-- dump date 20140619_004120 -- class Genbank::Feature -- table feature -- table main -- field 1 id -- field 2 type -- field 3 name -- field 4 contig -- field 5 start_pos -- field 6 end_pos -- field 7 strand -- field 8 description -- field 9 chrom_position -- field 10 organism -- field 11 GeneID -- header -- id type name contig start_pos end_pos strand description chrom_position organism GeneID 257313000001 SEQ_END SEQ_END NC_002929.2 4086189 4086189 DR NC_002929.2; contig end 4086189..4086189 Bordetella pertussis Tohama I NP_878920.1 CDS gidA NC_002929.2 1 1920 D GidA; glucose-inhibited cell division protein A; involved in the 5-carboxymethylaminomethyl modification (mnm(5)s(2)U) of the wobble uridine base in some tRNAs; tRNA uridine 5-carboxymethylaminomethyl modification protein GidA 1..1920 Bordetella pertussis Tohama I 2664547 NP_878921.1 CDS gidB NC_002929.2 1917 2609 D Similar to Pseudomonas putida glucose inhibited division protein B GidB SW:GIDB_PSEPU (P25757) (216 aa) fasta scores: E(): 1e-24, 42.593% id in 216 aa, and to Escherichia coli glucose inhibited division protein B GidB or B3740 or Z5240 or Ecs4682 SW:GIDB_ECOLI (P17113) (207 aa) fasta scores: E(): 1.2e-12, 39.000% id in 200 aa; glucose inhibited division protein B 1917..2609 Bordetella pertussis Tohama I 2664436 NP_878922.1 CDS parA NC_002929.2 2606 3403 D Similar to Caulobacter crescentus chromosome partitioning protein ParA or Cc3753 SW:PARA_CAUCR (O05189) (267 aa) fasta scores: E(): 1.9e-46, 49.412% id in 255 aa, and to Bacillus subtilis sporulation initiation inhibitor protein Soj SW:SOJ_BACSU (P37522) (253 aa) fasta scores: E(): 2.7e-44, 48.988% id in 247 aa; ParA family protein 2606..3403 Bordetella pertussis Tohama I 2664446 NP_878923.1 CDS BP0004 NC_002929.2 3410 4171 D Similar to Caulobacter crescentus acetyltransferase, GnaT family Cc2209 TR:Q9A685 (EMBL:AE005892) (207 aa) fasta scores: E(): 1.8e-07, 34.653% id in 202 aa, and to Rhizobium meliloti acetyltransferase Smc02449 TR:CAC47203 (EMBL:AL591791) (308 aa) fasta scores: E(): 6.1e-05, 31.818% id in 242 aa; GNAT family acetyltransferase 3410..4171 Bordetella pertussis Tohama I 2664671 NP_878924.1 CDS parB NC_002929.2 4215 5132 D Similar to Pseudomonas putida probable chromosome partitioning protein ParB SW:PARB_PSEPU (P31857) (290 aa) fasta scores: E(): 3.9e-40, 48.136% id in 295 aa; chromosome partitioning protein ParB 4215..5132 Bordetella pertussis Tohama I 2664248 NP_878925.1 CDS tuf NC_002929.2 6722 7912 D EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu; elongation factor Tu 6722..7912 Bordetella pertussis Tohama I 2664233 NP_878926.1 CDS secE NC_002929.2 8151 8531 D forms a complex with SecY and SecG; SecYEG forms a protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force; preprotein translocase subunit SecE 8151..8531 Bordetella pertussis Tohama I 2664451 NP_878927.1 CDS nusG NC_002929.2 8541 9074 D Modulates Rho-dependent transcription termination; transcription antitermination protein NusG 8541..9074 Bordetella pertussis Tohama I 2664093 NP_878928.1 CDS rplK NC_002929.2 9138 9569 D binds directly to 23S ribosomal RNA; 50S ribosomal protein L11 9138..9569 Bordetella pertussis Tohama I 2664721 NP_878929.1 CDS rplA NC_002929.2 9572 10270 D in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA; 50S ribosomal protein L1 9572..10270 Bordetella pertussis Tohama I 2664704 NP_878930.1 CDS rplJ NC_002929.2 10513 11037 D binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit; 50S ribosomal protein L10 10513..11037 Bordetella pertussis Tohama I 2664459 NP_878931.1 CDS rplL NC_002929.2 11119 11502 D present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors; 