKILTKTELSINIANAIKANPALIDPRNQDTLFTAKDHQGVDYAIMCNSAFNPLFR ICTITENKVYTEAVNSILMKQVIVGIIAIIIALILIRFLISRSLSPLAAIQTGLTSFF DFINYKTKNVSTIEVKSNDEFGQISNAINENILATKRGLEQDNQAVKESVQTVSVVEG GNLTARITANPRNPQLIELKNVLNKLLDVLQARVGSDMNAIHKIFEEYKSLDFRNKLE NASGSVELTTNALGDEIVKMLKQSSDFANALANESGKLQTAVQSLTTSSNSQAQSLEE TAAALEEITSSMQNVSVKTSDVITQSEEIKNVTGIIGDIADQINLLALNAAIEAARAG EHGRGFAVVADEVRKLAERTQKSLSEIEANTNLLVQSINDMAESIKEQTAGITQINDS VAQIDQTTKDNVEIANESAIISSTVSDIANNILEDVKKKRF" sig_peptide complement(238832..238930) /locus_tag="Cj0262c" /note="Signal peptide predicted for signalp2embl_unknown_000126_238832_240829 by SignalP 2.0 HMM (Signal peptide probability 0.942) with cleavage site probability 0.410 between residues 33 and 34" misc_feature complement(238838..239332) /locus_tag="Cj0262c" /inference="protein motif:Pfam:PF00015" /note="HMMPfam hit to PF00015, Methyl-accepting chemotaxis protein (MCP) s, score 6.4e-21" misc_feature complement(239717..239941) /locus_tag="Cj0262c" /inference="protein motif:Pfam:PF00672" /note="HMMPfam hit to PF00672, HAMP domain, score 0.0012" misc_feature complement(240146..240382) /locus_tag="Cj0262c" /inference="protein motif:Pfam:PF02743" /note="HMMPfam hit to PF02743, Cache domain, score 0.00011" misc_feature complement(240491..240802) /locus_tag="Cj0262c" /inference="protein motif:Pfam:PF05581" /note="HMMPfam hit to PF05581, Vibrio chemotaxis protein N terminus, score 4.3e-68" gene 241022..241897 /locus_tag="Cj0263" /db_xref="GeneID:904588" CDS 241022..241897 /locus_tag="Cj0263" /inference="protein motif:Pfam:PF02535" /inference="protein motif:Prosite:PS00107" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0263, probable integral membrane protein, len: 291 aa; similar to hypothetical proteins e.g. YGIE_ECOLI (257 aa), fasta scores; opt: 498 z-score: 952.9 E(): 0, 40.0% identity in 280 aa overlap and GUFA_MYXXA (254 aa), fasta scores; opt: 252 z-score: 298.8 E(): 2.2e-09, 26.3% identity in 285 aa overlap. No Hp match. Contains PS00107 Protein kinases ATP-binding region signature; Updated (2006) note: Pfam domain PF02535 ZIP Zinc transporter was identified within CDS. Eight probable transmembrane helices predicted by TMHMM2.0. Product modified to more specific family member due to motif match. Characterised within Escherichia coli with acceptable identity score. Thus, putative not added. Functional classification - Transport/binding proteins -Other; PMID:11790762, PMID:15716430" /codon_start=1 /transl_table=11 /product="zinc transporter ZupT" /protein_id="YP_002343705.1" /db_xref="GI:218561926" /db_xref="GOA:Q9PIN2" /db_xref="InterPro:IPR003689" /db_xref="UniProtKB/Swiss-Prot:Q9PIN2" /db_xref="GeneID:904588" /translation="MQFTFEQIFIAMLLTLFAGFSTAIGSIIAFFSRKDDLRVLSLGL GFSAGVMIYISFMEILPTALKDFKNHYDSHWAELLGLACFFGGILISLLIDKLIPEDV NPHEPKEDLSELKICPLPQKGQNPPKFHPGEKLHQINTKALKRTGIFTALAIAIHNFP EGFATFISSLDNLTLGIAIAIAVAIHNIPEGLAVSLPIYHATGDKKKAFIYSALSGFA EPLGAFVGALILLPFIGDLTLAISFAVIAGIMVFISLDELLPAAKTYDKAHDSLYGLI AGMAIMALSLNLLGQ" sig_peptide 241022..241117 /locus_tag="Cj0263" /note="Signal peptide predicted for zupT by SignalP 2.0 HMM (Signal peptide probability 0.895) with cleavage site probability 0.305 between residues 32 and 33" misc_feature 241046..241879 /locus_tag="Cj0263" /inference="protein motif:Pfam:PF02535" /note="HMMPfam hit to PF02535, ZIP Zinc transporter, score 5.8e-38" misc_feature order(241049..241117,241136..241201,241244..241303, 241463..241531,241541..241609,241646..241714, 241730..241798,241832..241891) /locus_tag="Cj0263" /inference="protein motif:TMHMM:2.0" /note="8 probable transmembrane helices predicted for Cj0263 by TMHMM2.0 at aa 10-32, 39-60, 75-94, 148-170,174-196, 209-231, 237-259 and 271-290" misc_feature 241145..241216 /locus_tag="Cj0263" /inference="protein motif:Prosite:PS00107" /note="PS00107 Protein kinases ATP-binding region signature" gene complement(241921..244437) /locus_tag="Cj0264c" /db_xref="GeneID:904589" CDS complement(241921..244437) /locus_tag="Cj0264c" /inference="protein motif:Pfam:PF00384" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00932" /note="Original (2000) note: Cj0264c, probable molybdopterin-containing oxidoreductase, len: 838 aa; highly similar to many e.g. DMSA_RHOSH dimethyl sulfoxide reductase precursor (822 aa), fasta scores; opt: 1343 z-score: 2990.1 E(): 0, 46.8% identity in 842 aa overlap,and BISC_ECOLI biotin sulfoxide reductase 1 (739 aa),fasta scores; opt: 1263 z-score: 2612.9 E(): 0, 46.7% identity in 766 aa overlap. 40.9% identity to HP0407. Contains PS00017 ATP/GTP-binding site motif A (P-loop),PS00932 Prokaryotic molybdopterin oxidoreductases signature 3, Pfam match to entry PF00384 molybdopterin,Prokaryotic molybdopterin oxidoreductases, score 110.50,E-value 9.4e-35 and N-terminal signal sequence; Updated (2006) note: Characterisation work in more than one species with acceptable identity scores. Characterisation work within Campylobacter jejuni shows that Cj0264c is responsible for both trimethylamine-N-oxide (TMAO) and dimethyl sulfoxide (DMSO) reduction. Putative not added to product function. Functional classification - Misc; PMID:12107136, PMID:11004177, PMID:8645727" /codon_start=1 /transl_table=11 /product="molybdopterin containing oxidoreductase" /protein_id="YP_002343706.1" /db_xref="GI:218561927" /db_xref="GOA:Q0PBP1" /db_xref="InterPro:IPR006655" /db_xref="InterPro:IPR006656" /db_xref="InterPro:IPR006657" /db_xref="InterPro:IPR009010" /db_xref="UniProtKB/TrEMBL:Q0PBP1" /db_xref="GeneID:904589" /translation="MLDRRKFLKIGASLSALPLIPSLSAGKTVEASKVSLGLVKNGEV ITAAHWGILKLTIKDGKIVKSEPWEKVTKMDNPLQHYTADMVYKSRVKYPYVRKSYLE NPDNPKPELRGKDEFVRVSYDEAIKLIAKELKKTRDSKGASAIFGGSYGWKSSGNMQN SRILLHRFLNVTGGFVGATGDYSTGASQVIMPYVVGSIEVYEQQTSWENILSDSKYVV IWGADPLSTLRIAWTSNEQRGLAYFEKLKDSKIKVICIDPVKTTTAKFLNAKWIAPRP NTDVALMMGMASHLIAKKKVNYEFLDTYTTGFDKFKDYLEGKEDGVKKDTKWASKICG IDEKTIKNLAETFYDNSTMIMSGWGMQRAHHGEQPHWMLVTLCAMLGQIGTKGGGFGL SYHYSNGGVPTCKGGVIGGMTAGSLGIWKNGKFKGLSKAEASSEGAEWLQNAASYSFP VARIADALLHPGKTIDHNGAKITYPDIDFIYWVGGNPLVHHQNTNTNVKAWRKPRTVV VNEIYWTPTAKMADIVMPVTSSYERDDITMTGDYSNMHIAPMKQAVEPVGESKDDYVI FSDICKIYGKDVFNAYTENGKKAKDFIKEYYNSALKQTQSFGEAFATPMPSFEEFWAK NEPITFEPTAESLEWTRFSEFIEDPILNALGTDSGLIEIYSETIKNYNYDDCKAHPTW FEPIEWLGNASKEAPFHLLTNHPRDRLHSQLCHTSLRDTYAIKDREPILINSKDAKKL GIKNGDVVRVFNKRGEVLAGAVVSDEIMQGVVRLCEGAWYDPNENGLCKCGNANVLTM DIPTSKLANGNISHTGLVNIEKFKGELPKLTAFSAPKGAN" sig_peptide complement(241921..242013) /locus_tag="Cj0264c" /note="Signal peptide predicted for signalp2embl_unknown_000127_241921_244437 by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.964 between residues 31 and 32" misc_feature complement(241993..242346) /locus_tag="Cj0264c" /inference="protein motif:Pfam:PF01568" /note="HMMPfam hit to PF01568, Molydopterin dinucleotide binding dom, score 5.6e-41" misc_feature complement(242146..242229) /locus_tag="Cj0264c" /inference="protein motif:Prosite:PS00932" /note="PS00932 Prokaryotic molybdopterin oxidoreductases signature 3" misc_feature complement(242719..244170) /locus_tag="Cj0264c" /inference="protein motif:Pfam:PF00384" /note="HMMPfam hit to PF00384, Molybdopterin oxidoreductase, score 3.2e-120" misc_feature complement(243046..243069) /locus_tag="Cj0264c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(244448..245023) /locus_tag="Cj0265c" /db_xref="GeneID:904590" CDS complement(244448..245023) /locus_tag="Cj0265c" /inference="protein motif:Prosite:PS00190" /note="Original (2000) note: Cj0265c, probable cytochrome C-type haem-binding periplasmic protein, len: 191 aa; possibly part of electron-transport chain for oxidoreductase Cj0264c. Similar to C-terminus of many e.g. YECK_ECOLI probable cytochrome C-TYPE protein in bisZ-cutC intergenic region (366 aa), fasta scores; opt: 208 z-score: 216.4 E(): 8.5e-05, 27.0% identity in 163 aa overlap, and TORC_ECOLI cytochrome C-type protein torC (390 aa), fasta scores; opt: 264 z-score: 216.0 E(): 8.9e-05, 26.4% identity in 178 aa overlap. No Hp match. Contains N-terminal signal sequence and PS00190 Cytochrome c family heme-binding site signature; Updated (2006) note: Characterised within Escherichia coli, however, identity score was marginal. Putative kept within product function. Functional classification - Energy metabolism - Electron transport; PMID:11562502, PMID:11056172" /codon_start=1 /transl_table=11 /product="putative cytochrome C-type haem-binding periplasmic protein" /protein_id="YP_002343707.1" /db_xref="GI:218561928" /db_xref="GOA:Q0PBP0" /db_xref="UniProtKB/TrEMBL:Q0PBP0" /db_xref="GeneID:904590" /translation="MKKIFISFVVLATCLWAKNTAYTDEVVSLYLNKDDTKVIGRLLP TNPFEVLKSENNRVLLKIDGYVNPKAPSVIYFNDSQRIIVAAFSKNTKLNFSQRITGK NGKWDKVSLEIWADKKEFVKDNKEMLNRAKELFVNNCGICHAIHKEKEFTANAWPAIF RSMADRTGIDKKDRWLVIEYLQKNAKDFKTK" sig_peptide complement(244448..244516) /locus_tag="Cj0265c" /note="Signal peptide predicted for signalp2embl_unknown_000128_244448_245023 by SignalP 2.0 HMM (Signal peptide probability 0.978) with cleavage site probability 0.759 between residues 23 and 24" misc_feature complement(244592..244609) /locus_tag="Cj0265c" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" gene complement(245504..246013) /locus_tag="Cj0266c" /db_xref="GeneID:904591" CDS complement(245504..246013) /locus_tag="Cj0266c" /inference="protein motif:Prosite:PS00430" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0266c, probable integral membrane protein, len: 169 aa; no Hp match; Updated (2006) note: Two probable transmembrane helices identified by TMHMM2.0. Prosite PS00430 TONB_DEPENDENT_REC_1, TonB box, N-terminal also identified. No specific characterisation has been carried out yet. Putative kept within product function. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343708.1" /db_xref="GI:218561929" /db_xref="InterPro:IPR010916" /db_xref="UniProtKB/TrEMBL:Q0PBN9" /db_xref="GeneID:904591" /translation="MHFTIFHIIAFIILLICFALICILIFLKVKQKEMALISYTIATI FTALLIYSIFLTINQFTTQADLSKLTYTRDLRHESVIVSGKVQNLTKFEIKKCYLILS ILNQQQVGGEIFNDKNIRNAKMQNTSVSYTIEIIDTLPGNTYKEFRASVPFPPTFNNP EFYHTLKCI" sig_peptide complement(245504..245596) /locus_tag="Cj0266c" /note="Signal peptide predicted for signalp2embl_unknown_000129_245504_246013 by SignalP 2.0 HMM (Signal peptide probability 0.974) with cleavage site probability 0.413 between residues 31 and 32" misc_feature complement(245759..246013) /locus_tag="Cj0266c" /inference="protein motif:Prosite:PS00430" /note="PS00430 TonB-dependent receptor proteins signature 1" gene complement(246013..246543) /locus_tag="Cj0267c" /db_xref="GeneID:904592" CDS complement(246013..246543) /locus_tag="Cj0267c" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0267c, probable integral membrane protein, len: 176 aa; no Hp match; Updated (2006) note: Two probable transmembrane helices identified by TMHMM2.0. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343709.1" /db_xref="GI:218561930" /db_xref="UniProtKB/TrEMBL:Q0PBN8" /db_xref="GeneID:904592" /translation="MEKLREIVLFYTTHLYLVDYMLILLVFFLFTCVLLLCVFLRHRP IAALFIIAFDIIICFLVYIYGYKLIDNEVRTRKIAITDQKMIQSSNDLIVDFNITNNS KNNFKECKITAKIFADKIPNDNIIEEYKKKFIPFRQKSREIKDLKKNATQVQRIAFEN FNYENNYTIRLVSECF" gene complement(246555..247643) /locus_tag="Cj0268c" /db_xref="GeneID:904593" CDS complement(246555..247643) /locus_tag="Cj0268c" /inference="protein motif:Pfam:PF01145" /note="Original (2000) note: Cj0268c, probable transmembrane protein, len: 362 aa; 55.9% identity to HP0248. Contains one transmembrane domain around aa 60; Updated (2006) note: Pfam domain PF01145 SPFH domain / Band was identified within CDS. FPrintScan PR00679 Prohibitin was also identified. The FPrintScan identified is a child of the Pfam protein. No specific characherisation with acceptable identity scores have been carried out yet. Putative kept within product function. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative transmembrane protein" /protein_id="YP_002343710.1" /db_xref="GI:218561931" /db_xref="GOA:Q0PBN7" /db_xref="InterPro:IPR000163" /db_xref="InterPro:IPR001107" /db_xref="UniProtKB/TrEMBL:Q0PBN7" /db_xref="GeneID:904593" /translation="MPADLNDYFNKKNGNSNNNGNNNRQNFNFKAPEFNFKGFGKFSP FVYGVIIIILFLIVAKPFMVINSGEMGIKSTTGKYDPNPLEPGLHFFLPFVQKITIID TRVRQINYASIEGSNENLSSGSGVINKNSISVLDSRGLPVSIDVTVQYRLNPLQVPQT IATWSLNWENKIIDPVVRDVVRSVVGKYTAEELPTNRNTIATQIEEGIRKTIEAQPNE PVELRAVQLREIILPSKVKEQIERVQIAKQEAERTKYEVERANQEALKKAALAEGEAN ATIISAKGKAMAVKIEADAQAYSNKEIANSLNTPLLNLKQIETQKEFNEALKVNQDAK IFLTPGGAVPNIWVDTKDAKKQSAANMN" misc_feature complement(246852..247460) /locus_tag="Cj0268c" /inference="protein motif:Pfam:PF01145" /note="HMMPfam hit to PF01145, SPFH domain / Band, score 2.3e-37" misc_feature complement(247446..247514) /locus_tag="Cj0268c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0268c by TMHMM2.0 at aa 44-66" gene complement(247656..248570) /gene="ilvE" /locus_tag="Cj0269c" /db_xref="GeneID:904594" CDS complement(247656..248570) /gene="ilvE" /locus_tag="Cj0269c" /EC_number="2.6.1.42" /inference="protein motif:Pfam:PF01063" /note="catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids" /codon_start=1 /transl_table=11 /product="branched-chain amino acid aminotransferase" /protein_id="YP_002343711.1" /db_xref="GI:218561932" /db_xref="GOA:Q0PBN6" /db_xref="InterPro:IPR001544" /db_xref="InterPro:IPR005785" /db_xref="UniProtKB/TrEMBL:Q0PBN6" /db_xref="GeneID:904594" /translation="MISADKIWMDGKLVDFKDATLHFLTHSLHYGNAVFEGTRAYKTD KGLAIFRLEDHTKRLLESAKITLLNCPFSQKELENAQIELLKANNFKSNVYIRPLIFL GDGVMGLYHIKAPVRVGIAAWEWGAYLGEEGLEKGIKVKISSFARNSVKSCMGKAKAS ANYLNSQIAKFEAIEAGYEEALMLDEEGFIAEGTGECFFIVKDGVLITPPNDFSLKSI TQDTVLKIAHDLGITVLRQRISRDEVYTADEAFFTGTAAEITPINNIDARIIGNGLRG SVTKKLQDAYFDVVYGRNEKYASMLTYI" misc_feature complement(247710..248543) /gene="ilvE" /locus_tag="Cj0269c" /inference="protein motif:Pfam:PF01063" /note="HMMPfam hit to PF01063, Aminotransferase class IV,score 6.2e-88" gene 248747..248953 /locus_tag="Cj0270" /db_xref="GeneID:904595" CDS 248747..248953 /locus_tag="Cj0270" /EC_number="5.3.2.-" /inference="protein motif:Pfam:PF01361" /note="Original (2000) note: Cj0270, possible isomerase,len: 68 aa; some similarity hypothetical proteins and to to e.g. DMPI_PSESP 4-oxalocrotonate tautomerase (EC 5.3.2.-) ( (62 aa), fasta scores; opt: 91 z-score: 182.5 E(): 0.0066, 28.0% identity in 50 aa overlap, and XYLH_PSEPU 4-oxalocrotonate tautomerase (62 aa), fasta scores; opt: 86 z-score: 164.7 E(): 0.064, 25.8% identity in 62 aa overlap. No Hp ortholog, but 37.3% identity to HP0924. Also similar to Cj1255 (37.7% identity in 69 aa overlap); Updated (2006) note: Pfam domain PF01361 Tautomerase enzyme was identified within CDS. Product modified to more specific family member due to motif match. Some characterisation has been carried out within Pseudomonas species, however, identity scores were marginal. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative tautomerase family protein" /protein_id="YP_002343712.1" /db_xref="GI:218561933" /db_xref="GOA:Q9PIM5" /db_xref="InterPro:IPR004370" /db_xref="UniProtKB/Swiss-Prot:Q9PIM5" /db_xref="GeneID:904595" /translation="MPLVNIKLAKPSLSKEQKAELIADITELLSTKYNKSKERVVVVL EDVENYDIGFGGESVEAIKAKASK" misc_feature 248750..248932 /locus_tag="Cj0270" /inference="protein motif:Pfam:PF01361" /note="HMMPfam hit to PF01361, Tautomerase enzyme, score 1.4e-21" gene 248950..249405 /locus_tag="Cj0271" /db_xref="GeneID:904596" CDS 248950..249405 /locus_tag="Cj0271" /inference="protein motif:Pfam:PF00578" /note="Original (2000) note: Cj0271, bacterioferritin comigratory protein homolog, len: 151 aa; similar to many e.g. BCP_ECOLI bacterioferritin comigratory protein (156 aa), fasta scores; opt: 390 z-score: 675.8 E(): 2.2e-30,39.6% identity in 149 aa overlap. 57.0% identity to HP0136. Contains Pfam match to entry PF00578 AhpC-TSA,AhpC/TSA family, score 146.30, E-value 5.4e-40; Updated (2006) note: Some characterisation work within Escherichia coli shows Cj0271 to be putative peroxiredoxin (EC.1.11.1.15), bcp. Literature search also identified work within Helicobacter pylori. Product function kept the same. Functional classification - Misc; PMID:15618175, PMID:12576586, PMID:14506251" /codon_start=1 /transl_table=11 /product="bacterioferritin comigratory protein homolog" /protein_id="YP_002343713.1" /db_xref="GI:218561934" /db_xref="GOA:Q0PBN4" /db_xref="InterPro:IPR000866" /db_xref="InterPro:IPR012335" /db_xref="UniProtKB/TrEMBL:Q0PBN4" /db_xref="GeneID:904596" /translation="MSLNIGDKAPQFELLNQDGVKIALKDFIGKKVILYFYPKDNTPG CTTEACDFSANYDKFGGKNAVIIGISPDSVASHEKFISKFDLKHILLSDSEKEVAKAY GALGLKKNYGKEYEGLIRSTFVIDETGKIAQIYSNVRVKDHALKVLESL" misc_feature 248962..249387 /locus_tag="Cj0271" /inference="protein motif:Pfam:PF00578" /note="HMMPfam hit to PF00578, AhpC/TSA family, score 4e-41" gene 249405..250496 /locus_tag="Cj0272" /db_xref="GeneID:904597" CDS 249405..250496 /locus_tag="Cj0272" /inference="protein motif:Pfam:PF02677" /note="Original (2000) note: Cj0272, unknown, len: 363 aa; similar to hypothetical proteins e.g. TR:O66919 (EMBL:) Aquifex aeolicus AQ_701 (413 aa), fasta scores; opt: 830 z-score: 1296.8 E(): 0, 48.0% identity in 254 aa overlap. 37.4% identity to HP0100; Updated (2006) note: Pfam PF02677 Uncharacterized BCR was present within CDS. Conserved added to product function. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343714.1" /db_xref="GI:218561935" /db_xref="InterPro:IPR003828" /db_xref="UniProtKB/TrEMBL:Q0PBN3" /db_xref="GeneID:904597" /translation="MLVHICCSVDSHYFIEELRKTYPDEKIIGYFYDPNIHPLSEYEL RFLDVKRSCDKLGIKLYKGEYEYEKWLNAVRGYEDEPEKGARCEICFDVRMGSSVKFA AKIGEKKLTTTLLTSPKKDLEQLKNALQKECEPYGVEFLAPDFRKNGGTQRQFALAKK EMLYHQNYCGCIYGLKKQKQDKNFIDELMSSVNKQILPVSIEARIALYKKVVLWEKKG IKFEILREKFLNYRLLSALIKLDKKPVKSHILFYSHFKNAYTRFSLDEENLKQNLKEG FYRSTKDEIVLVEFWRFNAFFKNKWKNFEDFLKKPLSVQAEIKWRNKLFGTYNLSPII ILENILPSRYEVIAKSEIYHDNQEVLVKI" misc_feature 249405..250016 /locus_tag="Cj0272" /inference="protein motif:Pfam:PF02677" /note="HMMPfam hit to PF02677, Uncharacterized BCR,COG1636, score 2.6e-97" gene 250590..251030 /gene="fabZ" /locus_tag="Cj0273" /db_xref="GeneID:904598" CDS 250590..251030 /gene="fabZ" /locus_tag="Cj0273" /EC_number="4.2.1.-" /inference="protein motif:Pfam:PF03061" /note="in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP" /codon_start=1 /transl_table=11 /product="(3R)-hydroxymyristoyl-ACP dehydratase" /protein_id="YP_002343715.1" /db_xref="GI:218561936" /db_xref="GOA:Q9PIM2" /db_xref="InterPro:IPR010084" /db_xref="InterPro:IPR013114" /db_xref="UniProtKB/Swiss-Prot:Q9PIM2" /db_xref="GeneID:904598" /translation="MIDVMQIQEILPHRYPFLLVDKITELKVKEVVLGYKNISISDHV FMGHFPGHPIYPGVLILEGMAQTGGVLAFESMEDKVDPKSKVVYFTGIDGAKFRNPVR PGDRLDYEMSVVKNRGNMWIFKGQAFVDGNLVAEAELKAMIVDK" misc_feature 250725..250997 /gene="fabZ" /locus_tag="Cj0273" /inference="protein motif:Pfam:PF03061" /note="HMMPfam hit to PF03061, Thioesterase superfamily,score 2.4e-21" gene 251030..251821 /gene="lpxA" /locus_tag="Cj0274" /db_xref="GeneID:904599" CDS 251030..251821 /gene="lpxA" /locus_tag="Cj0274" /EC_number="2.3.1.129" /inference="protein motif:Pfam:PF00132" /inference="protein motif:Prosite:PS00101" /note="catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis" /codon_start=1 /transl_table=11 /product="UDP-N-acetylglucosamine acyltransferase" /protein_id="YP_002343716.1" /db_xref="GI:218561937" /db_xref="GOA:Q9PIM1" /db_xref="HSSP:P10440" /db_xref="InterPro:IPR001451" /db_xref="InterPro:IPR010137" /db_xref="UniProtKB/Swiss-Prot:Q9PIM1" /db_xref="GeneID:904599" /translation="MKKIHPSAVIEEGAQLGDDVVIEAYAYVSKDAKIGNNVVIKQGA RILSDTTIGDHSRVFSYAIVGDIPQDISYKEEQKSGVVIGKNATIREFATINSGTAKG DGFTRIGDNAFIMAYCHIAHDCLLGNNIILANNATLAGHVELGDFTVVGGLTPIHQFV KVGEGCMIAGASALSQDIVPFCLAEGNRASIRSLNLVGIRRRFDKDEVDRLSRAFKTL FRQGDLKENAKNLLENQESENVKKMCHFILETKRGIPVYRGKNNA" misc_feature 251048..251101 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 0.78" misc_feature 251120..251173 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 0.072" misc_feature 251174..251227 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 1.3" misc_feature 251267..251320 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 0.075" misc_feature 251342..251395 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 0.011" misc_feature 251414..251467 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 2.8" misc_feature 251423..251509 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Prosite:PS00101" /note="PS00101 Hexapeptide-repeat containing-transferases signature" misc_feature 251504..251557 /gene="lpxA" /locus_tag="Cj0274" /inference="protein motif:Pfam:PF00132" /note="HMMPfam hit to PF00132, Bacterial transferase hexapeptide (three rep, score 50" gene 251784..253037 /gene="clpX" /locus_tag="Cj0275" /db_xref="GeneID:904600" CDS 251784..253037 /gene="clpX" /locus_tag="Cj0275" /inference="protein motif:Prosite:PS00017" /note="binds and unfolds substrates as part of the ClpXP protease" /codon_start=1 /transl_table=11 /product="ATP-dependent protease ATP-binding subunit ClpX" /protein_id="YP_002343717.1" /db_xref="GI:218561938" /db_xref="GOA:Q9PIM0" /db_xref="HSSP:P43773" /db_xref="InterPro:IPR002078" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR004487" /db_xref="InterPro:IPR010603" /db_xref="InterPro:IPR013093" /db_xref="UniProtKB/Swiss-Prot:Q9PIM0" /db_xref="GeneID:904600" /translation="MEFLSIGVKIMPRKCSFCNEVENPQRRILANENDDAFICEYCVE GAYSIIYGEEKEFKEPKQSHNTEFKDITPKELKAYLDRYVIGQDRAKKVFSVGVYNHY KRLFKAELQDDDTELFKSNILLVGPTGSGKTLLAQTLAKFLDVPIAICDATSLTEAGY VGEDVENILTRLLQAADGDVQRAQKGIVFIDEIDKIARMSENRSITRDVSGEGVQQAL LKIIEGSLVNIPPRGGRKHPNQEFIQIDTSNILFVCGGAFDGLETILKRKLGDKVVGF FDDAKEENKALLEKIEPDDLVHFGLIPELIGRLHVIASLNELNEEDMVRILTEPKNAI IKQYQKLFAIDGVNLKFEEDALRAIAQLALERKTGARGLRSIIEEMMVDLMFELPEYK DYDIVITKEVVKDNAKALLIKRKIS" misc_feature 251826..251942 /gene="clpX" /locus_tag="Cj0275" /inference="protein motif:Pfam:PF06689" /note="HMMPfam hit to PF06689, ClpX C4-type zinc finger,score 3.2e-14" misc_feature 252132..252719 /gene="clpX" /locus_tag="Cj0275" /inference="protein motif:Pfam:PF07724" /note="HMMPfam hit to PF07724, ATPase family associated with various cell, score 2.7e-77" misc_feature 252144..252767 /gene="clpX" /locus_tag="Cj0275" /inference="protein motif:Pfam:PF00004" /note="HMMPfam hit to PF00004, ATPase family associated with various cell, score 1.1e-26" misc_feature 252159..252182 /gene="clpX" /locus_tag="Cj0275" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 252315..252362 /gene="clpX" /locus_tag="Cj0275" /inference="protein motif:Prosite:PS00676" /note="PS00676 Sigma-54 interaction domain ATP-binding region B signature" repeat_region 252478..252485 /note="G(8)" gene 253049..254089 /gene="mreB" /locus_tag="Cj0276" /db_xref="GeneID:904601" CDS 253049..254089 /gene="mreB" /locus_tag="Cj0276" /inference="protein motif:Pfam:PF06723" /inference="protein motif:Prosite:PS00017" /note="functions in MreBCD complex in some organisms" /codon_start=1 /transl_table=11 /product="rod shape-determining protein MreB" /protein_id="YP_002343718.1" /db_xref="GI:218561939" /db_xref="GOA:Q0PBM9" /db_xref="InterPro:IPR001023" /db_xref="InterPro:IPR004753" /db_xref="UniProtKB/TrEMBL:Q0PBM9" /db_xref="GeneID:904601" /translation="MILDQLIGFFSSDMGIDLGTANTLVLVKDKGIVINEPSVVAVER ERYDSKAKILAVGKEAKDMVGKTPGNIEAIRPMKDGVIADFDMTEKMIRYFIEKTHRR KSFLRPRIIISVPYGLTQVERKAVRESALSAGAREVFLIEEPMAAAIGASLPIQEPKG NLVVDIGGGTTEIGVISLGGLVISKSIRTAGDKLDMSIVNYVKEKYNLIIGERTGEEI KITIGSAIQLPKELSMVVKGRDQVSGLLSRIELTSEDVREAMREYLKEIADALKMVLE MMPPDLASDIVENGVVLTGGGALIRGLDKYLSEIVRLPVYIADEPLLAVAKGTGKALE EISLLQQLTNEE" misc_feature 253079..254071 /gene="mreB" /locus_tag="Cj0276" /inference="protein motif:Pfam:PF06723" /note="HMMPfam hit to PF06723, MreB/Mbl protein, score 6.5e-229" misc_feature 253226..253249 /gene="mreB" /locus_tag="Cj0276" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 254079..254828 /gene="mreC" /locus_tag="Cj0277" /db_xref="GeneID:904602" CDS 254079..254828 /gene="mreC" /locus_tag="Cj0277" /inference="protein motif:Pfam:PF04085" /note="in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall" /codon_start=1 /transl_table=11 /product="rod shape-determining protein MreC" /protein_id="YP_002343719.1" /db_xref="GI:218561940" /db_xref="GOA:Q0PBM8" /db_xref="InterPro:IPR007221" /db_xref="UniProtKB/TrEMBL:Q0PBM8" /db_xref="GeneID:904602" /translation="MKNKIFYVLVLAFLVFISFYYGGLIKQNVLRVNDFVIGNFYNIK DYLGEKISEHFNQANQIQQLKARNKELEDIAVKVTSFANQLNRILEDQNSTKYLPQVS LTRVISYVQLNDYKKLWLDWSKIPVGKNRGLIYQGYTAGIAINKNGRAMALLQGDDQC VFSVYIGKSKAPGLIQGEDGRIVVKFIPKWAKINTGDEILTSGLDNIFFSDIPVGIVN RVNDEDMYQSVEVKPYVKISIPAYLYVVDNL" misc_feature 254091..254150 /gene="mreC" /locus_tag="Cj0277" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0277 by TMHMM2.0 at aa 5-24" misc_feature 254388..254825 /gene="mreC" /locus_tag="Cj0277" /inference="protein motif:Pfam:PF04085" /note="HMMPfam hit to PF04085, rod shape-determining protein MreC, score 2.4e-43" gene 255089..258358 /gene="carB" /locus_tag="Cj0279" /db_xref="GeneID:904603" CDS 255089..258358 /gene="carB" /locus_tag="Cj0279" /EC_number="6.3.5.5" /inference="protein motif:Pfam:PF00289" /inference="protein motif:Prosite:PS00013" /inference="protein motif:Prosite:PS00866" /inference="protein motif:Prosite:PS00867" /note="four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity" /codon_start=1 /transl_table=11 /product="carbamoyl phosphate synthase large subunit" /protein_id="YP_002343720.1" /db_xref="GI:218561941" /db_xref="GOA:Q9PIL7" /db_xref="HSSP:P00968" /db_xref="InterPro:IPR005479" /db_xref="InterPro:IPR005480" /db_xref="InterPro:IPR005481" /db_xref="InterPro:IPR005483" /db_xref="InterPro:IPR006275" /db_xref="InterPro:IPR011607" /db_xref="InterPro:IPR011761" /db_xref="InterPro:IPR013816" /db_xref="InterPro:IPR013817" /db_xref="UniProtKB/Swiss-Prot:Q9PIL7" /db_xref="GeneID:904603" /translation="MPKRTDIKSILLIGSGPIVIGQACEFDYSGTQAAKTLKELGYRV VLINSNPATIMTDPEFADATYIEPITKESILSIIKKEKIDAILPTMGGQVALNVAMEV YESGLLGDVKFLGANPEAIKKGEDRQVFKECMKKIGMDLPKSMYAYNYDEALKAVDEI DFPLMIRASYTLGGAGSGVVYNMDEFKELTNTALALSPIHEILIEESLLGWKEYEMEV IRDRADNCIIVCSIENIDPMGVHTGDSITIAPALTLTDKEYQVMRNASFAILREIGVD TGGSNVQFAINPKNGRMIVIEMNPRVSRSSALASKATGYPIAKVATLLAVGFSLDEIK NDITGTPASFEPVIDYIVTKIPRFTFEKFPGANTTLGTAMKSVGEVMAIGRTFKESIQ KALCSLERSLSGFDRVKFEDRNDLVFKIRNANEKRLLYVAQAFREGFSVEELYELCKI DPWFLTQIKEIVDFEEQIDMDILNNKALLRKAKTMGFSDKMIALLVNLKDNLELSQND IYYVRMKQKIIAEFSEVDTCAGEFEALTPYLYSSINVSELTQSKNDAKDKKEKKVMII GGGPNRIGQGIEFDYACVHASFALKDMGIKTIMYNCNPETVSTDYDTSDILYFEPIDF EHLRAVIEREKPDGVIVHFGGQTPLKFAKRLSAFGAKIIGTSARVIDMAEDRKKFAEF ITKLGINQPKNSTATSVEEAVLKASDIGYPVLVRPSYVLGGRAMRVVNDEAELRLYMQ EAVDVSDKSPVLIDQFLDNATEIDVDAICDGKDVYVAGIMEHIEEAGIHSGDSACSLP PCNIDEKMQEFIAQKTADIALNLGVVGLLNIQFALHNNELYMIEVNPRASRTIPFVSK ATGIPLAKVATRVMWQGNLKEALKFYDTFKVVNFDTKILRPKTPKYMSVKEAVFPFAK LSGSDLELGPEMRSTGEVMGISKDFANSYAKSQIASFNHLPEQGVVFISLKDKDKKYT KKIAAEYVKLGFKLMATGGTCKEILESGFECELVHKISEGRPNVEDKLKNGEIHLVIN TSDSHSFKGDTKKIRENIIRFKIPYFTNLRSALAGAKSIKAIQSKSCLDVKSLQEWLK S" misc_feature 255104..255460 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Pfam:PF00289" /note="HMMPfam hit to PF00289, Carbamoyl-phosphate synthase L chain,, score 1.8e-45" misc_feature 255128..255160 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 255464..256168 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Pfam:PF02786" /note="HMMPfam hit to PF02786, Carbamoyl-phosphate synthase L chain,, score 2.3e-112" misc_feature 255572..255616 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Prosite:PS00866" /note="PS00866 Carbamoyl-phosphate synthase subdomain signature 1" misc_feature 255971..255994 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Prosite:PS00867" /note="PS00867 Carbamoyl-phosphate synthase subdomain signature 2" misc_feature 256334..256717 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Pfam:PF02787" /note="HMMPfam hit to PF02787, Carbamoyl-phosphate synthetase large c, score 2.8e-46" misc_feature 256763..257107 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Pfam:PF00289" /note="HMMPfam hit to PF00289, Carbamoyl-phosphate synthase L chain,, score 3.2e-19" misc_feature 257111..257764 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Pfam:PF02786" /note="HMMPfam hit to PF02786, Carbamoyl-phosphate synthase L chain,, score 8e-25" misc_feature 257219..257263 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Prosite:PS00866" /note="PS00866 Carbamoyl-phosphate synthase subdomain signature 1" misc_feature 257606..257629 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Prosite:PS00867" /note="PS00867 Carbamoyl-phosphate synthase subdomain signature 2" misc_feature 257999..258259 /gene="carB" /locus_tag="Cj0279" /inference="protein motif:Pfam:PF02142" /note="HMMPfam hit to PF02142, MGS-like domain, score 2.5e-28" gene 258355..258777 /locus_tag="Cj0280" /db_xref="GeneID:904604" CDS 258355..258777 /locus_tag="Cj0280" /note="Original (2000) note: Cj0280, unknown, len: 140 aa; 52.8% identity to HP0918. Functional classification -Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343721.1" /db_xref="GI:218561942" /db_xref="UniProtKB/TrEMBL:Q0PBM6" /db_xref="GeneID:904604" /translation="MIYLAQTDTTVGFLSKNLEEINALKGRDKNQPCLITSAKFCELK SLARIPKSFKNLVRRSKKTTFIYPNNQAIRIVKECKHANFLSKNGYFYSSSANKHGKE FDEEWARSVADIILDEKFFENIPSKILKLSKNKMIKIR" gene complement(258778..259755) /gene="tal" /locus_tag="Cj0281c" /db_xref="GeneID:904605" CDS complement(258778..259755) /gene="tal" /locus_tag="Cj0281c" /EC_number="2.2.1.2" /inference="protein motif:Pfam:PF00923" /inference="protein motif:Prosite:PS01054" /note="Important for the balance of metabolites in the pentose-phosphate pathway" /codon_start=1 /transl_table=11 /product="transaldolase" /protein_id="YP_002343722.1" /db_xref="GI:218561943" /db_xref="GOA:Q9PIL5" /db_xref="InterPro:IPR001585" /db_xref="InterPro:IPR004732" /db_xref="InterPro:IPR013785" /db_xref="UniProtKB/Swiss-Prot:Q9PIL5" /db_xref="GeneID:904605" /translation="MKNFSLWCDFIENSFLDNEFLNLLSHGINGATSNPAIFKNAILN SPIYKDKILKLKEKKTKDIYEELAISDIQKAADKLAPLFYQKNDGFISIEIDPRLHDN TTLSLGEAKRLYSAIGKENIMIKIPATKASYEVMYELMKNGISVNATLIFSLEQSQKC FEALNAGLVEFRKNNIALKEQNTRTPQAVISIFVSRFDRLLNPKAKEQNRIGILNANL AYNNIYSKNEPNIRALFASTGVKGDDLPKDYYIKELLFENSVNTAPLDAIEAFKGKMH FKKPLMNFEIYTELNQIISQSEREKACNDLLSDGLEQFCIAFEDILKAL" misc_feature complement(258781..259719) /gene="tal" /locus_tag="Cj0281c" /inference="protein motif:Pfam:PF00923" /note="HMMPfam hit to PF00923, Transaldolase, score 7e-34" misc_feature complement(259642..259668) /gene="tal" /locus_tag="Cj0281c" /inference="protein motif:Prosite:PS01054" /note="PS01054 Transaldolase signature 1" gene complement(259755..260378) /gene="serB" /locus_tag="Cj0282c" /db_xref="GeneID:904606" CDS complement(259755..260378) /gene="serB" /locus_tag="Cj0282c" /EC_number="3.1.3.3" /inference="protein motif:Pfam:PF00702" /note="Original (2000) note: Cj0282c, serB, possible phosphoserine phosphatase, len: 207 aa; similar to C-terminus of SERB_ECOLI phosphoserine phosphatase (EC 3.1.3.3) (322 aa), fasta scores; opt: 361 z-score: 572.4 E(): 1.3e-24, 34.3% identity in 204 aa overlap. 