50S ribosomal protein L7/L12 11119..11502 Bordetella pertussis Tohama I 2664438 NP_878932.1 CDS rpoB NC_002929.2 11662 15774 D DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme; DNA-directed RNA polymerase subunit beta 11662..15774 Bordetella pertussis Tohama I 2664688 NP_878933.1 CDS rpoC NC_002929.2 15774 20018 D DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter; DNA-directed RNA polymerase subunit beta' 15774..20018 Bordetella pertussis Tohama I 2664432 NP_878934.1 CDS BP0017 NC_002929.2 20127 20531 R no significant database matches; lipoprotein complement(20127..20531) Bordetella pertussis Tohama I 2664480 NP_878935.1 CDS BP0018 NC_002929.2 20772 21947 D no significant database matches; hypothetical protein 20772..21947 Bordetella pertussis Tohama I 2664445 NP_878936.1 CDS BP0020 NC_002929.2 24353 25459 R Similar to Caulobacter crescentus peptidoglycan binding domain protein CC3326 TR:Q9A378 (EMBL:AE005994) (457 aa) fasta scores: E(): 3.3e-23, 33.711% id in 353 aa; peptidoglycan binding protein complement(24353..25459) Bordetella pertussis Tohama I 2664670 NP_878937.1 CDS BP0022 NC_002929.2 26471 27286 D Similar to Zymomonas mobilis aerobic respiration control protein ArcA TR:Q9X3W0 (EMBL:AF088896) (241 aa) fasta scores: E(): 2.5e-10, 30.638% id in 235 aa, and to Rhodobacter sphaeroides DmsR TR:O32479 (EMBL:D89075) (232 aa) fasta scores: E(): 1.6e-10, 28.632% id in 234 aa.; two-component response regulator 26471..27286 Bordetella pertussis Tohama I 2664013 NP_878938.1 CDS BP0023 NC_002929.2 27283 28233 R transposase for IS481 element; transposase complement(27283..28233) Bordetella pertussis Tohama I 2664482 NP_878939.1 CDS BP0025 NC_002929.2 28675 29109 R Similar to Methanothermobacter thermautotrophicus conserved protein Mth1398 TR:O27449 (EMBL:AE000902) (133 aa) fasta scores: E(): 4.2e-06, 32.692% id in 104 aa, and to Archaeoglobus fulgidus conserved hypothetical protein Af0284 TR:O29957 (EMBL:AE001085) (165 aa) fasta scores: E(): 3.7e-05, 22.936% id in 109 aa; hypothetical protein complement(28675..29109) Bordetella pertussis Tohama I 2664435 NP_878940.1 CDS BP0026 NC_002929.2 29142 30368 R Similar to Mycobacterium tuberculosis CDC1551 nonspecific lipid-transfer protein mt1663 TR:AAK45933 (EMBL:AE007030) (402 aa) fasta scores: E(): 5.1e-14, 27.229% id in 415 aa, and to Pseudomonas fluorescens PhlC TR:Q51727 (EMBL:U41818) (398 aa) fasta scores: E(): 5.2e-15, 27.188% id in 320 aa; thiolase complement(29142..30368) Bordetella pertussis Tohama I 2664431 NP_878941.1 CDS BP0027 NC_002929.2 30365 30862 R Similar to Archaeoglobus fulgidus MaoC protein af2313 TR:O27971 (EMBL:AE000944) (151 aa) fasta scores: E(): 3.3e-19, 46.154% id in 143 aa, and to Rhodococcus spNCIMB 9784. fad-binding protein CampD TR:AAK50623 (EMBL:AF323755) (167 aa) fasta scores: E(): 2.4e-12, 33.562% id in 146 aa; MaoC family protein complement(30365..30862) Bordetella pertussis Tohama I 2664660 NP_878942.1 CDS BP0028 NC_002929.2 31070 31978 R Similar to Pseudomonas aeruginosa probable transcriptional regulator pa0877 TR:Q9I568 (EMBL:AE004522) (298 aa) fasta scores: E(): 1e-17, 27.985% id in 268 aa, and to Rhizobium loti probable transcriptional regulator mlr2195 TR:Q98IY2 (EMBL:AP002999) (397 aa) fasta scores: E(): 3.5e-17, 29.825% id in 285 aa; transcriptional regulator complement(31070..31978) Bordetella pertussis Tohama I 2664091 NP_878943.1 CDS BP0029 NC_002929.2 32215 33006 D Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 32215..33006 Bordetella pertussis Tohama I 2664653 NP_878944.1 CDS BP0030 NC_002929.2 33049 34470 D Similar to Methanothermobacter thermautotrophicus conserved protein mth965 TR:O27046 (EMBL:AE000870) (452 aa) fasta scores: E(): 1.2e-26, 31.308% id in 428 aa, and to Agrobacterium tumefaciens Agr_l_2924p agr_l_2924 TR:AAK90029 (EMBL:AE008346) (448 aa) fasta scores: E(): 8.3e-24, 29.888% id in 445 aa; hypothetical protein 33049..34470 Bordetella pertussis Tohama I 2664197 NP_878945.1 CDS BP0031 NC_002929.2 34626 35576 D transposase for IS481 element; transposase 34626..35576 Bordetella pertussis Tohama I 2664430 NP_878946.1 CDS BP0032 NC_002929.2 35573 36763 R Similar to Rhodococcus fascians chloramphenicol resistance protein TR:Q52751 (EMBL:Z12001) (391 aa) fasta scores: E(): 1.6e-10, 25.193% id in 389 aa, and to Rhodococcus rhodochrous CmrA TR:O30679 (EMBL:AF015087) (391 aa) fasta scores: E(): 4.2e-12, 25.326% id in 383 aa; transporter complement(35573..36763) Bordetella pertussis Tohama I 2664032 NP_878947.1 CDS glyQ NC_002929.2 37013 37924 D glycine--tRNA ligase alpha chain; GlyRS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA; glycyl-tRNA synthetase subunit alpha 37013..37924 Bordetella pertussis Tohama I 2664452 NP_878948.1 CDS glyS NC_002929.2 37926 40064 D Similar to Escherichia coli glycyl-tRNA synthetase beta chain GlyS or GlyS(b) or B3559 SW:SYGB_ECOLI (P00961) (688 aa) fasta scores: E(): 3e-69, 40.056% id in 709 aa, and to Pseudomonas aeruginosa glycyl-tRNA synthetase beta chain GlyS or PA0008 TR:Q9I7B8 (EMBL:AE004440) (684 aa) fasta scores: E(): 6.1e-70, 44.600% id in 713 aa; glycyl-tRNA synthetase subunit beta 37926..40064 Bordetella pertussis Tohama I 2664657 NP_878949.1 CDS BP0035 NC_002929.2 40061 40600 D Converts the D-glycero-beta-D-manno-heptose 1,7-bisphosphate intermediate into D-glycero-beta-D-manno-heptose 1-phosphate; D,D-heptose 1,7-bisphosphate phosphatase 40061..40600 Bordetella pertussis Tohama I 2664698 NP_878950.1 CDS BP0036 NC_002929.2 40604 41332 D Similar to Neisseria meningitidis lysophosphatidic acid acyltransferase homolog NlaB or NMA0404 TR:Q9XDL6 (EMBL:AF036242) (247 aa) fasta scores: E(): 4.2e-32, 41.277% id in 235 aa, and to Pseudomonas aeruginosa probable acyltransferase PA0005 TR:Q9I7C1 (EMBL:AE004440) (257 aa) fasta scores: E(): 2.1e-37, 42.437% id in 238 aa; acyltransferase 40604..41332 Bordetella pertussis Tohama I 2664227 NP_878951.1 CDS BP0037 NC_002929.2 41319 42212 D Similar to Rhizobium loti Mlr5068 protein TR:Q98CP0 (EMBL:AP003005) (252 aa) fasta scores: E(): 3.9e-08, 28.458% id in 253 aa, and to Rhizobium meliloti conserved hypothetical protein smc02768 TR:CAC41413 (EMBL:AL591782) (251 aa) fasta scores: E(): 5.6e-08, 25.306% id in 245 aa; hypothetical protein 41319..42212 Bordetella pertussis Tohama I 2664234 NP_878952.1 CDS gloA NC_002929.2 42283 42678 D Similar to Escherichia coli lactoylglutathione lyase GloA or B1651 or Z2669 or ECS2360 SW:LGUL_ECOLI (Q59384) (135 aa) fasta scores: E(): 5.1e-34, 67.939% id in 131 aa, and to Neisseria meningitidis lactoylglutathione lyase GloA or NMA2147 or NMB0340 SW:LGUL_NEIMA (O33393) (138 aa) fasta scores: E(): 1.2e-42, 78.626% id in 131 aa; lactoylglutathione lyase 42283..42678 Bordetella pertussis Tohama I 2664199 NP_878953.1 CDS def NC_002929.2 42688 43218 D cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+); peptide deformylase 42688..43218 Bordetella pertussis Tohama I 2664217 NP_878954.1 CDS BP0041 NC_002929.2 43664 44614 D transposase for IS481 element; transposase 43664..44614 Bordetella pertussis Tohama I 2664075 NP_878955.1 CDS BP0043 NC_002929.2 45201 45749 D Similar to the N-terminal region of Escherichia coli resolvase rsvB TR:Q9S0Z7 (EMBL:AB024946) (269 aa) fasta scores: E(): 5.2, 30.357% id in 112 aa; hypothetical protein 