48.8% identity to HP0652; Updated (2006) note: Pfam domain PF00702 haloacid dehalogenase-like hydrolase were identified within CDS. TIGRFAM motif TIGR00338, serB phosphoserine phosphatase identified along with TIGR01488 HAD-SF-IB: HAD-superfamily hydrolase within CDS. Further support for product function. Characterised within Escherichia coli with acceptable identity scores, however, alignment was only partial. Putative kept in product function. Functional classification - Amino acid biosynthesis - Serine family; PMID:2997734" /codon_start=1 /transl_table=11 /product="putative phosphoserine phosphatase" /protein_id="YP_002343723.1" /db_xref="GI:218561944" /db_xref="GOA:Q0PBM4" /db_xref="InterPro:IPR004469" /db_xref="InterPro:IPR005834" /db_xref="InterPro:IPR006383" /db_xref="UniProtKB/TrEMBL:Q0PBM4" /db_xref="GeneID:904606" /translation="MIKLCVFDFDATLMDGETIDILATAHGKGNQTSEITRHAMTGEL DFFESLQKRVSFLKGMSYKKVLELSSTLPLMRGAHELIQYLKSKNIQIVIFSGGFHEG INPAMQKLGINLGFANYLHHKNDILTGLVGGEMMFSNSKGLMLQRLKSFLNLKTDEVM CVGDGANDLAMFNESGLKIAFCAKEILRSQADICIDIKDLKEIIKVI" misc_feature complement(259824..260375) /gene="serB" /locus_tag="Cj0282c" /inference="protein motif:Pfam:PF00702" /note="HMMPfam hit to PF00702, haloacid dehalogenase-like hydrolase, score 5.8e-18" gene complement(260378..260899) /gene="cheW" /locus_tag="Cj0283c" /db_xref="GeneID:904607" CDS complement(260378..260899) /gene="cheW" /locus_tag="Cj0283c" /inference="protein motif:Pfam:PF01584" /note="Original (2000) note: Cj0283c, cheW, probable chemotaxis protein, len: 173 aa; similar to many e.g. CHEW_ECOLI purine-binding chemotaxis protein (167 aa),fasta scores; opt: 236 z-score: 304.4 E(): 1.1e-09, 32.4% identity in 139 aa overlap. 51.4% identity to HP0391; Updated (2006) note: Pfam domain PF01584 CheW-like domain identified within CDS. Further support given to product function. Characterised within Escherichia coli with marginal identity score. Putative not added to product function. Functional classification - Chemotaxis and mobility; PMID:2068106, PMID:3510184" /codon_start=1 /transl_table=11 /product="chemotaxis protein" /protein_id="YP_002343724.1" /db_xref="GI:218561945" /db_xref="GOA:Q0PBM3" /db_xref="InterPro:IPR002545" /db_xref="UniProtKB/TrEMBL:Q0PBM3" /db_xref="GeneID:904607" /translation="MSNEKLEQILQKQQTQMAGPDVDQREDDIIQLVGFVVGDEEYAI PILNIQEIIKPIEYTRVPSVPDYVLGVFNMRGNVMPLIDLAQRFHLGSSKMTPQTRYI VLRGETNGTGVGGNAGFVIDRLTEAIKIHRNRIDPPPETLVKDKGMIYGIGKRDENIL TILKVEALLKREF" misc_feature complement(260381..260809) /gene="cheW" /locus_tag="Cj0283c" /inference="protein motif:Pfam:PF01584" /note="HMMPfam hit to PF01584, CheW-like domain, score 5.9e-30" gene complement(260904..263213) /gene="cheA" /locus_tag="Cj0284c" /db_xref="GeneID:904608" CDS complement(260904..263213) /gene="cheA" /locus_tag="Cj0284c" /EC_number="2.7.3.-" /inference="protein motif:Pfam:PF00072" /inference="protein motif:Pfam:PF00512" /note="Original (2000) note: Cj0284c, cheA, probable chemotaxis histidine kinase, len: 769 aa; similar to many e.g. CHEA_ECOLI chemotaxis protein cheA (EC 2.7.3.-) (654 aa), fasta scores; opt: 1022 z-score: 1416.0 E(): 0, 35.7% identity in 658 aa overlap. 64.6% identity to HP0392. Contains Pfam matches to entry PF00072 response_reg,Response regulator receiver domain, score 103.80, E-value 3.4e-27 and to entry PF00512 signal, Signal carboxyl-terminal domain, score -12.30, E-value 0.00013; Updated (2006) note: Characterised within Escherichia coli with marginal identity scores. Putative not added to product function. Functional classification -Chemotaxis and mobility; PMID:1938941, PMID:2068106" /codon_start=1 /transl_table=11 /product="chemotaxis histidine kinase" /protein_id="YP_002343725.1" /db_xref="GI:218561946" /db_xref="GOA:Q0PBM2" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR002545" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR004105" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR005829" /db_xref="InterPro:IPR008207" /db_xref="UniProtKB/TrEMBL:Q0PBM2" /db_xref="GeneID:904608" /translation="MEDMQEILEDFLVEAFELVEQIDHDLVELESNPEDLELLNRIFR VAHTVKGSSSFLNFDVLTKLTHHMEDVLNKARHGELKITPDIMDVVLESIDRMKTLLN SIRDNGNDTAIGMDIEPICARLTAISEGESPVVATDSNEKSIPQAELEAPKQEIATPE PEVDVNQLSDSEVEAEIERLLKVRKAEDQARRAQKKQTTNAAPKPTNNTANKPTESGE KKVPASGSNASSMDQTIRVEVKRLDHLMNLIGELVLGKNRLLKIYDDVEERYEGEKFL EELNQVVSQLSIIITDVQLAVMKTRMQPIAKVFNKFPRVVRDLSRELGKQIELEITGE ETELDKSIVEEIGDPIMHMIRNSCDHGVEDPATRAANGKPEKGIVQLKAYNEGNHIVV EITDDGKGLDPNGLKAKAIEKNLITEREADQMTDKEAFALIFKPGFSTAAKVTNVSGR GVGMDVVKTNIEKLNGVIEIDSELGKGSSFKLKIPLTLAIIQSLLVGTQEEFYAIPLA SVLETVRVPIDDIYTIEGKNVLRLRDEVLSLVRLSDVFGVKQVLESGDQTYVVVIGVA ESKLGIIVDTLVGQEEIVIKSMGDYLQNIQGIAGATIRGDGRVTLIIDVGAMMDMAKE IKVDIKAQLESSAKKPKEQPSDYKVLIVDDSKMDRTLMQKALEPLGVSLIEATNGVEA LNIIKSGEHDIDAMLIDIEMPRMDGYTLAGEIRKYSKYRNLPLIAVTSRTSKTDRLRG VEVGMTEYITKPYSPEYLENVVRKNLKLG" misc_feature complement(260907..261275) /gene="cheA" /locus_tag="Cj0284c" /inference="protein motif:Pfam:PF00072" /note="HMMPfam hit to PF00072, Response regulator receiver domain, score 4.4e-25" misc_feature complement(260925..261002) /gene="cheA" /locus_tag="Cj0284c" /inference="protein motif:Prosite:PS00217" /note="PS00217 Sugar transport proteins signature 2" misc_feature complement(261345..261740) /gene="cheA" /locus_tag="Cj0284c" /inference="protein motif:Pfam:PF01584" /note="HMMPfam hit to PF01584, CheW-like domain, score 1.8e-28" misc_feature complement(261753..262181) /gene="cheA" /locus_tag="Cj0284c" /inference="protein motif:Pfam:PF02518" /note="HMMPfam hit to PF02518, Histidine kinase-, DNA gyrase B-, and HS, score 3.2e-28" misc_feature complement(262314..262520) /gene="cheA" /locus_tag="Cj0284c" /inference="protein motif:Pfam:PF02895" /note="HMMPfam hit to PF02895, Signal transducing histidine kinase, hom, score 3.7e-24" misc_feature complement(262893..263198) /gene="cheA" /locus_tag="Cj0284c" /inference="protein motif:Pfam:PF01627" /note="HMMPfam hit to PF01627, Hpt domain, score 5.4e-17" gene complement(263217..264173) /gene="cheV" /locus_tag="Cj0285c" /db_xref="GeneID:904609" CDS complement(263217..264173) /gene="cheV" /locus_tag="Cj0285c" /EC_number="2.7.3.-" /inference="protein motif:Pfam:PF00072" /inference="protein motif:Pfam:PF01584" /note="Original (2000) note: Cj0285c, cheV, probable chemotaxis protein cheV, len: 318 aa; similar to e.g. CHEV_BACSU chemotaxis cheV protein (EC 2.7.3.-) (303 aa),fasta scores; opt: 414 z-score: 344.9 E(): 5.9e-12, 28.2% identity in 309 aa overlap. 50.8% identity to HP0393. Contains Pfam match to entry PF00072 response_reg,Response regulator receiver domain, score 50.70, E-value 3.1e-11; Updated (2006) note: Pfam domain PF01584 CheW-like domain identified within CDS. Further support given to product function. Characterised within Bacillus subtilis with marginal identity score. Putative not added to product function. Functional classification - Chemotaxis and mobility; PMID:8169223, PMID:8169224" /codon_start=1 /transl_table=11 /product="chemotaxis protein" /protein_id="YP_002343726.1" /db_xref="GI:218561947" /db_xref="GOA:Q0PBM1" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR002545" /db_xref="UniProtKB/TrEMBL:Q0PBM1" /db_xref="GeneID:904609" /translation="MFDENIVKTGSNEMELVDFRIFKQGHDKVYEGIYGVNVSKVREI IKIPSLTELPGVPDYIEGIFDLRGVVIPVVNLAKWMQITEPESTMLKPRVIITEFSNI LIGFIVHEAKRIRRINWKDIEPATFSTGSGALDKGKITGVTRIENDEVLLILDLESVV EDLGIYAPKTDIDFGKIEKFTGTALILDDSMTARKRVKEMMQQMGFQVVEAKDGVEGI NKLEELSQIYGESLNDTLKIIVSDVEMPQMDGFHFAARIKEDPRFKDIPIVFNSSLSN EFMNEKGVQEAGGEGYLVKFNASDFFNEIAKVIKKHQSQEQG" misc_feature complement(263235..263630) /gene="cheV" /locus_tag="Cj0285c" /inference="protein motif:Pfam:PF00072" /note="HMMPfam hit to PF00072, Response regulator receiver domain, score 4.1e-15" misc_feature complement(263682..264083) /gene="cheV" /locus_tag="Cj0285c" /inference="protein motif:Pfam:PF01584" /note="HMMPfam hit to PF01584, CheW-like domain, score 1.6e-28" gene complement(264166..264783) /locus_tag="Cj0286c" /db_xref="GeneID:904610" CDS complement(264166..264783) /locus_tag="Cj0286c" /note="Original (2000) note: Cj0286c, unknown, len: 205 aa; 28.4% identity to HP0394 (252 aa). Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343727.1" /db_xref="GI:218561948" /db_xref="UniProtKB/TrEMBL:Q0PBM0" /db_xref="GeneID:904610" /translation="MLIGEISATHEFAKPYIELLEELALKIEIIYLEGNHDFNLSCFF KRVKIFNLQEQPIKLNLHTSKGNNLVLNSAFIKLAHGDIFLPPLLQFTLKTLRNHYLL VFLNFLNIITRNFISNKILQNQNKKNLFYQIKDFENLAKKRYEKYENLGFWVCEGHYH QNHQINKENIKYLNLASFAYERSFFVVEYQQEIKFREQKLRGQNV" gene complement(264934..265419) /gene="greA" /locus_tag="Cj0287c" /db_xref="GeneID:904611" CDS complement(264934..265419) /gene="greA" /locus_tag="Cj0287c" /inference="protein motif:Pfam:PF01272" /inference="protein motif:Prosite:PS00829" /inference="protein motif:Prosite:PS00830" /note="necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus" /codon_start=1 /transl_table=11 /product="transcription elongation factor GreA" /protein_id="YP_002343728.1" /db_xref="GI:218561949" /db_xref="GOA:Q9PIK9" /db_xref="HSSP:P21346" /db_xref="InterPro:IPR001437" /db_xref="InterPro:IPR006359" /db_xref="UniProtKB/Swiss-Prot:Q9PIK9" /db_xref="GeneID:904611" /translation="MQKEPMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKE NAEYHAAREKQALIESRIAELSDLLARAQVIDPSSYEHDSVKFGSSVVIMDLDTEKES KYTLVGICEGNLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSINYEPLK F" misc_feature complement(264952..265182) /gene="greA" /locus_tag="Cj0287c" /inference="protein motif:Pfam:PF01272" /note="HMMPfam hit to PF01272, Prokaryotic transcription elongation fact, score 3.2e-27" misc_feature complement(265012..265062) /gene="greA" /locus_tag="Cj0287c" /inference="protein motif:Prosite:PS00830" /note="PS00830 Prokaryotic transcription elongation factors signature 2" misc_feature complement(265198..265419) /gene="greA" /locus_tag="Cj0287c" /inference="protein motif:Pfam:PF03449" /note="HMMPfam hit to PF03449, Prokaryotic transcription elongation fact, score 1.4e-37" misc_feature complement(265276..265401) /gene="greA" /locus_tag="Cj0287c" /inference="protein motif:Prosite:PS00829" /note="PS00829 Prokaryotic transcription elongation factors signature 1" gene complement(265431..266525) /gene="lpxB" /locus_tag="Cj0288c" /db_xref="GeneID:904612" CDS complement(265431..266525) /gene="lpxB" /locus_tag="Cj0288c" /EC_number="2.4.1.182" /inference="protein motif:Pfam:PF02684" /note="catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate, lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM" /codon_start=1 /transl_table=11 /product="ipid-A-disaccharide synthase" /protein_id="YP_002343729.1" /db_xref="GI:218561950" /db_xref="GOA:Q9PIK8" /db_xref="InterPro:IPR003835" /db_xref="UniProtKB/Swiss-Prot:Q9PIK8" /db_xref="GeneID:904612" /translation="MKTFLVCALEPSANLHLKEVLKAYKKDFGEFELHGIYDESLCKE FDLNSKPLYSSHEFSAMGFIEVLPLIFKAKKAIKELANLSFTQKINGILCIDSPAFNI PFAKALKKAGSKIPRIYYILPQVWAWKKGRIPIIESHFDILASILPFDNQFFNKSTYI GHPLLDEIKEFKNQEDINHTFSKKDDEKTIAFLPGSRRSEIRRLMPIFKELSQKFKGK KILCVPSFNLEKLEVYGDISEFKIESNTPKVLKKADFAFICSGTATLEAALVGTPFVL AYKAKAIDIFIAKLFVKLKHIGLANIFCDFAGKEALNPEFLQDKVNVLNLYEAYNKYD YKAFFAKVDFLKEYLQFGSAKNLAKILNEI" misc_feature complement(265452..266516) /gene="lpxB" /locus_tag="Cj0288c" /inference="protein motif:Pfam:PF02684" /note="HMMPfam hit to PF02684, Lipid-A-disaccharide synthetase, score 4.7e-81" gene complement(266622..267374) /gene="peb3" /locus_tag="Cj0289c" /db_xref="GeneID:904613" CDS complement(266622..267374) /gene="peb3" /locus_tag="Cj0289c" /note="Original (2000) note: Cj0289c, peb3, major antigenic peptide PEB3, len: 250 aa; 94.9% identical to TR:G234575, sequenced by direct peptide sequencing; see: Pei at al. J. Biol. Chem. 266:16363-16369 (1991). Also similar to TR:Q57410 (EMBL:U39068) Vibrio cholerae accessory colonization factor acfC (253 aa), fasta scores; opt: 855 z-score: 1301.2 E(): 0, 53.6% identity in 239 aa overlap and TR:P96759 (EMBL:U82533) anm (E. coli 045 attachment and effacement negative mutant) (251 aa), fasta scores; opt: 849 z-score: 824.0 E(): 0, 51.8% identity in 251 aa overlap. No Hp match. Also similar to Cj0778 (peb2) (32.4% identity in 256 aa overlap). Contains N-terminal signal sequence; Updated (2006) note: Characterised within Campylobacter jejuni. Paper identified linking protein to glycoprotein (PMID:12186869). Functional classification -Miscellaneous periplasmic proteins; PMID:1885571, PMID:12186869" /codon_start=1 /transl_table=11 /product="major antigenic peptide PEB3" /protein_id="YP_002343730.1" /db_xref="GI:218561951" /db_xref="GOA:Q0PBL7" /db_xref="PDB:2HXW" /db_xref="UniProtKB/TrEMBL:Q0PBL7" /db_xref="GeneID:904613" /translation="MKKIITLFGACALAFSMANADVNLYGPGGPHTALKDIANKYSEK TGVKVNVNFGPQATWFEKAKKDADILFGASDQSALAIASDFGKDFNVSKIKPLYFREA IILTQKGNPLKIKGLKDLANKKVRIVVPEGAGKSNTSGTGVWEDMIGRTQDIKTIQNF RNNIVAFVPNSGSARKLFAQDQADAWITWIDWSKSNPDIGTAVAIEKDLVVYRTFNVI AKEGASKETQDFIAYLSSKEAKEIFKKYGWRE" sig_peptide complement(266622..266681) /gene="peb3" /locus_tag="Cj0289c" /note="Signal peptide predicted for peb3 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.789 between residues 20 and 21" gene complement(join(267516..267629,267638..268809)) /gene="glpT" /locus_tag="Cj0292c" /pseudo /db_xref="GeneID:904616" misc_feature complement(join(267516..267629,267638..268597, 268591..268809)) /gene="glpT" /locus_tag="Cj0292c" /inference="protein motif:Pfam:PF07690" /inference="protein motif:Prosite:PS00942" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0290c, probable pseudogene representing the C-terminus of Cj0291c (glpT'); Original (2000) note: Cj0292c, probable pseudogene representing the N-terminus of Cj0291c (glpT'); Original (2000) note: Cj0291c, glpT',glycerol-3-phosphate transporter, possible pseudogene,len: 319 aa; similar to the central region of many e.g. GLPT_ECOLI glycerol-3-phosphate transporter (452 aa),fasta scores; opt: 473 z-score: 832.3 E(): 0, 35.3% identity in 323 aa overlap. No Hp match. Contains PS00942 glpT family of transporters signature. Note that the N-terminal 100 aa and the C-terminal 50 aa present in other glpT proteins are out of frame, and are represented by the CDSs Cj0292c and Cj0290c respectively. The sequence has been checked, and is believed to be correct; Updated (2006) note: Pfam domain PF07690 Major Facilitator Superfamily identified within CDS. Also,twelve probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Coding sequence has been updated to reflect the complete amino acid sequence for the encoded protein regardless of its expression. This will cause differences from the amino acid sequence of the previous annotation. Functional classification - Transport/binding proteins -Carbohydrates, organic acids and alcohols" /pseudo gene 269064..269840 /gene="surE" /locus_tag="Cj0293" /db_xref="GeneID:904617" CDS 269064..269840 /gene="surE" /locus_tag="Cj0293" /EC_number="3.1.3.2" /inference="protein motif:Pfam:PF01975" /note="catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate" /codon_start=1 /transl_table=11 /product="stationary phase survival protein SurE" /protein_id="YP_002343731.1" /db_xref="GI:218561952" /db_xref="GOA:Q9PIK6" /db_xref="HSSP:Q8ZU79" /db_xref="InterPro:IPR002828" /db_xref="UniProtKB/Swiss-Prot:Q9PIK6" /db_xref="GeneID:904617" /translation="MKEILITNDDGYESEGLKKLIKMLTKEFKAKITIVAPASEKSAC SHSITLTKPLRFVKVGKRFYKLDDGTPADCVYLALHALYKKRLPDLVISGINKGANVG EDITYSGTCAGAMEAVLQGIPAIALSQFYKKSEKELDYKNALQITKKIIQNIFDKGFP LEKKEFLNINFPAKSKIKGIKICKAGKRVYNFEAHSNVNPRGVEYYWLAAANLDFEDE KNSDIALLKKGYATITPIMLDLTAYERMKKVKKWLKANDE" misc_feature 269067..269645 /gene="surE" /locus_tag="Cj0293" /inference="protein motif:Pfam:PF01975" /note="HMMPfam hit to PF01975, Survival protein SurE,score 3.9e-78" gene 269830..270489 /locus_tag="Cj0294" /db_xref="GeneID:904618" CDS 269830..270489 /locus_tag="Cj0294" /inference="protein motif:Pfam:PF00899" /note="Original (2000) note: Cj0294, unknown, len: 219 aa; similar to members of the hesA/moeB/thiF family, e.g. YGDL_ECOLI (268 aa), fasta scores; opt: 219 z-score: 563.3 E(): 4e-24, 33.5% identity in 254 aa overlap. 48.3% identity to HP0755 (described as moeB). Contains Pfam match to entry PF00899 ThiF_family, ThiF family, score 33.10, E-value 2e-07. Also similar to Cj1046c (33.6% identity in 146 aa overlap); Updated (2006) note: No specific characterisation with acceptable identity scores carried out yet. Putative kept within product function. Functional classification -Misc" /codon_start=1 /transl_table=11 /product="putative MoeB/ThiF family protein" /protein_id="YP_002343732.1" /db_xref="GI:218561953" /db_xref="GOA:Q0PBL5" /db_xref="InterPro:IPR000594" /db_xref="InterPro:IPR016040" /db_xref="UniProtKB/TrEMBL:Q0PBL5" /db_xref="GeneID:904618" /translation="MMNDRFTRIKWLVGEEKFQKISQTKVLVCGLGGVGGICVDALYR SGFKNLTLIDADKFEITNQNRQIHSENIGEEKAKVFERIYKVKGIVSKIDENFLKNFD LSEFDLIIDAIDDIPAKVALAHLIDFKKQIFISSTGGARKLDPTRIKTTSIFKTHGDA LAKKFRYELRKSGFKGNFDVVFSDEEAHCKDLGSFMGVTASFGLALASLALRKVLAKK S" misc_feature 269893..270273 /locus_tag="Cj0294" /inference="protein motif:Pfam:PF00899" /note="HMMPfam hit to PF00899, ThiF family, score 1.3e-09" misc_feature 269905..269958 /locus_tag="Cj0294" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0294 by TMHMM2.0 at aa 26-43" gene 270473..270931 /locus_tag="Cj0295" /db_xref="GeneID:904619" CDS 270473..270931 /locus_tag="Cj0295" /EC_number="2.3.1.-" /inference="protein motif:Pfam:PF00583" /note="Original (2000) note: Cj0295, possible acetyltransferase, len: 152 aa; similar to hypothetical proteins e.g. YAFP_ECOLI (150 aa), fasta scores; opt: 246 z-score: 340.4 E(): 1.1e-11, 27.8% identity in 144 aa overlap. No Hp match. Contains Pfam match to entry PF00583 Acetyltransf, Acetyltransferase (GNAT) family, score 20.20, E-value 0.011; Updated (2006) note: Some characterisation within Escherichia coli with marginal identity score. Putative kept within product function. Functional classification -Misc" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="YP_002343733.1" /db_xref="GI:218561954" /db_xref="GOA:Q0PBL4" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="UniProtKB/TrEMBL:Q0PBL4" /db_xref="GeneID:904619" /translation="MLRKADIKDLNACLSLFEQSVKTLCAKDYTKDQICAWIKIDRQQ WEEKFKYDEIFVYEKRGKIASFISVKQEQKLLDLLFTHPDFVRQGLAQNLLDFILKTY LHNEIYTFASLSAKDFFLKNGFELIRENKVIKEGQNLKKILMKKDVIYKN" misc_feature 270635..270847 /locus_tag="Cj0295" /inference="protein motif:Pfam:PF00583" /note="HMMPfam hit to PF00583, Acetyltransferase (GNAT) family, score 1.2e-07" stem_loop 270978..271021 gene complement(271041..271421) /gene="panD" /locus_tag="Cj0296c" /db_xref="GeneID:904620" CDS complement(271041..271421) /gene="panD" /locus_tag="Cj0296c" /EC_number="4.1.1.11" /inference="protein motif:Pfam:PF02261" /note="Converts L-aspartate to beta-alanine and provides the major route of beta-alanine production in bacteria. Beta-alanine is essential for the biosynthesis of pantothenate (vitamin B5)" /codon_start=1 /transl_table=11 /product="aspartate alpha-decarboxylase" /protein_id="YP_002343734.1" /db_xref="GI:218561955" /db_xref="GOA:Q9PIK3" /db_xref="HSSP:P31664" /db_xref="InterPro:IPR003190" /db_xref="InterPro:IPR009010" /db_xref="UniProtKB/Swiss-Prot:Q9PIK3" /db_xref="GeneID:904620" /translation="MNITLLKSKIHRASVTEARLDYIGSISIDEKLLQASGILEYEKV QVVNVNNGARFETYTIATQEEGVVCLNGAAARLAEVGDKVIIMSYADFNEEEAKTFKP KVVFVDENNTATKITNYEKHGAIF" misc_feature complement(271077..271421) /gene="panD" /locus_tag="Cj0296c" /inference="protein motif:Pfam:PF02261" /note="HMMPfam hit to PF02261, Aspartate decarboxylase,score 1.5e-61" gene complement(271418..272266) /gene="panC" /locus_tag="Cj0297c" /db_xref="GeneID:904621" CDS complement(271418..272266) /gene="panC" /locus_tag="Cj0297c" /EC_number="6.3.2.1" /inference="protein motif:Pfam:PF02569" /note="catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine" /codon_start=1 /transl_table=11 /product="pantoate--beta-alanine ligase" /protein_id="YP_002343735.1" /db_xref="GI:218561956" /db_xref="GOA:Q9PIK2" /db_xref="HSSP:O06280" /db_xref="InterPro:IPR003721" /db_xref="InterPro:IPR014729" /db_xref="UniProtKB/Swiss-Prot:Q9PIK2" /db_xref="GeneID:904621" /translation="MQVITSVKEAKQIVKDWKSHQLSIGYVPTMGFLHDGHLSLVKHA KTQDKVIVSIFVNPMQFGPNEDFSSYPRDLERDIKMCQDNGVDMVFIPDATQMYLKNF STYVDMNTITDKLCGAKRPGHFRGVCTVLTKFFNILNPDIVYMGQKDAQQCVVVRHMV DDLNFDLKIQICPIIREEDGLAKSSRNVYLSKEERKASLAISQSIFLAEKLVREGEKN TSKIIQAMKDILEKEKLIKIDYIELVDFNTMENIENITDNVLGAVAAFVGKTRLIDNF LVQGLK" misc_feature complement(271433..272266) /gene="panC" /locus_tag="Cj0297c" /inference="protein motif:Pfam:PF02569" /note="HMMPfam hit to PF02569, Pantoate-beta-alanine ligase, score 4.1e-137" gene complement(272277..273101) /gene="panB" /locus_tag="Cj0298c" /db_xref="GeneID:904622" CDS complement(272277..273101) /gene="panB" /locus_tag="Cj0298c" /EC_number="2.1.2.11" /inference="protein motif:Pfam:PF02548" /note="catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate" /codon_start=1 /transl_table=11 /product="3-methyl-2-oxobutanoate hydroxymethyltransferase" /protein_id="YP_002343736.1" /db_xref="GI:218561957" /db_xref="GOA:Q9PIK1" /db_xref="HSSP:Q10505" /db_xref="InterPro:IPR003700" /db_xref="InterPro:IPR015813" /db_xref="UniProtKB/Swiss-Prot:Q9PIK1" /db_xref="GeneID:904622" /translation="MRKSMISFLEKKAKNEKITMVSAYDYHSARILDNSDIDIILVGD SLAMTVLGMQDTLSVTMDEMLIFTKAVSRGAKKSFVLADMPFMSYQSSDRDAILNASR FIKESHANGVKVEGGIEIASKIKLISQSGIPVVAHLGLTPQAVNMLGGYRVQGKDLQS AQKIIDDAKAVQDAGACMLVLECVPVKLAQKISSILEIPTIGIGSGKYCDGQVLVYHD LLGLNKDFKAKFVKHFDKIDPQVGVEKYRDEVKSGIFPSQEHSFDYLDDELLDKLY" misc_feature complement(272325..273098) /gene="panB" /locus_tag="Cj0298c" /inference="protein motif:Pfam:PF02548" /note="HMMPfam hit to PF02548, Ketopantoate hydroxymethyltransferase, score 8.3e-137" gene 273321..274094 /locus_tag="Cj0299" /db_xref="GeneID:904623" CDS 273321..274094 /locus_tag="Cj0299" /EC_number="3.5.2.6" /note="Original (2000) note: Cj0299, possible periplasmic beta-lactamase, len: 257 aa; similar to members of the class-D beta-lactamase family e.g. BLL1_PSEAE BETA-LACTAMASE LCR-1 PRECURSOR (EC 3.5.2.6) (Pseudomonas aeruginosa plasmid PMG76) (260 aa), fasta scores; opt: 423 z-score: 305.2 E(): 9.6e-10, 33.7% identity in 255 aa overlap. No Hp match. Contains N-terminal signal sequence; Updated (2006) note: Some characterisation work within Pseudomonas aeruginosa and Escherichia coli with marginal identity scores. Putative kept within product function. Functional classification - Antibiotic resistance; PMID:11188693, PMID:7574536" /codon_start=1 /transl_table=11 /product="putative periplasmic beta-lactamase" /protein_id="YP_002343737.1" /db_xref="GI:218561958" /db_xref="GOA:Q0PBL0" /db_xref="InterPro:IPR001460" /db_xref="UniProtKB/TrEMBL:Q0PBL0" /db_xref="GeneID:904623" /translation="MKKITLFLLFLNLVFGQDKILNNWFKEYNTSGTFVFYDGKTWAS NDFSRAMETFSPASTFKIFNALIALDSGVIKTKKEIFYHYRGEKVFLSSWAQDMNLSS AIKYSNVLAFKEVARRIGIKTMQEYLNKLHYGNAKISKIDTFWLDNSLKISAKEQAIL LFRLSQNSLPFSQEAMNSVKEMIYLKNMENLELFGKTGFNDEQKIAWIVGFVYLKDEN KYKAFALNLDIDKFEDLYKREKILEKYLDELVKKVKNDG" misc_feature 273414..274061 /locus_tag="Cj0299" /inference="protein motif:Pfam:PF00905" /note="HMMPfam hit to PF00905, Penicillin binding protein transpeptid, score 1.3e-33" gene complement(274179..275063) /gene="modC" /locus_tag="Cj0300c" /db_xref="GeneID:904624" CDS complement(274179..275063) /gene="modC" /locus_tag="Cj0300c" /inference="protein motif:Pfam:PF00005" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00211" /note="Original (2000) note: Cj0300c, modC, probable molybdenum transport ATP-binding protein, len: 294 aa; similar to many ABC-transporter ATP binding proteins, and to MODC_ECOLI molybdenum transport ATP-binding protein (352 aa), fasta scores; opt: 487 z-score: 700.9 E(): 8.7e-32, 34.8% identity in 270 aa overlap. Identification as modC is based on presence of probable molybdenum-specific permease and periplasmic binding proteins upstream. 46.8% identity to HP0475. Contains PS00017 ATP/GTP-binding site motif A (P-loop), PS00211 ABC transporters family signature and Pfam match to entry PF00005 ABC_tran, ABC transporters, score 214.40, E-value 1.7e-60; Updated (2006) note: Characterised more than once within Escherichia coli with marginal identity scores. Putative kept within product function. Functional classification - Transport/binding proteins - Anions; PMID:2188958, PMID:7665461, PMID:7665460" /codon_start=1 /transl_table=11 /product="putative molybdenum transport ATP-binding protein" /protein_id="YP_002343738.1" /db_xref="GI:218561959" /db_xref="GOA:Q0PBK9" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="UniProtKB/TrEMBL:Q0PBK9" /db_xref="GeneID:904624" /translation="MIRIDINHPMNTAKGRLDLNFKKDIESGKITALFGESGAGKTTL LKIIAGLIKPKLGRIEVDNELWFDSSKNFSLALQKRKIGFVFQDYALFPNMNIKENIA YAASSKAKVSELLALMKLENLAKIYPKHLSGGQAQRVALARALAREPKILLLDEPLSA LDFKMRANLQDELTKILEYFKISTLLVSHDLAEIYKLSHRILELKNGKIIKDFPKNEF FTHSNISAKLRLSATLLEIKKSDILVVLTLLLNQDIIKITLSEEEFLKAYQDVKIGDT LLLSIKAFNPIIVGKLDK" misc_feature complement(274443..274982) /gene="modC" /locus_tag="Cj0300c" /inference="protein motif:Pfam:PF00005" /note="HMMPfam hit to PF00005, ABC transporter, score 6e-62" misc_feature complement(274629..274673) /gene="modC" /locus_tag="Cj0300c" /inference="protein motif:Prosite:PS00211" /note="PS00211 ABC transporters family signature" misc_feature complement(274938..274961) /gene="modC" /locus_tag="Cj0300c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(275060..275734) /gene="modB" /locus_tag="Cj0301c" /db_xref="GeneID:904625" CDS complement(275060..275734) /gene="modB" /locus_tag="Cj0301c" /inference="protein motif:Pfam:PF00528" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0301c, modB, probable molybdenum transport system permease protein, len: 224 aa; similar to e.g. MODC_AZOVI molybdenum transport system permease protein (226 aa), fasta scores; opt: 562 z-score: 889.7 E(): 0, 43.3% identity in 210 aa overlap and MODB_ECOLI (229 aa), fasta scores; opt: 390 z-score: 537.4 E(): 1.1e-22, 32.8% identity in 183 aa overlap. 55.2% identity to HP0474. Contains PS00017 ATP/GTP-binding site motif A (P-loop) and Pfam match to entry PF00528 BPD_transp, Binding-protein-dependent transport systems inner membrane component, score 43.10, E-value 6.1e-09; Updated (2006) note: Characterised in many e.g. Rhodobacter capsulatus and Azotobacter vinelandii with acceptable identity scores. Putative kept within product function. Functional classification - Transport/binding proteins - Anions; PMID:8384683, PMID:8491722" /codon_start=1 /transl_table=11 /product="putative molybdenum transport system permease protein" /protein_id="YP_002343739.1" /db_xref="GI:218561960" /db_xref="GOA:Q0PBK8" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR011867" /db_xref="UniProtKB/TrEMBL:Q0PBK8" /db_xref="GeneID:904625" /translation="MLDPAFLQTLYLTFKLAFITTFILFFIGVFLAYLLSFVRFPFKT ILQSFISLPLILPPSVLGFYLLVTFSANSFLGQVLKEYFNLSLVFSFEGLVFASLIFS LPFMVNPLQSAFSSINPNLLDASYSLGKSKIYTLFRVILPNSKAGIFSACAMSFAHTV GEFGVVMMIGGHKQGETLVASIAIYDELEILNYSLAHQYAFILFIFSFLVLFSLYFIN KKMSFQ" misc_feature complement(275066..275719) /gene="modB" /locus_tag="Cj0301c" /inference="protein motif:Pfam:PF00528" /note="HMMPfam hit to PF00528, Binding-protein-dependent transport syst, score 8.6e-19" misc_feature complement(275342..275365) /gene="modB" /locus_tag="Cj0301c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(275727..276128) /locus_tag="Cj0302c" /db_xref="GeneID:904626" CDS complement(275727..276128) /locus_tag="Cj0302c" /inference="protein motif:Pfam:PF03459" /note="Original (2000) note: Cj0302c, unknonw, len: 133 aa; no Hp match; Updated (2006) note: Pfam domain PF03459 TOBE domain identified within CDS. TOBE (Transport-associated OB) has had work carried out within Esherichia coli where it has been shown to be involved in the recognition of small ligands such as molybdenum. TOBE has been found in ABC transporters immediately after the ATPase domain. A child process of this family is Molybdenum-pterin binding protein. Product modified to more specific family member based on motif match. Some characterisation work within Clostridium pasteurianum, however, identity scores were marginal and full length sequence alignment was not achieved. Functional classification - Miscellaneous periplasmic proteins; PMID:3540853, PMID:2820842" /codon_start=1 /transl_table=11 /product="putative molybdenum-pterin binding protein" /protein_id="YP_002343740.1" /db_xref="GI:218561961" /db_xref="GOA:Q0PBK7" /db_xref="InterPro:IPR005116" /db_xref="UniProtKB/TrEMBL:Q0PBK7" /db_xref="GeneID:904626" /translation="MNLIKGQICELLNQEDIVIVKILSKEVIFSVLMLELKSLENLKI GVSVELLFKEHELCFSASKTLLSVENSFLAKITKIKKGKLLYQVFFDFKGNELSSIIT KEKALELEICENQEWLCFVKANDIVLRSHSA" misc_feature complement(275745..275933) /locus_tag="Cj0302c" /inference="protein motif:Pfam:PF03459" /note="HMMPfam hit to PF03459, TOBE domain, score 4.6e-06" gene complement(276125..276874) /gene="modA" /locus_tag="Cj0303c" /db_xref="GeneID:904627" CDS complement(276125..276874) /gene="modA" /locus_tag="Cj0303c" /inference="protein motif:Pfam:PF01547" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0303c, modA, probable molybdate-binding lipoprotein, len: 249 aa; similar to e.g. MODA_RHOCA molybdate-binding periplasmic protein precursor (252 aa), fasta scores; opt: 354 z-score: 449.0 E(): 9.4e-18, 30.8% identity in 224 aa overlap, and MODA_ECOLI (257 aa), fasta scores; opt: 220 z-score: 245.4 E(): 2.1e-06, 25.0% identity in 232 aa overlap. 42.3% identity to HP0473. Contains probable N-terminal signal sequence with appropriately positioned PS00013 Prokaryotic membrane lipoprotein lipid attachment site; Updated (2006) note: Pfam domain PF01547 Bacterial extracellular solute-binding protein was identified within CDS. Further support given to product function. Characterised in more than one genus e.g. Rhodobacter capsulatus, Azotobacter vinelandii and Escherichia coli. Identity scores were marginal and sequence alignment was not full length. Putative kept within product function. Functional classification - Transport/binding proteins -Anions; PMID:8491722, PMID:8384683, PMID:8564363" /codon_start=1 /transl_table=11 /product="putative molybdate-binding lipoprotein" /protein_id="YP_002343741.1" /db_xref="GI:218561962" /db_xref="GOA:Q0PBK6" /db_xref="InterPro:IPR005950" /db_xref="InterPro:IPR006059" /db_xref="UniProtKB/TrEMBL:Q0PBK6" /db_xref="GeneID:904627" /translation="MKKFVVFFGILLFVSCLNAQNLSIFVASSASKAMSEVKDEFLKT HPEDKIELVFGASGKYYELLKQGREFDLFFSADTKYAKAIYDDKNALIKPKVYVLGVL ALYSLDENLLQGGVENLKEKANKITHLSIANPKVAPYGVAAKEVLENLGLNELLKDKI VLGENISVPVLHVDSKNSDIAIVAYSLVSSINHPKGKAVIIDAKYFSPLEQSYVITKY AKDKKLAFEFNEFIGSSKAKEIFKKYGFSTP" sig_peptide complement(276125..276223) /gene="modA" /locus_tag="Cj0303c" /note="Signal peptide predicted for modA by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.426 between residues 33 and 34" misc_feature complement(276158..276865) /gene="modA" /locus_tag="Cj0303c" /inference="protein motif:Pfam:PF01547" /note="HMMPfam hit to PF01547, Bacterial extracellular solute-binding prot, score 4.2e-13" misc_feature complement(276794..276862) /gene="modA" /locus_tag="Cj0303c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0303c by TMHMM2.0 at aa 5-27" misc_feature complement(276827..276859) /gene="modA" /locus_tag="Cj0303c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(276925..277611) /gene="bioC" /locus_tag="Cj0304c" /db_xref="GeneID:904628" CDS complement(276925..277611) /gene="bioC" /locus_tag="Cj0304c" /note="Original (2000) note: Cj0304c, bioC, possible biotin synthesis protein, len: 228 aa; similar to BIOC_HAEIN putative biotin synthesis protein bioC (260 aa), fasta scores; opt: 342 z-score: 595.7 E(): 6.4e-26,34.0% identity in 238 aa overlap. Also some similarity to BIOC_ECOLI (251 aa), wublastp scores; E= 0.00028, 24% identity in 193 aa overlap. No Hp match; Updated (2006) note: Some characterisation within Bacillus subtilis and Escherichia coli, however, identity scores were unnacceptable. Putative kept within product function. Functional classification - Biosynthesis of cofactors, prosthetic groups and carriers - Biotin; PMID:3058702, PMID:8763940" /codon_start=1 /transl_table=11 /product="putative biotin synthesis protein" /protein_id="YP_002343742.1" /db_xref="GI:218561963" /db_xref="GOA:Q0PBK5" /db_xref="InterPro:IPR011814" /db_xref="InterPro:IPR013217" /db_xref="UniProtKB/TrEMBL:Q0PBK5" /db_xref="GeneID:904628" /translation="MNFLKAKDYEKHAKVQDFMGLKLCEILKNLRISHFEKVFEFGCG RGELSKKLQNFITFDEYLKNDILDFKENSSILIFDMNEIAKQDLSKEKFDLIVSNATL QWLDLKRIIPSLRDMLNQNGILLLSTFAEQNLKEIKQSTGFGLNYFSLNELEQIFKVY FNEVKITQELIKLSFDNALDVFRHLKLSGVNSLGFYPLNKGFLKEFEEKFQNKLTYHP VFILCKNDIK" gene complement(277608..278219) /locus_tag="Cj0305c" /db_xref="GeneID:904629" CDS complement(277608..278219) /locus_tag="Cj0305c" /inference="protein motif:Pfam:PF04301" /note="Original (2000) note: Cj0305c, unknown, len: 203 aa; similar to a hypothetical protein from H. infuenzae YF52_HAEIN HI1552 (215 aa), fasta scores; opt: 297 z-score: 372.7 E(): 1.7e-13, 29.8% identity in 215 aa overlap. No Hp match; Updated (2006) note: Pfam PF04301, Protein of unknown function (DUF452) was present within CDS. Conserved added to product function. Functional classification - Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343743.1" /db_xref="GI:218561964" /db_xref="InterPro:IPR007398" /db_xref="UniProtKB/TrEMBL:Q0PBK4" /db_xref="GeneID:904629" /translation="MKYEFLCKNPDSKKLIVVFGGFASHSSHFSHLKSDKNVILFYDY ENFDLNFDFKAFDELFLIAFSMGVCVANRLLKELNFKQKIAINGTNLGIDKSKGIHPA IFRKTLQNFKLENFKEALFKERKNLTKDFIFKDEKALKIELEKLFDFALVKQEENLLW DKVYSSKKDEIFPPNALKNAFSKLIFLNEPHFAFFHFKTWDEL" misc_feature complement(277611..278219) /locus_tag="Cj0305c" /inference="protein motif:Pfam:PF04301" /note="HMMPfam hit to PF04301, Protein of unknown function (DUF452), score 2.5e-153" gene complement(278216..279358) /gene="bioF" /locus_tag="Cj0306c" /db_xref="GeneID:904630" CDS complement(278216..279358) /gene="bioF" /locus_tag="Cj0306c" /EC_number="2.3.1.47" /inference="protein motif:Pfam:PF00222" /inference="protein motif:Prosite:PS00599" /note="Original (2000) note: Cj0306c, bioF, probable 8-amino-7-oxononanoate synthase, len: 380 aa; similar to many e.g. BIOF_ECOLI 8-amino-7-oxononanoate synthase (EC 2.3.1.47) (384 aa), fasta scores; opt: 525 z-score: 550.3 E(): 2.1e-23, 28.9% identity in 387 aa overlap. 29.0% identity to HP0598. Contains PS00599 Aminotransferases class-II pyridoxal-phosphate attachment site and Pfam match to entry PF00222 aminotran_2, Aminotransferases class-II, score 196.30, E-value 4.7e-55; Updated (2006) note: Characterised within Escherichia coli with marginal identity scores. Putative not added to product function. Functional classification -Biosynthesis of cofactors, prosthetic groups and carriers - Biotin; PMID:9813126, PMID:1575677, PMID:1575677,PMID:3058702" /codon_start=1 /transl_table=11 /product="8-amino-7-oxononanoate synthase" /protein_id="YP_002343744.1" /db_xref="GI:218561965" /db_xref="GOA:Q0PBK3" /db_xref="InterPro:IPR001917" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="UniProtKB/TrEMBL:Q0PBK3" /db_xref="GeneID:904630" /translation="MKLEKILQDLEQNHNLRTLTPLKHENKFVYKQDHKLLNLVGNDY LYLASSKELKAEFLNTLKEQDLFFSSSSSRSLSGNFEIYEKLESFLKTKFKDKEILHF NSGYHLNISCIAALSSVSKTLFLTDKFIHASMIDGLRLGRADFFRFHHKDMNHLESLI QKHYENYENIIVLSEALFSMDGDFSDFKTLCELKRRYDKIKLYIDEAHSVGCFDEEGL GLVKKLALENEVDFLVFTFGKALASMGACIICDEKYKKFFINKARAFIYSTALPPINV AWTQFIFKKMPYFKKEREKLELLSTFFKSKLQEKNHIVLGDAYIICLLLGENKKALEI SQKLQKAGFFAPAIKEPTVPKNTARIRFSLHAGLNTEELERIIELL" misc_feature complement(278219..279097) /gene="bioF" /locus_tag="Cj0306c" /inference="protein motif:Pfam:PF00155" /note="HMMPfam hit to PF00155, Aminotransferase class I and II, score 2e-07" misc_feature complement(278624..278653) /gene="bioF" /locus_tag="Cj0306c" /inference="protein motif:Prosite:PS00599" /note="PS00599 Aminotransferases class-II pyridoxal-phosphate attachment site" gene 279426..280709 /gene="bioA" /locus_tag="Cj0307" /db_xref="GeneID:904631" CDS 279426..280709 /gene="bioA" /locus_tag="Cj0307" /EC_number="2.6.1.62" /inference="protein motif:Pfam:PF00202" /inference="protein motif:Prosite:PS00600" /note="catalyzes the formation of S-adenosyl-4-methylthionine-2-oxobutanoate and 7,8-diaminononanoate from S-adenosyl-L-methionine and 8-amino-7-oxononanoate" /codon_start=1 /transl_table=11 /product="adenosylmethionine--8-amino-7-oxononanoate transaminase" /protein_id="YP_002343745.1" /db_xref="GI:218561966" /db_xref="GOA:Q0PBK2" /db_xref="InterPro:IPR005814" /db_xref="InterPro:IPR005815" /db_xref="InterPro:IPR015421" /db_xref="UniProtKB/TrEMBL:Q0PBK2" /db_xref="GeneID:904631" /translation="MQNQILKNLDLKHIWHPCTQMKDHETLPLIPIKKAKGVWLYDFD DKAYMDCVSSWWVNLFGHCNEKIANAIKKQVDELEHVILAGFTHEPIIKLSARLCEKV GRNFNKCFYADNGSSAIEVALKMSFHYHLNKGVKKSKFLSLSNSYHGETLGALSVGDV ALYKDTYKALLLECLSTPVPQGKDYTKELEILKDILEKNASEICAFILEPLVQCAGNM HMYEARFIDEAIKLCHKFGVQVIFDEIAVGFGRTGTLFALHQCKQSPDFICLSKGITG GFMPLSVVLTRDEIYNAFYDTYESQKAFLHSHSYTGNTLACAAANAVLDIFEDENILV KNQILSEFIKKEFSRLEKFDFLGNFRTCGMISAFDILSTKYKRVGLFVFQKALEKGLL LRPLANTIYFMPPYIITKEQIVYVLESLEQIFKEF" misc_feature 279480..280706 /gene="bioA" /locus_tag="Cj0307" /inference="protein motif:Pfam:PF00202" /note="HMMPfam hit to PF00202, Aminotransferase class-III,score 4.3e-127" misc_feature 280143..280256 /gene="bioA" /locus_tag="Cj0307" /inference="protein motif:Prosite:PS00600" /note="PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site" gene complement(280696..281301) /gene="bioD" /locus_tag="Cj0308c" /db_xref="GeneID:904632" CDS complement(280696..281301) /gene="bioD" /locus_tag="Cj0308c" /EC_number="6.3.3.3" /note="Original (2000) note: Cj0308c, bioD, possible dethiobiotin synthetase, len: 201 aa; some similarity to many e.g. BIOD_BACSH dethiobiotin synthetase (EC 6.3.3.3) (234 aa), fasta scores; opt: 206 z-score: 260.4 E(): 3e-07, 29.8% identity in 215 aa overlap. 31.8% identity in 66 aa overlap to HP0029; Updated (2006) note: Some characterisation within Bacillus sphaericus, however, identity score was marginal. Putative kept within product function. Functional classification - Biosynthesis of cofactors, prosthetic groups and carriers - Biotin; PMID:2110099, PMID:3058702, PMID:10455485" /codon_start=1 /transl_table=11 /product="putative dethiobiotin synthetase" /protein_id="YP_002343746.1" /db_xref="GI:218561967" /db_xref="GOA:Q9PIJ1" /db_xref="InterPro:IPR004472" /db_xref="UniProtKB/Swiss-Prot:Q9PIJ1" /db_xref="GeneID:904632" /translation="MQIYVSGIHTDVGKTHFSAAFCANFNYDYFKLIQAGTPTDSEFI AKFSPKTKIFKEGIFLQTPASPHLGKIKEKLDYKALDIILPKSKNLLIELAGGLFSPM DENYTMIDFVNIFKHPTILVAKYYLGSINHILLSIEALKQRNINLLALVMMGKKDILQ DDFIKNYAKIPIINLDFFDENSILNKDFKEQMQEILQLKIP" gene complement(281311..281625) /locus_tag="Cj0309c" /db_xref="GeneID:904633" CDS complement(281311..281625) /locus_tag="Cj0309c" /inference="protein motif:Pfam:PF00893" /note="Original (2000) note: Cj0309c, probable efflux protein, len: 104 aa; similar to many membrane protein of known and unknown function e.g. TR:O34690 (EMBL:AJ002571) Bacillus subtilis YKKD (105 aa), fasta scores; opt: 303 z-score: 547.1 E(): 3.2e-23, 44.2% identity in 104 aa overlap, and EBR_STAAU ethidium bromide resistance protein (multidrug resistance protein) (107 aa), fasta scores; opt: 187 z-score: 272.5 E(): 6.4e-08, 27.2% identity in 103 aa overlap. No Hp match. Also similar to upstream CDS Cj0310c (32.4% identity in 105 aa overlap), and to Cj1174 (28.7% identity in 94 aa overlap) and Cj1173 (24.7% identity in 93 aa overlap). Contains Pfam match to entry PF00893 DUF7, Integral membrane protein, score 109.20,E-value 7.7e-29, and four possible transmembrane domains; Updated (2006) note: Pfam domain PF00893 Small Multidrug Resistance (Smr) protein identified within CDS. Previously this was an uncharacterised Pfam domain. Smr proteins are a family of efflux proteins that confer resistance to a wide range of toxic compounds by removing them from the cells. Further support given to product function. Putative kept within product function. Functional classification - Drug/analogue sensitivity; PMID:10735877, PMID:11566977" /codon_start=1 /transl_table=11 /product="putative efflux protein" /protein_id="YP_002343747.1" /db_xref="GI:218561968" /db_xref="GOA:Q0PBK0" /db_xref="InterPro:IPR000390" /db_xref="UniProtKB/TrEMBL:Q0PBK0" /db_xref="GeneID:904633" /translation="MEWFYLFLATACEIFGVVIMKELVSTKNKLYLLALIVCFGFSFT FLSLSMQNIAMSVAYAIWTGAGTAGGVMIGVLFYKESKSFLKLFLIAVIITCTAGLKF LS" misc_feature complement(281347..281625) /locus_tag="Cj0309c" /inference="protein motif:Pfam:PF00893" /note="HMMPfam hit to PF00893, Small Multidrug Resistance protein, score 4.2e-30" gene complement(281629..281967) /locus_tag="Cj0310c" /db_xref="GeneID:904634" CDS complement(281629..281967) /locus_tag="Cj0310c" /inference="protein motif:Pfam:PF00893" /note="Original (2000) note: Cj0310c, possible efflux protein, len: 104 aa; similar to many membrane proteins of known and unknown function e.g. YKKC_BACSU (112 aa), fasta scores; opt: 273 z-score: 458.2 E(): 2.9e-18, 40.8% identity in 103 aa overlap, and EBR_STAAU ethidium bromide resistance protein (107 aa), fasta scores; opt: 135 z-score: 198.9 E(): 0.00088, 27.4% identity in 84 aa overlap. No Hp match. Also similar to downstream CDS Cj0309c (32.4% identity in 105 aa overlap) and to Cj1173 (27.1% identity in 107 aa overlap). Contains Pfam match to entry PF00893 DUF7, Integral membrane protein, score 51.40, E-value 2e-11, and four possible transmembrane domains; Updated (2006) note: Pfam domain PF00893 Small Multidrug Resistance (Smr family) protein identified within CDS. Previously this was an uncharacterised Pfam domain. Smr proteins are a family of efflux proteins that confer resistance to a wide range of toxic compounds by removing them from the cells. Further support given to product function. Putative kept within product function. Functional classification - Drug/analogue sensitivity; PMID:10735877, PMID:11948170" /codon_start=1 /transl_table=11 /product="putative efflux protein" /protein_id="YP_002343748.1" /db_xref="GI:218561969" /db_xref="GOA:Q0PBJ9" /db_xref="InterPro:IPR000390" /db_xref="UniProtKB/TrEMBL:Q0PBJ9" /db_xref="GeneID:904634" /translation="MNEKFNINIAWFLIILGGIIECFWVSGLKYSTEIWQYILTAIGV CISFTCFLKACERLEVSITYSVFVGIGTIGVVLNEMFIFNEAVSIIKLVLIAILLLSI IALKWVSKEA" misc_feature complement(281674..281943) /locus_tag="Cj0310c" /inference="protein motif:Pfam:PF00893" /note="HMMPfam hit to PF00893, Small Multidrug Resistance protein, score 1.3e-12" gene 282101..282637 /locus_tag="Cj0311" /db_xref="GeneID:904635" CDS 282101..282637 /locus_tag="Cj0311" /inference="protein motif:Pfam:PF01386" /note="the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response" /codon_start=1 /transl_table=11 /product="50S ribosomal protein L25/general stress protein Ctc" /protein_id="YP_002343749.1" /db_xref="GI:218561970" /db_xref="GOA:Q9PII8" /db_xref="HSSP:P56930" /db_xref="InterPro:IPR001021" /db_xref="UniProtKB/Swiss-Prot:Q9PII8" /db_xref="GeneID:904635" /translation="MLEGIVRESIGRKAAKALKRDGYLIANIYGKGLENINAAFKVNE FIKEVRKKTTLIFDVKVGSQTLSVVVVDYQKDPVTAELKHVDLKVAQKGVISKYMVPV KITGTAIGLKNKGVLIQSKRRLKVKCAAENLPNFFELDVSKLDVGDALLVRDIVVPAG VTMIDADRVAVVGVEKAR" misc_feature 282104..282361 /locus_tag="Cj0311" /inference="protein motif:Pfam:PF01386" /note="HMMPfam hit to PF01386, Ribosomal L25p family,score 1.5e-29" gene 282634..283179 /gene="pth" /locus_tag="Cj0312" /db_xref="GeneID:904636" CDS 282634..283179 /gene="pth" /locus_tag="Cj0312" /EC_number="3.1.1.29" /inference="protein motif:Pfam:PF01195" /inference="protein motif:Prosite:PS01195" /inference="protein motif:Prosite:PS01196" /note="Enables the recycling of peptidyl-tRNAs produced at termination of translation" /codon_start=1 /transl_table=11 /product="peptidyl-tRNA hydrolase" /protein_id="YP_002343750.1" /db_xref="GI:218561971" /db_xref="GOA:Q9PII7" /db_xref="HSSP:P23932" /db_xref="InterPro:IPR001328" /db_xref="UniProtKB/Swiss-Prot:Q9PII7" /db_xref="GeneID:904636" /translation="MILVVGLGNIGVEYENTRHNVGFMLIDLLLKESNFTNLTNSKFK GELFKIGSSLLLLKPSTYMNNSGLSVKAVNDFYKCERMIVIHDDIDINLGALRFKKGG SSGGHNGLKSIDTLCGNDYERVRIGVGKGENVISHVLGKFKSEEEITLSKVLEHAKKA LLELIENDDLSAISSKYSLKA" misc_feature 282640..283167 /gene="pth" /locus_tag="Cj0312" /inference="protein motif:Pfam:PF01195" /note="HMMPfam hit to PF01195, Peptidyl-tRNA hydrolase,score 4.2e-68" misc_feature 282673..282714 /gene="pth" /locus_tag="Cj0312" /inference="protein motif:Prosite:PS01195" /note="PS01195 Peptidyl-tRNA hydrolase signature 1" misc_feature 282940..282972 /gene="pth" /locus_tag="Cj0312" /inference="protein motif:Prosite:PS01196" /note="PS01196 Peptidyl-tRNA hydrolase signature 2" gene 283181..284239 /locus_tag="Cj0313" /db_xref="GeneID:904637" CDS 283181..284239 /locus_tag="Cj0313" /inference="protein motif:Pfam:PF03739" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0313, probable integral membrane protein, len: 352 aa; 35.9% identity to HP1498; Updated (2006) note: Pfam domains PF03739 Predicted permease YjgP/YjgQ family were identified. Members of this family are predicted integral membrane proteins of unknown function. They are about 350 amino acids long and contain about 6 transmembrane regions. They are predicted to be permeases although there is no verification of this. Six probable transmembrane helices predicted by TMHMM2.0. Further support given to product function. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343751.1" /db_xref="GI:218561972" /db_xref="GOA:Q0PBJ6" /db_xref="InterPro:IPR005495" /db_xref="UniProtKB/TrEMBL:Q0PBJ6" /db_xref="GeneID:904637" /translation="MWIFFRFISGIYLKNFFIIFFSLLGFYCGIDLLLNFKDLPKAAN LDLLYVMFLSFSAVPYVLPISLIFALVVSLISMIRANEFVSLYALGLSRNYVILFPFL WALFFCCIYIGLNFTSFAYANDYKRNILKNGTIMNQSGEVFLKFNNNFVYISKINNGQ NSAQNIKIFNINDLNLSSFASAKNAHFEGESWILRDGNITLLPKNYELANDGLKIQDF SELKSLEGFKPKIIEGVASNSDYSISDALESFELFKAQNVNTDTLKINLYKFVFTPFF APFLMLIMYYFFPVIARFFNLAFVTFIAFVVTLMIWGVLFLLTRLSENSVIASEIGIV VPIIILGCLSAYMYYKHR" misc_feature 283196..284230 /locus_tag="Cj0313" /inference="protein motif:Pfam:PF03739" /note="HMMPfam hit to PF03739, Predicted permease YjgP/YjgQ family, score 5.8e-79" misc_feature order(283214..283282,283325..283393,283463..283531, 283988..284056,284060..284128,284156..284224) /locus_tag="Cj0313" /inference="protein motif:TMHMM:2.0" /note="6 probable transmembrane helices predicted for Cj0313 by TMHMM2.0 at aa 12-34, 49-71, 95-117, 270-292,294-316 and 326-348" misc_feature 284174..284206 /locus_tag="Cj0313" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 284283..285491 /gene="lysA" /locus_tag="Cj0314" /db_xref="GeneID:904638" CDS 284283..285491 /gene="lysA" /locus_tag="Cj0314" /EC_number="4.1.1.20" /inference="protein motif:Pfam:PF00278" /note="Original (2000) note: Cj0314, lysA, probable diaminopimelate decarboxylase, len: 402 aa; highly similar to mnay e.g. DCDA_PSEAE diaminopimelate decarboxylase (EC 4.1.1.20) (415 aa), fasta scores; opt: 1077 z-score: 968.8 E(): 0, 44.7% identity in 394 aa overlap. 60.4% identity to HP0290. Contains Pfam match to entry PF00278 Orn_DAP_Arg_deC, Pyridoxal-dependent decarboxylase, score 381.60, E-value 2.3e-113; Updated (2006) note: Characterised within Pseudomonas aeruginosa with acceptable identity score. Putative not added to product function. Functional classification - Amino acid biosynthesis - Aspartate family; PMID:3143046" /codon_start=1 /transl_table=11 /product="diaminopimelate decarboxylase" /protein_id="YP_002343752.1" /db_xref="GI:218561973" /db_xref="GOA:Q9PII5" /db_xref="InterPro:IPR000183" /db_xref="InterPro:IPR002986" /db_xref="UniProtKB/Swiss-Prot:Q9PII5" /db_xref="GeneID:904638" /translation="MDYKQLKQEFNTPFYIYNFDFIKERFLNLKEAFKARKSQIFYAV KANSNLSLLQMLANLDSGFDCVSIGEVKRALKAGAKAYKIIFSGVGKTKEELRQALEY DILYINLESEAEMMLLESVAKELNLKARISIRVNPNVDAKTHPYISTGLNENKFGVEI DIARKMYLYAKNSSFLEPVGVHFHIGSQLLDISPIHEAAAIVAKLVRELKALQIDLKF FDIGGGLGVAYEKNECEPDLYDYAQGILAQLHGLDLTIGMEPGRYLVAKSGEFVCSVL YEKQNKTKRFVVVDGAMNDLIRPSLYEAYHEIILPYNQGEESLCDVVGGICESGDFFA KARSLPSTQSDDIMVIKNTGAYGFSMSSNYNTRNKVCELALEEGQVRLIRQRENFEDQ IALEEKFLKA" misc_feature 284334..285083 /gene="lysA" /locus_tag="Cj0314" /inference="protein motif:Pfam:PF02784" /note="HMMPfam hit to PF02784, Pyridoxal-dependent decarboxylase, py, score 2e-76" misc_feature 285096..285410 /gene="lysA" /locus_tag="Cj0314" /inference="protein motif:Pfam:PF00278" /note="HMMPfam hit to PF00278, Pyridoxal-dependent decarboxylase, C-, score 5.7e-33" gene 285493..286260 /locus_tag="Cj0315" /db_xref="GeneID:904639" CDS 285493..286260 /locus_tag="Cj0315" /inference="protein motif:Pfam:PF00702" /inference="protein motif:Pfam:PF02142" /inference="protein motif:Pfam:PF03558" /note="Original (2000) note: Cj0315, unknown, len: 255 aa; similar to the hypothetical proteins TR:O59622 (EMBL:AB009530) Pyrococcus horikoshii PHBR011 (263 aa),fasta scores; opt: 185 z-score: 375.5 E(): 1.2e-13, 28.1% identity in 267 aa overlapNAGD_ECOLI nagD protein (250 aa), fasta scores; opt: 259 z-score: 266.1 E(): 1.4e-07,26.0% identity in 250 aa overlap. No Hp match; Updated (2006) note: Pfam domains PF00702 haloacid dehalogenase-like hydrolase, PF02142 MGS-like domain and PF03558 TBSV core protein P21/P22 were identified with separate Pfam search. This family is a member of the HAD superfamily which includes L-2-haloacid dehalogenase,epoxide hydrolases and phosphatases. Previous matches to nagD protein are also members of this family. Product function modified to more specific family member based on motif match. No specific characterisation has been carried out yet. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative HAD-superfamily hydrolase, subfamily IIA" /protein_id="YP_002343753.1" /db_xref="GI:218561974" /db_xref="GOA:Q0PBJ4" /db_xref="InterPro:IPR006357" /db_xref="UniProtKB/TrEMBL:Q0PBJ4" /db_xref="GeneID:904639" /translation="MFFLDVQGTLISDHDKSLIHGAKELIDFLNAKNLPYLIITNNTK KLDFLEKLQQKGLVIKENAYIDPFSVLKHLLRPCKVAAFGADEFVKSLENLGFELDFV NPSAVLVASYDDFKFKDFATMIELARREVRFIAMHETSIYKKDGRPYPGVGSIMAMLK NAIDFEYEVVGKPSIAFYKEALNLIRRQNSKIDFEDIKIISDDFRGDLLKAKELGMKT LLVLSGKISDTKGLDTDLLDGVYPSVFEFLKDLKCQI" gene 286248..287321 /gene="pheA" /locus_tag="Cj0316" /db_xref="GeneID:904640" CDS 286248..287321 /gene="pheA" /locus_tag="Cj0316" /EC_number="4.2.1.51" /EC_number="5.4.99.5" /inference="protein motif:Pfam:PF00800" /inference="protein motif:Pfam:PF01817" /inference="protein motif:Pfam:PF01842" /inference="protein motif:Prosite:PS00857" /inference="protein motif:Prosite:PS00858" /note="Original (2000) note: Cj0316, pheA, probable chorismate mutase/prephenate dehydratase, len: 357 aa; similar to many e.g. PHEA_ECOLI chorismate mutase (EC 5.4.99.5)/prephenate dehydratase (EC 4.2.1.51) (386 aa),fasta scores; opt: 482 z-score: 733.8 E(): 0, 33.1% identity in 366 aa overlap. Similar in N-term to possible truncated pheA in Hp; HP0291 hypothetical protein (96 aa) 35.8% identity in 81 aa overlap. Contains PS00857 and PS00858 Prephenate dehydratase signatures 1 and 2, and Pfam match to entry PF00800 PDT, Prephenate dehydratase,score 268.20, E-value 1.1e-76; Updated (2006) note: Pfam domains PF01817 Chorismate mutase type II and PF01842 ACT domainn were identified. Further support given to product function. Characterised within Escherichia coli with acceptable identity score. Putative not added to product function. Functional classification - Amino acid biosynthesis -Aromatic amino acid family; PMID:9497350" /codon_start=1 /transl_table=11 /product="chorismate mutase/prephenate dehydratase" /protein_id="YP_002343754.1" /db_xref="GI:218561975" /db_xref="GOA:Q0PBJ3" /db_xref="InterPro:IPR001086" /db_xref="InterPro:IPR002701" /db_xref="InterPro:IPR002912" /db_xref="InterPro:IPR008242" /db_xref="InterPro:IPR010957" /db_xref="UniProtKB/TrEMBL:Q0PBJ3" /db_xref="GeneID:904640" /translation="MPNLEEFRNKIDAVDDKILDLLNERMTYVKSIGELKQSSGGSIY RPERERAIINRLKNANLGLLDQNAIEAIYQEIFAVSRNLEMPQTIAYLGPEGTYTHQA ARSRFGAMSRYIALANIEDVFKELSNKEAKYGVVPIENNTEGAVGITLDCLGKYNELK IFGEIYMDIHHSFVGINENLKEIKRIYSHPQGYNQCRKFLESHELSAIEFVPSKSTAN AAYLASQDKYAAAICSRIAAKLYNVPVLFDKIEDNAANKTRFLILSDIKNPKMPNCKT SILAHTAHKPGGLSFLLEQFKKENINLTKLESRPVKSKEFLHSFYIDFEGHIDDENVK KALKDIQEIVWLGSYLSGEKDEI" misc_feature 286251..286508 /gene="pheA" /locus_tag="Cj0316" /inference="protein motif:Pfam:PF01817" /note="HMMPfam hit to PF01817, Chorismate mutase type II,score 1.9e-22" misc_feature 286512..287051 /gene="pheA" /locus_tag="Cj0316" /inference="protein motif:Pfam:PF00800" /note="HMMPfam hit to PF00800, Prephenate dehydratase,score 6.3e-56" misc_feature 286968..287036 /gene="pheA" /locus_tag="Cj0316" /inference="protein motif:Prosite:PS00857" /note="PS00857 Prephenate dehydratase signature 1" misc_feature 287073..287303 /gene="pheA" /locus_tag="Cj0316" /inference="protein motif:Pfam:PF01842" /note="HMMPfam hit to PF01842, ACT domain, score 0.00089" misc_feature 287154..287177 /gene="pheA" /locus_tag="Cj0316" /inference="protein motif:Prosite:PS00858" /note="PS00858 Prephenate dehydratase signature 2" gene 287311..288405 /gene="hisC" /locus_tag="Cj0317" /db_xref="GeneID:904641" CDS 287311..288405 /gene="hisC" /locus_tag="Cj0317" /EC_number="2.6.1.9" /inference="protein motif:Pfam:PF00155" /inference="protein motif:Pfam:PF00222" /note="catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis" /codon_start=1 /transl_table=11 /product="histidinol-phosphate aminotransferase" /protein_id="YP_002343755.1" /db_xref="GI:218561976" /db_xref="GOA:Q9PII2" /db_xref="InterPro:IPR001917" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR005861" /db_xref="InterPro:IPR015421" /db_xref="UniProtKB/Swiss-Prot:Q9PII2" /db_xref="GeneID:904641" /translation="MKFNEFLNNLSNYEPGKDIEVIAKEYGVKEVIKLASNENPFGTP PKAIECLRQNANKAHLYPDDSMIELKSTLAQKYKVQNENIIIGAGSDQVIEFAIHSKL NSKNAFLQAGVTFAMYEIYAKQCGAKCYKTQSITHNLDEFKKLYETHKDEIKLIFLCL PNNPLGECLDASEATEFIKGVNEDCLVVIDAAYNEFASFKDSKKHLEPCELIKEFDNV LYLGTFSKLYGLGGLRIGYGIANANIISAFYKLRAPFNVSNLALKAAVAAMDDDEFTE KTLENNFSQMELYKEFAKKHNIKIIDSYTNFITYFFDEKNSTDLSEKLLKKGIIIRNL KSYGLNAIRITIGTSYENEKFFTEFDKILR" misc_feature 287533..288399 /gene="hisC" /locus_tag="Cj0317" /inference="protein motif:Pfam:PF00155" /note="HMMPfam hit to PF00155, Aminotransferase class I and II, score 6.6e-16" gene 288457..290139 /gene="fliF" /locus_tag="Cj0318" /db_xref="GeneID:904642" CDS 288457..290139 /gene="fliF" /locus_tag="Cj0318" /inference="protein motif:Pfam:PF01514" /note="the MS-ring anchors the flagellum to the cytoplasmic membrane; part of the flagellar basal body which consists of four rings L, P, S, and M mounted on a central rod" /codon_start=1 /transl_table=11 /product="flagellar MS-ring protein" /protein_id="YP_002343756.1" /db_xref="GI:218561977" /db_xref="GOA:Q0PBJ1" /db_xref="InterPro:IPR000067" /db_xref="InterPro:IPR006182" /db_xref="InterPro:IPR013556" /db_xref="UniProtKB/TrEMBL:Q0PBJ1" /db_xref="GeneID:904642" /translation="MDFKNMLHQIGQLYQNLTRKQRIVIAASIIVVVGFLVFLALFRG SGSNANNGYAVLVENVSPSSSAAIVAKLEQNNIPYKLESENKILVPQDQVYRQRMFIA SEGLIKDSRVGFEAFDTQAFGATNEEQKVKYQRAIEGELARTIETLEPIRSAVVHIAF PKDSVFTERQIPPTASVVVNVREGLKLTRKQIDGIKNIVSAAVPKLTKENVKISDQSG VPLDEQEAYEDDLVRAQIKFKSDQEKALEDKIIENLAPFAGGMDKVKVSVNIDFDFSK QESQSEIYDPNPIVRSEQTLNEERTGRKDPEIQGVPGAVSNIGPVEGLDNKGQIDTYK KNQVTTNNELSKTITNTKKQFATVLRTSAAVTIDGKYQDVVDENGDVKSEYVPLTKEE LASVESIVKNTINFSATRGDSVVVQNLPFHRESIRVESKVKTFYNRFVEPFIPPVKYF