45201..45749 Bordetella pertussis Tohama I 2664442 NP_878956.1 CDS BP0044 NC_002929.2 45721 45957 R Similar to the C-terminal regions of Vibrio anguillarum transcriptional activator protein VanR SW:VANR_VIBAN (P74946) (240 aa) fasta scores: E(): 6.7e-09, 48.611% id in 72 aa, and to Rhizobium loti transcriptional regulator mlr5637 TR:Q98BC5 (EMBL:AP003007) (243 aa) fasta scores: E(): 5.4e-08, 52.459% id in 61 aa; transcriptional regulator complement(45721..45957) Bordetella pertussis Tohama I 2664057 NP_878957.1 CDS BP0045 NC_002929.2 46085 46978 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0188 TR:Q9I6U6 (EMBL:AE004456) (293 aa) fasta scores: E(): 2e-25, 35.172% id in 290 aa, and to Vibrio cholerae hypothetical protein Vc1229 vc1229 TR:Q9KSM7 (EMBL:AE004202) (291 aa) fasta scores: E(): 5.7e-15, 31.034% id in 290 aa; hypothetical protein 46085..46978 Bordetella pertussis Tohama I 2664684 NP_878958.1 CDS metX NC_002929.2 48148 49395 D Catalyzes the conversion of acetyl-CoA and L-homoserine to CoA and O-acetyl-L-homoserine; homoserine O-acetyltransferase 48148..49395 Bordetella pertussis Tohama I 2664206 NP_878959.1 CDS BP0048 NC_002929.2 49392 50006 D Similar to Neisseria meningitidis hypothetical protein Nmb0939 TR:Q9JZQ6 (EMBL:AE002445) (193 aa) fasta scores: E(): 8.9e-38, 56.085% id in 189 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0389 TR:Q9I6A6 (EMBL:AE004476) (206 aa) fasta scores: E(): 6.1e-35, 48.705% id in 193 aa; hypothetical protein 49392..50006 Bordetella pertussis Tohama I 2664235 NP_878960.1 CDS BP0049 NC_002929.2 50142 51092 D transposase for IS481 element; transposase 50142..51092 Bordetella pertussis Tohama I 2664100 NP_878961.1 CDS ampG NC_002929.2 51180 52391 D Similar to Escherichia coli AmpG protein or b0433 or z0536 or ecs0487 SW:AMPG_ECOLI (P36670) (491 aa) fasta scores: E(): 2.6e-88, 61.168% id in 394 aa, and to Neisseria meningitidis integral membrane signal transducer protein nma2127 TR:Q9JSU7 (EMBL:AL162758) (427 aa) fasta scores: E(): 1.9e-44, 42.711% id in 391 aa; muropeptide transporter 51180..52391 Bordetella pertussis Tohama I 2664725 NP_878962.1 CDS BP0053 NC_002929.2 53623 54357 R Similar to Desulfurococcus sp aspartate racemase TR:P71164 (EMBL:D84067) (235 aa) fasta scores: E(): 8.8e-20, 34.529% id in 223 aa, and to Pyrococcus abyssi aspartate racemase RacD-1 or PAB0912 TR:Q9UYY1 (EMBL:AJ248287) (228 aa) fasta scores: E(): 2.3e-20, 32.479% id in 234 aa. Its C-terminus is similar to BP1272, 55.140% identity (55.140% ungapped) in 107 aa overlap.; aspartate/glutamate racemase complement(53623..54357) Bordetella pertussis Tohama I 2664200 YP_008691071.1 CDS gltL NC_002929.2 54363 54953 R arginine ABC transporter ATP-binding protein complement(54363..54953) Bordetella pertussis Tohama I 2664437 NP_878963.1 CDS gltK NC_002929.2 54978 55667 R Similar to Escherichia coli glutamate/aspartate transport system permease GltK or b0653 or z0803 or ecs0692 SW:GLTK_ECOLI (P41075) (224 aa) fasta scores: E(): 1.9e-38, 51.339% id in 224 aa, and to Pseudomonas aeruginosa probable permease of ABC transporter pa1340 TR:Q9I404 (EMBL:AE004563) (222 aa) fasta scores: E(): 1.7e-37, 52.915% id in 223 aa. Similar to BP0767, 56.696% identity in 224 aa overlap; glutamate/aspartate transport system permease complement(54978..55667) Bordetella pertussis Tohama I 2664664 NP_878964.1 CDS gltJ NC_002929.2 55664 56458 R Similar to Escherichia coli glutamate/aspartate transport system permease GltJ or b0654 SW:GLTJ_ECOLI (P41074) (246 aa) fasta scores: E(): 1.6e-40, 42.623% id in 244 aa, and to Pseudomonas aeruginosa probable permease of ABC transporter PA1341 TR:Q9I403 (EMBL:AE004563) (248 