IAAILLFIFYKKVIAPFTQKMLEDVAAQEEMQQGPNAVLDDAEDALEKFNAARKKVEE QLGFGDNFNEDSIQYEVLLEKLRGLVSDKGEEIAALLQNLIQNDSEFGEKDM" sig_peptide 288457..288603 /gene="fliF" /locus_tag="Cj0318" /note="Signal peptide predicted for fliF by SignalP 2.0 HMM (Signal peptide probability 0.991) with cleavage site probability 0.791 between residues 49 and 50" misc_feature 288505..289146 /gene="fliF" /locus_tag="Cj0318" /inference="protein motif:Pfam:PF01514" /note="HMMPfam hit to PF01514, Secretory protein of YscJ/FliF family, score 3.9e-54" misc_feature 288523..288582 /gene="fliF" /locus_tag="Cj0318" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0318 by TMHMM2.0 at aa 23-42" gene 290139..291167 /gene="fliG" /locus_tag="Cj0319" /db_xref="GeneID:904643" CDS 290139..291167 /gene="fliG" /locus_tag="Cj0319" /inference="protein motif:Pfam:PF01706" /note="One of three proteins involved in switching the direction of the flagellar rotation" /codon_start=1 /transl_table=11 /product="flagellar motor switch protein G" /protein_id="YP_002343757.1" /db_xref="GI:218561978" /db_xref="GOA:Q0PBJ0" /db_xref="InterPro:IPR000090" /db_xref="UniProtKB/TrEMBL:Q0PBJ0" /db_xref="GeneID:904643" /translation="MIKLSEEQKMVYDDLSMPEKVAIFLIQLGEDATTSVFSHMEIDV ITEISRYIAMAKNVDRSVATAVLEEFYTLLQSNQYIKSGGLEYAKEILFRTFGPEIAN KILEKLTKSMENNQNFAYLAQIKPQQLADFITKEHPQTIALILAHMDSIHAAETLEYF SDELRAEVVIRMANLGDISPSIIKRVSAVLESKLESLTSYKVEVGGPRAVAEVLNRLG QKASKSTITYIEQSDERLAETIKELMFTFDDIQKLSTQAIREILKVADKRDLMIGLKG ASEELKQKFLANMSTRASEAFLEEMGFLGAVRVKDVEDAQRKVVEVVQKLAEQGLVQT GDADEMIE" misc_feature 290814..291143 /gene="fliG" /locus_tag="Cj0319" /inference="protein motif:Pfam:PF01706" /note="HMMPfam hit to PF01706, FliG C-terminal domain,score 7.5e-48" gene 291175..292005 /gene="fliH" /locus_tag="Cj0320" /db_xref="GeneID:904644" CDS 291175..292005 /gene="fliH" /locus_tag="Cj0320" /note="binds to and inhibits the function of flagella specific ATPase FliI" /codon_start=1 /transl_table=11 /product="flagellar assembly protein H" /protein_id="YP_002343758.1" /db_xref="GI:218561979" /db_xref="GOA:Q0PBI9" /db_xref="UniProtKB/TrEMBL:Q0PBI9" /db_xref="GeneID:904644" /translation="MVNRSNVISGGASDQHVVEGYRFKVISEFDNHTGEKKHTQTPDE ENTNISLNDEKPVEENQVIASTQAVMETQIPTFQPSFVEDLLKKTDEMSSNIIKLQMQ IESQENEFNNRLNSELENAKEKFTKEGYEKAKEEFQKELSDFKDKYLKSIAKLDNACE NLENFIEKNEKELADTAIDIAKEVILKELELNSSKIAYALAKDLIGELKGASAIELKV NAEDYEYLKEQFDQNAHIKISLDDAISKGSVVIISDAGNIESNLNSRLTKIKKMVNNE" gene 291998..293845 /gene="dxs" /locus_tag="Cj0321" /db_xref="GeneID:904645" CDS 291998..293845 /gene="dxs" /locus_tag="Cj0321" /EC_number="2.2.1.7" /inference="protein motif:Pfam:PF02780" /inference="protein motif:Prosite:PS00801" /inference="protein motif:Prosite:PS00802" /note="catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate" /codon_start=1 /transl_table=11 /product="1-deoxy-D-xylulose-5-phosphate synthase" /protein_id="YP_002343759.1" /db_xref="GI:218561980" /db_xref="GOA:Q9PIH8" /db_xref="InterPro:IPR005474" /db_xref="InterPro:IPR005475" /db_xref="InterPro:IPR005476" /db_xref="InterPro:IPR005477" /db_xref="InterPro:IPR015941" /db_xref="UniProtKB/Swiss-Prot:Q9PIH8" /db_xref="GeneID:904645" /translation="MSKKFAHTQEELEKLSLKELENLAASMREKIIQVVSKNGGHLSS NLGAVELSIAMHLVFDAKKDPFIFDVSHQSYTHKLLSGKEEIFDTLRQINGLSGYTKP SEGDYFVAGHSSTSISLAVGACKAIALKGEKRIPVALIGDGALSAGMAYEALNELGDS KFPCVILLNDNEMSISKPIGAISKYLSQAMATQFYQSFKKRIAKMLDILPDSATYMAK RFEESFKLITPGLLFEELGLEYIGPIDGHNLGEIISALKQAKAMQKPCVIHAQTIKGK GYALAEGKHAKWHGVGAFDIDSGESVKKSDTKKSATEIFSKNLLDLASKYENIVGVTA AMPSGTGLDKLIEKYPNRFWDVAIAEQHAVTSMAAMAKEGFKPFIAIYSTFLQRAYDQ VIHDCAIMNLNVVFAMDRAGIVGEDGETHQGVFDLSFLAPLPNFTLLAPRDEQMMQNI MEYAYLHQGPIALRYPRGSFILDKEFNPCEIKLGKAQWLVKNNSEIAFLGYGQGVAKA WQVLRALQEMNNNANLIDLIFAKPLDEELLCELAKKSKIWFIFSENVKIGGIESLINN FLQKYDLHVKVVSFEYEDKFIEHGKTSEVEKNLEKDVNSLLTKVLKFYH" misc_feature 292079..292138 /gene="dxs" /locus_tag="Cj0321" /inference="protein motif:Prosite:PS00801" /note="PS00801 Transketolase signature 1" misc_feature 292337..292369 /gene="dxs" /locus_tag="Cj0321" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature 292922..293416 /gene="dxs" /locus_tag="Cj0321" /inference="protein motif:Pfam:PF02779" /note="HMMPfam hit to PF02779, Transketolase, pyridine binding domai, score 2.1e-48" misc_feature 293240..293290 /gene="dxs" /locus_tag="Cj0321" /inference="protein motif:Prosite:PS00802" /note="PS00802 Transketolase signature 2" misc_feature 293447..293815 /gene="dxs" /locus_tag="Cj0321" /inference="protein motif:Pfam:PF02780" /note="HMMPfam hit to PF02780, Transketolase, C-terminal domain, score 6.3e-11" gene 293931..294341 /gene="perR" /locus_tag="Cj0322" /db_xref="GeneID:904646" CDS 293931..294341 /gene="perR" /locus_tag="Cj0322" /inference="protein motif:Pfam:PF01475" /note="Original (2000) note: Cj0322, perR, regulator of peroxide stress regulon, len: 136 aa; similar to many members of the furR family e.g. FUR3_BACSU ferric uptake regulation protein homolog 3 (145 aa), fasta scores; opt: 258 z-score: 379.6 E(): 6.9e-14, 32.6% identity in 135 aa overlap. No Hp match; Updated (2006) note: Pfam domain PF01475 Ferric uptake regulator family was identified within CDS. Further support given to product function. Marginal identity scores were obtained with many. Appropriate motifs present. Putative not added to product function. Functional classification - Broad regulatory functions; PMID:9701813, PMID:12100544" /codon_start=1 /transl_table=11 /product="peroxide stress regulator" /protein_id="YP_002343760.1" /db_xref="GI:218561981" /db_xref="GOA:Q0PBI7" /db_xref="InterPro:IPR002481" /db_xref="UniProtKB/TrEMBL:Q0PBI7" /db_xref="GeneID:904646" /translation="MELLQMLKKHELKATPQRLCVLKILKRHEHPNIDELYIEIKKEY PSISLATVYKNLNTLQEQGLVVEINVLNQKTCYDIYEEEHIHVVCTKCGGIEDLSFKD AKLYEYQEHLEKKIGNLVNHLSVCAYVDNCKKCH" misc_feature 293955..294314 /gene="perR" /locus_tag="Cj0322" /inference="protein motif:Pfam:PF01475" /note="HMMPfam hit to PF01475, Ferric uptake regulator family, score 4.3e-22" gene 294387..295583 /locus_tag="Cj0323" /db_xref="GeneID:904647" CDS 294387..295583 /locus_tag="Cj0323" /note="Original (2000) note: Cj0323, unknown, len: 398 aa; no Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Functional classification -Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343761.1" /db_xref="GI:218561982" /db_xref="UniProtKB/TrEMBL:Q0PBI6" /db_xref="GeneID:904647" /translation="MVYEIQKNFLLSDCTLLENLKKDNIPFRNSKFETFYTQITSNHS VKFQSFCNEFYKITKFNNSILEQNQEEKISKKKFEKARKKIIGKSIKKERFEFKFCSL KSYIDIYEEPKICILKIFFPTLDSSNEFKIPKDFKIQKELHHDLNSKHIVLYGFEYQN FDIEKYFKIIEKNQNFSLDFPNYINAYDGFRIFLFYLFKKLKFYWTLSLERKDKQSLC EFLFYSRSLYIVLSSMNTILDKNLSNILALKFKDITKKTQDILASENSNQDLLLFLSD EKIQDLFNDFDFFIKENSFYEGDCKDRFFKQLVALELRKKIILFRKNILKNFDLELFE NSFFELAIFLEYFYHFLEIKNLNKLYEKYSKDRDKNIFSKIINNKNKFCKLLKKSSKN LKIYKG" gene 295586..296293 /gene="ubiE" /locus_tag="Cj0324" /db_xref="GeneID:904648" CDS 295586..296293 /gene="ubiE" /locus_tag="Cj0324" /EC_number="2.1.1.-" /inference="protein motif:Pfam:PF01209" /note="Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone" /codon_start=1 /transl_table=11 /product="ubiquinone/menaquinone biosynthesis methyltransferase" /protein_id="YP_002343762.1" /db_xref="GI:218561983" /db_xref="GOA:Q9PIH5" /db_xref="InterPro:IPR004033" /db_xref="UniProtKB/Swiss-Prot:Q9PIH5" /db_xref="GeneID:904648" /translation="MQKQEKIIEMFNQIAPTYDKANRILSFGADVAWRKKACQRVMSL YLKKDLKIADIACGTGDMIEIWQESALKMEKNILNIKGIDPSSGMLNVAKEKFPNVEF IKAGAQNLPLESQSLDILSISYGIRNVVERQKALSEFARVLQKDGILVVLEFTKREKG GFIAACRDFYLKNILPSIGGIISKNKSAYEYLPNSIEGFLSKKEFILELKNAGFEMLD YKSFSFGVSSMFIAKKL" misc_feature 295586..296287 /gene="ubiE" /locus_tag="Cj0324" /inference="protein motif:Pfam:PF01209" /note="HMMPfam hit to PF01209, ubiE/COQ5 methyltransferase family, score 2.2e-28" gene 296290..297453 /gene="xseA" /locus_tag="Cj0325" /db_xref="GeneID:904649" CDS 296290..297453 /gene="xseA" /locus_tag="Cj0325" /EC_number="3.1.11.6" /inference="protein motif:Pfam:PF01336" /inference="protein motif:Pfam:PF02601" /note="bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides" /codon_start=1 /transl_table=11 /product="exodeoxyribonuclease VII large subunit" /protein_id="YP_002343763.1" /db_xref="GI:218561984" /db_xref="GOA:Q9PIH4" /db_xref="InterPro:IPR003753" /db_xref="InterPro:IPR004365" /db_xref="UniProtKB/Swiss-Prot:Q9PIH4" /db_xref="GeneID:904649" /translation="MTPTELNLKAKALLETHFDDIVLSGEISKITLHGSGHWYFDLKD ERSSIACAMFKGANLKVGFKPAVGDFLELCGSVSLYPESGRYQFIATSMKKAGFGDLE AQFLALKERLQKEGLFDPRFKKSLPKFPKKVGIITSKTSAALQDMLKLIHQKEYFLAK IYIFDALTQGNNAPFSLIQALKKADDMDLDVLIIARGGGSREDLFCFNDENLAREIFK AKTPIISAIGHEIDYVISDFVADFRAPTPSAAIDTLFYSKLDIEQSLDLMEEKLMQLW NYKIQNYENLLLNLSKFFKFNSLPKIIDEKIKQSHNIEKQLNHLLANQMRYNELKLDK LQNAYLQHENFFNKSKKFICIRKNGKIANLEDLKSDDIVILSSQTSQKEAKIL" misc_feature 296350..296577 /gene="xseA" /locus_tag="Cj0325" /inference="protein motif:Pfam:PF01336" /note="HMMPfam hit to PF01336, OB-fold nucleic acid binding domain, score 6.9e-11" misc_feature 296854..297333 /gene="xseA" /locus_tag="Cj0325" /inference="protein motif:Pfam:PF02601" /note="HMMPfam hit to PF02601, Exonuclease VII, large subunit, score 1.1e-27" gene 297463..298539 /gene="serC" /locus_tag="Cj0326" /db_xref="GeneID:904650" CDS 297463..298539 /gene="serC" /locus_tag="Cj0326" /EC_number="2.6.1.52" /inference="protein motif:Pfam:PF00266" /note="catalyzes the formation of 3-phosphonooxypyruvate and glutamate from O-phospho-L-serine and 2-oxoglutarate; required both in major phosphorylated pathway of serine biosynthesis and in the biosynthesis of pyridoxine" /codon_start=1 /transl_table=11 /product="phosphoserine aminotransferase" /protein_id="YP_002343764.1" /db_xref="GI:218561985" /db_xref="GOA:Q9PIH3" /db_xref="HSSP:Q59196" /db_xref="InterPro:IPR000192" /db_xref="InterPro:IPR003248" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="UniProtKB/Swiss-Prot:Q9PIH3" /db_xref="GeneID:904650" /translation="MRKINFSAGPSTLPLEILEQAQKELCDYQGRGYSIMEISHRTKV FEEVHFGAQEKAKKLYELNDDYEVLFLQGGASLQFAMIPMNLALNGVCEYANTGVWTK KAIKEAQILGVNVKTVASSEESNFDHIPRVEFSDNADYAYICSNNTIYGTQYQNYPKT KTPLIVDASSDFFSRKVDFSNIALFYGGVQKNAGISGLSCIFIRKDMLERSKNKQIPS MLNYLTHAENQSLFNTPPTFAIYMFNLEMDWLLNQGGLDKVHEKNSQKATMLYECIDL SNGFYKGHADKKDRSLMNVSFNIAKNKDLEPLFVKEAEEAGMIGLKGHRILGGIRASI YNALNLDQVKTLCEFMKEFQGKYA" misc_feature 297499..298500 /gene="serC" /locus_tag="Cj0326" /inference="protein motif:Pfam:PF00266" /note="HMMPfam hit to PF00266, Aminotransferase class-V,score 3.6e-37" gene 298536..298886 /locus_tag="Cj0327" /db_xref="GeneID:904651" CDS 298536..298886 /locus_tag="Cj0327" /inference="protein motif:Pfam:PF01042" /note="Original (2000) note: Cj0327, unknown, len: 116 aa; similar to hypothetical proteins e.g. YABJ_BACSU (125 aa),fasta scores; opt: 211 z-score: 261.9 E(): 2.5e-07, 33.0% identity in 109 aa overlap, and to e.g. UK14_HUMAN 14.5 kd translational inhibitor protein (137 aa), fasta scores; opt: 173 z-score: 249.5 E(): 1.2e-06, 29.2% identity in 106 aa overlap. No Hp ortholog. Also similar to Cj1388 (33.3% identity in 96 aa overlap). Contains Pfam match to entry PF01042 DUF10, Domain of unknown function, score 69.30, E-value 8.4e-17; Updated (2006) note: Pfam domain PF01042 Endoribonuclease L-PSP identified within CDS (previously uncharacterised). Product modified to more specific family member due to motif match. No specific characterisation has been carried out yet. Putative kept within product fucntion. Functional classification - Degradation of macromolecules - DNA" /codon_start=1 /transl_table=11 /product="putative endoribonuclease L-PSP family protein" /protein_id="YP_002343765.1" /db_xref="GI:218561986" /db_xref="InterPro:IPR006175" /db_xref="InterPro:IPR013813" /db_xref="UniProtKB/TrEMBL:Q0PBI2" /db_xref="GeneID:904651" /translation="MIKRFDECDRMSQIIVFDKYFKTAGQVAFEPSGDIKKQTKEALA ELDALFEKIGANKGDLIQIQIWLANMQDFDAMNEIYDAWIKNYPKPVRACVGSALAEG YLVEIQAFGKLREN" misc_feature 298554..298874 /locus_tag="Cj0327" /inference="protein motif:Pfam:PF01042" /note="HMMPfam hit to PF01042, Endoribonuclease L-PSP,score 3.8e-16" gene complement(298883..299857) /gene="fabH" /locus_tag="Cj0328c" /db_xref="GeneID:904652" CDS complement(298883..299857) /gene="fabH" /locus_tag="Cj0328c" /EC_number="2.3.1.41" /note="FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs" /codon_start=1 /transl_table=11 /product="3-oxoacyl-(acyl carrier protein) synthase III" /protein_id="YP_002343766.1" /db_xref="GI:218561987" /db_xref="GOA:Q9PIH1" /db_xref="HSSP:P24249" /db_xref="InterPro:IPR004655" /db_xref="InterPro:IPR013747" /db_xref="InterPro:IPR013751" /db_xref="UniProtKB/Swiss-Prot:Q9PIH1" /db_xref="GeneID:904652" /translation="MLKASLKSIASYIPEKILSNADLEKMVDTTDEWITRRTGIKERR IASENENTSDLGTKAALKAIERANLKPEDIDAILVATLSPDYFTMPSTACKIASNLGL VNISAFDISAACSGFIYLLEQAKALVESGLKKNVLIIGAEKTSSIMDYNDRSICILFG DGAGAGVVSLDNENHILDVHTASNGNYGDLLMTQRSQKSSLCQTLSMQMKGNEVFKIA VNTLSNDVVEILAKNNILAQEIDLFIPHQANLRIIKAVQEKLNLSDEKCVITVQKYGN TSAASIPMAMNDAYEEGRLKKGNLILLDAFGGGFTWGSALLKFGGENF" gene complement(299850..300836) /gene="plsX" /locus_tag="Cj0329c" /db_xref="GeneID:904653" CDS complement(299850..300836) /gene="plsX" /locus_tag="Cj0329c" /inference="protein motif:Pfam:PF02504" /note="involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY" /codon_start=1 /transl_table=11 /product="putative glycerol-3-phosphate acyltransferase PlsX" /protein_id="YP_002343767.1" /db_xref="GI:218561988" /db_xref="GOA:Q9PIH0" /db_xref="InterPro:IPR003664" /db_xref="InterPro:IPR012281" /db_xref="UniProtKB/Swiss-Prot:Q9PIH0" /db_xref="GeneID:904653" /translation="MINIAIDAMGGDFGEKPIIEGVLKALETKPFNAILVGNSKILKP LIPKKLEQYIQYEEASEIFSMNGNATDALKNKETTIYKAINLLKEKKVDAVVSAGHSG ASMSLATLKLGRLKGISRPAIATLMPNIVNKTLLLDVGANTDCKAENLFQFAIMGEVY AREIMQIQKPRLALLSNGEEECKGNELTKESHQLMKKIPNFIGNAEGRDIFNGEIDVL VCDGFDGNVILKACEGVATAIFQLLKNEVKQSFISKIGALLMKPSFKKLKKHTDWQEY GGAPLLGVNGCVIISHGKSDSRAIKNAIFQAINFSQSHINKFIENELGKYNA" misc_feature complement(299883..300833) /gene="plsX" /locus_tag="Cj0329c" /inference="protein motif:Pfam:PF02504" /note="HMMPfam hit to PF02504, Fatty acid synthesis protein, score 1.6e-141" gene complement(300842..300988) /gene="rpmF" /locus_tag="Cj0330c" /db_xref="GeneID:904654" CDS complement(300842..300988) /gene="rpmF" /locus_tag="Cj0330c" /inference="protein motif:Pfam:PF01783" /note="some L32 proteins have zinc finger motifs consisting of CXXC while others do not" /codon_start=1 /transl_table=11 /product="50S ribosomal protein L32" /protein_id="YP_002343768.1" /db_xref="GI:218561989" /db_xref="GOA:Q9PIG9" /db_xref="InterPro:IPR002677" /db_xref="UniProtKB/Swiss-Prot:Q9PIG9" /db_xref="GeneID:904654" /translation="MAVPKRRVSKTRAAKRRTHYKVSLPMPIKDKDGSYKMPHRANPT TKEY" misc_feature complement(300851..300985) /gene="rpmF" /locus_tag="Cj0330c" /inference="protein motif:Pfam:PF01783" /note="HMMPfam hit to PF01783, Ribosomal L32p protein family, score 1.8e-05" gene complement(301012..301365) /locus_tag="Cj0331c" /db_xref="GeneID:904655" CDS complement(301012..301365) /locus_tag="Cj0331c" /note="Original (2000) note: Cj0331c, unknown, len: 117 aa; 34.7% identity to HP0199. Functional classification -Conserved hypothetical proteins" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343769.1" /db_xref="GI:218561990" /db_xref="UniProtKB/TrEMBL:Q0PBH8" /db_xref="GeneID:904655" /translation="MKIPFSKINTKEYPFKLNLENIIFEGNLVKINPKLVKINAIMQG FIYRPCDSCGTELELEIKENLELFASDGIFKDEANELSNTIEFFDGHIDLIEVAISEL EAYLSDYFYCINCNN" gene complement(301366..301779) /gene="ndk" /locus_tag="Cj0332c" /db_xref="GeneID:904656" CDS complement(301366..301779) /gene="ndk" /locus_tag="Cj0332c" /EC_number="2.7.4.6" /inference="protein motif:Pfam:PF00334" /inference="protein motif:Prosite:PS00469" /note="Original (2000) note: Cj0332c, ndk, probable nucleoside diphosphate kinase, len: 137 aa; highly similar to many e.g. NDK_ECOLI nucleoside diphosphate kinase (EC 2.7.4.6) (142 aa), fasta scores; opt: 532 z-score: 964.5 E(): 0, 57.7% identity in 137 aa overlap. 73.3% identity to HP0198. Contains PS00469 Nucleoside diphosphate kinases active site and Pfam match to entry PF00334 NDK,Nucleoside diphosphate kinases, score 280.30, E-value 2.4e-80; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Putative not added to product function. Literature search identified paper linking protein to glycoprotein. Functional classification - Purine ribonucleotide biosynthesis; PMID:1657712, PMID:7730286" /codon_start=1 /transl_table=11 /product="nucleoside diphosphate kinase" /protein_id="YP_002343770.1" /db_xref="GI:218561991" /db_xref="GOA:Q9PIG7" /db_xref="HSSP:P15266" /db_xref="InterPro:IPR001564" /db_xref="UniProtKB/Swiss-Prot:Q9PIG7" /db_xref="GeneID:904656" /translation="MEKTLSIIKPDAVKKGVIGKILDRFESNGLRIAAMKKVQLSKEQ AENFYAVHKERPFFKDLVEFMISGPVVVSILEGEGAVLKNRDLMGATNPKEAKAGTIR ADFAESIDANAVHGSDSLENAKIEIEFFFKPNEIC" misc_feature complement(301369..301776) /gene="ndk" /locus_tag="Cj0332c" /inference="protein motif:Pfam:PF00334" /note="HMMPfam hit to PF00334, Nucleoside diphosphate kinase, score 6e-80" misc_feature complement(301420..301446) /gene="ndk" /locus_tag="Cj0332c" /inference="protein motif:Prosite:PS00469" /note="PS00469 Nucleoside diphosphate kinases active site" gene complement(301892..302176) /gene="fdxA" /locus_tag="Cj0333c" /db_xref="GeneID:904657" CDS complement(301892..302176) /gene="fdxA" /locus_tag="Cj0333c" /inference="protein motif:Pfam:PF00037" /inference="protein motif:Prosite:PS00198" /note="Original (2000) note: Cj0333c, fdxA, probable ferredoxin, len: 94 aa; similar to many e.g. FER_CLOTM ferredoxin (55 aa), fasta scores; opt: 142 z-score: 311.2 E(): 4.5e-10, 45.8% identity in 59 aa overlap. No Hp ortholog. Also similar to Cj0354c (38.8% identity in 67 aa overlap). Contains PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature and Pfam match to entry PF00037 fer4, 4Fe-4S ferredoxins and related iron-sulfur cluster binding domains., score 51.80, E-value 8.8e-14; Updated (2006) note: Similar to many e.g. Clostridium sp. with acceptable identity scores. Putative not added to product function. Functional classification -Energy metabolism - Electron transport; PMID:4433520" /codon_start=1 /transl_table=11 /product="ferredoxin" /protein_id="YP_002343771.1" /db_xref="GI:218561992" /db_xref="GOA:Q0PBH6" /db_xref="InterPro:IPR001450" /db_xref="UniProtKB/TrEMBL:Q0PBH6" /db_xref="GeneID:904657" /translation="MAVKITDICIACGSCIDECPVNAIVDDTNNPEGEDRYYVYANKC VECVGHNDQPACASACPTDGCIVWSAVESGQPSRDNIGADMRSGDTPVFA" misc_feature complement(302102..302173) /gene="fdxA" /locus_tag="Cj0333c" /inference="protein motif:Pfam:PF00037" /note="HMMPfam hit to PF00037, 4Fe-4S binding domain,score 2.9e-06" misc_feature complement(302117..302152) /gene="fdxA" /locus_tag="Cj0333c" /inference="protein motif:Prosite:PS00198" /note="PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature" gene 302383..302979 /gene="ahpC" /locus_tag="Cj0334" /db_xref="GeneID:904658" CDS 302383..302979 /gene="ahpC" /locus_tag="Cj0334" /EC_number="3.4.-.-" /inference="protein motif:Pfam:PF00578" /note="Original (2000) note: Cj0334, ahpC, probable alkyl hydroperoxide reductase, len: 198 aa; highly simlar to e.g. TDX1_HUMAN thioredoxin peroxidase 1 (198 aa), fasta scores; opt: 615 z-score: 915.3 E(): 0, 46.1% identity in 193 aa overlap, and to e.g. AHPC_ECOLI P26427 alkyl hydroperoxide reductase C22 protein (EC 1.6.4.-) (186 aa),wublastp scores E= 8.9e-23, 34% identity in 149 aa overlap. 67.7% identity to HP1563 (Hp 26 kD antigen). Contains Pfam match to entry PF00578 AhpC-TSA, AhpC/TSA family, score 208.20, E-value 1.2e-58; Updated (2006) note: Characterised within Campylobacter jejuni. Putative not added to product function. Literature search identified paper linking protein to glycoprotein (PMID:12186869). Functional classification - Detoxification; PMID:10438747, PMID:10515927, PMID:12186869" /codon_start=1 /transl_table=11 /product="alkyl hydroperoxide reductase" /protein_id="YP_002343772.1" /db_xref="GI:218561993" /db_xref="GOA:Q9ZI13" /db_xref="HSSP:Q63716" /db_xref="InterPro:IPR000866" /db_xref="InterPro:IPR012335" /db_xref="UniProtKB/TrEMBL:Q9ZI13" /db_xref="GeneID:904658" /translation="MIVTKKALDFTAPAVLGNNEIVQDFNLYKNIGPKGAVVFFYPKD FTFVCPSEIIAFDKRYQEFKNRGIEVIGISGDNEFSHFAWKNTPVNQGGIGQVKFPLV ADLTKQIARNFDVLYAEAVALRGSFLLDADGTVRHAVVNDLPLGRNIDEMLRMVDTML FTNEHGEVCPAGWNKGDEGMKANPKGVAEYLGKNEAKL" misc_feature 302389..302844 /gene="ahpC" /locus_tag="Cj0334" /inference="protein motif:Pfam:PF00578" /note="HMMPfam hit to PF00578, AhpC/TSA family, score 8.6e-60" gene 303098..304186 /gene="flhB" /locus_tag="Cj0335" /db_xref="GeneID:904659" CDS 303098..304186 /gene="flhB" /locus_tag="Cj0335" /inference="protein motif:Pfam:PF01312" /inference="protein motif:TMHMM:2.0" /note="membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export" /codon_start=1 /transl_table=11 /product="flagellar biosynthesis protein FlhB" /protein_id="YP_002343773.1" /db_xref="GI:218561994" /db_xref="GOA:Q0PBH4" /db_xref="InterPro:IPR006135" /db_xref="InterPro:IPR006136" /db_xref="UniProtKB/TrEMBL:Q0PBH4" /db_xref="GeneID:904659" /translation="MAGEDQEKTEEPTSKKIEDARKEGNVPKSQDAAAIVTLIIGVTI TLFMMSFMGERIVNLYRYYQSFIGVEFDLRIIQAIMIKSIFEVLIILAPIVLSIMIAG VLGNIMQFGFIFTTKPIMPNLGKINPLKGLKNLFSLKKIVESIKIILKVGIVFTIAFI VLLKFMQELPRVELYTMVAQLTWLRDRAIVLAAIVIVAFLIIAVLDVFLVRFQYFKGL RMSKQEIKDEYKQMEGDPQVKGRIRRLQMEAARRRMVQDVAGADVVITNPTHYAVAIR YDTGKEQAPRVVAKGVDFLALRIKQVAYENNVVVYENPPLARELYKACDVNDLIPREM FKAVAEVLGFVYNTNNKSRLAGQVKKGN" misc_feature 303110..304135 /gene="flhB" /locus_tag="Cj0335" /inference="protein motif:Pfam:PF01312" /note="HMMPfam hit to PF01312, FlhB HrpN YscU SpaS Family,score 2.4e-119" misc_feature order(303191..303259,303344..303412,303518..303586, 303659..303727) /gene="flhB" /locus_tag="Cj0335" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0335 by TMHMM2.0 at aa 32-54, 83-105, 141-163 and 188-210" gene complement(304192..304935) /gene="motB" /locus_tag="Cj0336c" /db_xref="GeneID:904660" CDS complement(304192..304935) /gene="motB" /locus_tag="Cj0336c" /inference="protein motif:Pfam:PF00691" /inference="protein motif:TMHMM:2.0" /note="with MotA forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine" /codon_start=1 /transl_table=11 /product="flagellar motor protein MotB" /protein_id="YP_002343774.1" /db_xref="GI:218561995" /db_xref="GOA:Q0PBH3" /db_xref="InterPro:IPR006665" /db_xref="UniProtKB/TrEMBL:Q0PBH3" /db_xref="GeneID:904660" /translation="MAKKHKCPECPAGEKWAVPYADFLSLLLALFIALWAISKTNPAK VEALKTEFVKIFDYTSTQTVKEESKTQEKYKGAAKEESDELKSLKQMTMTQQETIKRL QAALDQSDNQVALNLPSKVEFERGSAQIVSADIQDYLKRMAELTTYLPPQAKIEIRGY TDNSDSIIRSYELAYQRAENVLKYFIEGGANLKNISIKSYGLNNPINGNPQTLENNRV EIYFKVDTADTSTQKSVLELINKIGTKAP" misc_feature complement(304285..304572) /gene="motB" /locus_tag="Cj0336c" /inference="protein motif:Pfam:PF00691" /note="HMMPfam hit to PF00691, OmpA family, score 9.1e-07" misc_feature complement(304822..304890) /gene="motB" /locus_tag="Cj0336c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0336c by TMHMM2.0 at aa 16-38" gene complement(304938..305714) /gene="motA" /locus_tag="Cj0337c" /db_xref="GeneID:904661" CDS complement(304938..305714) /gene="motA" /locus_tag="Cj0337c" /inference="protein motif:Pfam:PF01618" /inference="protein motif:Prosite:PS01307" /inference="protein motif:TMHMM:2.0" /note="With MotB forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine" /codon_start=1 /transl_table=11 /product="flagellar motor protein MotA" /protein_id="YP_002343775.1" /db_xref="GI:218561996" /db_xref="GOA:Q0PBH2" /db_xref="InterPro:IPR000540" /db_xref="InterPro:IPR002898" /db_xref="UniProtKB/TrEMBL:Q0PBH2" /db_xref="GeneID:904661" /translation="MDLSTILGMVLAVTSISVGDILEGGNPLHVVHLSSFLIVMPTAA FCAMTSTHKKIVKAAYKELKVVFKGSGVNLPERIAQLIEFAIIARRDGLLALESRTSE IENEFLKNAMMMLVDGKSFEEIHESMEIQTEQLEEHYKECAEYWIVFGETCPTMGLVG AVFGLILALKLLDNPQAMAAGISGAFTATVTGIFGAYALFAPWGKKLKANGMDLVKEQ IVITEAIKGIAEGANPRDLEAKLFNFLSHDDPRISQFDKG" misc_feature complement(305034..305447) /gene="motA" /locus_tag="Cj0337c" /inference="protein motif:Pfam:PF01618" /note="HMMPfam hit to PF01618, MotA/TolQ/ExbB proton channel family, score 5.5e-09" misc_feature complement(305109..305162) /gene="motA" /locus_tag="Cj0337c" /inference="protein motif:Prosite:PS01307" /note="PS01307 Flagellar motor protein motA family signature" gene complement(305730..308369) /gene="polA" /locus_tag="Cj0338c" /db_xref="GeneID:904662" CDS complement(305730..308369) /gene="polA" /locus_tag="Cj0338c" /EC_number="2.7.7.7" /inference="protein motif:Pfam:PF00476" /inference="protein motif:Pfam:PF00929" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00447" /note="has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair" /codon_start=1 /transl_table=11 /product="DNA polymerase I" /protein_id="YP_002343776.1" /db_xref="GI:218561997" /db_xref="GOA:Q0PBH1" /db_xref="InterPro:IPR001098" /db_xref="InterPro:IPR002298" /db_xref="InterPro:IPR002421" /db_xref="InterPro:IPR002562" /db_xref="InterPro:IPR008918" /db_xref="UniProtKB/TrEMBL:Q0PBH1" /db_xref="GeneID:904662" /translation="MKTLTIVDTFGFFFRLYYALKGFKNSQGQASGMISGFANFIYSL KNEYKSDYIVFALDSKGKTFRSEIDPNYKQNRTPPPPELLEQIPICIKMIEKMGFISV SQEGYEADDIIASFVKTCENRDIFVRIITQDKDLYQLIKDGKTSIYSPISKNDYDEAA CLEKYGVKPNQIRDFLALCGDSSDNIPGVKGIGAKGAKTLLDEFGSIEGIYENLTLVR NERSRNLLLEGKENAFLSKKLASLYDNLEVQNLIEKATYPDEEPLLKILEILEHYELN TLLKKLRQNPDNKDKNLGFKATLVQDENKLFEILNTLDKESIIAFDTETTGLDTKEAK IVGFSFCMNENEAFYVPLTHNYLGVGEQISLQSAKKAIEVIFNHFVIGHNLKYDFKII QNNFDLNLPQKYADTMILAWLKNPSLRVNMDDLALRLFNYETLHFESLVKKGENFASV ELEKACKYAAEDAYITLRFYLYFLKNLETPLLELAKNCEFDFIKIIMMMEENGIKLDT NALEILMKKFENEIKNLSEEIYTLCEDRFNLNSPKQMGDILFEKLKLPSGKKGKTGYS TDEKVLNILLDKHPVIAKILDYRELAKLYSTYCEPLLKLALKDKNSRIYSSFLQTGTA TGRLSSKDPNLQNIPAHGQYAKDYKSCFVAKDGFSFISLDYSQIELRILAHFSEDEKL LNAFANDEDIHARTAIMIFGESNYETRSVAKSINFGLIYGMGYKTLSQNLKIEANLAK SYIEKYFENFTSIKKYFEKVKNEAKQNGFIVTLSGRKRYFDFENAKPMQIAMYERESI NSILQGSAADVIKLAMLEINKELNEDKKLILQIHDELIFEVKDDLCENFVKKTRDIME NIVKLKVKLKTSSSIAKNWGDLK" misc_feature complement(305736..306854) /gene="polA" /locus_tag="Cj0338c" /inference="protein motif:Pfam:PF00476" /note="HMMPfam hit to PF00476, DNA polymerase family A,score 3.2e-110" misc_feature complement(306186..306245) /gene="polA" /locus_tag="Cj0338c" /inference="protein motif:Prosite:PS00447" /note="PS00447 DNA polymerase family A signature" misc_feature complement(306936..307481) /gene="polA" /locus_tag="Cj0338c" /inference="protein motif:Pfam:PF01612" /note="HMMPfam hit to PF01612, 3'-5' exonuclease, score 3e-25" misc_feature complement(307575..307871) /gene="polA" /locus_tag="Cj0338c" /inference="protein motif:Pfam:PF01367" /note="HMMPfam hit to PF01367, 5'-3' exonuclease,C-terminal SAM fold, score 4.4e-42" misc_feature complement(307875..308366) /gene="polA" /locus_tag="Cj0338c" /inference="protein motif:Pfam:PF02739" /note="HMMPfam hit to PF02739, 5'-3' exonuclease,N-terminal resolvase-, score 5.4e-48" misc_feature complement(308181..308204) /gene="polA" /locus_tag="Cj0338c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 308533..309894 /locus_tag="Cj0339" /db_xref="GeneID:904663" CDS 308533..309894 /locus_tag="Cj0339" /inference="protein motif:Pfam:PF00083" /inference="protein motif:Pfam:PF07690" /inference="protein motif:Prosite:PS50850" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0339, probable transmembrane transport protein, len: 453 aa; similar to e.g. YDFJ_ECOLI hypothetical metabolite transport protein (427 aa), fasta scores; opt: 1214 z-score: 1428.6 E(): 0,42.5% identity in 416 aa overlap, and SHIA_ECOLI shikimate transporter (438 aa), fasta scores; opt: 876 z-score: 1104.0 E(): 0, 32.3% identity in 421 aa overlap. No Hp ortholog. Contains Pfam match to entry PF00083 sugar_tr,Sugar (and other) transporters, score 123.20, E-value 4.9e-33; Updated (2006) note: Ten probable transmembrace helices identified by TMHMM2.0 within CDS. Pfam domain PF07690 Major Facilitator Superfamily protein identified within CDS. Prosite PS50850 MFS, Major facilitator superfamily also identifed within CDS. Product modified to new family member based on motif match. No specific characterisation has been carried out yet. Putative kept within product function. Functional classification -Transport/binding proteins - Other; PMID:15919996" /codon_start=1 /transl_table=11 /product="putative MFS (Major Facilitator Superfamily) transport protein" /protein_id="YP_002343777.1" /db_xref="GI:218561998" /db_xref="GOA:Q0PBH0" /db_xref="InterPro:IPR007114" /db_xref="InterPro:IPR011701" /db_xref="UniProtKB/TrEMBL:Q0PBH0" /db_xref="GeneID:904663" /translation="MTNQQIDGIADKNFNTPEGRKVFKKAVFSCWLGTAMEYADFALY GLAAATIFSEVFFPEQTPVIALLLSFVTYGIGFIARPIGALFFGHLGDKHGRKNVMMA TIALMGISTTLIGFIPSYAVIGVWAPICLVALRFMQGFGAGAELSGGTVMLAEYAPSK RRGLVSSVIALGSNSGTLLASFVWLLMVQMDEASFKEWGWRVPFMGSILIALFAVYIR FHVKETPVFEKQKNEMMKLRLNNEKHMKKDERSFWQRSRAFWTMVGLRIGENGPSYLA QGFIVGYVTKILLLDKSVATTAVMIASLVGFLVIPLAGYLSDKFGRCITYRMFCLLLM IYAFPAFMLLDSKNEIIVILTIIVGMSLASLGIFGVQAAWGVELFGVKNRYTKMAFAK ELGSILSGGTAPMVASALLAYYGSWWPIATYFVLTAGIGFVTTFFAPETRGRDLNKIE DAI" misc_feature 308605..309891 /locus_tag="Cj0339" /inference="protein motif:Pfam:PF00083" /note="HMMPfam hit to PF00083, Sugar (and other) transporter, score 1.3e-35" misc_feature order(308620..308688,308716..308784,308845..308913, 309022..309090,309124..309192,309412..309480, 309499..309558,309586..309654,309712..309771, 309781..309849) /locus_tag="Cj0339" /inference="protein motif:TMHMM:2.0" /note="10 probable transmembrane helices predicted for Cj0339 by TMHMM2.0 at aa 30-52, 62-84, 105-127, 164-186,198-220, 294-316, 323-342, 352-374, 394-413 and 417-439" misc_feature 308620..309768 /locus_tag="Cj0339" /inference="protein motif:Pfam:PF07690" /note="HMMPfam hit to PF07690, Major Facilitator Superfamily, score 2.5e-24" gene 309891..310898 /locus_tag="Cj0340" /db_xref="GeneID:904664" CDS 309891..310898 /locus_tag="Cj0340" /inference="protein motif:Pfam:PF01156" /note="Original (2000) note: Cj0340, possible nucleoside hydrolase, len: 335 aa; similar to hypothetical proteins e.g. YAAF_ECOLI (304 aa), fasta scores; opt: 252 z-score: 377.2 E(): 9.4e-14, 25.9% identity in 309 aa overlap, and to the eukaryotic IUNH_CRIFA inosine-uridine preferring nucleoside hydrolase (314 aa), fasta scores; opt: 261 z-score: 363.4 E(): 5.5e-13, 25.3% identity in 296 aa overlap. No Hp match. Contains Pfam match to entry PF01156 IU_nuc_hydro, Inosine-uridine preferring nucleoside hydrolase, score -11.20, E-value 4.8e-12; Updated (2006) note: No specific characterisation with acceptable identity score has been carried out yet. Putative kept within product function. Functional classification - Salvage of nucleosides and nucleotides; PMID:10409664" /codon_start=1 /transl_table=11 /product="putative nucleoside hydrolase" /protein_id="YP_002343778.1" /db_xref="GI:218561999" /db_xref="GOA:Q0PBG9" /db_xref="InterPro:IPR001910" /db_xref="UniProtKB/TrEMBL:Q0PBG9" /db_xref="GeneID:904664" /translation="MRLILDTDIGNAIAGANTDDGLALALILSSKEIKLEMLSTVCGN VPSLVAYSVAKDLFQRLNLNIPVYLGANEALKEPSKAWRQRLDESVKNFKLEYLWENI KSPEILENINPDAIFKMGELVSKNPKEISICAIGPLTNIAMTMKIFKDFDINLKELFI MGGSFDMPYYTKDTNFGFDPEAASIVLNSRAKITLIPYNATMQTLLTHEDLKELQGKN ILCDFIVETLGVWIDYASKTRGTKGTWIHDALTIACALDSSIADFDECYADVICDSSL ARGMSWRCFREPKMSMGVDLSTKNCVKILKNVDNARLLKLIKERLLKGVCYENYESIT T" misc_feature 309891..310808 /locus_tag="Cj0340" /inference="protein motif:Pfam:PF01156" /note="HMMPfam hit to PF01156, Inosine-uridine preferring nucleoside hy, score 5.1e-18" gene complement(310854..311297) /locus_tag="Cj0341c" /db_xref="GeneID:904665" CDS complement(310854..311297) /locus_tag="Cj0341c" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0341c, possible integral membrane protein, len: 147 aa; similar to hypothetical membrane proteins e.g. Y489_HAEIN HI0489 (157 aa), fasta scores; opt: 252 z-score: 350.5 E(): 2.9e-12, 34.0% identity in 159 aa overlap. No Hp match; Updated (2006) note: Four probable transmembrace helices identified by TMHMM2.0 within CDS. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343779.1" /db_xref="GI:218562000" /db_xref="GOA:Q0PBG8" /db_xref="InterPro:IPR015414" /db_xref="UniProtKB/TrEMBL:Q0PBG8" /db_xref="GeneID:904665" /translation="MFDFLYNDISYLGLFMVCFLSSTLLPLASEAFVLGFIKLDFNPN LVLIVATLGNTLGSLSTYALAYFGKEKILEKYFSKSLKKLENFNANFAKFGSIFAFFT FLPLVGDLFALGLGFAKYSFLKTIFFILLGKLSRYTFIIFIANSF" sig_peptide complement(310854..310946) /locus_tag="Cj0341c" /note="Signal peptide predicted for signalp2embl_unknown_000151_310854_311297 by SignalP 2.0 HMM (Signal peptide probability 0.782) with cleavage site probability 0.728 between residues 31 and 32" gene complement(311302..314127) /gene="uvrA" /locus_tag="Cj0342c" /db_xref="GeneID:904666" CDS complement(311302..314127) /gene="uvrA" /locus_tag="Cj0342c" /inference="protein motif:Pfam:PF00005" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00211" /note="The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate" /codon_start=1 /transl_table=11 /product="excinuclease ABC subunit A" /protein_id="YP_002343780.1" /db_xref="GI:218562001" /db_xref="GOA:Q0PBG7" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR004602" /db_xref="UniProtKB/TrEMBL:Q0PBG7" /db_xref="GeneID:904666" /translation="MNDTIKIIGARENNLKNIHLEIPKNKLIVFTGLSGSGKSTLAFG TLYAEGQRRYIESLSAYARQFLDKVGKPDVDKIEGLTPAIAIDQKTTSKNPRSTVGTI TEIYDYLRLLYARVGIQHCHRCGQKISSMSVSDIVSEILKFPKGAKIIIYSPLIREKK GTYADLLENLRNKGYVRAQIDGVLVRLDEEIELAKTKKHTIKLVIDRLEIQEDLLSRL ASDIEKGLQESFGEIEIEVLNHEEINLNKHYHFSEHSACFDCKISFVPLEPLSFSFNS PKGACEACDGLGIRYTLDMKKIIDENLSLENGAVKIMYGFNKSYYYKFLIAFCEQNEI PIKIPFMQLNEVQKRLVLYGNAKTIEFLWKRNRLKRTFEGVVKMAYEMLKDEKDLAEY MSEKICKDCGGHRLKPESLAVKVAKKSLGEILDMSIEDSTAFFADEKNFSYLSEQQKL ISKPILKEINERLFFLYDVGLGYLSLGRDARTISGGEAQRIRIASQIGSGLSGVMYVL DEPSIGLHERDTAKLIKTLRNLQQKGNTLIVVEHDKMTIEEADFIVDIGPKAGKFGGE VVFSGTYKELLKSKSETALYMNGKKQISQLQNRTQKEWLELKNVNINNIQDLSVKFPL QNLVAITGVSGSGKSSLILQTLLPFAQEELNRAKKVKKLGGVQIEGLEKLDKVIYLDQ SPIGRTPRSNPATYTGAMDEIRNLFAATKEAKMRGYKAGRFSFNVKGGRCEKCSGDGE IKIEMHFLPDVMVVCDTCGGKRYNDATLEIKYKGKNISEILNMSVLEASEFFTAVPKI KQKLDTLVKVGLDYLTLGQNATTLSGGEAQRIKLAKELSRSDTGKTLYILDEPTTGLH FEDVNKLILVLQHLVDLKNSVFVIEHNLDVIKNADYIIDMGPEGGVKGGKVISTGSVE KVAKEHKKTRSYTGYYLDLELKNTQKS" misc_feature complement(311437..312255) /gene="uvrA" /locus_tag="Cj0342c" /inference="protein motif:Pfam:PF00005" /note="HMMPfam hit to PF00005, ABC transporter, score 9.1e-19" misc_feature complement(311620..311664) /gene="uvrA" /locus_tag="Cj0342c" /inference="protein motif:Prosite:PS00211" /note="PS00211 ABC transporters family signature" misc_feature complement(312211..312234) /gene="uvrA" /locus_tag="Cj0342c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature complement(312637..312681) /gene="uvrA" /locus_tag="Cj0342c" /inference="protein motif:Prosite:PS00211" /note="PS00211 ABC transporters family signature" misc_feature complement(314011..314034) /gene="uvrA" /locus_tag="Cj0342c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(314200..314985) /locus_tag="Cj0343c" /db_xref="GeneID:904667" CDS complement(314200..314985) /locus_tag="Cj0343c" /inference="protein motif:Pfam:PF01925" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0343c, probable integral membrane protein, len: 261 aa; similar to many hypothetical membrane proteins e.g. Y441_METJA MJ0441 (267 aa), fasta scores; opt: 152 z-score: 301.8 E(): 1.5e-09,30.7% identity in 257 aa overlap. 45.1% identity to HP0677 and 44.0% identity to HP0226; Updated (2006) note: Nine probable transmembrace helices identified by TMHMM2.0 within CDS. Pfam PF01925 Domain of unknown function (DUF81) protein identified within CDS. Further support given to product function. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343781.1" /db_xref="GI:218562002" /db_xref="GOA:Q0PBG6" /db_xref="InterPro:IPR002781" /db_xref="UniProtKB/TrEMBL:Q0PBG6" /db_xref="GeneID:904667" /translation="MEITDLPYLIIGIISGIASGLFGIGGGMIIVPSMFALGASAHHA IGISVLQMIFAAVFGSYINYKKKNLNLKDGIMIGFGGLIGASFSGMLLKALSDVALTS VFLAVSCIFFIKYAFGIKENIVQNQRSVWVKNVILFIAGAFTGIFAISLGIGGGLLIA PILAYFLGYDSKKVVSLSLFFVIFASVSGIISFSNSGVIDSEVIHKGILVGIASMVGV FIGIKIIEKMHISAHRKILLCVYALSILGTTHSLLNKLNFINF" misc_feature complement(314239..314970) /locus_tag="Cj0343c" /inference="protein motif:Pfam:PF01925" /note="HMMPfam hit to PF01925, Domain of unknown function DUF81, score 2.6e-34" misc_feature complement(314659..314691) /locus_tag="Cj0343c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 315108..315233 /locus_tag="Cj0344" /db_xref="GeneID:904668" CDS 315108..315233 /locus_tag="Cj0344" /note="Original (2000) note: Cj0344, unknown, len: 41 aa; no Hp match. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343782.1" /db_xref="GI:218562003" /db_xref="UniProtKB/TrEMBL:Q0PBG5" /db_xref="GeneID:904668" /translation="MFQNIIKYKDFIIFILNLKQNLYLLIKINLDFKNFHKSLNF" gene 315398..316648 /gene="trpE" /locus_tag="Cj0345" /db_xref="GeneID:904669" CDS 315398..316648 /gene="trpE" /locus_tag="Cj0345" /EC_number="4.1.3.27" /inference="protein motif:Pfam:PF00425" /note="Original (2000) note: Cj0345, trpE, possible anthranilate synthase component I, len: 416 aa; similar in C-terminal half to many e.g. TRPE_CLOTM anthranilate synthase component I (EC 4.1.3.27) (494 aa), fasta scores; opt: 784 z-score: 1209.9 E(): 0, 47.0% identity in 281 aa overlap. 35.6% identity in 365 aa overlap to HP1282. Contains Pfam match to entry PF00425 chorismate_bind,chorismate binding enzyme, score 309.50, E-value 3.9e-89; Updated (2006) note: Characterised within Clostridium thermocellum with acceptable identity score,however, sequence alignment was only partial. Thus,putative kept within product function. Functional classification - Amino acid biosynthesis - Aromatic amino acid family; PMID:2732211, PMID:789357" /codon_start=1 /transl_table=11 /product="putative anthranilate synthase component I" /protein_id="YP_002343783.1" /db_xref="GI:218562004" /db_xref="GOA:Q0PBG4" /db_xref="InterPro:IPR005801" /db_xref="InterPro:IPR015890" /db_xref="UniProtKB/TrEMBL:Q0PBG4" /db_xref="GeneID:904669" /translation="MFVKNVNFYYRQILEKFENSYFAEDLTKVIIGIDCDYLDANELS FSEFKAKYYEALSKNKICDFAGFFGVFSANFVSLFEKIPLSSKKNYDFPLFLFANAKA YLIYEKNSKMFFKFGASKYFEYLKDDIEPMKKKQKNDFEILNSLEDEKNDFLKMCEKA KEYLLSGDIFQVVLSKQLCIKHQVNAFDYYESLSALNPSAYMFYFPSKYGVVLGSSPE FLLKIKKREIYLAPIAGTRNLENNCDLLALEKDLLSDEKELSEHKMLVDLARNDASKF GTQTRVENLFSIIKNKFVMHIVSEVYANMKEDASIFDVIEAVFPAGTLSGAPKIRALE ITSELEDCDRGIYGGAVGFLNFNEDITLAILIRCAFFTQDKAYLASGAGIVLQSESQK EYAEICAKRKALLVAFENLKKENQ" misc_feature 315842..316621 /gene="trpE" /locus_tag="Cj0345" /inference="protein motif:Pfam:PF00425" /note="HMMPfam hit to PF00425, chorismate binding enzyme,score 1.1e-90" gene 316645..318246 /gene="trpD (trpGD)" /locus_tag="Cj0346" /db_xref="GeneID:904670" CDS 316645..318246 /gene="trpD (trpGD)" /locus_tag="Cj0346" /EC_number="4.1.3.27" /inference="protein motif:Pfam:PF00117" /inference="protein motif:Pfam:PF00591" /inference="protein motif:Prosite:PS00442" /note="Original (2000) note: Cj0346, trpD (trpGD),probable anthranilate synthase component II, len: 533 aa; (contains glutamine amidotransferase and anthranilate phosphoribosyltransferase) similar to many e.g. TRPG_ECOLI anthranilate synthase component II (EC 4.1.3.27) (530 aa),fasta scores; opt: 866 z-score: 781.3 E(): 0, 32.6% identity in 528 aa overlap. N-terminus has 34.6% identity to HP1281, C-terminus is 33.2% identity to HP1280. Contains PS00442 Glutamine amidotransferases class-I active site and Pfam matches to entry PF00117 GATase,Glutamine amidotransferases class-I, score 252.00, E-value 8.4e-72 and to entry PF00591 Glycos_transf_3, glycosyl transferase family, score 138.60, E-value 1.1e-37; Updated (2006) note: Characterised within Escherichia coli with acceptable identity score. Putative not added to product function. Functional classification -Amino acid biosynthesis - Aromatic amino acid family; PMID:6283099, PMID:4594441, PMID:789357" /codon_start=1 /transl_table=11 /product="anthranilate synthase component II" /protein_id="YP_002343784.1" /db_xref="GI:218562005" /db_xref="GOA:Q0PBG3" /db_xref="InterPro:IPR000312" /db_xref="InterPro:IPR000991" /db_xref="InterPro:IPR001317" /db_xref="InterPro:IPR005940" /db_xref="InterPro:IPR006220" /db_xref="InterPro:IPR006221" /db_xref="InterPro:IPR011702" /db_xref="InterPro:IPR012998" /db_xref="UniProtKB/TrEMBL:Q0PBG3" /db_xref="GeneID:904670" /translation="MILLIDNYDSFVFNVKSMLEQLSNDEILVRRNDAISLSEIKNLN PTHIILSPGPKHPSQSGICLEIFKARLNIPVLGICLGHQALALAFDSLVVKMQEPMHA KNSLIKQCRENELFSNLPSNFSVMRYHSLEVKQLSDELEILALDEKGVIMALGHKNLP YYGVQFHPESYFSEYGLQLFSNFLKQDIKKPQKQENPLSFYLQKMSENHFLQSDDFEQ ICKIIMSKDYEILQVVALLILITEKSLNEKSLSAFVRQILRYSQTFSDESEMIDICGT GGDGFKSINVSTTSAFILAALGVKVAKHGNRAISSSSGSTDVLEALNITTPNTLESVL KQLNNQGLSFLHAPFFHPLVGELKEIRSRLGVRTVFNVLGPLLHPNLKLKYQLMGNYH APVHRLLIEVLKNLGRKKALVVRGNDGMDELSICDESKIYELCEGEILEYSICPEQFG FKRAFHSEIIGSSAYDNAKDLKDILSGRMQGAKFDLVVLNAMFALYTANKASSPLVAK DMILEAIYSGKVIEYFKEYQAYAKA" misc_feature 316651..317205 /gene="trpD (trpGD)" /locus_tag="Cj0346" /inference="protein motif:Pfam:PF00117" /note="HMMPfam hit to PF00117, Glutamine amidotransferase class-I, score 5.4e-61" misc_feature 316864..316899 /gene="trpD (trpGD)" /locus_tag="Cj0346" /inference="protein motif:Prosite:PS00442" /note="PS00442 Glutamine amidotransferases class-I active site" misc_feature 317443..318207 /gene="trpD (trpGD)" /locus_tag="Cj0346" /inference="protein motif:Pfam:PF00591" /note="HMMPfam hit to PF00591, Glycosyl transferase family, a/b doma, score 2.5e-78" gene 318233..318832 /gene="trpF" /locus_tag="Cj0347" /db_xref="GeneID:904671" CDS 318233..318832 /gene="trpF" /locus_tag="Cj0347" /EC_number="5.3.1.24" /inference="protein motif:Pfam:PF00697" /note="Original (2000) note: Cj0347, trpF, probable N-(5'-phosphoribosyl)anthranilate isomerase, len: 199 aa; similar to many trpF e.g. TRPF_LACCA N-(5'-phosphoribosyl)anthranilate isomerase (199 aa) (EC 5.3.1.24), fasta scores; opt: 271 z-score: 352.4 E(): 2.3e-12, 31.0% identity in 200 aa overlap, and to the trpF domain of many trpC proteins e.g. TRPC_SALTY indole-3-glycerol phosphate synthase, fasta scores; opt: 307 z-score: 394.5 E(): 1e-14, 30.8% identity in 201 aa overlap. 38.2% identity to C-terminus of HP1279 (trpC) Conatains Pfam match to entry PF00697 PRAI,N-(5'phosphoribosyl)antranilate (PRA) isomerase, score 102.30, E-value 9.5e-27; Updated (2006) note: Search results match to more than one isomerase with marginal identity scores. Putative not added to product function. Functional classification -Amino acid biosynthesis - Aromatic amino acid family; PMID:2299982, PMID:2184433, PMID:789357" /codon_start=1 /transl_table=11 /product="N-(5'-phosphoribosyl)anthranilate isomerase" /protein_id="YP_002343785.1" /db_xref="GI:218562006" /db_xref="GOA:Q9PIF3" /db_xref="HSSP:Q56320" /db_xref="InterPro:IPR001240" /db_xref="InterPro:IPR013785" /db_xref="UniProtKB/Swiss-Prot:Q9PIF3" /db_xref="GeneID:904671" /translation="MLKLKICGIKDEKNAKDLAFLNIDFFGLIFAKSPRRVSLEQARN LSAIFHEKDKKVVGVFVDENLEQILRCIKEAKLDGIQIYRTITKEEFEILKVQNVFVW QVISVENSLDLKSEIFANLVLFDAKGILKGGNGISFDWTLLGSYTKDFILAGGIGLDN VHKAVKTGAKILDLNSKLEDEKGLKDINKIKQILKELKK" misc_feature 318242..318820 /gene="trpF" /locus_tag="Cj0347" /inference="protein motif:Pfam:PF00697" /note="HMMPfam hit to PF00697,N-(5'phosphoribosyl)anthranilate (PRA) isome, score 4.5e-31" gene 318829..320007 /gene="trpB" /locus_tag="Cj0348" /db_xref="GeneID:904672" CDS 318829..320007 /gene="trpB" /locus_tag="Cj0348" /EC_number="4.2.1.20" /inference="protein motif:Pfam:PF00247" /inference="protein motif:Pfam:PF00291" /inference="protein motif:Prosite:PS00017" /inference="protein motif:Prosite:PS00168" /note="catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate" /codon_start=1 /transl_table=11 /product="tryptophan synthase subunit beta" /protein_id="YP_002343786.1" /db_xref="GI:218562007" /db_xref="GOA:Q9PIF2" /db_xref="HSSP:P00933" /db_xref="InterPro:IPR001926" /db_xref="InterPro:IPR006653" /db_xref="InterPro:IPR006654" /db_xref="UniProtKB/Swiss-Prot:Q9PIF2" /db_xref="GeneID:904672" /translation="MKKAYYGDFGGQFLPESAMFALNELEGAFLKFSKDKLFKKELNE LLKTYVGRPTPLYFARNLSKKYQHEIYLKREDLNHTGAHKINNAIAQALLAKKMGKKK IIAETGAGQHGLATATAAALLGLECEIYMGATDVQRQALNVYKMELLGAKIHAVQSGL KTLKEATTAAIQAWVGDIKNIFYVVGSAVGPYPYPKMVMHFQSIIGKECKMQLQKLNK KVDYIIAAVGGGSNAAGIFYDFIKDENVKLIGIEAGGLGIDTPYHAATLNKGKTGIIH GMKTKVLQDDLGNILPVHSVSAGLDYPGIGPLHAFLFESKRAQYHAISDEECMQALKL LCKEEGIIAAIESSHALAFLEKLCPTLKKKSVIVVNLSGRGDKDMQMIRDYKKGVIYG" misc_feature 318967..319950 /gene="trpB" /locus_tag="Cj0348" /inference="protein motif:Pfam:PF00291" /note="HMMPfam hit to PF00291, Pyridoxal-phosphate dependent enzyme, score 1.8e-108" misc_feature 319057..319086 /gene="trpB" /locus_tag="Cj0348" /inference="protein motif:Prosite:PS00168" /note="PS00168 Tryptophan synthase beta chain pyridoxal-phosphate attachment site" misc_feature 319621..319644 /gene="trpB" /locus_tag="Cj0348" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 320000..320749 /gene="trpA" /locus_tag="Cj0349" /db_xref="GeneID:904673" CDS 320000..320749 /gene="trpA" /locus_tag="Cj0349" /EC_number="4.2.1.20" /inference="protein motif:Pfam:PF00290" /inference="protein motif:Prosite:PS00167" /note="catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis" /codon_start=1 /transl_table=11 /product="tryptophan synthase subunit alpha" /protein_id="YP_002343787.1" /db_xref="GI:218562008" /db_xref="GOA:Q9PIF1" /db_xref="HSSP:P00929" /db_xref="InterPro:IPR002028" /db_xref="InterPro:IPR013785" /db_xref="UniProtKB/Swiss-Prot:Q9PIF1" /db_xref="GeneID:904673" /translation="MVDFRKFYKENANVAYTVLGYPNLQTSEAFLQRLDQSPIDILEL GVAYSDPIADGEIIADAAKIALDQGVDIHSVFELLARIKTKKALVFMVYYNLIFSYGL EKFVKKAKSLGICALIVPELSFEESDDLIKECERYNIALITLVSVTTPKERVKKLVKH AKGFIYLLASIGITGTKSVEEAILQDKVKEIRSFTNLPIFVGFGIQNNQDVKRMRKVA DGVIVGTSIVKCFKQGNLDIIMKDIEEIFKK" misc_feature 320009..320746 /gene="trpA" /locus_tag="Cj0349" /inference="protein motif:Pfam:PF00290" /note="HMMPfam hit to PF00290, Tryptophan synthase alpha chain, score 2.2e-73" misc_feature 320123..320164 /gene="trpA" /locus_tag="Cj0349" /inference="protein motif:Prosite:PS00167" /note="PS00167 Tryptophan synthase alpha chain signature" gene 320820..321242 /locus_tag="Cj0350" /db_xref="GeneID:904674" CDS 320820..321242 /locus_tag="Cj0350" /note="Original (2000) note: Cj0350, unknown, len: 140 aa; no Hp match. . Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343788.1" /db_xref="GI:218562009" /db_xref="UniProtKB/TrEMBL:Q0PBF9" /db_xref="GeneID:904674" /translation="MLKILEYSITHFCEHILRLRIEAAQDISGELYGASIPIMGKSEG ECNFYLFFPKEFLKKIAEILINDEKFKEDDWCDLTKECANQIIGYAKNLLNDAKGDDE YKLGIPEYLGKVDFSEIVLDEALTYKFENCYFRIGYCK" gene 321242..321550 /gene="fliN" /locus_tag="Cj0351" /db_xref="GeneID:904675" CDS 321242..321550 /gene="fliN" /locus_tag="Cj0351" /inference="protein motif:Pfam:PF01052" /note="One of three proteins involved in switching the direction of the flagellar rotation" /codon_start=1 /transl_table=11 /product="flagellar motor switch protein" /protein_id="YP_002343789.1" /db_xref="GI:218562010" /db_xref="GOA:O32370" /db_xref="InterPro:IPR001172" /db_xref="InterPro:IPR001543" /db_xref="UniProtKB/TrEMBL:O32370" /db_xref="GeneID:904675" /translation="MSDDIEFNIHHGLLQSYEDILDITVDFVSELGTTNMSVAELLKL EVGSVIDLEKPAGESVELYINKRIFGKGEVMVYEKNLAIRINEILDSKTVLQYFKKEI" misc_feature 321287..321517 /gene="fliN" /locus_tag="Cj0351" /inference="protein motif:Pfam:PF01052" /note="HMMPfam hit to PF01052, Surface presentation of antigens (SPOA) prot, score 9e-34" gene 321551..322348 /locus_tag="Cj0352" /db_xref="GeneID:904676" CDS 321551..322348 /locus_tag="Cj0352" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0352, probable transmembrane protein, len: 265 aa; 99.6% identity to TR:O32371 (EMBL:AJ000400). No Hp match. Contains probable N-terminal signal sequence and transmembrane domain around aa 160; Updated (2006) note: Two probable transmembrane helices identified by TMHMM2.0 within CDS. Literature search identified paper linking CDS with potential new functional assignment as FliO flagellar protein. Functional classification - Membranes, lipoproteins and porins; PMID:15817382, PMID:9894591" /codon_start=1 /transl_table=11 /product="putative transmembrane protein" /protein_id="YP_002343790.1" /db_xref="GI:218562011" /db_xref="GOA:Q0PBF7" /db_xref="UniProtKB/TrEMBL:Q0PBF7" /db_xref="GeneID:904676" /translation="MRLLVLFFLILPLYSVELISYNIYDRNDRVDLMLSFDNAYNGKI SQKKEKNLTLLTFSDLTYSKDELKELNSQLVDKISISSKNNNTYIMLQNKQNINLELS SINDKFGVRIRAIEQGKANIESAPTTTANNSQELMPKPKSTSLEGYDYTNYILVMLIL VILLIVLWWFKKTMVYKNNNVSRDFTMIFQRFLDKNNQLVVFDHANKRYTMIIGNSNV LLESIEIPEEQTIKHTEKTEKNFDSFFEENKKRIQNLIEQRQKGKKS" misc_feature order(321563..321622,322007..322060) /locus_tag="Cj0352" /inference="protein motif:TMHMM:2.0" /note="2 probable transmembrane helices predicted for Cj0352 by TMHMM2.0 at aa 5-24 and 153-170" gene complement(322345..323805) /locus_tag="Cj0353c" /db_xref="GeneID:904677" CDS complement(322345..323805) /locus_tag="Cj0353c" /EC_number="3.6.1.40" /EC_number="3.6.1.11" /inference="protein motif:Pfam:PF02541" /note="Original (2000) note: Cj0353c, probable phosphatase, len: 486 aa; similar to e.g. GPPA_ECOLI guanosine-5'-triphosphate,3'-diphosphate pyrophosphatase (EC 3.6.1.40) (494 aa), fasta scores; opt: 368 z-score: 272.7 E(): 6.2e-08, 25.8% identity in 480 aa overlap, and to PPX_ECOLI EXOPOLYPHOSPHATASE (EC 3.6.1.11) (512 aa),fasta scores; opt: 340 z-score: 350.9 E(): 2.7e-12, 23.8% identity in 441 aa overlap. 41.0% identity to HP0278; Updated (2006) note: Pfam domain PF02541 Ppx/GppA phosphatase family identified within CDS. Further support given to product function. Similar to many different annotated phosphatases. Putative not added to product function. Functional classification - Misc; PMID:8394006" /codon_start=1 /transl_table=11 /product="phosphatase" /protein_id="YP_002343791.1" /db_xref="GI:218562012" /db_xref="GOA:Q0PBF6" /db_xref="InterPro:IPR003695" /db_xref="UniProtKB/TrEMBL:Q0PBF6" /db_xref="GeneID:904677" /translation="MAKKTAVVDLGSNSIRMVIFEKTSRYGFYTTCEYKRKVRLGENA YNNGKILQEEAMQRAEDALAFFKQCALKHKCKKIFIVGTSALRDAPNSKNFIKRIKDN LSLNIRCIDGKSESYLGGLAALNLLSPFKDGTTLDIGGGSSELCLIKNNRIISCISLD IGTVRLKELFYDTGKMDSLEEFIKPILEQIPKEFCNQNLIAIGGSLRAISNSIMQKNS YPLKNLHDFRYMLDEEKGHILKIFNSNLDSLINFGIKKDRFDTIKEGIFIFLKIAEKI KAKQVITSGVGIREGVYLQDLLRPKITFPPNFNPSLKCLQDKFLQSKQKNKTPHFALQ IFTTLKNLHKLNDNYKHTLLNAAKLCHIGEYLNFYFANEHSAHFVLGGLNYGFSHKEK ALIASIIKLNGKKVNPYNLEPYKQLLPNIHTISWLNFILCLAKTLSANEDKIDFAFAN NTLYIYQENKILNLPKDELKKIAKPATIALAINQKI" misc_feature complement(322906..323754) /locus_tag="Cj0353c" /inference="protein motif:Pfam:PF02541" /note="HMMPfam hit to PF02541, Ppx/GppA phosphatase family, score 1.5e-46" gene complement(323805..324050) /gene="fdxB" /locus_tag="Cj0354c" /db_xref="GeneID:904678" CDS complement(323805..324050) /gene="fdxB" /locus_tag="Cj0354c" /inference="protein motif:Pfam:PF00037" /inference="protein motif:Prosite:PS00198" /note="Original (2000) note: Cj0354c, fdxB, probable ferredoxin, len: 81 aa; similar to many e.g. FER_CHRVI ferredoxin (82 aa), fasta scores; opt: 282 z-score: 445.5 E(): 1.5e-17, 45.3% identity in 75 aa overlap. 58.4% identity to HP0277. Also similar to Cj0333c (fdx); 38.8% identity in 67 aa overlap. Contains PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature and Pfam match to entry PF00037 fer4, 4Fe-4S ferredoxins and related iron-sulfur cluster binding domains., score 39.00,E-value 4.8e-10; Updated (2006) note: Characterised within Chromatium vinosum with acceptable identity scores. Appropriate motifs also present. Putative not added to product function. Functional classification - Energy metabolism - Electron transport; PMID:8765743" /codon_start=1 /transl_table=11 /product="ferredoxin" /protein_id="YP_002343792.1" /db_xref="GI:218562013" /db_xref="GOA:Q0PBF5" /db_xref="InterPro:IPR001450" /db_xref="UniProtKB/TrEMBL:Q0PBF5" /db_xref="GeneID:904678" /translation="MSLLITKDCVCCDACREECPDEAIYENSPIYVIDPDLCSECVND FSEPACIVACPYECIIPDPDNVETIEELKLKHRDREF" misc_feature complement(323976..324047) /gene="fdxB" /locus_tag="Cj0354c" /inference="protein motif:Pfam:PF00037" /note="HMMPfam hit to PF00037, 4Fe-4S binding domain,score 0.0069" misc_feature complement(323991..324026) /gene="fdxB" /locus_tag="Cj0354c" /inference="protein motif:Prosite:PS00198" /note="PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature" gene complement(324163..324834) /locus_tag="Cj0355c" /db_xref="GeneID:904679" CDS complement(324163..324834) /locus_tag="Cj0355c" /inference="protein motif:Pfam:PF00072" /inference="protein motif:Pfam:PF00486" /note="Original (2000) note: Cj0355c, probable two-component regulator, len: 223 aa; similar to many e.g. CZCR_ALCEU transcriptional activator protein CZCR (225 aa), fasta scores; opt: 375 z-score: 570.8 E(): 1.5e-24,31.7% identity in 218 aa overlap. 59.9% identity to HP1043. Contains Pfam match to entry PF00072 response_reg,Response regulator receiver domain, score 70.70, E-value 3.1e-17 and Pfam match to entry PF00486 trans_reg_C,Transcriptional regulatory protein, C terminal, score 56.60, E-value 1.5e-15; Updated (2006) note: Characterisation work within many e.g. Ralstonia metallidurans and Escherichia coli with marginal identity scores. Appropriate motifs also present. Putative not added to product function. Literature search identified paper giving further clues to product function (PMID:15901688). Functional classification - Signal transduction; PMID:9044283, PMID:15901688" /codon_start=1 /transl_table=11 /product="two-component regulator" /protein_id="YP_002343793.1" /db_xref="GI:218562014" /db_xref="GOA:Q0PBF4" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR001867" /db_xref="InterPro:IPR011991" /db_xref="UniProtKB/TrEMBL:Q0PBF4" /db_xref="GeneID:904679" /translation="MRILVIEDEISLNKTIIDNLNEFGYQTDSSENFKDGEYFIGIRH YDLVLANWTLPDGDGAELVNTIKHKSPRTSVMIMSSKTDKETEIKALKAGADDFVKKP LDFDILLARIEARLRLGGTNVIKIEDLVIDPDEEKITYKGQDIELKGKPFEVLTHLAR HSDQIVSKEQLLDAIWEEPELVTPNVIEVAINQIRQKMDKPLNISTIETVRRRGYRFC FPKKS" misc_feature complement(324184..324411) /locus_tag="Cj0355c" /inference="protein motif:Pfam:PF00486" /note="HMMPfam hit to PF00486, Transcriptional regulatory protein, C te, score 4.2e-20" misc_feature complement(324475..324834) /locus_tag="Cj0355c" /inference="protein motif:Pfam:PF00072" /note="HMMPfam hit to PF00072, Response regulator receiver domain, score 4e-19" gene complement(324913..325230) /gene="folB" /locus_tag="Cj0356c" /db_xref="GeneID:904680" CDS complement(324913..325230) /gene="folB" /locus_tag="Cj0356c" /EC_number="4.1.2.25" /inference="protein motif:Pfam:PF02152" /note="Original (2000) note: Cj0356c, unknown, len: 105 aa; 31.0% identity to HP1510; Updated (2006) note: Pfam domain PF02152 FolB Dihydroneopterin aldolase was identified within CDS. This enzyme catalyses the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin in the biosynthetic pathway of tetrahydrofolate. This was found by carrying out own Pfam search. Product modified to new family member due to motif match. No specific characterisation has been carried out yet. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative dihydroneopterin aldolase" /protein_id="YP_002343794.1" /db_xref="GI:218562015" /db_xref="GOA:Q0PBF3" /db_xref="InterPro:IPR006157" /db_xref="UniProtKB/TrEMBL:Q0PBF3" /db_xref="GeneID:904680" /translation="MQSHIKIKFHFKCIIGILDFERRKKQKIIIKLKAKANEFLNYAE VITKIKTWYKKEEFYTLEESLDFVSLNLKKDFPNLTNLNIKIFKPHIIKNATVGVKLK KKY" gene complement(325215..325823) /locus_tag="Cj0357c" /db_xref="GeneID:904681" CDS complement(325215..325823) /locus_tag="Cj0357c" /inference="protein motif:Pfam:PF02660" /inference="protein motif:TMHMM:2.0" /note="involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsX" /codon_start=1 /transl_table=11 /product="putative glycerol-3-phosphate acyltransferase PlsY" /protein_id="YP_002343795.1" /db_xref="GI:218562016" /db_xref="GOA:Q9PIE4" /db_xref="InterPro:IPR003811" /db_xref="UniProtKB/Swiss-Prot:Q9PIE4" /db_xref="GeneID:904681" /translation="MENLIIYAFIYLLGSIPFGLILAKFFAKTDIKKEGSKSIGATNV LRVVKEKNPKLAKKLAIATIILDFAKAAIPLLTLKFLHYDQALLWSVAVLAILGHCFS IYLLFEGGKGIATGAGAMIVLLPLEVLTAFIVWVVIGKIFKISSLASLAALLAFVVSS FIFNYDLEIHTHAPVFIIAFIIVYKHLPNIKRLIFKEECKVI" misc_feature complement(325218..325229) /gene="folB" /locus_tag="Cj0356c" /inference="protein motif:Prosite:PS00294" /note="PS00294 Prenyl group binding site (CAAX box)" misc_feature complement(325236..325805) /locus_tag="Cj0357c" /inference="protein motif:Pfam:PF02660" /note="HMMPfam hit to PF02660, Domain of unknown function DUF, score 1.3e-44" gene 326024..327049 /locus_tag="Cj0358" /db_xref="GeneID:904682" CDS 326024..327049 /locus_tag="Cj0358" /EC_number="1.11.1.5" /inference="protein motif:Pfam:PF03150" /inference="protein motif:Prosite:PS00190" /note="Original (2000) note: Cj0358, probable cytochrome C551 peroxidase, len: 341 aa; similar to e.g. CCPR_PSEAE cytochrome C551 peroxidase precursor (EC 1.11.1.5) (346 aa), fasta scores; opt: 281 z-score: 1028.0 E(): 0, 48.9% identity in 313 aa overlap. 