aa) fasta scores: E(): 6e-44, 47.737% id in 243 aa. Similar to BP0766 57.759% identity (58.515% ungapped) in 232 aa overlap; glutamate/aspartate transport system permease complement(55664..56458) Bordetella pertussis Tohama I 2664434 NP_878965.1 CDS BP0057 NC_002929.2 56505 57404 R Similar to Escherichia coli amino acid ABC transporter binding protein precursor YbeJ or b0655 SW:YBEJ_ECOLI (P37902) (302 aa) fasta scores: E(): 2.3e-48, 45.263% id in 285 aa, and to Pseudomonas aeruginosa probable binding protein component of ABC transporter PA1342 TR:Q9I402 (EMBL:AE004563) (302 aa) fasta scores: E(): 3.4e-51, 48.658% id in 298 aa. Similar to BP0765 51.325% identity (52.013% ungapped) in 302 aa overlap; amino acid ABC transporter binding protein complement(56505..57404) Bordetella pertussis Tohama I 2664661 NP_878966.1 CDS BP0058 NC_002929.2 57498 58448 R transposase for IS481 element; transposase complement(57498..58448) Bordetella pertussis Tohama I 2664679 NP_878967.1 CDS BP0060 NC_002929.2 59249 60475 R Similar to Caulobacter crescentus hypothetical protein Cc2770 TR:Q9A4R0 (EMBL:AE005942) (435 aa) fasta scores: E(): 1.6e-10, 28.947% id in 418 aa, and to Erwinia amylovora hypothetical 47.8 kDa protein TR:Q9F814 (EMBL:AF264948) (427 aa) fasta scores: E(): 2.6e-05, 28.453% id in 362 aa; hypothetical protein complement(59249..60475) Bordetella pertussis Tohama I 2664216 NP_878968.1 CDS BP0061 NC_002929.2 60475 60894 R Similar to Caulobacter crescentus transcriptional regulator Cro/ci family cc2771 TR:Q9A4Q9 (EMBL:AE005942) (119 aa) fasta scores: E(): 0.001, 36.458% id in 96 aa, and to Bradyrhizobium japonicum Id619 TR:Q9AN22 (EMBL:AF322013) (83 aa) fasta scores: E(): 0.11, 34.328% id in 67 aa; DNA-binding protein complement(60475..60894) Bordetella pertussis Tohama I 2664433 NP_878969.1 CDS BP0062 NC_002929.2 61078 62019 R no significant database matches; hypothetical protein complement(61078..62019) Bordetella pertussis Tohama I 2664371 NP_878971.1 CDS BP0063 NC_002929.2 62443 63279 R Similar to Pseudomonas aeruginosa hypothetical 29.4 kDa protein TR:Q9RPF6 (EMBL:AF161263) (281 aa) fasta scores: E(): 1.1e-29, 35.294% id in 272 aa, and to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 3.4e-28, 34.572% id in 269 aa; hypothetical protein complement(62443..63279) Bordetella pertussis Tohama I 2664169 NP_878972.1 CDS BP0064 NC_002929.2 63474 64055 R Similar to Pseudomonas aeruginosa hypothetical protein PA4336 TR:Q9HW65 (EMBL:AE004850) (194 aa) fasta scores: E(): 5.5e-52, 66.492% id in 191 aa, and to Agrobacterium tumefaciens Agr_l_853p agr_l_853 TR:AAK88998 (EMBL:AE008241) (188 aa) fasta scores: E(): 3.3e-49, 63.102% id in 187 aa. Also similar to BP1542, 65.104% identity (65.104% ungapped) in 192 aa overlap.; hypothetical protein complement(63474..64055) Bordetella pertussis Tohama I 2664420 NP_878973.1 CDS BP0065 NC_002929.2 64068 64370 R Similar to Marinosulfonomonas methylotropha ferredoxin TR:AAK84303 (EMBL:AF354805) (123 aa) fasta scores: E(): 1.8e-07, 35.955% id in 89 aa, and to Burkholderia cepacia Tbc2C monooxygenase TR:Q9EZN9 (EMBL:AF282898) (111 aa) fasta scores: E(): 3.6e-07, 34.694% id in 98 aa; ferredoxin complement(64068..64370) Bordetella pertussis Tohama I 2666796 NP_878974.1 CDS BP0066 NC_002929.2 64489 65550 R Similar to Marinosulfonomonas methylotropha reductase TR:AAK84310 (EMBL:AF360864) (364 aa) fasta scores: E(): 3.5e-26, 29.830% id in 352 aa, and to Alcaligenes faecalis ferredoxin reductase phnaA TR:Q9WXG6 (EMBL:AB024945) (342 aa) fasta scores: E(): 3.5e-20, 29.167% id in 336 aa; oxidoreductase complement(64489..65550) Bordetella pertussis Tohama I 2666609 NP_878975.1 CDS BP0067 NC_002929.2 65582 66775 R Similar to Pseudomonas aeruginosa probable C4-dicarboxylate transporter pa0886 TR:Q9I559 (EMBL:AE004523) (427 aa) fasta scores: E(): 2.3e-37, 32.812% id in 384 aa, and to Pseudomonas stutzeri probable C4-dicarboxylate transporter DctM TR:CAC44173 (EMBL:AJ313422) (426 aa) fasta scores: E(): 1.3e-36, 32.041% id in 387 aa; hypothetical protein complement(65582..66775) Bordetella pertussis Tohama I 2666249 NP_878976.1 CDS BP0069 NC_002929.2 67483 68664 R Similar to Escherichia coli ABC transporter periplasmic binding protein YiaO precursor or b3579 SW:YIAO_ECOLI (P37676) (328 aa) fasta scores: E(): 2.2e-08, 27.046% id in 281 aa, and to Rhizobium meliloti C4-dicarboxylate transporter periplasmic solute-binding protein precursor smb20981 TR:CAC49506 (EMBL:AL603646) (325 aa) fasta scores: E(): 4.9e-10, 26.761% id in 284 aa; hypothetical protein complement(67483..68664) Bordetella pertussis Tohama I 2665580 NP_878977.1 CDS BP0071 NC_002929.2 69086 70036 D transposase for IS481 element; transposase 69086..70036 Bordetella pertussis Tohama I 2666679 NP_878978.1 CDS BP0072 NC_002929.2 70130 70444 D Similar to Rhizobium meliloti transposase for insertion sequence element IsrM1 TR:CAC47072 (EMBL:AL591790) (123 aa) fasta scores: E(): 1.1, 21.212% id in 99 aa, and to Caulobacter crescentus ISCC3 transposase OrfA cc2728 or cc0625 or cc2657 TR:Q99QI0 (EMBL:AE005939) (125 aa) fasta scores: E(): 1.2, 27.523% id in 109 aa; transposase 70130..70444 Bordetella pertussis Tohama I 2666036 NP_878979.1 CDS htpG NC_002929.2 71637 73544 D molecular chaperone; heat shock protein 90 71637..73544 Bordetella pertussis Tohama I 2666131 NP_878980.1 CDS BP0075 NC_002929.2 73706 74326 R Similar to Rhodococcus spAD45 glutathione S-transferase IsoJ TR:Q9RBP3 (EMBL:AJ249207) (233 aa) fasta scores: E(): 2.2e-12, 30.732% id in 205 aa, and to Pseudomonas aeruginosa probable glutathione S-transferase pa2813 TR:Q9I030 (EMBL:AE004708) (206 aa) fasta scores: E(): 4.6e-39, 48.058% id in 206 aa; glutathione S-transferase complement(73706..74326) Bordetella pertussis Tohama I 2666710 NP_878981.1 CDS ampD NC_002929.2 74358 74939 R Similar to Escherichia coli AmpD protein or b0110 SW:AMPD_ECOLI (P13016) (183 aa) fasta scores: E(): 5e-35, 51.977% id in 177 aa, and to Pseudomonas aeruginosa N-acetyl-anhydromuramyl-L-alanine amidase AmpD or pa4522 TR:Q9ZGA0 (EMBL:AF082575) (188 aa) fasta scores: E(): 1.9e-37, 58.960% id in 173 aa; N-acetyl-anhydromuranmyl-L-alanine amidase complement(74358..74939) Bordetella pertussis Tohama I 2666040 NP_878982.1 CDS BP0077 NC_002929.2 75028 75279 R Similar to Pseudomonas stutzeri hypothetical 9.0 kDa protein TR:Q9RLD2 (EMBL:AJ249642) (77 aa) fasta scores: E(): 0.021, 33.333% id in 81 aa; hypothetical protein complement(75028..75279) Bordetella pertussis Tohama I 2667278 NP_878983.1 CDS BP0078 NC_002929.2 75281 76123 R Similar to Neisseria meningitidis hypothetical inner membrane protein nma2189 TR:Q9JSQ1 (EMBL:AL162758) (268 aa) fasta scores: E(): 2.2e-25, 37.184% id in 277 aa, and to Azospirillum brasilense hypothetical 28.8 kDa protein in nifR3-like 5'region SW:YNR3_AZOBR (P45674) (271 aa) fasta scores: E(): 1.6e-13, 31.707% id in 287 aa; hypothetical protein complement(75281..76123) Bordetella pertussis Tohama I 2667279 NP_878984.1 CDS ffh NC_002929.2 76229 77638 D Similar to Escherichia coli signal recognition particle protein Ffh or b2610 or z3904 or ecs3473 SW:SR54_ECOLI (P07019) (453 aa) fasta scores: E(): 1.4e-68, 63.169% id in 467 aa, and to Neisseria meningitidis signal recognition particle protein Ffh TR:Q9JPK6 (EMBL:AJ391261) (456 aa) fasta scores: E(): 