58.5% identity to HP1461. Also similar to Cj0020c (45.4% identity in 273 aa overlap). Contains 2x PS00190 Cytochrome c family heme-binding site signature and probable N-terminal signal sequence; Updated (2006) note: Pfam domain PF03150 Di-haem cytochrome c peroxidase identified within CDS. Further support given to product function. Characterised within Pseudomonas aeruginosa with acceptable identity score,however, only partial sequence alignment was achieved. Putative kept within product function. Functional classification - Detoxification; PMID:7781769, PMID:8591033" /codon_start=1 /transl_table=11 /product="putative cytochrome C551 peroxidase" /protein_id="YP_002343796.1" /db_xref="GI:218562017" /db_xref="GOA:Q0PBF1" /db_xref="InterPro:IPR004852" /db_xref="InterPro:IPR009056" /db_xref="UniProtKB/TrEMBL:Q0PBF1" /db_xref="GeneID:904682" /translation="MKVKSLLIASLVAFSSLNAASLIDEAKNSGLVALPKDQKGVDEI LKQNGVKASEFTLEKAELGKKLYFEPRLSKSGIISCNTCHNVGLGGTDGISTAIGHKW TANPHHLNSPTVYNAVLNNTQFWDGRAGTLADQAKGPIQADPEMATPAKLAVEKISSL PEYVSEFKKIYGKSGVNFDNIADAIANFERTLITPSRFDKFLEGDEKALTKEEQKGLK LFIDKGCVACHNGVNLGGNMQAFEVAGKYKFANLGDFKGDANGMVKTPTLRNVAETAP YFHNGAIWNLKDAIKEMGSVQLGIKISDKEAKSIETFLKSLTGTKPAIVYPQLPISTE KTPKPEL" sig_peptide 326024..326101 /locus_tag="Cj0358" /note="Signal peptide predicted for signalp2embl_unknown_000159_326024_327049 by SignalP 2.0 HMM (Signal peptide probability 0.998) with cleavage site probability 0.505 between residues 26 and 27" misc_feature 326123..326650 /locus_tag="Cj0358" /inference="protein motif:Pfam:PF03150" /note="HMMPfam hit to PF03150, Di-haem cytochrome c peroxidase, score 1.4e-78" misc_feature 326261..326278 /locus_tag="Cj0358" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" misc_feature 326696..326713 /locus_tag="Cj0358" /inference="protein motif:Prosite:PS00190" /note="PS00190 Cytochrome c family heme-binding site signature" gene 327143..328480 /gene="glmM" /locus_tag="Cj0360" /db_xref="GeneID:904683" CDS 327143..328480 /gene="glmM" /locus_tag="Cj0360" /EC_number="5.4.2.10" /inference="protein motif:Pfam:PF00408" /inference="protein motif:Pfam:PF02878" /inference="protein motif:Pfam:PF02879" /inference="protein motif:Pfam:PF02880" /inference="protein motif:Prosite:PS00710" /note="Original (2000) note: Cj0360, probable phospho-sugar mutase, len: 445 aa; similar to phosphomannomutases and phosphoglucomutases and to e.g. UREC_HELPY putative urease operon UREC protein (HP0075) (445 aa), fasta scores; opt: 1834 z-score: 1863.3 E(): 0,63.7% identity in 444 aa overlap, and MRSA_ECOLI MRSA protein (445 aa), fasta scores; opt: 1107 z-score: 1449.7 E(): 0, 42.7% identity in 429 aa overlap. Contains PS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature and Pfam match to entry PF00408 PGM_PMM,Phosphoglucomutase and phosphomannomutase, score 499.10,E-value 3.5e-146; Updated (2006) note: Pfam domains PF02878, PF02879 and PF02880 Phosphoglucomutase/phosphomannomutase were identied within CDS. Further support given to product function. Characterised in more than one speicies e.g. Helicobacter pylori and Escherichia coli, with acceptable identity score. Based on characterisation papers, product function modified to more specific family member. Putative removed from product function. Functional classification -Misc; PMID:8550580, PMID:10913078, PMID:9171391" /codon_start=1 /transl_table=11 /product="phosphoglucosamine mutase" /protein_id="YP_002343797.1" /db_xref="GI:218562018" /db_xref="GOA:Q9PIE2" /db_xref="InterPro:IPR005841" /db_xref="InterPro:IPR005843" /db_xref="InterPro:IPR005844" /db_xref="InterPro:IPR005845" /db_xref="InterPro:IPR005846" /db_xref="InterPro:IPR006352" /db_xref="InterPro:IPR016055" /db_xref="InterPro:IPR016066" /db_xref="UniProtKB/Swiss-Prot:Q9PIE2" /db_xref="GeneID:904683" /translation="MKLFGTDGVRGKAGEFLDSFLAMRLAMAAGIYFKDKSITNNILV GKDTRRSGYMIENAIVSGLTSIGYNVIQIGPMPTPAIAFLTEDMRCDAGIMISASHNP YYDNGIKFFDAHGNKLSEDIEKKIEEIYFDDKLIQASKVDMEKIGQAKRIDDVIGRYI VSIKNSFPKDLTLKSLRVVLDVAHGAAYKVAPTVFKELGAEVIVMSDKPNGLNINENC GALHPANLAAEVKRLRADVGFAFDGDADRLVVVDEKGEVANGDSLLGVLALYLKEQGK LQSSVVATIMSNGALKEFLNKHGIELDTCNVGDKYVLEKLKANGGNFGGEQSGHIIFS DYAKTGDGLIAALQFSALMLSKKKSASSILGQVKPYPQLLTNLKIAEKKDLDKIKGLK ELKKDLENKNINTLFRYSGTENLIRLLLEARDIKLLEKEMKNVVEFFKKALNG" misc_feature 327143..327553 /gene="glmM" /locus_tag="Cj0360" /inference="protein motif:Pfam:PF02878" /note="HMMPfam hit to PF02878,Phosphoglucomutase/phosphomannomutase, al, score 2.8e-60" misc_feature 327419..327463 /gene="glmM" /locus_tag="Cj0360" /inference="protein motif:Prosite:PS00710" /note="PS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature" misc_feature 327611..327913 /gene="glmM" /locus_tag="Cj0360" /inference="protein motif:Pfam:PF02879" /note="HMMPfam hit to PF02879,Phosphoglucomutase/phosphomannomutase, al, score 2.6e-37" misc_feature 327917..328261 /gene="glmM" /locus_tag="Cj0360" /inference="protein motif:Pfam:PF02880" /note="HMMPfam hit to PF02880,Phosphoglucomutase/phosphomannomutase, al, score 2.5e-31" misc_feature 328262..328465 /gene="glmM" /locus_tag="Cj0360" /inference="protein motif:Pfam:PF00408" /note="HMMPfam hit to PF00408,Phosphoglucomutase/phosphomannomutase, C-, score 5.8e-06" gene 328473..328943 /gene="lspA" /locus_tag="Cj0361" /db_xref="GeneID:904684" CDS 328473..328943 /gene="lspA" /locus_tag="Cj0361" /EC_number="3.4.23.36" /inference="protein motif:Pfam:PF01252" /inference="protein motif:Prosite:PS00855" /inference="protein motif:TMHMM:2.0" /note="lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis" /codon_start=1 /transl_table=11 /product="lipoprotein signal peptidase" /protein_id="YP_002343798.1" /db_xref="GI:218562019" /db_xref="GOA:Q0PBE9" /db_xref="InterPro:IPR001872" /db_xref="UniProtKB/TrEMBL:Q0PBE9" /db_xref="GeneID:904684" /translation="MAKTFKFIFYFWGAFVLVFALDQWVKSLTLAGFRWQSEYLDLTY ALNTGVAFSMLSFLEHNLKYLHLALIGVLFIYLFWQRTLLKTHSIAFGMMLGAGVSNL LDRFIHGGVVDMFFWHKWFNFAIFNVADVMINISVALILIQEIFKKRKKDDRMD" misc_feature order(328491..328544,328587..328646,328665..328724, 328830..328898) /gene="lspA" /locus_tag="Cj0361" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0361 by TMHMM2.0 at aa 7-24, 39-58, 65-84 and 120-142" misc_feature 328497..328931 /gene="lspA" /locus_tag="Cj0361" /inference="protein motif:Pfam:PF01252" /note="HMMPfam hit to PF01252, Signal peptidase (SPase) II, score 9.9e-41" misc_feature 328758..328790 /gene="lspA" /locus_tag="Cj0361" /inference="protein motif:Prosite:PS00855" /note="PS00855 Signal peptidases II signature" gene 328927..329379 /locus_tag="Cj0362" /db_xref="GeneID:904685" CDS 328927..329379 /locus_tag="Cj0362" /inference="protein motif:Pfam:PF03653" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0362, probable integral membrane protein, len: 150 aa; similar to hypothetical proteins e.g. TR:Q53231 (EMBL:L76097) from Rhodobacter sphaeroides (154 aa), fasta scores; opt: 301 z-score: 419.6 E(): 4.1e-16, 34.2% identity in 149 aa overlap. 47.6% identity to HP1484; Updated (2006) note: Four probable transmembrace helices identified by TMHMM2.0 within CDS. Pfam domain PF03653 Uncharacterised protein family (UPF0093) identified within CDS. Further support given to product function. Functional classification - Membranes,lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343799.1" /db_xref="GI:218562020" /db_xref="InterPro:IPR005265" /db_xref="InterPro:IPR014351" /db_xref="UniProtKB/TrEMBL:Q0PBE8" /db_xref="GeneID:904685" /translation="MTEWINDYYFWIKWVHYLAFVSWMAGLFYLPRLFVYHAEHKDNK GFVEVVKIQERKLYYYIQTPAMIVTLITGSLMLHAHKEVLMVGAGFMHVKLTCVTLLI IFHIHNYYCLKALANDTSTKSGKYFRIYNEFPTIMFIIIALMMVVRPF" misc_feature 328939..329376 /locus_tag="Cj0362" /inference="protein motif:Pfam:PF03653" /note="HMMPfam hit to PF03653, Uncharacterised protein family (UPF0093), score 9e-53" misc_feature order(328969..329034,329095..329163,329173..329241, 329302..329370) /locus_tag="Cj0362" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0362 by TMHMM2.0 at aa 15-36, 57-79, 83-105 and 126-148" gene complement(329376..330722) /locus_tag="Cj0363c" /db_xref="GeneID:904686" CDS complement(329376..330722) /locus_tag="Cj0363c" /EC_number="1.3.99.22" /inference="protein motif:Pfam:PF04055" /inference="protein motif:Pfam:PF06969" /note="catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III" /codon_start=1 /transl_table=11 /product="coproporphyrinogen III oxidase" /protein_id="YP_002343800.1" /db_xref="GI:218562021" /db_xref="GOA:Q0PBE7" /db_xref="InterPro:IPR006638" /db_xref="InterPro:IPR007197" /db_xref="UniProtKB/TrEMBL:Q0PBE7" /db_xref="GeneID:904686" /translation="MNLFQNLALKYSHTMMEKSLQKGFNVELLKQPEEKIPKQDKSYM LYAHVPFCHTFCPYCSFHKYYYDENLAKVYFQNLREEIKIMKNKGFDFTSMYVGGGTT LIDEEELLKTLELCKKLFNIKEISCESDPNHIDPNKLSMFKGIIDRLSCGIQSFDDET LKKVARYNKFGSSKELQEKISKALGILPIFSIDLIFNLPGQNEKQLLNDLEIAKNLAP QQITTYPLMKSNLTKDNIAKSLGVSIKDNEFTYYQIIREFFKDYTQNNGWSFSLEKNK LNDEYVSSHHEYLGVGSGAFSFLDGELLINAFNLNDYAKFIQEKQNANIAKACFDKKE IIKYVFLTGIFSGKIEIDKFNKTLNCNLEKELFIELLGLKTSGAIIKDQNALIATEFG QYLFVVLMKDFYTGMDLVRAVFRDDKRLKNKDYIDIMKENIDPLNSASMEFKAETN" misc_feature complement(329541..329870) /locus_tag="Cj0363c" /inference="protein motif:Pfam:PF06969" /note="HMMPfam hit to PF06969, HemN C-terminal region,score 0.0012" misc_feature complement(330084..330587) /locus_tag="Cj0363c" /inference="protein motif:Pfam:PF04055" /note="HMMPfam hit to PF04055, Radical SAM superfamily,score 3.4e-21" gene 330851..331102 /locus_tag="Cj0364" /db_xref="GeneID:904687" CDS 330851..331102 /locus_tag="Cj0364" /note="Original (2000) note: Cj0364, unknown, len: 83 aa; no Hp match; Updated (2006) note: Literature search identified paper giving further clues to product function. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343801.1" /db_xref="GI:218562022" /db_xref="UniProtKB/TrEMBL:Q0PBE6" /db_xref="GeneID:904687" /translation="MDKAKIVQNLNALFKQRAEFYSYFDENIAKINNTEVFDFKNAKN LNPEEVYKQFYHFDYAIRKLLPAIYKAYEITDADLDKDF" gene complement(331125..332603) /gene="cmeC" /locus_tag="Cj0365c" /db_xref="GeneID:904688" CDS complement(331125..332603) /gene="cmeC" /locus_tag="Cj0365c" /inference="protein motif:Pfam:PF02321" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0365c, possible outer membrane channel protein, len: 492 aa; similar to members of the nodT/fusA family e.g. TR:O31101 (EMBL:AF029405) Pseudomonas putida outer membrane channel protein SRPC (470 aa), fasta scores; opt: 645 z-score: 834.4 E(): 0,29.2% identity in 465 aa overlap. and TR:Q51006 (EMBL:X95635) Neisseria gonorrhoeae mtrE gene (467 aa,fasta scores; opt: 663 z-score: 829.8 E(): 0, 31.1% identity in 476 aa overlap. No Hp match. Also some similarity to Cj0608 (28.6% identity in 455 aa overlap). Contains N-terminal signal sequence and PS00013 Prokaryotic membrane lipoprotein lipid attachment site; Updated (2006) note: Pfam domains x2 PF02321 Outer membrane efflux proteins were identified within CDS. Further support given to product function. Characterised within Campylobacter jejuni. Part of the CmeABC multidrug efflux system. Functional classification - Antibiotic resistance; PMID:12069964, PMID:15728904, PMID:16359189" /codon_start=1 /transl_table=11 /product="outer membrane channel protein CmeC (multidrug efflux system CmeABC)" /protein_id="YP_002343802.1" /db_xref="GI:218562023" /db_xref="GOA:Q0PBE5" /db_xref="InterPro:IPR003423" /db_xref="InterPro:IPR010131" /db_xref="UniProtKB/TrEMBL:Q0PBE5" /db_xref="GeneID:904688" /translation="MNKIISISAIASFTLLISACSLSPNLNIPEANYSIDNKLGALSW EKENNSSITKNWWKDFDDENLNKVVDLALKNNNDLKLAFIHMEQAAAQLGIDFSSLLP KFDGSASGSRAKTAINAPSNRTGEVSYGNDFKMGLNLSYEIDLWGKYRDTYRASKSGF KASEYDYEAARLSVISNTVQTYFNLVNAYENENALKEAYKSAKEIYRINDEKFQVGAV GEYELAQARANLESMALQYNEAKLNKENYLKALKILTSNDLNDILYKNQSYQVFNLKE FDIPTGISSTILLQRPDIGSSLEKLTQQNYLVGVARTAFLPSLSLTGLLGFESGDLDT LVKGGSKTWNIGGNFTLPIFHWGEIYQNVNLAKLNKDEAFVNYQNTLITAFGEIRYAL VARKTIRLQYDNAQASEQSYKRIYEIAKERYDIGEMSLQDYLEARQNWLNAAVAFNNI KYSYANSIVDVIKAFGGGFEQSEDTSKNIKEESKNLDMSFRE" sig_peptide complement(331125..331223) /gene="cmeC" /locus_tag="Cj0365c" /note="Signal peptide predicted for cmeC by SignalP 2.0 HMM (Signal peptide probability 0.998) with cleavage site probability 0.370 between residues 33 and 34" misc_feature complement(331206..331766) /gene="cmeC" /locus_tag="Cj0365c" /inference="protein motif:Pfam:PF02321" /note="HMMPfam hit to PF02321, Outer membrane efflux protein, score 1.6e-27" misc_feature complement(331836..332411) /gene="cmeC" /locus_tag="Cj0365c" /inference="protein motif:Pfam:PF02321" /note="HMMPfam hit to PF02321, Outer membrane efflux protein, score 3.2e-33" misc_feature complement(332544..332576) /gene="cmeC" /locus_tag="Cj0365c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(332596..335718) /gene="cmeB" /locus_tag="Cj0366c" /db_xref="GeneID:904689" CDS complement(332596..335718) /gene="cmeB" /locus_tag="Cj0366c" /inference="protein motif:Pfam:PF00873" /inference="protein motif:Prosite:PS50156" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0366c, probable transmembrane efflux protein, len: 1040 aa; similar to e.g. TR:P95422 (EMBL:X99514) Pseudomonas aeruginosa mexF (antibiotic efflux system protein) (1062 aa), fasta scores; opt: 1584 z-score: 3208.4 E(): 0, 41.2% identity in 1056 aa overlap, and ACRB_ECOLI acriflavin resistance protein B (1049 aa), fasta scores; opt: 2739 z-score: 3055.6 E(): 0, 41.7% identity in 1031 aa overlap. No Hp ortholog. Contains Pfam match to entry PF00873 ACR_tran,AcrB/AcrD/AcrF family, score 1415.10, E-value 0; Updated (2006) note: Thirteen probable transmembrace helices identified by TMHMM2.0 within CDS. Prosite domain PS50156 SSD, Sterol-sensing 5TM box also identified within CDS. Further support given to product function. Characterised within Campylobacter jejuni. Part of the CmeABC multidrug efflux system. Functional classification - Antibiotic resistance; PMID:12069964, PMID:11814661, PMID:15728904,PMID:16359189, PMID:15201231" /codon_start=1 /transl_table=11 /product="inner membrane efflux transporter CmeB (multidrug efflux system CmeABC)" /protein_id="YP_002343803.1" /db_xref="GI:218562024" /db_xref="GOA:Q0PBE4" /db_xref="InterPro:IPR000731" /db_xref="InterPro:IPR001036" /db_xref="InterPro:IPR004764" /db_xref="UniProtKB/TrEMBL:Q0PBE4" /db_xref="GeneID:904689" /translation="MFSKFFIERPVFASVVAIIISLAGAIGLTNLPIEQYPSLTPPTV KVSATYTGADAQTIASTVASPIEDAINGADNMIYMDSTSSSSGTMSLTVYFDIGTDPD QATIDVNNRISAATAKMPDAVKKLGVTVRKTSSTTLAAISMYSSDGSMSAVDVYNYIT LNVLDELKRVPGVGDANAIGNRNYSLRIWLKPDLLNKFGITATDVISAVNDQNAQYAT GKIGEEPVTQKSPYVYSITMQGRLQNPSEFENIILRTNNDGSFLRLKDVADVEIGSQQ YSSQGRLNGNDAVPIMINLQSGANALHTAELVQAKMQELSKNFPKGLTYKIPYDTTKF VIESIKEVVKTFVEALILVIIVMYMFLKNFRATLIPMIAVPVSLLGTFAGLYVLGFSI NLLTLFALILAIGIVVDDAIIVVENIDRILHENEQISVKDAAIQAMQEVSSPVISIVL VLCAVFVPVSFISGFVGEIQRQFALTLAISVTISGFVALTLTPSLCALFLRRNEGEPF KFVKKFNDFFDWSTSVFSAGVAYILKRTIRFVLIFCIMLGAIFYLYKAVPSSLVPEED QGLMIGIINLPSASALHRTISEVDHISQEVLKTNGVKDAMAMIGFDLFTSSLKENAAA MFIGLKDWKDRNVSADEIAMELNKKFAFDRNASSIFIGLPPIPGLSITGGFEMYVQNK SGKSYDEIQKDVNKLVAVANQRKELSRVRTTLDTTFPQYKLIIDRDKLKHYNLNMQDV FNTMNATIGTYYVNDFSMLGKNFQVNIRAKGDFRNTQDALKNIFVRSNDGKMIPLDSF LTLQRSSGPDDVKRFNLFPAAQVQGQPAPGYTSGQAIEAIAQVAKETLGDDYSIAWSG SAYQEVSSKGTASYAFALGMIFVFLILAAQYERWLIPLAVVTAVPFAVFGSFLLVYLR GFSNDIYFQTGLLLLIGLSAKNAILIVEFAMEERFKKGKGVFEAAVAAAKLRFRPIIM TSLAFTFGVLPMIFATGAGSASRHSLGTGLIGGMIAASTLAIFFVPLFFYLLENFNEW LDKKRGKVHE" sig_peptide complement(332596..332739) /gene="cmeB" /locus_tag="Cj0366c" /note="Signal peptide predicted for cmeB by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.670 between residues 48 and 49" misc_feature complement(332644..335715) /gene="cmeB" /locus_tag="Cj0366c" /inference="protein motif:Pfam:PF00873" /note="HMMPfam hit to PF00873, AcrB/AcrD/AcrF family,score 0" gene complement(335718..336821) /gene="cmeA" /locus_tag="Cj0367c" /db_xref="GeneID:904690" CDS complement(335718..336821) /gene="cmeA" /locus_tag="Cj0367c" /inference="protein motif:Pfam:PF00529" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0367c, possible membrane fusion component of efflux system, len: 367 aa; similar to e.g. MTRC_NEIGO membrane fusion protein MTRC precursor (412 aa), fasta scores; opt: 592 z-score: 692.4 E(): 2.6e-31, 29.9% identity in 358 aa overlap, and TR:P95421 (EMBL:X99514) Pseudomonas aeruginosa mexE (antibiotic efflux system protein) (414 aa), fasta scores; opt: 460 z-score: 570.0 E(): 1.7e-24, 26.9% identity in 357 aa overlap. No Hp ortholog. Contains N-terminal signal sequence and PS00013 Prokaryotic membrane lipoprotein lipid attachment site; Updated (2006) note: Pfam domain PF00529 HlyD family secretion protein identified within CDS. Further support given to product function. Part of the CmeABC multidrug efflux system. Functional classification -Antibiotic resistance; PMID:12069964, PMID:15728904, PMID:16359189" /codon_start=1 /transl_table=11 /product="periplasmic fusion protein CmeA (multidrug efflux system CmeABC)" /protein_id="YP_002343804.1" /db_xref="GI:218562025" /db_xref="GOA:Q0PBE3" /db_xref="InterPro:IPR006143" /db_xref="UniProtKB/TrEMBL:Q0PBE3" /db_xref="GeneID:904690" /translation="MKLFQKNTILALGVVLLLTACSKEEAPKIQMPPQPVTTMSAKSE DLPLSFTYPAKLVSDYDVIIKPQVSGVIENKLFKAGDKVKKGQTLFIIEQDKFKASVD SAYGQALMAKATFENASKDFNRSKALFSKSAISQKEYDSSLATFNNSKASLASARAQL ANARIDLDHTEIKAPFDGTIGDALVNIGDYVSASTTELVRVTNLNPIYADFFISDTDK LNLVRNTQNGKWDLDSIHANLNLNGETVQGKLYFIDSVIDANSGTVKAKAIFDNNNST LLPGAFATITSEGFIQKNGFKVPQIAVKQNQNDVYVLLVKNGKVEKSSVHISYQNNEY AIIDKGLQNGDKIILDNFKKIQVGSEVKEIGAQ" sig_peptide complement(335718..335846) /gene="cmeA" /locus_tag="Cj0367c" /note="Signal peptide predicted for cmeA by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.422 between residues 43 and 44" misc_feature complement(335775..336644) /gene="cmeA" /locus_tag="Cj0367c" /inference="protein motif:Pfam:PF00529" /note="HMMPfam hit to PF00529, HlyD family secretion protein, score 2.9e-21" misc_feature complement(336759..336791) /gene="cmeA" /locus_tag="Cj0367c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(336916..337548) /gene="cmeR" /locus_tag="Cj0368c" /db_xref="GeneID:904691" CDS complement(336916..337548) /gene="cmeR" /locus_tag="Cj0368c" /inference="protein motif:Pfam:PF00440" /note="Original (2000) note: Cj0368c, probable transcriptional regulatory protein, len: 210 aa; similar to members of the tetR family e.g. TR:G3327947 (EMBL:AF053772) Staphylococcus aureus transcriptional regulator qacR (regulator of multidrug efflux protein QacB) (188 aa), fasta scores; opt: 162 z-score: 285.0 E(): 1.3e-08, 29.3% identity in 198 aa overlap, and MTRR_NEIGO regulatory protein MTRR (210 aa), fasta scores; opt: 137 z-score: 210.6 E(): 0.00018, 31.3% identity in 83 aa overlap. No Hp match. Contains Pfam match to entry PF00440 tetR, Bacterial regulatory proteins, tetR family, score 24.00, E-value 6.4e-05; Updated (2006) note: Characterised within Campylobacter jejuni. Product function modified to more speicific family member. Characterisation paper shows that CmeR is a transcriptional repressor for the downstream CmeABC operon. Functional classification - Broad regulatory functions; PMID:15728904" /codon_start=1 /transl_table=11 /product="transcriptional regulator CmeR" /protein_id="YP_002343805.1" /db_xref="GI:218562026" /db_xref="GOA:Q6PMN0" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR012287" /db_xref="UniProtKB/TrEMBL:Q6PMN0" /db_xref="GeneID:904691" /translation="MNSNRTPSQKVLARQEKIKAVALELFLTKGYQETSLSDIIKLSG GSYSNIYDGFKSKEGLFFEILDDICKKHFHLIYSKTQEIENGTLKEILTSFGLAFIEI FNQPEAVAFGKIIYSQVYDKDRHLANWIENNQQNFSYNILMGFFKQQNNSYMKKNAEK LAVLFCTMLKEPYHHLNVLINAPLKNKKEQKEHVEFVVNVFLNGINSSKA" misc_feature complement(337357..337497) /gene="cmeR" /locus_tag="Cj0368c" /inference="protein motif:Pfam:PF00440" /note="HMMPfam hit to PF00440, Bacterial regulatory proteins, tetR family, score 7.1e-10" gene complement(337535..338911) /locus_tag="Cj0369c" /db_xref="GeneID:904692" CDS complement(337535..338911) /locus_tag="Cj0369c" /inference="protein motif:Pfam:PF00037" /inference="protein motif:Prosite:PS00198" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0369c, ferredoxin domain-containing integral membrane protein, len: 458 aa; some similarity to e.g. RDXA_RHOSH RDXA protein (469 aa),fasta scores; opt: 474 z-score: 657.7 E(): 2.2e-29, 24.9% identity in 402 aa overlap, and FIXG_RHIME nitrogen fixation protein FIXG (524 aa), fasta scores; opt: 476 z-score: 533.8 E(): 1.8e-22, 28.7% identity in 296 aa overlap. 45.7% identity to HP1508. Contains PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature and Pfam match to entry PF00037 fer4, 4Fe-4S ferredoxins and related iron-sulfur cluster binding domains., score 17.10,E-value 0.0011; Updated (2006) note: Five probable transmembrace helices identified by TMHMM2.0 within CDS. Further support given to product function. No specific characterisation with acceptable identity scores identified yet. Putative kept within product function. Functional classification -Energy metabolism - Electron transport" /codon_start=1 /transl_table=11 /product="putative ferredoxin domain-containing integral membrane protein" /protein_id="YP_002343806.1" /db_xref="GI:218562027" /db_xref="GOA:Q0PBE1" /db_xref="InterPro:IPR001450" /db_xref="InterPro:IPR014116" /db_xref="UniProtKB/TrEMBL:Q0PBE1" /db_xref="GeneID:904692" /translation="MQGHITNYTKKRYFVYLIASIIIFSLPFIRINENHFFLLSFDHS KLNLFFISFSTQEFYLMPFVLIFLFLFIFFITTLGGRIWCAWSCPQTIFRVIYRDIIQ TKFLKIRKNINNKQKEYERQYFKKFLGVIIFYFISLVAVSNLLWYFIPPEDFFNYIQN PGEHLLLLGILFCASLLFTLDITYLQEKFCVYVCPYARIQSVMFDHDTMQVIYDEKRG GLIYDGHTKLHKKPPEGECIGCEACVSICPTHIDIRKGMQLECINCLECADACSKVQS KFNRPSLINWTSAKAIETRSKVHYLRFRTIAYFIVLLIALLALIIMGSKKESMLLNIN RSSELYNISNVKGELVISNAYTFLFQNTDSKPHEYYFTANLEGINDGIEIIRPNKPFK LKAGEQVKKIVVIRATKNLANNDKKDVIFPLHIKAYAKDNEKISVFRKSIFVYPKSTL IKDKNELK" misc_feature complement(338153..338224) /locus_tag="Cj0369c" /inference="protein motif:Pfam:PF00037" /note="HMMPfam hit to PF00037, 4Fe-4S binding domain,score 0.0014" misc_feature complement(338168..338203) /locus_tag="Cj0369c" /inference="protein motif:Prosite:PS00198" /note="PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature" gene 339071..339283 /gene="rpsU" /locus_tag="Cj0370" /db_xref="GeneID:904693" CDS 339071..339283 /gene="rpsU" /locus_tag="Cj0370" /inference="protein motif:Pfam:PF01165" /note="a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA" /codon_start=1 /transl_table=11 /product="30S ribosomal protein S21" /protein_id="YP_002343807.1" /db_xref="GI:218562028" /db_xref="GOA:Q9PID2" /db_xref="InterPro:IPR001911" /db_xref="UniProtKB/Swiss-Prot:Q9PID2" /db_xref="GeneID:904693" /translation="MPGIKVHPNESFDEAYRKFKKQVDRNLVVTEVRARRFFEPMTEI RKKQKISARKKMLKRLYMLRRYESRL" misc_feature 339074..339235 /gene="rpsU" /locus_tag="Cj0370" /inference="protein motif:Pfam:PF01165" /note="HMMPfam hit to PF01165, Ribosomal protein S21,score 1.1e-24" gene 339403..340008 /locus_tag="Cj0371" /db_xref="GeneID:904694" CDS 339403..340008 /locus_tag="Cj0371" /inference="protein motif:Prosite:PS00013" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0371, probable lipoprotein,len: 201 aa; similar to H. pylori gene fragment reported to be involved in flagellar motility TR:Q48273 (EMBL:Z68311) (122 aa), fasta scores; opt: 322 z-score: 449.5 E(): 8.8e-18, 46.1% identity in 115 aa overlap. 46.4% identity to HP0232. Contains N-terminal signal sequence and PS00013 Prokaryotic membrane lipoprotein lipid attachment site; Updated (2006) note: One probable transmembrace helices identified by TMHMM2.0 within CDS. Some similarity to Helicobacter pylori gene fragment. Putative kept within product function. Functional classification - Surface structures; PMID:8733234" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343808.1" /db_xref="GI:218562029" /db_xref="GOA:Q9PID1" /db_xref="UniProtKB/Swiss-Prot:Q9PID1" /db_xref="GeneID:904694" /translation="MKKIKKIIQIGMIGGLAAVAGGALAGCGSNNDNADTLNQAANAQ GAFVIIEETAPGQYKIKDQYPSDETRVVLKDLNGTERILSKEEMDALIKEEAAKIDNG TSNLTKDNGQISSGGLSLGETLLASAAGAILGSWIGSKLFNNQNFANQQRGAFSNQSA YQRSVNSFNKAGTTSSASSAKKSGFFGGGSKATSSSSSFGS" sig_peptide 339403..339504 /locus_tag="Cj0371" /note="Signal peptide predicted for signalp2embl_unknown_000163_339403_340008 by SignalP 2.0 HMM (Signal peptide probability 1.000) with cleavage site probability 0.698 between residues 34 and 35" misc_feature 339421..339489 /locus_tag="Cj0371" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0371 by TMHMM2.0 at aa 7-29" misc_feature 339451..339483 /locus_tag="Cj0371" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 340018..341187 /locus_tag="Cj0372" /db_xref="GeneID:904695" CDS 340018..341187 /locus_tag="Cj0372" /EC_number="6.3.1.8" /inference="protein motif:Pfam:PF03738" /note="Original (2000) note: Cj0372, unknown, len: 389 aa; similar to hypothetical proteins e.g. YGIC_ECOLI (386 aa),fasta scores; opt: 552 z-score: 508.4 E(): 4.6e-21, 31.3% identity in 383 aa overlap. Also similar to N-terminus of GSP_ECOLI glutathionylspermidine synthase (619 aa), fasta scores; opt: 314 z-score: 248.3 E(): 1.4e-06, 24.4% identity in 381 aa overlap. 60.5% identity to HP0233; Updated (2006) note: Pfam domain PF03738 Glutathionylspermidine synthase identified within CDS. Characterised within Escherichia coli with marginal identity score. Amidase component is most likely not present due to absence at N-terminal end when aligned to Escherichia coli. Product modified to more specific family member based on motif match and characterisation. Putative kept within product function. Functional classification -Misc; PMID:7775463, PMID:9398217" /codon_start=1 /transl_table=11 /product="putative glutathionylspermidine synthase" /protein_id="YP_002343809.1" /db_xref="GI:218562030" /db_xref="GOA:Q0PBD8" /db_xref="InterPro:IPR005494" /db_xref="UniProtKB/TrEMBL:Q0PBD8" /db_xref="GeneID:904695" /translation="MQLLQVDKLQKDYLENIGFSWHTDEDGSDYISNKLVCVKESEAN AYYEAVNELYDMFIAAAQEVINNDRFDELGIPFNLIDAIKMSWENEVHWHLYGRFDLA GGLDGKPIKLIEFNADTPTALFESAILQWALLKQNGMDESAQFNSIYESLMDNFKRLI TLDESVEGFEEHYQGWKILFSSVAGSKEEEITTKLLAHIANEAGFQTNFSFVDEVEFS EEGIFKEGENYEYWFKLIPWEDIAIEEGELAMLLTQIMRNQRAIILNPAYTLLFQSKG ILKILWELYPNHPLLLETKDTPLEGKNYVKKPVFGREGANISIIKDGKTLHENVGPYG NNKAIYQEYVEFNSCENEYYQAGVFFAYEGCGLGFRKGGLVLDNYSKFVGHIIKD" misc_feature 340018..341181 /locus_tag="Cj0372" /inference="protein motif:Pfam:PF03738" /note="HMMPfam hit to PF03738, Glutathionylspermidine synthase, score 3.6e-252" gene 341190..342125 /locus_tag="Cj0373" /db_xref="GeneID:904696" CDS 341190..342125 /locus_tag="Cj0373" /EC_number="1.1.1.272" /inference="protein motif:Pfam:PF00389" /inference="protein motif:Prosite:PS00671" /note="Involved in the metabolism of aromatic amino acids" /codon_start=1 /transl_table=11 /product="2-hydroxyacid dehydrogenase" /protein_id="YP_002343810.1" /db_xref="GI:218562031" /db_xref="GOA:Q0PBD7" /db_xref="InterPro:IPR006139" /db_xref="InterPro:IPR006140" /db_xref="InterPro:IPR016040" /db_xref="UniProtKB/TrEMBL:Q0PBD7" /db_xref="GeneID:904696" /translation="MKIVCLDAATLGDYDLSVFEKFGSLQIYTTTNKEQTIERLKDAN VAMTNKVVIDKDVIDACKNLKLILETATGVNNIDIEYAKEKGIIVKNAAGYSTMSVVQ HTFAFMFAFLNQVLYYDKWSKEGKWCESPIFTDYSRILNTLSGKKHGIIGLGTIGKEV AKISKAFGAEIYYYSTSGANKNADFVHLELKDLLKTCDIISIHAPLNEKTKNLLAFEE LKLLKDNAILINVGRGGIVNENDLAKIIDEKNIRVGLDVLEIEPMMKNHPLLSIKNKE NLIITPHVAWASKEALNALMDIVYNNLKEWIENGK" misc_feature 341196..341471 /locus_tag="Cj0373" /inference="protein motif:Pfam:PF00389" /note="HMMPfam hit to PF00389, D-isomer specific 2-hydroxyacid dehydrog, score 3.7e-21" misc_feature 341487..342038 /locus_tag="Cj0373" /inference="protein motif:Pfam:PF02826" /note="HMMPfam hit to PF02826, D-isomer specific 2-hydroxyacid dehydrog, score 1.4e-41" misc_feature 341853..341903 /locus_tag="Cj0373" /inference="protein motif:Prosite:PS00671" /note="PS00671 D-isomer specific 2-hydroxyacid dehydrogenases signature 3" gene 342115..342606 /locus_tag="Cj0374" /db_xref="GeneID:904697" CDS 342115..342606 /locus_tag="Cj0374" /inference="protein motif:Pfam:PF04461" /note="putative nucleotide binding property based on structural studies of Haemophilus influenzae crystallized protein in PDB Accession Number 1IN0 and NMR studies of Escherichia coli YajQ; the YajQ protein from Pseudomonas synringae appears to play a role in activation of bateriophage phi6 segment L transcription" /codon_start=1 /transl_table=11 /product="putative nucleotide-binding protein" /protein_id="YP_002343811.1" /db_xref="GI:218562032" /db_xref="GOA:Q9PIC8" /db_xref="HSSP:P44096" /db_xref="InterPro:IPR007551" /db_xref="UniProtKB/Swiss-Prot:Q9PIC8" /db_xref="GeneID:904697" /translation="MASEHSFDISAALDKQELKNAFEQAKKELDSRYDLKGIKCEIDL SEKESIFKLSSSSEGKLDVLKDIVISKLIKRGINPKAIKELSRESGAMFRLNLKANDA IDSENAKKINKVIKDSKLKVNSSIRGEEIRVAAKQIDDLQAVMKLVKELDLELNISFK NLK" misc_feature 342124..342603 /locus_tag="Cj0374" /inference="protein motif:Pfam:PF04461" /note="HMMPfam hit to PF04461, Protein of unknown function (DUF520), score 3.7e-100" gene 342615..343091 /locus_tag="Cj0375" /db_xref="GeneID:904698" CDS 342615..343091 /locus_tag="Cj0375" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0375, probable lipoprotein,len: 158 aa; no Hp match. Contains N-terminal signal sequence and PS00013 Prokaryotic membrane lipoprotein lipid attachment site. Functional classification -Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="YP_002343812.1" /db_xref="GI:218562033" /db_xref="GOA:Q0PBD5" /db_xref="UniProtKB/TrEMBL:Q0PBD5" /db_xref="GeneID:904698" /translation="MKHCLALCFVFFLCACSVKNQNFSSQSLMVLIASPMIKINDTAF LKKENNALNLEVYKLGQAFFELKIKDKICINAVCYDKQVFNQKFFKNVYYDDILSDIL KANPLWQGKNLEKTDCGFEQNLKAKNYEIFYQVCDNKVSFFDKISHTKIILTHIQN" sig_peptide 342615..342686 /locus_tag="Cj0375" /note="Signal peptide predicted for signalp2embl_unknown_000167_342615_343091 by SignalP 2.0 HMM (Signal peptide probability 0.988) with cleavage site probability 0.405 between residues 24 and 25" misc_feature 342630..342662 /locus_tag="Cj0375" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 343102..343926 /locus_tag="Cj0376" /db_xref="GeneID:904699" CDS 343102..343926 /locus_tag="Cj0376" /note="Original (2000) note: Cj0376, possible periplasmic protein, len: 274 aa; no Hp match. Contains probable N-terminal signal sequence; Updated (2006) note: Literature search identified paper linking protein to glycoprotein. Functional classification - Miscellaneous periplasmic proteins; PMID:12186869" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343813.1" /db_xref="GI:218562034" /db_xref="UniProtKB/TrEMBL:Q0PBD4" /db_xref="GeneID:904699" /translation="MKFFLLVFCFVNLALAKVYKGELHFYHLQDKEIFAIVYDNAPMT PLFDRDKNQTSSSFLIVDDINGNLEIPLVKINDFWQDERKKYKINSSKMLTYDNKNFQ GENLGTTTLELVETQDGIRIKRSLDFIGFNDDFKEFHPVHKGVFSFEQIRQKPIFLQD GKISFEEWYYFYEDGMSRAILELNNFVYDINAHAFVKLNDLYNTENQKFQNLLHEKLK NTCDECFEDLQNLQFNNNFLLNNGKLKICYLPFEGHFLDENICVEFNEDELKEFKK" gene 343926..345638 /locus_tag="Cj0377" /db_xref="GeneID:904700" CDS 343926..345638 /locus_tag="Cj0377" /inference="protein motif:Pfam:PF00004" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0377, probable ATPase, len: 570 aa; weak similarity to many members of the AAA family e.g. TR:O28182 (EMBL:O28182) cell division control protein 48 (Archaeoglobus fulgidus AF2098) (811 aa), fasta scores; opt: 341 z-score: 312.6 E(): 3.7e-10, 26.4% identity in 435 aa overlap. No Hp match. Contains PS00017 ATP/GTP-binding site motif A (P-loop) and Pfam match to entry PF00004 AAA, ATPases associated with various cellular activities (AAA), score 106.20, E-value 6.3e-28; Updated (2006) note: Probable changed to putative. No specific characterisation with acceptable identity scores carried out yet. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative AAA family ATPase" /protein_id="YP_002343814.1" /db_xref="GI:218562035" /db_xref="GOA:Q0PBD3" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR003959" /db_xref="UniProtKB/TrEMBL:Q0PBD3" /db_xref="GeneID:904700" /translation="MEKLKNFLILKNIEDTQIYKELKCAKNEALILRELCRNYVVSIS SINAFTLLSTIFGNDKYLYLDALEDLKKLIERGFVNQNSSFFKSLENNKTQTLTLALL QSELSLSEYFLEFLEAKPRLNFEKQEAYADYLEYLKDEFARIQLYERLSFIQKSAYNS EIKNQIKLYERHIKERLKKSKFYNVLADIFKEYNLEHKEQIIFLALLKEEYALSNESS ISREMNSLLSLISENDLERHKNKKLLQENAPLLNLIECDEYLNAFGDISKSFFIIDEI LQRIINFEPKQSKKIKIESVLKDQDIFELIEPSTDINDIIMPENTKELLENILKQQDK KVLERLHSWGIKSNKNIEAKIIFYGPAGTGKTMSALAMAKSMKKSVLSFDCSKILSKW VGESEQNVRKIFDTYKNIVQTCKQSPILLLNEADQFLSTRVDGSSGSDKMHNQMQNIF LEQIERFSGVIIATTNFLESLDSAFSRRFDYKIEFKKPDFKDRLKIWEKFLPKKALFE KDFDINILSNYELSGAQILMVVKNTALKVAVSKDGVFKIQDFIESIQKELNSSFDKSK IVGF" misc_feature 344985..345542 /locus_tag="Cj0377" /inference="protein motif:Pfam:PF00004" /note="HMMPfam hit to PF00004, ATPase family associated with various cellul, score 1.4e-36" misc_feature 345000..345023 /locus_tag="Cj0377" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(345635..346174) /locus_tag="Cj0378c" /db_xref="GeneID:904701" CDS complement(345635..346174) /locus_tag="Cj0378c" /inference="protein motif:Pfam:PF01794" /inference="protein motif:Pfam:PF05252" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0378c, probable integral membrane protein, len: 179 aa; no Hp match; Updated (2006) note: Pfam domain PF01794 ferric reductase like transmembrane component identified within CDS. This was from a separate Pfam search. Pfam domain PF05252 Uncharacterised protein family (UPF0191) identified within CDS. Six probable transmembrace helices identified by TMHMM2.0 within CDS. Product functionality changed due to motif match. Literature search identified paper giving further support to product function. No specific characterisation has been carried out yet. Putative kept within product function; PMID:15632442" /codon_start=1 /transl_table=11 /product="putative ferric reductase-like transmembrane protein. Functional classification-Membranes,lipoproteins and porins" /protein_id="YP_002343815.1" /db_xref="GI:218562036" /db_xref="GOA:Q0PBD2" /db_xref="InterPro:IPR013130" /db_xref="UniProtKB/TrEMBL:Q0PBD2" /db_xref="GeneID:904701" /translation="MQTKYFKFLAYFSFIISLIYGFYHIIKAFDFVKEAYIYTGIFAL IFLNLSLLFSLLKFKKTKNYPKILGIFAAFWAILHFLNYFIFDRNAQILRLFDDISHR LLEAIGFIAFLIIFLMLLSSFKIFKKLSKIRKLGYLCLILASYHYFLTPKIPMFWEWS ALIIALFYFIVRYTKTLKS" misc_feature complement(345638..346171) /locus_tag="Cj0378c" /inference="protein motif:Pfam:PF05252" /note="HMMPfam hit to PF05252, Uncharacterised protein family (UPF0191), score 1.2e-08" gene complement(346174..347067) /locus_tag="Cj0379c" /db_xref="GeneID:904702" CDS complement(346174..347067) /locus_tag="Cj0379c" /inference="protein motif:Pfam:PF00174" /note="in Escherichia coli this periplasmic enzyme was found to encode the periplasmic catalytic subunit of an oxidoreductase; sulfite oxidase activity not demonstrated; requires inner membrane anchor protein YedZ" /codon_start=1 /transl_table=11 /product="putative sulfite oxidase subunit YedY" /protein_id="YP_002343816.1" /db_xref="GI:218562037" /db_xref="GOA:Q9PIC3" /db_xref="InterPro:IPR000572" /db_xref="UniProtKB/Swiss-Prot:Q9PIC3" /db_xref="GeneID:904702" /translation="MLITPEKLYKQRRNFLKLGAGALISSSVLASKLSALNFTSDTNP NKLEISDEELATNYVNFYEFSTDKRKAVSLAQNFNTQNWKIDISGEIEKPLTLSMEDI LKFPLEERIYRFRCVETWSMVVPWVGFELRRLIEMAKPTSEAKFVKFTTLLDKSQFPD QDALFPTIDYPYVEGLRMDEAMHPLTLLAVGMYKKALKPQNGAPIRLVVPWKYGFKSI KSIVKIEFTKEQPKSTWESYAPSEYGFYANVNPNVSHPRWSQANERALGDFFTKPTLM FNGYEKEVASLYKNMDLKVNF" sig_peptide complement(346174..346293) /locus_tag="Cj0379c" /note="Signal peptide predicted for signalp2embl_unknown_000171_346174_347067 by SignalP 2.0 HMM (Signal peptide probability 0.978) with cleavage site probability 0.517 between residues 40 and 41" misc_feature complement(346360..346917) /locus_tag="Cj0379c" /inference="protein motif:Pfam:PF00174" /note="HMMPfam hit to PF00174, Oxidoreductase molybdopterin binding d, score 3.2e-05" gene complement(347123..347908) /locus_tag="Cj0380c" /db_xref="GeneID:904703" CDS complement(347123..347908) /locus_tag="Cj0380c" /note="Original (2000) note: Cj0380c, unknonw, len: 261 aa; no Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Functional classification -Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343817.1" /db_xref="GI:218562038" /db_xref="UniProtKB/TrEMBL:Q0PBD0" /db_xref="GeneID:904703" /translation="MNYQQLECDYFNLYNQFLSVDFQISLFEKDHKGLIKDFIFFYYQ ILKQKDLSYLLEVRNKISLKVYNYMQEHSTSPKDLSLICLRENKHIEFFQIFYKALAY FVAFRKKLDGEQKIKNLISNINDCFGYHFLNSDFNNLQNFQKSDLFTLPEKHLKYFHF AMIHLCFMVLNPLNFKDSNRHLDKAINYLVDGTFEIYELIFKEYFLLFSKDKELKDEL RKLKKLEFKILMQETSKIKLLNHYKEFCEEIFYNIELEKITQN" gene complement(347905..348744) /gene="pyrF" /locus_tag="Cj0381c" /db_xref="GeneID:904704" CDS complement(347905..348744) /gene="pyrF" /locus_tag="Cj0381c" /EC_number="4.1.1.23" /inference="protein motif:Pfam:PF00215" /inference="protein motif:Prosite:PS00156" /note="type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase" /codon_start=1 /transl_table=11 /product="orotidine 5'-phosphate decarboxylase" /protein_id="YP_002343818.1" /db_xref="GI:218562039" /db_xref="GOA:Q9PIC1" /db_xref="HSSP:P25971" /db_xref="InterPro:IPR001754" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR014732" /db_xref="UniProtKB/Swiss-Prot:Q9PIC1" /db_xref="GeneID:904704" /translation="MKLCVALDLSTKEECLQLAKELKNLDIWLKVGLRAYLRDGFKFI EELKKVDDFKIFLDLKFHDIPNTMADACEEVSKLGVDMINIHASAGKIAIQEVMTRLS KFSKRPLVLAVSALTSFDEENFFSIYRQKIEEAVINFSKISYENGLDGMVCSVFESKK IKEHTSSNFLTLTPGIRPFGETNDDQKRVANLAMARENLSDYIVVGRPIYKNENPRAV CEKILNKIHRKNISENDIEQNYEVIQQKEWDMCNHFEEWIKTRPDKEHALKEFYAKCG IKY" misc_feature complement(348079..348744) /gene="pyrF" /locus_tag="Cj0381c" /inference="protein motif:Pfam:PF00215" /note="HMMPfam hit to PF00215, Orotidine 5'-phosphate decarboxylase / HUMP, score 7.3e-82" misc_feature complement(348541..348582) /gene="pyrF" /locus_tag="Cj0381c" /inference="protein motif:Prosite:PS00156" /note="PS00156 Orotidine 5'-phosphate decarboxylase active site" gene complement(348741..349139) /gene="nusB" /locus_tag="Cj0382c" /db_xref="GeneID:904705" CDS complement(348741..349139) /gene="nusB" /locus_tag="Cj0382c" /inference="protein motif:Pfam:PF01029" /note="Regulates rRNA biosynthesis by transcriptional antitermination" /codon_start=1 /transl_table=11 /product="transcription antitermination protein NusB" /protein_id="YP_002343819.1" /db_xref="GI:218562040" /db_xref="GOA:Q9PIC0" /db_xref="HSSP:P95020" /db_xref="InterPro:IPR006027" /db_xref="InterPro:IPR011605" /db_xref="UniProtKB/Swiss-Prot:Q9PIC0" /db_xref="GeneID:904705" /translation="MATRHQVRQSVISLLYAFELNSQNNVFVDEILDEKKIRNEQKNF TLNLYNGILDNLNNIDETLNSFLNDNQITALGHVERAILRLGAYELLFTDTPSAIVIN EAIELAKELANDNSPKFINGVLDALIKAKK" misc_feature complement(348747..349127) /gene="nusB" /locus_tag="Cj0382c" /inference="protein motif:Pfam:PF01029" /note="HMMPfam hit to PF01029, NusB family, score 1.9e-36" gene complement(349139..349603) /gene="ribH" /locus_tag="Cj0383c" /db_xref="GeneID:904706" CDS complement(349139..349603) /gene="ribH" /locus_tag="Cj0383c" /EC_number="2.5.1.9" /inference="protein motif:Pfam:PF00885" /note="RibE; 6,7-diimethyl-8-ribityllumazine synthase; DMRL synthase; lumazine synthase; beta subunit of riboflavin synthase; condenses 5-amino-6-(1'-D)-ribityl-amino-2,4(1H,3H)-pyrimidinedione with L-3,4-dihydrohy-2-butanone-4-phosphate to generate 6,6-dimethyl-8-lumazine (DMRL); riboflavin synthase then uses 2 molecules of DMRL to produce riboflavin (vitamin B12); involved in the last steps of riboflavin biosynthesis; forms a 60mer (icosahedral shell) in both Bacillus subtilis and Escherichia coli; in Bacillus subtilis this 60mer is associated with the riboflavin synthase subunit (alpha) while in Escherichia coli it is not" /codon_start=1 /transl_table=11 /product="6,7-dimethyl-8-ribityllumazine synthase" /protein_id="YP_002343820.1" /db_xref="GI:218562041" /db_xref="GOA:Q9PIB9" /db_xref="HSSP:O66529" /db_xref="InterPro:IPR002180" /db_xref="UniProtKB/Swiss-Prot:Q9PIB9" /db_xref="GeneID:904706" /translation="MNIIEGKLNLDSNTKIAIINARFNHIITDRLVEGAKDAFLRHGG KEENLSLILVPGAFELPYALKKAIESKKFDAICCVGAVIRGSTPHFDYVSAETTKGIA NVSLNHNIPVSFGVLTTDTIEQAIERAGSKAGNKGFEAMTTVIEMLNLSKEL" misc_feature complement(349142..349573) /gene="ribH" /locus_tag="Cj0383c" /inference="protein motif:Pfam:PF00885" /note="HMMPfam hit to PF00885,6,7-dimethyl-8-ribityllumazine synthase, score 1.8e-77" gene complement(349600..350415) /gene="kdsA" /locus_tag="Cj0384c" /db_xref="GeneID:904707" CDS complement(349600..350415) /gene="kdsA" /locus_tag="Cj0384c" /EC_number="2.5.1.55" /inference="protein motif:Prosite:PS00017" /note="catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis" /codon_start=1 /transl_table=11 /product="2-dehydro-3-deoxyphosphooctonate aldolase" /protein_id="YP_002343821.1" /db_xref="GI:218562042" /db_xref="GOA:Q9PIB8" /db_xref="HSSP:O66496" /db_xref="InterPro:IPR006218" /db_xref="InterPro:IPR006269" /db_xref="InterPro:IPR013785" /db_xref="UniProtKB/Swiss-Prot:Q9PIB8" /db_xref="GeneID:904707" /translation="MKKMILIAGPCVIESKDLIFKVAEQLKNFNENPNIEFYFKSSFD KANRTSINSFRGPGLEEGLKILQSVKDEFGMKILTDIHESNQANPVSEVADVLQIPAF LCRQTDLLVAAAKTKAKINIKKGQFLNPSDIKYSVKKVLQTRGIEDEGYEAAQRNGVF VAERGASFGYGNLVVDMRSLVIMREFAPVIFDATHSVQMPGAAGGSSGGKSEFVEPLA RAAAAVGIDGFFFETHINPCEALCDGPNMLNLTRLKNCVNTLLEIQNIIKENK" misc_feature complement(349609..350415) /gene="kdsA" /locus_tag="Cj0384c" /inference="protein motif:Pfam:PF00793" /note="HMMPfam hit to PF00793, DAHP synthetase I family,score 9.7e-105" misc_feature complement(349783..349806) /gene="kdsA" /locus_tag="Cj0384c" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene complement(350412..351344) /locus_tag="Cj0385c" /db_xref="GeneID:904708" CDS complement(350412..351344) /locus_tag="Cj0385c" /inference="protein motif:Pfam:PF00892" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0385c, probable integral membrane protein, len: 310 aa; similar to many hypothetical integral membrane proteins e.g. TR:O29973 (EMBL:AE001087) Archaeoglobus fulgidus AF0266 (276 aa),fasta scores; opt: 155 z-score: 221.8 E(): 4.5e-05, 26.9% identity in 279 aa overlap. 30.8% identity to HP1234. Contains Pfam match to entry PF00892 DUF6, Integral membrane protein, score 29.90, E-value 5.9e-05; Updated (2006) note: Pfam domain PF00892 Integral membrane protein DUF6 identified within CDS. Ten probable transmembrace helices identified by TMHMM2.0 within CDS. Further support given to product function. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="YP_002343822.1" /db_xref="GI:218562043" /db_xref="GOA:Q0PBC5" /db_xref="InterPro:IPR000620" /db_xref="UniProtKB/TrEMBL:Q0PBC5" /db_xref="GeneID:904708" /translation="MLKVIKHNLGIYFMILACLDFALMGACAKILSKEMSSIEIMFFR NIIGIFFIVYLLKRSKAHKEGGYFWLLVFRGVVGTLSLYMFFYNVSNITLGGAFAFQK TAPIFITLIAFVVFKENIGIKGWIGILIAFGGVLLIAQPWVHNLNHSGFDLKNSVIGI TSGFLAALALTSVRELRKSYTTEQIAFSFILLGTLMPLISMISAEFFEPQHLDSLHLD FILAPFVMPSLTAWLIIAIMGTLGTIYQIHVTKAYGIAKQAGVVAGVSYLDVVFSMIV GIILGDNLPSTMVFLGIIGIIFGGLILVKNKGKK" sig_peptide complement(350412..350495) /locus_tag="Cj0385c" /note="Signal peptide predicted for signalp2embl_unknown_000173_350412_351344 by SignalP 2.0 HMM (Signal peptide probability 0.822) with cleavage site probability 0.676 between residues 28 and 29" misc_feature complement(350925..351290) /locus_tag="Cj0385c" /inference="protein motif:Pfam:PF00892" /note="HMMPfam hit to PF00892, Integral membrane protein DUF6, score 6.9e-16" misc_feature complement(351291..351323) /locus_tag="Cj0385c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 351446..352828 /gene="engA" /locus_tag="Cj0386" /db_xref="GeneID:904709" CDS 351446..352828 /gene="engA" /locus_tag="Cj0386" /inference="protein motif:Pfam:PF01926" /inference="protein motif:Prosite:PS00017" /note="EngA; essential Neisserial GTPase; synchronizes cellular events by interacting with multiple targets with tandem G-domains; overexpression in Escherichia coli suppresses rrmJ mutation; structural analysis of the Thermotoga maritima ortholog shows different nucleotide binding affinities in the two binding domains" /codon_start=1 /transl_table=11 /product="GTP-binding protein EngA" /protein_id="YP_002343823.1" /db_xref="GI:218562044" /db_xref="GOA:Q9PIB6" /db_xref="HSSP:Q9X1F8" /db_xref="InterPro:IPR002917" /db_xref="InterPro:IPR005225" /db_xref="InterPro:IPR005289" /db_xref="InterPro:IPR006073" /db_xref="InterPro:IPR016484" /db_xref="UniProtKB/Swiss-Prot:Q9PIB6" /db_xref="GeneID:904709" /translation="MQSIILIGKPNVGKSSLFNRMARQRIAITSDISGTTRDTNKTQI HIHSKKAMLIDSGGLDESDELFKNVKKNTLKVAKESDIILYLVDGKLAPDDEDRQFFY SLKKLGKPIALVINKVDNKKDEERAWEFANFGVKEIFNLSVTHNVGLDELYEWLEKFL HEEFLIPDEEENLEDFLEYYEEGKEFQFKEVDQNHIRVGIVGRVNVGKSSLLNALVKQ ERSVVSSIAGTTIDPVNESVVHKDKVIEFVDTAGIRKRGKIQGLERFALNRTEKILSH SQIALLVLDAHEGFNELDERIAGLVAKHYLGVIIVLNKWDKSEMDFDKTVKELRLDRF KFLAYAPVISVSALSGKRVHVLLDKILQIFENFTQKIQTSKLNTLIENATRAHPLPHD YGKLVKIYYAVQYDLAPPKIALIMNRPKALHFSYKRYLQNQIRKEFNFEGVPLVIASR KKGSKENDES" misc_feature 351449..351802 /gene="engA" /locus_tag="Cj0386" /inference="protein motif:Pfam:PF01926" /note="HMMPfam hit to PF01926, GTPase of unknown function,score 2.7e-36" misc_feature 351467..351490 /gene="engA" /locus_tag="Cj0386" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 352031..352393 /gene="engA" /locus_tag="Cj0386" /inference="protein motif:Pfam:PF01926" /note="HMMPfam hit to PF01926, GTPase of unknown function,score 1.3e-39" misc_feature 352049..352072 /gene="engA" /locus_tag="Cj0386" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 352815..353312 /gene="aroK" /locus_tag="Cj0387" /db_xref="GeneID:904710" CDS 352815..353312 /gene="aroK" /locus_tag="Cj0387" /EC_number="2.7.1.71" /inference="protein motif:Pfam:PF01202" /inference="protein motif:Prosite:PS00017" /note="catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis" /codon_start=1 /transl_table=11 /product="shikimate kinase" /protein_id="YP_002343824.1" /db_xref="GI:218562045" /db_xref="GOA:Q0PBC3" /db_xref="InterPro:IPR000623" /db_xref="PDB:1VIA" /db_xref="UniProtKB/TrEMBL:Q0PBC3" /db_xref="GeneID:904710" /translation="MMKAKNIVFIGFMGSGKSTLARALAKDLDLVFLDSDFLIEQKFN QKVSEIFEQKRENFFREQEQKMADFFSSCEKACIATGGGFVNVSNLEKAGFCIYLKAD FEYLKKRLDKDEISKRPLFYDEIKAKKLYNERLSKYEQKANFILNIENKNIDELLSEI KKVIK" misc_feature 352845..352868 /gene="aroK" /locus_tag="Cj0387" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" misc_feature 352851..353309 /gene="aroK" /locus_tag="Cj0387" /inference="protein motif:Pfam:PF01202" /note="HMMPfam hit to PF01202, Shikimate kinase, score 3.6e-48" gene 353309..354268 /gene="trpS" /locus_tag="Cj0388" /db_xref="GeneID:904711" CDS 353309..354268 /gene="trpS" /locus_tag="Cj0388" /EC_number="6.1.1.2" /inference="protein motif:Pfam:PF00579" /inference="protein motif:Prosite:PS00178" /note="catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA" /codon_start=1 /transl_table=11 /product="tryptophanyl-tRNA synthetase" /protein_id="YP_002343825.1" /db_xref="GI:218562046" /db_xref="GOA:Q9PIB4" /db_xref="HSSP:P00953" /db_xref="InterPro:IPR001412" /db_xref="InterPro:IPR002305" /db_xref="InterPro:IPR002306" /db_xref="InterPro:IPR014729" /db_xref="UniProtKB/Swiss-Prot:Q9PIB4" /db_xref="GeneID:904711" /translation="MRVLTGLQPSGDLHIGNYFGAIKQMVDAQEKSQMFMFIANYHAM TSSQDGEKLKQNSLKAAAAFLSLGIDPQKSVFWLQSDVKEVMELYWILSQFTPMGLLE RAHSYKDKVAKGLSASHGLFSYPVLMAADILLFDTRIVPVGKDQIQHVEIARDIALKV NNEWGEIFTLPEARVNEEVAVVVGTDGAKMSKSYQNTIDIFSSEKTLKKQISSIVTDS TALEDPKDHENCNIFKIAKLFLDESGQKELQIRYEKGGEGYGHFKIYLNELVNAYFKE AREKYNELLEKPSHLKEILDFGATKARKIAQEKMQKIYEKIGL" misc_feature 353309..354133 /gene="trpS" /locus_tag="Cj0388" /inference="protein motif:Pfam:PF00579" /note="HMMPfam hit to PF00579, tRNA synthetases class I (W and Y), score 1.1e-66" misc_feature 353333..353362 /gene="trpS" /locus_tag="Cj0388" /inference="protein motif:Prosite:PS00178" /note="PS00178 Aminoacyl-transfer RNA synthetases class-I signature" gene 354279..355514 /gene="serS" /locus_tag="Cj0389" /db_xref="GeneID:904712" CDS 354279..355514 /gene="serS" /locus_tag="Cj0389" /EC_number="6.1.1.11" /inference="protein motif:Pfam:PF00587" /inference="protein motif:Prosite:PS00179" /note="catalyzes a two-step reaction, first charging a serine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA" /codon_start=1 /transl_table=11 /product="seryl-tRNA synthetase" /protein_id="YP_002343826.1" /db_xref="GI:218562047" /db_xref="GOA:Q9PIB3" /db_xref="HSSP:P34945" /db_xref="InterPro:IPR002314" /db_xref="InterPro:IPR002317" /db_xref="InterPro:IPR006195" /db_xref="InterPro:IPR015866" /db_xref="UniProtKB/Swiss-Prot:Q9PIB3" /db_xref="GeneID:904712" /translation="MLDLKNLQNNFDEVAKKLKNKKVDENILKKLAELFASLKKEKIA LEEFQAFQNKFSKELATAEDKESLKAKLSENKSKINEQSAKVNALENELEEIAHAIPN IPDECVPVGEDENENVELKKVLNPPSFDFTPKEHFELGESLNWLDFMRGVKISQSRFC VLKNEGALLSRALVNYMIDFNRSRGFEFVNVPFLVNGATMFGTGQLPKFKEDMYKVDD EDLYLISTSEIPVTNLYSGEILASETLPIKMTCYSACFRKEAGSAGRDTRGIIRQHQF EKVELVSITKPEQSDSVFNEMLECASDLLSSLGLAHRHLMLCTGDLGFSAAKTVDLEV WLPGQNKYREISSVSNCRDFQARRAKIRYKNEQGKNELVHTLNGSSLAVGRTLVAIME NYQDKEGKIHIPDVLKKYF" misc_feature 354279..354590 /gene="serS" /locus_tag="Cj0389" /inference="protein motif:Pfam:PF02403" /note="HMMPfam hit to PF02403, Seryl-tRNA synthetase N-terminal domain, score 9.1e-26" misc_feature 354750..355214 /gene="serS" /locus_tag="Cj0389" /inference="protein motif:Pfam:PF00587" /note="HMMPfam hit to PF00587, tRNA synthetase class II core domain (G,, score 1.4e-52" misc_feature 355044..355118 /gene="serS" /locus_tag="Cj0389" /inference="protein motif:Prosite:PS00179" /note="PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1" gene 355524..357986 /locus_tag="Cj0390" /db_xref="GeneID:904713" CDS 355524..357986 /locus_tag="Cj0390" /inference="protein motif:Pfam:PF00515" /inference="protein motif:Pfam:PF07719" /note="Original (2000) note: Cj0390, possible transmembrane protein, len: 820 aa; 28.7% identity in 703 aa overlap to HP1479. Contains possible transmembrane domain around aa 100 and Pfam match to entry PF00515 TPR,TPR Domain, score 26.90, E-value 0.00047; Updated (2006) note: Pfam domains x4 PF07719 Tetratricopeptide repeat were identified within CDS. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative transmembrane protein" /protein_id="YP_002343827.1" /db_xref="GI:218562048" /db_xref="GOA:Q0PBC0" /db_xref="InterPro:IPR001440" /db_xref="InterPro:IPR011990" /db_xref="InterPro:IPR013026" /db_xref="UniProtKB/TrEMBL:Q0PBC0" /db_xref="GeneID:904713" /translation="MAEQEDIILEKPEDGLNQPRLDESLEGFKGQEGQAPEDEEFASL PEELPQENSESGFKFTRESAPEDVSTFEEVESQEPTPWYKDRKFMSLVGLSLGIICIL VFTLFYLTFSEGKIKPDIIASKPLEQPVIMPDESYKYNDMQRIDGMIQKANALYLKGE VEQALKVYEQVAVYNESLSNYNLGVSQMNENKFQEAFESFKKAIANGENQSVAAINAA VCALKLNDKEKFRYYIDLAQVYLPKEGKSKLYDYYLSLINYYKGYYPEALQMLQRTDV EPYSDVAKYLSAKIYAKMDFDSKAIQQLNSQGNFESSLSLGLLYARIGEYAKAKVALS TAMKIERDFNQSLAALTLVDIKTGNYQDMLARLQNSYDNDKDRYKILDTYKIQVRLNK DLFNIAVAQNSFSKDLLKKQKDQFDLLFYFAPYQVFDSKQAALYIKKANVTDFVDDST DAGIYLNISKALSSTNVKIANIINYALNQKLRLANQEFQKLIKDYPEHSILHYNLALT YAQMQNYELAYKHFSSSYHLNPKNYLAGAFAMFCAKLIDIDTTKLYNEILDNIAADSN FKANMQKSMLFLVNNNYISMLPYLDETKKDTPLSLIFEAIVAKNNNLNNQVDVKIAKL RSELPEDILANILYFNSLNSNLNIKEYAQNAQIHFKNLKLDYRSVFGGPNIAREFYVN LMHIAGLLNLERQKFKELINVSGAKDEGILQTLAYLDIFAQQYEEAYALYNSLIDDYG AKDTKTLFLAAVAAVGANNPNSAIALLQLSKLTDKNNKESKAALGMLYQEVKNYEAAI SQYKTLPNNFKSEFFTFDINNN" misc_feature 355791..355859 /locus_tag="Cj0390" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0390 by TMHMM2.0 at aa 90-112" misc_feature 355956..356057 /locus_tag="Cj0390" /inference="protein motif:Pfam:PF00515" /inference="protein motif:Pfam:PF07719" /note="HMMPfam hit to PF00515, Tetratricopeptide repeat,score 0.12; HMMPfam hit to PF07719, Tetratricopeptide repeat,score 0.032" misc_feature 356064..356153 /locus_tag="Cj0390" /inference="protein motif:Pfam:PF00515" /note="HMMPfam hit to PF00515, Tetratricopeptide repeat,score 0.43" misc_feature 356451..356552 /locus_tag="Cj0390" /inference="protein motif:Pfam:PF00515" /inference="protein motif:Pfam:PF07719" /note="HMMPfam hit to PF07719, Tetratricopeptide repeat,score 0.15; HMMPfam hit to PF00515, Tetratricopeptide repeat,score 0.034" misc_feature 357018..357119 /locus_tag="Cj0390" /inference="protein motif:Pfam:PF00515" /inference="protein motif:Pfam:PF07719" /note="HMMPfam hit to PF00515, Tetratricopeptide repeat,score 5.3e-06; HMMPfam hit to PF07719, Tetratricopeptide repeat,score 0.00052" stem_loop 357981..358018 gene complement(358017..358652) /locus_tag="Cj0391c" /db_xref="GeneID:904714" CDS complement(358017..358652) /locus_tag="Cj0391c" /note="Original (2000) note: Cj0391c, unknown, len: 211 aa; no Hp match; Updated (2006) note: Similar to hypothetical proteins from other bacteria. Literature search identified paper giving further clues to product function. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343828.1" /db_xref="GI:218562049" /db_xref="UniProtKB/TrEMBL:Q0PBB9" /db_xref="GeneID:904714" /translation="MQVNTFSNIASMARTQVSNKKADDAKENTKDKNVQSANSSKDVD KNTLEKLNALGGKGITQIYLVQFQQQTMNAVIGSSNAQTGLDSLLNGANLDTAKSILT NIDFASLGYSSKNPLDMNTDELQQLVSEDGFFGVENTANRIADFVIKGGGDDVEKLKK GLEGMKKGFEQAEKMWGGELPQISQNTIDAALKKVSDRIDELGGKTLDLQA" gene complement(358750..360192) /gene="pyk" /locus_tag="Cj0392c" /db_xref="GeneID:904715" CDS complement(358750..360192) /gene="pyk" /locus_tag="Cj0392c" /EC_number="2.7.1.40" /inference="protein motif:Pfam:PF00224" /inference="protein motif:Pfam:PF02887" /inference="protein motif:Prosite:PS00659" /note="Original (2000) note: Cj0392c, pyk, probable pyruvate kinase, len: 480 aa; similar to e.g. KPYK_BACSU pyruvate kinase (EC 2.7.1.40) (585 aa), fasta scores; opt: 1111 z-score: 1494.8 E(): 0, 41.8% identity in 476 aa overlap. No Hp match. Contains PS00659 Glycosyl hydrolases family 5 signature and Pfam match to entry PF00224 PK,Pyruvate kinase, score 523.20, E-value 1.8e-153; Updated (2006) note: Pfam domain PF02887 Pyruvate kinase, alpha/beta domain protein was identified within CDS. Further support given to product function. Characterised within Bacillus subtilis with acceptable identity score. Putative not added to product function. Functional classification - Energy metabolism -Glycolysis; PMID:10932722" /codon_start=1 /transl_table=11 /product="pyruvate kinase" /protein_id="YP_002343829.1" /db_xref="GI:218562050" /db_xref="GOA:Q0PBB8" /db_xref="InterPro:IPR001547" /db_xref="InterPro:IPR001697" /db_xref="InterPro:IPR015793" /db_xref="InterPro:IPR015794" /db_xref="InterPro:IPR015813" /db_xref="UniProtKB/TrEMBL:Q0PBB8" /db_xref="GeneID:904715" /translation="MLKKTKIVATVGPASEKEEILRQMIINGVNVFRLNFSHGTHEYH KKNLDTIRRVAKELHTRIGILQDISGPKIRTGELKEPFELKKGDRLDFYRETILGEKI AQNHYKISINQKSILDMLKIDEYIYLYDGSIRAKVVNIDNQKIETIIENDGFLNSNKG INFPNTKINIDVITQKDKNDLLWGIKNEVDFLAISFVQNAHDIDEVREILAQNNAKIS IFAKIEKFDAVENIDEIIKSSDGIMVARGDLGIEVPYYKVPNIQKEIIQKANNASKPV ITATQMLFSLAKSKTATRAEISDVANAVLDGTDAVMLSEESAVGIDPANAVDIMCQTI IETEKRYPYNKFNDFNDLDNTDKIMRSSAHLATDLNADAIFSLTSSGKSAIKIARYRP NIEIIAVGHSEKTLNSLSIVWGVNPAILVNKSNELTELLKDSVRSSVEKGFMDEDKCY LLTAGFPTGVEGTSNLIRILNKEQIAYYLQ" misc_feature complement(358780..359130) /gene="pyk" /locus_tag="Cj0392c" /inference="protein motif:Pfam:PF02887" /note="HMMPfam hit to PF02887, Pyruvate kinase, alpha/beta domain, score 1.4e-11" misc_feature complement(359152..360189) /gene="pyk" /locus_tag="Cj0392c" /inference="protein motif:Pfam:PF00224" /note="HMMPfam hit to PF00224, Pyruvate kinase, barrel domain, score 2.4e-135" misc_feature complement(359623..359652) /gene="pyk" /locus_tag="Cj0392c" /inference="protein motif:Prosite:PS00659" /note="PS00659 Glycosyl hydrolases family 5 signature" gene complement(360241..361587) /gene="mqo" /locus_tag="Cj0393c" /db_xref="GeneID:904716" CDS complement(360241..361587) /gene="mqo" /locus_tag="Cj0393c" /EC_number="1.1.5.4" /inference="protein motif:Pfam:PF06039" /inference="protein motif:Prosite:PS00110" /note="Original (2000) note: Cj0393c, possible oxidoreductase, len: 448 aa; some simlarity to MQO_ECOLI probable malate:quinone oxidoreductase (548 aa), fasta scores; opt: 121 z-score: 223.1 E(): 3.8e-05, 24.6% identity in 455 aa overlap. 49.3% identity to HP0086. Contains PS00110 Pyruvate kinase active site signature; Updated (2006) note: Pfam domain PF06039 Malate:quinone oxidoreductase (Mqo) protein was identified within CDS. Characterised within Helicobacter pylori with acceptable identity score. Product modified to more specific family member due to motif match and characterisation work. Putative kept within product function. Functional classification - Misc; PMID:10809701" /codon_start=1 /transl_table=11 /product="putative malate:quinone oxidoreductase" /protein_id="YP_002343830.1" /db_xref="GI:218562051" /db_xref="GOA:P56954" /db_xref="InterPro:IPR006076" /db_xref="UniProtKB/Swiss-Prot:P56954" /db_xref="GeneID:904716" /translation="MSQQEFDVLVIGAGISGAALFYELARYTNIKNIALIEKYNTAAT LNSKGTSNSQTIHCGDIETNYTLEKARKVKRTADMIVKYGLMQNAQNNFMFSHQKMAL AVGDIECDYMKKRYEEFKELYPYIKFFDKAKIKQIEPKVVLGEDCNQDRPENICAMGV ESGEVFTTVDFGKMSINLIEQAQKQNKNTFVAFNQEIIHIEKKDDIFILKTSNHQEYH AKSVVVNAGAHSLYLAHKMNLGMDKSCWPVAGSFYLTKQKLLNGKVYMVQNPKLPFAA LHGDPDLLADMNTRFGPTALVIPKLERYHGLKSVPEFFEALKLDKTVLKVTFNMFKDA TIRNYIFYNYLFELPFVDKSLFVKDAKKIVPSLKASDIYYAKGFGGVRPQVIDKTKGE LMLGEASITETPGIIFNMTPSPGATSCLGNAERDAKLVCNYLGMEFNEDKFSSELL" misc_feature complement(360244..361584) /gene="mqo" /locus_tag="Cj0393c" /inference="protein motif:Pfam:PF06039" /note="HMMPfam hit to PF06039, Malate:quinone oxidoreductase (Mqo), score 1.3e-08" misc_feature complement(360331..360363) /gene="mqo" /locus_tag="Cj0393c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" misc_feature complement(360667..360705) /gene="mqo" /locus_tag="Cj0393c" /inference="protein motif:Prosite:PS00110" /note="PS00110 Pyruvate kinase active site signature" gene complement(361706..362335) /locus_tag="Cj0394c" /db_xref="GeneID:904717" CDS complement(361706..362335) /locus_tag="Cj0394c" /EC_number="2.7.1.33" /inference="protein motif:Pfam:PF03309" /note="type III; catalyzes the formation of (R)-4'-phosphopantothenate from (R)-pantothenate in coenzyme A biosynthesis; type III pantothenate kinases are not subject to feedback inhibition from coenzyme A and have a high Km for ATP" /codon_start=1 /transl_table=11 /product="pantothenate kinase" /protein_id="YP_002343831.1" /db_xref="GI:218562052" /db_xref="GOA:Q0PBB6" /db_xref="InterPro:IPR004619" /db_xref="PDB:2NRH" /db_xref="UniProtKB/Swiss-Prot:Q0PBB6" /db_xref="GeneID:904717" /translation="MLLCDIGNSNANFLDDNKYFTLNIDQFLEFKNEQKIFYINVNEH LKEHLKNQKNFINLEPYFLFDTIYQGLGIDRIAACYTIEDGVVVDAGSAITIDIISNS IHLGGFILPGIANYKKIYSHISPRLKSEFNTQVSLDAFPQKTMDALSYGVFKGIYLLI KDAAQNKKLYFTGGDGQFLANYFDHAIYDKLLIFRGMKKIIKENPNLLY" misc_feature complement(361838..362335) /locus_tag="Cj0394c" /inference="protein motif:Pfam:PF03309" /note="HMMPfam hit to PF03309, Bordetella pertussis Bvg accessory fac, score 7.3e-09" gene complement(362322..362612) /locus_tag="Cj0395c" /db_xref="GeneID:904718" CDS complement(362322..362612) /locus_tag="Cj0395c" /note="Original (2000) note: Cj0395c, unknown, len: 96 aa; no Hp match. Functional classification - Unknown" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343832.1" /db_xref="GI:218562053" /db_xref="UniProtKB/TrEMBL:Q0PBB5" /db_xref="GeneID:904718" /translation="MIKILEQTIKALKLNLKPYDLSMLTRKKSYICAKDQNNILFMYT GKTKFLMKDALFLENLAQQININNKYFFSMASLCSKAKNHLEMKGFNIYVAL" gene complement(362609..363607) /locus_tag="Cj0396c" /db_xref="GeneID:904719" CDS complement(362609..363607) /locus_tag="Cj0396c" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0396c, probable lipoprotein, len: 332 aa; 28.9% identity to HP0863. Conatins N-terminal signal sequence and PS00013 Prokaryotic membrane lipoprotein lipid attachment site. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="YP_002343833.1" /db_xref="GI:218562054" /db_xref="GOA:Q0PBB4" /db_xref="UniProtKB/TrEMBL:Q0PBB4" /db_xref="GeneID:904719" /translation="MKKIFLTLFCLIFLCACGTKRQYFEPKQTDGDLSHNSNLKSKIV DWNLVSAKLSNNTTILKNNISIDKFKLPKNYMLLAYQDGEYFTADNNGNLKIFDNSYN EIYNFQFDASVVGVASNGDDLALVLANNTIVLANRSLGIKFSQTLTSAPAQDSRTANP IFLDNIIVYPTLDGKILILSRNNLQIIKDVVISAENFFNNVIHLSVIGDKLIAATAKK IIVVSPARTLYLDADIKDVALSDDGIFILEKDGTIIKTDYNLRKIAEKKFEFAIFVKS NIYNNYLYIFEKTGYLIKMNLNLDNAQVFKLSEAVDKISFMGNGKFYYGDKILDLL" sig_peptide complement(362609..362677) /locus_tag="Cj0396c" /note="Signal peptide predicted for signalp2embl_unknown_000179_362609_363607 by SignalP 2.0 HMM (Signal peptide probability 0.869) with cleavage site probability 0.381 between residues 23 and 24" misc_feature complement(363557..363589) /locus_tag="Cj0396c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene complement(363604..364182) /locus_tag="Cj0397c" /db_xref="GeneID:904720" CDS complement(363604..364182) /locus_tag="Cj0397c" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0397c, unknown, len: 192 aa; almost identical to C. jejuni hypothetical protein fragment TR:Q46096 (EMBL:U27272), 28.5% identity to HP0864; Updated (2006) note: One probable transmembrace helices identified by TMHMM2.0 within CDS. Literature serach identified paper giving further clues about product function. Functional classification - Conserved hypothetical proteins; PMID:10913692" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343834.1" /db_xref="GI:218562055" /db_xref="UniProtKB/TrEMBL:Q0PBB3" /db_xref="GeneID:904720" /translation="MGLKDNLKAVKNELNTEEQFIENFIKGERFIRKYKFYISAVVII LVAWFAGNFIISKINDYKTKEANEIYANLIQDPSNKNLLEQLKNKNTNLYAIFLLKEN INDFNNTTLQNELKQIYNNAQTNTLLKNIIALSLGDKSIFLKNYDKLLEAYKLLEQNK IEEANVLLSQIKENSSLNQIAKNLKHYQGITQ" misc_feature complement(364018..364077) /locus_tag="Cj0397c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0397c by TMHMM2.0 at aa 36-55" gene 364326..364610 /gene="gatC" /locus_tag="Cj0398" /db_xref="GeneID:904721" CDS 364326..364610 /gene="gatC" /locus_tag="Cj0398" /EC_number="6.3.5.-" /inference="protein motif:Pfam:PF02686" /note="allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA; some Mycoplasma proteins contain an N-terminal fusion to an unknown domain" /codon_start=1 /transl_table=11 /product="aspartyl/glutamyl-tRNA amidotransferase subunit C" /protein_id="YP_002343835.1" /db_xref="GI:218562056" /db_xref="GOA:Q9PIA5" /db_xref="InterPro:IPR003837" /db_xref="UniProtKB/Swiss-Prot:Q9PIA5" /db_xref="GeneID:904721" /translation="MQIDEKLLSKLEKLSALQITKNRNETIAQLSEIVNFVEKLNELD LDSQEITVSTIKGGAPLRIDEIRNSNVIDEVLDCAPKKQEHFFVVPKIIE" misc_feature 364380..364592 /gene="gatC" /locus_tag="Cj0398" /inference="protein motif:Pfam:PF02686" /note="HMMPfam hit to PF02686, Glu-tRNAGln amidotransferase C subunit, score 5.1e-09" gene 364678..365241 /locus_tag="Cj0399" /db_xref="GeneID:904722" CDS 364678..365241 /locus_tag="Cj0399" /inference="protein motif:Pfam:PF02674" /inference="protein motif:TMHMM:2.0" /note="Original (2000) note: Cj0399, probable integral membrane protein, len: 187 aa; identical to C. jejuni hypothetical protein fragment TR:O68605 (EMBL:AF052056) (123 aa). 26.9% identity in 171 aa overlap to HP0181 (224 aa); Updated (2006) note: Four probable transmembrace helices identified by TMHMM2.0 within CDS. Pfam domain PF02674 Colicin V production protein identified within CDS. Product modified to more speicific family member based on motif matches. No specific characterisation with acceptable identity score has been carried out yet. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="colicin V production protein homolog" /protein_id="YP_002343836.1" /db_xref="GI:218562057" /db_xref="GOA:Q0PBB1" /db_xref="InterPro:IPR003825" /db_xref="UniProtKB/TrEMBL:Q0PBB1" /db_xref="GeneID:904722" /translation="MNFYWFDAFILGFTLLLGLKGIINGLIKEIFGLLGIIGGVFIAS KYATQAAEFIQSTFYKIENQSLAGFAGFLAILIIFWIACLLAGNFLSKLIKLSGLGFL DRIGGFIFGGAKIFLIFAILVFCVARIDFLNDKLDNFAKNSYTLNLLKETGSFIMNQP LTENSLDHASEKLQDIVSDLNNTQKGE" misc_feature 364690..365163 /locus_tag="Cj0399" /inference="protein motif:Pfam:PF02674" /note="HMMPfam hit to PF02674, Colicin V production protein, score 1.4e-48" misc_feature order(364690..364758,364768..364821,364879..364947, 364990..365058) /locus_tag="Cj0399" /inference="protein motif:TMHMM:2.0" /note="4 probable transmembrane helices predicted for Cj0399 by TMHMM2.0 at aa 5-27, 31-48, 68-90 and 105-127" misc_feature 364894..364926 /locus_tag="Cj0399" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 365243..365716 /gene="fur" /locus_tag="Cj0400" /db_xref="GeneID:904724" CDS 365243..365716 /gene="fur" /locus_tag="Cj0400" /inference="protein motif:Pfam:PF01475" /note="Original (2000) note: Cj0400, fur, ferric uptake regulator, len: 157 aa; identical to FUR_CAMJE ferric uptake regulation protein, and highly simliar to many others e.g. FUR_BORPE (139 aa), fasta scores; opt: 354 z-score: 552.9 E(): 1.7e-23 41.6% identity in 137 aa overlap. 40.8% identity to HP1027; Updated (2006) note: Pfam domain PF01475 Ferric uptake regulator family was identified within CDS. Characterised within Campylobacter jejuni. Putative not added to product function. Functional classification -Broad regulatory functions; PMID:8083178, PMID:7590316, PMID:9765558" /codon_start=1 /transl_table=11 /product="ferric uptake regulator" /protein_id="YP_002343837.1" /db_xref="GI:218562058" /db_xref="GOA:P0C631" /db_xref="GOA:P48796" /db_xref="InterPro:IPR002481" /db_xref="UniProtKB/Swiss-Prot:P0C631" /db_xref="GeneID:904724" /translation="MLIENVEYDVLLERFKKILRQGGLKYTKQREVLLKTLYHSDTHY TPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEMVTSISFGSAGKKYELANKPHHDH MICKNCGKIIEFENPIIERQQALIAKEHGFKLTGHLMQLYGVCGDCNNQKAKVKI" misc_feature 365303..365668 /gene="fur" /locus_tag="Cj0400" /inference="protein motif:Pfam:PF01475" /note="HMMPfam hit to PF01475, Ferric uptake regulator family, score 1.4e-63" gene 365717..367222 /gene="lysS" /locus_tag="Cj0401" /db_xref="GeneID:904725" CDS 365717..367222 /gene="lysS" /locus_tag="Cj0401" /EC_number="6.1.1.6" /inference="protein motif:Pfam:PF00152" /inference="protein motif:Prosite:PS00179" /inference="protein motif:Prosite:PS00339" /note="class II; LysRS2; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; in Methanosarcina barkeri, LysRS2 charges both tRNA molecules for lysine that exist in this organism and in addition can charge the tRNAPyl with lysine in the presence of LysRS1" /codon_start=1 /transl_table=11 /product="lysyl-tRNA synthetase" /protein_id="YP_002343838.1" /db_xref="GI:218562059" /db_xref="GOA:P41258" /db_xref="HSSP:P13030" /db_xref="InterPro:IPR002313" /db_xref="InterPro:IPR004364" /db_xref="InterPro:IPR004365" /db_xref="InterPro:IPR006195" /db_xref="UniProtKB/Swiss-Prot:P41258" /db_xref="GeneID:904725" /translation="MFDNILEQQRIEKAKELKNLGINPYPHFLEKEMSLKTFKDKFSY ILEQVEKRDESVNAVVAGRLKLLRIAGKSIFANIEDEDTNLQIYFSKDSVGEELYTIL KKNLEVGDIVLVKGFPFVTKTGEFSLHASEVKLATKAIVPLPEKYHGLTDIEQRYRKR YVDMIMNVEVRKDFLVRSKVVSLIRHFFENKGFLEVETPMMHPIAGGANAKPFVTFHN SLGVERFLRIAPELYLKRLIVGGFEAVFEINRCFRNEGMDLTHNPEFTTIEFYWAYHN YKDLMDLTEELFALLLDKLNLGKTIEFDGKMINFSKPFERITYKDALCKYGGLDRDLI EDKEKILTKLKADGFEANEKLELGHLQAELFDNYVEEKLINPTFVIDFPISISPLSRR SDEDSQIAERFELFICGRELANGFNELNDPLDQYERFLKQIEAKNAGDEEACEMDEDF VNALGYGMPPTAGQGIGIDRLVMLLTNKKSIRDVILFPAMRPLKSELKEKE" misc_feature 365888..366124 /gene="lysS" /locus_tag="Cj0401" /inference="protein motif:Pfam:PF01336" /note="HMMPfam hit to PF01336, OB-fold nucleic acid binding domain, score 5e-15" misc_feature 366170..367192 /gene="lysS" /locus_tag="Cj0401" /inference="protein motif:Pfam:PF00152" /note="HMMPfam hit to PF00152, tRNA synthetases class II (D, K and N), score 4.6e-205" misc_feature 366470..366523 /gene="lysS" /locus_tag="Cj0401" /inference="protein motif:Prosite:PS00179" /note="PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1" misc_feature 367109..367138 /gene="lysS" /locus_tag="Cj0401" /inference="protein motif:Prosite:PS00339" /note="PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2" gene 367219..368463 /gene="glyA" /locus_tag="Cj0402" /db_xref="GeneID:904726" CDS 367219..368463 /gene="glyA" /locus_tag="Cj0402" /EC_number="2.1.2.1" /inference="protein motif:Pfam:PF00464" /inference="protein motif:Prosite:PS00096" /note="catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate" /codon_start=1 /transl_table=11 /product="serine hydroxymethyltransferase" /protein_id="YP_002343839.1" /db_xref="GI:218562060" /db_xref="GOA:P24531" /db_xref="HSSP:P00477" /db_xref="InterPro:IPR001085" /db_xref="InterPro:IPR015421" /db_xref="UniProtKB/Swiss-Prot:P24531" /db_xref="GeneID:904726" /translation="MSLEMFDKEIFDLTNKELERQCEGLEMIASENFTLPEVMEVMGS ILTNKYAEGYPGKRYYGGCEFVDEIETLAIERCKKLFNCKFANVQPNSGSQANQGVYA ALINPGDKILGMDLSHGGHLTHGAKVSSSGKMYESCFYGVELDGRIDYEKVREIAKKE KPKLIVCGASAYARVIDFAKFREIADEIGAYLFADIAHIAGLVVAGEHPSPFPYAHVV SSTTHKTLRGPRGGIIMTNDEELAKKINSAIFPGIQGGPLMHVIAAKAVGFKFNLSDE WKVYAKQVRTNAQVLANVLMDRKFKLVSDGTDNHLVLMSFLDREFSGKDADLALGNAG ITANKNTVPGEIRSPFITSGLRLGTPALTARGFKEKEMEIVSNYIADILDDVNNEKLQ ENIKQELKKLASNFIIYERAMF" misc_feature 367225..368355 /gene="glyA" /locus_tag="Cj0402" /inference="protein motif:Pfam:PF00464" /note="HMMPfam hit to PF00464, Serine hydroxymethyltransferase, score 1.9e-282" misc_feature 367864..367914 /gene="glyA" /locus_tag="Cj0402" /inference="protein motif:Prosite:PS00096" /note="PS00096 Serine hydroxymethyltransferase pyridoxal-phosphate attachment site" gene 368460..369005 /locus_tag="Cj0403" /db_xref="GeneID:904727" CDS 368460..369005 /locus_tag="Cj0403" /note="Original (2000) note: Cj0403, unknown, len: 181 aa; 57.8% identity to HP0184; Updated (2006) note: Literature search identified paper giving further clues to product function. Functional classification - Conserved hypothetical proteins; PMID:12595250" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_002343840.1" /db_xref="GI:218562061" /db_xref="InterPro:IPR015061" /db_xref="UniProtKB/TrEMBL:Q0PBA7" /db_xref="GeneID:904727" /translation="MISPMDMSLIKIIGDHYYIRRDKIVNKITHRGRLFFDKFERVDA PLNLNVMREHAAKKIVVAHDLITKDNKVENIVFDYNGFNAERFYHRAQLILREEGFIN FTAYKTKTPGHLHLYIHKGHTALNEGYSLASKLSMMFASKMPVEWKVFPSMDVPREFN ILILPYEVYQKERGSSWSKHM" gene 369019..369855 /locus_tag="Cj0404" /db_xref="GeneID:904728" CDS 369019..369855 /locus_tag="Cj0404" /note="Original (2000) note: Cj0404, probable transmembrane protein, len: 278 aa; no Hp match. Contains probable transmembrane domain around 40 aa; Updated (2006) note: Literature search identified paper giving further clues to product function. Functional classification - Membranes, lipoproteins and porins; PMID:12595250" /codon_start=1 /transl_table=11 /product="putative transmembrane protein" /protein_id="YP_002343841.1" /db_xref="GI:218562062" /db_xref="GOA:Q0PBA6" /db_xref="InterPro:IPR007730" /db_xref="UniProtKB/TrEMBL:Q0PBA6" /db_xref="GeneID:904728" /translation="MENQKNEFDDIILEKSNKSEKVKKILLRVIALVILFLAIMIVMK LINGSGDENTQNQSVLPSEPIATQDNNNDTSFESMPITDNTSAEDQFEALRKQFQDEQ NTTQNTTTSSSNNNDTTNFAMPDQEVPAEPTATTSANTTPQASTPKQEVTQTAKSKEE AKKQTAVKKEKESAKQTPKKEQNANDLFKNVDAKPVHPSGLASGIYVQIFSVSNLDQK SKELASVKQKGYDYKLYKTTVGSKEITKVLIGPFEKADIAAELAKIRKDIAKDAFSFT LK" misc_feature 369091..369144 /locus_tag="Cj0404" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0404 by TMHMM2.0 at aa 25-42" gene 369852..370640 /gene="aroE" /locus_tag="Cj0405" /db_xref="GeneID:904729" CDS 369852..370640 /gene="aroE" /locus_tag="Cj0405" /EC_number="1.1.1.25" /inference="protein motif:Pfam:PF01488" /note="AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate" /codon_start=1 /transl_table=11 /product="shikimate 5-dehydrogenase" /protein_id="YP_002343842.1" /db_xref="GI:218562063" /db_xref="GOA:Q0PBA5" /db_xref="InterPro:IPR006151" /db_xref="InterPro:IPR011342" /db_xref="InterPro:IPR013708" /db_xref="UniProtKB/TrEMBL:Q0PBA5" /db_xref="GeneID:904729" /translation="MKFLAVIGDPISHSKSPRMHNNAIKALGLDSIYTRYHLRNANCL REDFFKLGLSGANITLPFKEKALDIADVKDDFARNIGSANTLCLKEDKIYAYNTDALG FLEAIKDFDNIKKALILGAGGTALALAYVLKQKGVEVYIANRSKERFKDFLAYPTYLY KNLQDFDFDLVINSTSAGLKDENLPCDRELLDRILPKAKFAFEVIYGRETPFYRLCKE YHLKIKDGLDMLLWQGVFAFELFFEIQDKREMIKNAMQQALILK" misc_feature 369906..370583 /gene="aroE" /locus_tag="Cj0405" /inference="protein motif:Pfam:PF01488" /note="HMMPfam hit to PF01488, Shikimate / quinate 5-dehydrogenase, score 8.1e-54" gene complement(370715..371614) /locus_tag="Cj0406c" /db_xref="GeneID:904730" CDS complement(370715..371614) /locus_tag="Cj0406c" /inference="protein motif:Prosite:PS00013" /note="Original (2000) note: Cj0406c, probable lipoprotein, len: 299 aa; no Hp match. Contains N-terminal signal sequence and PS00013 Prokaryotic membrane lipoprotein lipid attachment site. Functional classification - Membranes, lipoproteins and porins" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="YP_002343843.1" /db_xref="GI:218562064" /db_xref="GOA:Q0PBA4" /db_xref="UniProtKB/TrEMBL:Q0PBA4" /db_xref="GeneID:904730" /translation="MKKYILLASSMLILAACGGTSSNFVNVSMPNFKPQVPTKVEPID SGVSIALVPINIEQNNNYSDYFENSVLKIRIEKEIDLLKQNLEEQIKTIAQLKGYKIV TTNPDYTLKSSISIYTEEKNVQKTSNFMSGDYVKSNLGINFKGKIDFIDAHNPQNSTN LSSSTKLDSLVALNYPIKNDDGVNMFKTTISTVPTQLNKGLEQPAFEIDKSFLAFYKN TLNTLYNNLPKATDIGKTIPNTNSGFNSFDGDATFEESLPQTNSNQNNTIENAPTQNI PTNPSSTNQNNQSKNQDGVEIFE" sig_peptide complement(370715..370834) /locus_tag="Cj0406c" /note="Signal peptide predicted for signalp2embl_unknown_000184_370715_371614 by SignalP 2.0 HMM (Signal peptide probability 0.999) with cleavage site probability 0.319 between residues 40 and 41" misc_feature complement(371534..371602) /locus_tag="Cj0406c" /inference="protein motif:TMHMM:2.0" /note="1 probable transmembrane helix predicted for Cj0406c by TMHMM2.0 at aa 5-27" misc_feature complement(371564..371596) /locus_tag="Cj0406c" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 371704..372519 /gene="lgt" /locus_tag="Cj0407" /db_xref="GeneID:904731" CDS 371704..372519 /gene="lgt" /locus_tag="Cj0407" /EC_number="2.4.99.-" /inference="protein motif:Pfam:PF01790" /inference="protein motif:Prosite:PS01311" /inference="protein motif:TMHMM:2.0" /note="transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein" /codon_start=1 /transl_table=11 /product="prolipoprotein diacylglyceryl transferase" /protein_id="YP_002343844.1" /db_xref="GI:218562065" /db_xref="GOA:Q9PI98" /db_xref="InterPro:IPR001640" /db_xref="UniProtKB/Swiss-Prot:Q9PI98" /db_xref="GeneID:904731" /translation="MEFWQHIYSNFNVIAFSIFGLKVHWYGIMYVIALLLALLLAKFF VRKFQLDINEKHLDSYFIWVEIGVILGARLGYILIYDANTMYYITHPWQIFNPYINGE FVGIRGMSYHGAIIGFLIATLLFCKKYKTNPWIFLDLVALSVPLAYVFGRIGNFLNQE LFGRITNVPWGIYVDGVLRHPSQLYEAFLEGIVVFIIVYLARFKQSFQGELILVYAGA YSLARFICEFYREPDFGIGFVLWGMSMGQILSFIMFITALLVYICIKFKKVNI" misc_feature 371734..372504 /gene="lgt" /locus_tag="Cj0407" /inference="protein motif:Pfam:PF01790" /note="HMMPfam hit to PF01790, Prolipoprotein diacylglyceryl transferase, score 4e-120" misc_feature order(371770..371838,371899..371967,372010..372078, 372097..372165,372253..372306,372319..372378, 372421..372489) /gene="lgt" /locus_tag="Cj0407" /inference="protein motif:TMHMM:2.0" /note="7 probable transmembrane helices predicted for Cj0407 by TMHMM2.0 at aa 23-45, 66-88, 103-125, 132-154,184-201, 206-225 and 240-262" misc_feature 372154..372192 /gene="lgt" /locus_tag="Cj0407" /inference="protein motif:Prosite:PS01311" /note="PS01311 Prolipoprotein diacylglyceryl transferase signature" gene 372589..373371 /gene="frdC" /locus_tag="Cj0408" /db_xref="GeneID:904732" CDS 372589..373371 /gene="frdC" /locus_tag="Cj0408" /inference="protein motif:Pfam:PF02967" /inference="protein motif:TMHMM:2.0" /note="part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit" /codon_start=1 /transl_table=11 /product="fumarate reductase cytochrome b-556 subunit" /protein_id="YP_002343845.1" /db_xref="GI:218562066" /db_xref="GOA:Q0PBA2" /db_xref="InterPro:IPR004224" /db_xref="InterPro:IPR013838" /db_xref="UniProtKB/TrEMBL:Q0PBA2" /db_xref="GeneID:904732" /translation="MRELIEGYLGKSIEGKKSKMPAKLDFIQSASGLFLGLFMWVHML FVSTILVSEDFFNSVVHFLELKFVYDNPVMSYLTSFLAACVLVVFFVHALLAMRKFPI NYRQYQILRTHSKKMNHSDTSLWWVQAFTGFIMFFLGSAHLIFIVTNADKISGDMSGD RVVSHFMWLFYAVLLVCVELHGSIGLYRLCVKWGWFEGKNVKESRKKLKTAKWIISIF FLVLGVLSLAAFIKIGYENYQNQTQTTAMIKNYNGANYEYTI" misc_feature 372589..373314 /gene="frdC" /locus_tag="Cj0408" /inference="protein motif:Pfam:PF02967" /note="HMMPfam hit to PF02967, Fumarate reductase respiratory complex, tr, score 8e-102" misc_feature 372589..372600 /gene="frdC" /locus_tag="Cj0408" /inference="protein motif:Prosite:PS00228" /note="PS00228 Tubulin-beta mRNA autoregulation signal" misc_feature order(372673..372741,372805..372873,372961..373029, 373087..373155,373225..373293) /gene="frdC" /locus_tag="Cj0408" /inference="protein motif:TMHMM:2.0" /note="5 probable transmembrane helices predicted for Cj0408 by TMHMM2.0 at aa 29-51, 73-95, 125-147, 167-189 and 213-235" misc_feature 372808..372840 /gene="frdC" /locus_tag="Cj0408" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 373355..375346 /gene="frdA" /locus_tag="Cj0409" /db_xref="GeneID:904733" CDS 373355..375346 /gene="frdA" /locus_tag="Cj0409" /EC_number="1.3.1.6" /inference="protein motif:Pfam:PF00890" /inference="protein motif:Pfam:PF02910" /note="part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit; the catalytic subunits are similar to succinate dehydrogenase SdhAB" /codon_start=1 /transl_table=11 /product="fumarate reductase flavoprotein subunit" /protein_id="YP_002343846.1" /db_xref="GI:218562067" /db_xref="GOA:Q0PBA1" /db_xref="InterPro:IPR003953" /db_xref="InterPro:IPR004112" /db_xref="InterPro:IPR014006" /db_xref="UniProtKB/TrEMBL:Q0PBA1" /db_xref="GeneID:904733" /translation="MNIQYSDALVIGGGLAGLRAAIEVAKSGQSVTLLSICPVKRSHS AAVQGGMQASLANGAKGEGDNEDLHFADTVKGSDWGCDQEVARMFAQTAPKAVRELAA WGVPWTRVTKGPRTVVINAQKTVIEEKEEAHGLINARDFGGTKKWRTCYIADATGHCM LYGVANEAIKHQVKIIDRMEAVRIIHDGKKCLGVIARDLTNGQLIAYIARGTMIATGG YGRIYKQTTNAVICEGTGAAIALETGLCRLSNMEAVQFHPTPIVPSGILLTEGCRGDG GILRDVDGYRFMPDYEPEKKELASRDVVSRRMMEHIRKGKGVKSPYGDHLWLDISILG RAHVEKNLRDVQDICKTFNGIDPADEGPKGWAPVLPMQHYSMGGIRTKPTGESQWLNG LFACGEAACWDMHGFNRLGGNSCAETVVAGMIVGDYFADYCKNNGEVIDTNVVKDFLT KEYQYLKSLVDKEGKHNVFEIKNRMKEIMWDKVAIFRTGEGLKEAVDELEKLYKDSQD VKVHCKELDCANPELEEAYRVPRMLKIALCVAYGALLRTESRGAHYREDYPKRDDLNW MKRTNTFWVEGETLPRIEYEELDIMKMEIPPAFRGYGAKGNIIENPLSEKRQAEVDAI REKMEAEGKGRYEIQNALMPYELQAKYKAPNQRIGVDYE" misc_feature 373742..374710 /gene="frdA" /locus_tag="Cj0409" /inference="protein motif:Pfam:PF00890" /note="HMMPfam hit to PF00890, FAD binding domain, score 2e-160" misc_feature 374768..375160 /gene="frdA" /locus_tag="Cj0409" /inference="protein motif:Pfam:PF02910" /note="HMMPfam hit to PF02910, Fumarate reductase/succinate dehydroge, score 6.4e-53" gene 375339..376064 /gene="frdB" /locus_tag="Cj0410" /db_xref="GeneID:904734" CDS 375339..376064 /gene="frdB" /locus_tag="Cj0410" /EC_number="1.3.99.1" /inference="protein motif:Pfam:PF00037" /inference="protein motif:Pfam:PF00111" /inference="protein motif:Prosite:PS00197" /note="part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit; the catalytic subunits are similar to succinate dehydrogenase SdhAB" /codon_start=1 /transl_table=11 /product="fumarate reductase iron-sulfur subunit" /protein_id="YP_002343847.1" /db_xref="GI:218562068" /db_xref="GOA:Q0PBA0" /db_xref="InterPro:IPR001041" /db_xref="InterPro:IPR001450" /db_xref="InterPro:IPR004489" /db_xref="InterPro:IPR006058" /db_xref="InterPro:IPR012285" /db_xref="InterPro:IPR012675" /db_xref="UniProtKB/TrEMBL:Q0PBA0" /db_xref="GeneID:904734" /translation="MSRKLTIKAFKYNPLSKISKPHFVTYELEETPFMTVFVCLTLIR EKMDADLSFDFVCRAGICGSCAMMINGVPKLACKTLTKDYPDGVIELMPMPAFRHIKD LSVNTGEWFEDMCKRVESWVHNEKETDISKLEERIEPEVADETFELDRCIECGICVAS CATKLMRPNFIAATGLLRTARYLQDPHDHRSVEDFYELVGDDDGVFGCMSLLACEDNC PKELPLQSKIAYMRRQLVAQRNK" misc_feature 375420..375587 /gene="frdB" /locus_tag="Cj0410" /inference="protein motif:Pfam:PF00111" /note="HMMPfam hit to PF00111, 2Fe-2S iron-sulfur cluster binding domain, score 0.0037" misc_feature 375507..375533 /gene="frdB" /locus_tag="Cj0410" /inference="protein motif:Prosite:PS00197" /note="PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature" misc_feature 375768..375839 /gene="frdB" /locus_tag="Cj0410" /inference="protein motif:Pfam:PF00037" /note="HMMPfam hit to PF00037, 4Fe-4S binding domain,score 0.0015" misc_feature 375948..375980 /gene="frdB" /locus_tag="Cj0410" /inference="protein motif:Prosite:PS00013" /note="PS00013 Prokaryotic membrane lipoprotein lipid attachment site" gene 376092..378278 /locus_tag="Cj0411" /db_xref="GeneID:904735" CDS 376092..378278 /locus_tag="Cj0411" /inference="protein motif:Pfam:PF00350" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0411, probable ATP/GTP binding protein, len: 728 aa; some similarity in C-term to YOR6_CALSR hypothetical protein (402 aa), fasta scores; opt: 220 z-score: 284.9 E(): 1.4e-08, 25.2% identity in 425 aa overlap, and to C-term of YPBR_BACSU hypothetical protein (1193 aa), fasta scores; opt: 173 z-score: 275.1 E(): 5e-08, 20.1% identity in 722 aa overlap. No Hp match. Contains PS00017 ATP/GTP-binding site motif A (P-loop); Updated (2006) note: Pfam domain PF00350 Dynamin family protein was identified within CDS. Dynamin is a member of the G-protein superfamily clan. ATP/GTP binding proteins fall under this particular clan. Further support given to product function. No specific characterisation has been carried out yet. Putative kept within product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative ATP/GTP binding protein" /protein_id="YP_002343848.1" /db_xref="GI:218562069" /db_xref="GOA:Q0PB99" /db_xref="InterPro:IPR001401" /db_xref="UniProtKB/TrEMBL:Q0PB99" /db_xref="GeneID:904735" /translation="MKELFQKIWQNELQFLNFDAKFQDKSKLDTAECAIILSVNKDNY ERYFLLKEFQELCKKIDLRVDIFSMQNAQICILNLFKSGFISKQDLLKALKILEKISK NTEIFDFILQEKVQSIDQKALFQNDFKELNTINLELQKLSFDENLKSRLQKTLEKFQN LEFNIAITGVMNAGKSSLLNALLKEDFLGVSNIPETANLTVLSYGKSEEAKIYFWDKK EWQNILESSHFNADLKEFIDKLDKSVNIEDFIKDKPLIQNIALCELKNFSSAKNKISA LIKKIEIKSHLEFLKNNISIVDTPGLDDVVVQREIVTNEYLRESDFLIHLMNASQSLT QKDADFLVHCLLNSRLSKFLIVLTKADLLSKKDLEEVIVYTKESLKSRLVDLDENLVE KIDFLCVSAKMASDFYKGLASKESLQKSGMQEFENYLFNELYAGEKSKIALRAYKKEL HLELKNILSEYEMQNRLIKENKQGVSEENQKLLLELQKQNTLLKEAQDEISNSIAKLK NIDSGIDNLVLLLAKKLKERLIDEFKYLKNNAQKLNLSRILNIVDITTKDGINDILRE IKFENIKKIEELKTNLSLKYDFLKDDFDNGFEGFKDGISKNIDSIFQSEKFALLRLKI EKLSNLKSDLYELETNLDTVIFDTFKEFKMSEILNSLNINGAFFEFLNDKLKHYEKNQ KSKLESLEKVLQSLKNQDANILNSFEENLEKIEKLKQLEMGLLNAD" misc_feature 376578..377174 /locus_tag="Cj0411" /inference="protein motif:Pfam:PF01926" /note="HMMPfam hit to PF01926, GTPase of unknown function,score 2e-08" misc_feature 376584..377171 /locus_tag="Cj0411" /inference="protein motif:Pfam:PF00350" /note="HMMPfam hit to PF00350, Dynamin family, score 8.1e-52" misc_feature 376596..376619 /locus_tag="Cj0411" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 378268..380097 /locus_tag="Cj0412" /db_xref="GeneID:904736" CDS 378268..380097 /locus_tag="Cj0412" /inference="protein motif:Pfam:PF00350" /inference="protein motif:Prosite:PS00017" /note="Original (2000) note: Cj0412, probable ATP/GTP binding protein, len: 609 aa; some similarity to YPBR_BACSU hypothetical protein (1193 aa), fasta scores; opt: 172 z-score: 237.5 E(): 6.2e-06, 23.7% identity in 439 aa overlap. No Hp match. Contains PS00017 ATP/GTP-binding site motif A (P-loop); Updated (2006) note: Pfam domain PF00350 Dynamin family protein was identified within CDS. Dynamin is a member of the G-protein superfamily clan. ATP/GTP binding proteins fall under this particular clan. Further support given to product function. Literature search identified paper giving further clues to product function. Functional classification - Misc" /codon_start=1 /transl_table=11 /product="putative ATP/GTP binding protein" /protein_id="YP_002343849.1" /db_xref="GI:218562070" /db_xref="GOA:Q0PB98" /db_xref="InterPro:IPR001401" /db_xref="UniProtKB/TrEMBL:Q0PB98" /db_xref="GeneID:904736" /translation="MQINLLNDFIKAYENTYSVSFDDSFKGRIQELCKELNEPFMHAS YALENELKELVFSLDKNVNIAIIGQFSSGKSSLLNLILGRDCLPTGVVPVTFKPTFLR YAKEYFLRVEFEDGSDIITNIEKLAFYTDQRNEVKQAKSLHIFAPIPLLEKITLVDTP GLNANENDTLTTLDELKNIHGAIWLSLIDNAGKKSEEDAIKANLELLGENSICVLNQK DKLSAEELDNVLNYAKSVFLKYFNELIAISCKEAKDEQSYEKSNFQSLLDFLTQLDTT VLKEKFVKRKILNLCEILEDENQLFVGIFDRLLNQFQSYEKHLLLAYENFLKEIEILN HQILEQLKSISERISSEIFASVKEKDAYFYKESKGFLKKDLYTRYDYKAPYISSDDAF LAMFYNSDVMSKEFKKIKNELYKSFEEIKMKLKDFINILEREILLFKAEFSNIQKDHI FQSDKNFSELRAFCNASDEYFLKDFKELLFKSILELDLFFEKLNLKAFTNYENATKLS LAFFSRKINESRVLYELDSSEFVLFYPKKSEIYERVLNELNVYEFETLLINKPILTKI AKNFLEQSQNLIQEKNKFLDLKKAELQKRRAQILNVRESIKED" misc_feature 378451..378924 /locus_tag="Cj0412" /inference="protein motif:Pfam:PF01926" /note="HMMPfam hit to PF01926, GTPase of unknown function,score 1.5e-07" misc_feature 378457..378921 /locus_tag="Cj0412" /inference="protein motif:Pfam:PF00350" /note="HMMPfam hit to PF00350, Dynamin family, score 6.6e-39" misc_feature 378469..378492 /locus_tag="Cj0412" /inference="protein motif:Prosite:PS00017" /note="PS00017 ATP/GTP-binding site motif A (P-loop)" gene 380097..380801 /locus_tag="Cj0413" /db_xref="GeneID:904737" CDS 380097..380801 /locus_tag="Cj0413" /inference="protein motif:Pfam:PF07719" /note="Original (2000) note: Cj0413, probable periplasmic protein, len: 234 aa; similar to several Hp proteins; HP0160, 30.3% identity; HP0211, 32.6% identity; HP1098 31.1% identity; HP0336 31.3% identity; HP0235 30.9% identity; HP0628 26.5% identity; and HP1117 26.9% identity. This is the only copy in C. jejuni; Updated (2006) note: Pfam domain PF07719 Tetratricopeptide repeat was identified within CDS. Functional classification - Miscellaneous periplasmic proteins" /codon_start=1 /transl_table=11 /product="putative periplasmic protein" /protein_id="YP_002343850.1" /db_xref="GI:218562071" /db_xref="GOA:Q0PB97" /db_xref="InterPro:IPR006597" /db_xref="InterPro:IPR011990" /db_xref="UniProtKB/TrEMBL:Q0PB97" /db_xref="GeneID:904737" /translation="MRIFLTLFLFFNSLFALSELEEGLKLYEANKFDKAYEIFKSLCE KDISKACFSLAFMHESARGVSKDLNQAYKFYDKACKLGLANACSNMALLLQNQGYENE ALLAFNKACTLGESLSCNNIALFYEKEKDGQMASSFYKRSCDLKNARACYQLGSLYDK GELVKASVKSALAFYSKSCTLGFGEACYLLGRYNQLEKQDLTKAKRYFGMACDQKHQE ACAAYKELNSKDIELY" misc_feature 380346..380447 /locus_tag="Cj0413" /inference="protein motif:Pfam:PF07719" /note="HMMPfam hit to PF07719, Tetratricopeptide repeat,score 0.013" gene 380937..381665 /locus_tag="Cj0414" /db_xref="GeneID:904738" CDS 380937..381665 /locus_tag="Cj0414" /note="Original (2000) note: Cj0414, possible oxidoreductase subunit, len: 242 aa; some similarity to TR:O34213 (EMBL:U97665) Erwinia cypripedii gluconate dehydrogenase subunit III precursor (220 aa), fasta scores; opt: 343 z-score: 502.3 E(): 1.1e-20, 32.6% identity in 193 aa overlap. No Hp match; Updated (2006) note: No specific characterisation with acceptable identity score has been carried out yet. Putative kept within product function. Literature search identified paper giving further clues to product function. Functional classification - Misc; PMID:15231804" /codon_start=1 /transl_table=11 /product="putative oxidoreductase subunit" /protein_id="YP_002343851.1" /db_xref="GI:218562072" /db_xref="UniProtKB/TrEMBL:Q0PB96" /db_xref="GeneID:904738" /translation="MQDNIIDRRSFFKLGLLGGSVVAASTIGGGAVLKAAELTHSHQA SQGKSNKIRGRMFFQTQTEFDTLSAACERIYPKDEQGEGAIGLGVPYFIDNQLASAYG YNDREYMQGPFMEGKAEQGYQTPMQRKDIFLEGVHALEENAQKRYKKSFSLLKGGDQD KILSDFEKGKIQTTGFKSSYFFTLLRDMTVAGVLADPIYGGNDNKNGWRMMQYPGAQM SYVDKIASDEFFNIEPMGLADMES" sig_peptide 380937..381041 /locus_tag="Cj0414" /note="Signal peptide predicted for signalp2embl_unknown_000188_380937_381665 by SignalP 2.0 HMM (Signal peptide probability 0.