2.4e-71, 63.539% id in 469 aa; signal recognition particle protein 76229..77638 Bordetella pertussis Tohama I 2666039 NP_878985.1 CDS BP0080 NC_002929.2 77635 78585 R transposase for IS481 element; transposase complement(77635..78585) Bordetella pertussis Tohama I 2665519 NP_878986.1 CDS bplL NC_002929.2 79601 81475 R Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus BplL TR:Q45387 (EMBL:X90711) (624 aa) fasta scores: E(): 0, 100.000% id in 624 aa, and to Bordetella bronchiseptica nucleotide sugar epimerase/dehydratase WlbL TR:O87995 (EMBL:AJ007747) (624 aa) fasta scores: E(): 0, 99.679% id in 624 aa; lipopolysaccharide biosynthesis protein complement(79601..81475) Bordetella pertussis Tohama I 2666914 NP_878987.1 CDS bplI NC_002929.2 82823 83527 R Identical to the previously sequenced Bordetella pertussis and Bordetella bronchiseptica DNA for lipopolysaccharide biosynthesis locus BplI or WlbI TR:Q45383 (EMBL:X90711) (233 aa) fasta scores: E(): 6.6e-87, 100.000% id in 233 aa; lipopolysaccharide biosynthesis protein complement(82823..83527) Bordetella pertussis Tohama I 2667537 NP_878988.1 CDS bplH NC_002929.2 83524 84696 R Identical to the previously sequenced Bordetella parapertussis glcnac transferase WlbH TR:O52848 (EMBL:AJ224768) (390 aa) fasta scores: E(): 1.1e-153, 99.487% id in 390 aa, and to Bordetella pertussis and B. bronchiseptica hypothetical 42.8 kDa protein BplH or WlbH TR:Q45386 (EMBL:X90711) (390 aa) fasta scores: E(): 2.2e-154, 99.744% id in 390 aa; glycosyl transferase family protein complement(83524..84696) Bordetella pertussis Tohama I 2667538 NP_878989.1 CDS bplG NC_002929.2 84892 85485 R Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus BplG TR:Q45382 (EMBL:X90711) (197 aa) fasta scores: E(): 2.6e-77, 100.000% id in 197 aa, and to Bordetella bronchiseptica transferase WlbG TR:O87997 (EMBL:AJ007747) (197 aa) fasta scores: E(): 2.9e-76, 98.477% id in 197 aa; sugar transferase complement(84892..85485) Bordetella pertussis Tohama I 2666844 NP_878990.1 CDS bplF NC_002929.2 85482 86714 R Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus BplF TR:Q45381 (EMBL:X90711) (395 aa) fasta scores: E(): 2.2e-156, 100.000% id in 395 aa, and to Bordetella bronchiseptica amino-sugar biosynthesis protein WlbF TR:O87998 (EMBL:AJ007747) (395 aa) fasta scores: E(): 6.6e-154, 98.734% id in 395 aa; lipopolysaccharide biosynthesis protein complement(85482..86714) Bordetella pertussis Tohama I 2666035 NP_878991.1 CDS bplE NC_002929.2 86732 87991 R Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus BplE TR:Q45380 (EMBL:X90711) (403 aa) fasta scores: E(): 1.2e-163, 100.000% id in 403 aa, and to Bordetella bronchiseptica transferase WlbE TR:O87999 (EMBL:AJ007747) (419 aa) fasta scores: E(): 6.7e-170, 99.523% id in 419 aa; glycosyl transferase family protein complement(86732..87991) Bordetella pertussis Tohama I 2666750 NP_878992.1 CDS bplD NC_002929.2 88015 89103 R Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus BplD TR:Q45379 (EMBL:X90711) (362 aa) fasta scores: E(): 1.8e-139, 100.000% id in 362 aa, and to Bordetella bronchiseptica UDP-N-acetylglucosamine 2-epimerase WlbD TR:O88000 (EMBL:AJ007747) (362 aa) fasta scores: E(): 2.3e-138, 99.724% id in 362 aa; UDP-N-acetylglucosamine 2-epimerase complement(88015..89103) Bordetella pertussis Tohama I 2666775 NP_878993.1 CDS bplC NC_002929.2 89111 90211 R Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus BplC TR:Q45378 (EMBL:X90711) (366 aa) fasta scores: E(): 6.7e-144, 100.000% id in 366 aa, and to Bordetella bronchiseptica amino-sugar biosynthesis protein WlbC TR:O88001 (EMBL:AJ007747) (366 aa) fasta scores: E(): 2.5e-143, 99.454% id in 366 aa; lipopolysaccharide biosynthesis protein complement(89111..90211) Bordetella pertussis Tohama I 2664947 NP_878994.1 CDS bplB NC_002929.2 90215 90790 R Identical to the previously sequenced Bordetella pertussis and Bordetella bronchiseptica DNA for lipopolysaccharide biosynthesis locus BplB or WlbB TR:Q45377 (EMBL:X90711) (191 aa) fasta scores: E(): 4.3e-79, 100.000% id in 191 aa, and to Pseudomonas aeruginosa probable acetyltransferase WbpD TR:P72135 (EMBL:U50396) (163 aa) fasta scores: E(): 4.2e-48, 77.483% id in 151 aa; acetyltransferase complement(90215..90790) Bordetella pertussis Tohama I 2665059 NP_878995.1 CDS bplA NC_002929.2 90794 91846 R Identical to Bordetella pertussis and Bordetella bronchiseptica DNA for lipopolysaccharide biosynthesis locus BplA or WlbA TR:Q45376 (EMBL:X90711) (350 aa) fasta scores: E(): 1.2e-144, 100.000% id in 350 aa, and similar to Vibrio anguillarum dehydrogenase TR:Q9XBT9 (EMBL:AF156256) (318 aa) fasta scores: E(): 3.8e-83, 63.722% id in 317 aa; oxidoreductase complement(90794..91846) Bordetella pertussis Tohama I 2665129 NP_878996.1 CDS rfaC NC_002929.2 91977 92984 D Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus RfaC TR:Q45375 (EMBL:X90711) (335 aa) fasta scores: E(): 6.2e-133, 100.000% id in 335 aa, and to Bordetella bronchiseptica heptosyltransferase WaaC TR:O88002 (EMBL:AJ007747) (335 aa) fasta scores: E(): 1.3e-132, 99.701% id in 335 aa, and Similar to Escherichia coli lipopolysaccharide heptosyltransferase-1 RfaC or WaaC or Rfa-2 or B3621 SW:RFAC_ECOLI (P24173) (319 aa) fasta scores: E(): 7.6e-31, 48.485% id in 297 aa; heptosyltransferase 91977..92984 Bordetella pertussis Tohama I 2665138 NP_878997.1 CDS kdtA NC_002929.2 92986 94272 D Identical to the previously sequenced Bordetella pertussis DNA for lipopolysaccharide biosynthesis locus KdtA TR:Q45374 (EMBL:X90711) (428 aa) fasta scores: E(): 2.9e-167, 100.000% id in 428 aa, and to Bordetella bronchiseptica 3-deoxy-D-manno-octulosonic-acid transferase WaaA TR:O88003 (EMBL:AJ007747) (428 aa) fasta scores: E(): 2.1e-166, 99.533% id in 428 aa, and similar to Escherichia coli 3-deoxy-D-manno-octulosonic-acid transferase KdtA or WaaA or B3633 or Z5057 or ECS4508 SW:KDTA_ECOLI (P23282) (425 aa) fasta scores: E(): 8.9e-46, 39.450% id in 436 aa; 3-deoxy-D-manno-octulosonic-acid transferase 92986..94272 Bordetella pertussis Tohama I 2665158 NP_878998.1 CDS BP0096 NC_002929.2 94289 94444 R Identical to the previously sequenced Bordetella bronchiseptica secreted protein Bblps1.35C TR:O88004 (EMBL:AJ007747) (51 aa) fasta scores: E(): 2.6e-20, 100.000% id in 51 aa; hypothetical protein complement(94289..94444) Bordetella pertussis Tohama I 2665222 NP_878999.1 CDS baf NC_002929.2 94469 95272 R 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; pantothenate kinase complement(94469..95272) Bordetella pertussis Tohama I 2665227 NP_879000.1 CDS birA NC_002929.2 95269 96135 R Identical to the previously sequenced Bordetella pertussis biotin protein ligase BirA TR:Q9ZIU6 (EMBL:AF016461) (288 aa) fasta scores: E(): 1.2e-110, 100.000% id in 288 aa, and Similar to Escherichia coli BirA bifunctional protein [includes: biotin operon repressor; biotin--[acetyl-coa-carboxylase] synthetase BirA or BioR or DhbB or B3973 SW:BIRA_ECOLI (P06709) (321 aa) fasta scores: E(): 9.5e-13, 32.130% id in 277 aa; biotin--protein ligase complement(95269..96135) Bordetella pertussis Tohama I 2665228 NP_879001.1 CDS BP0099 NC_002929.2 96210 97340 D Similar to Caulobacter crescentus ABC transporter permease, Cc2318 TR:Q9A5X9 (EMBL:AE005902) (371 aa) fasta scores: E(): 2.2e-35, 35.925% id in 373 aa, and to Campylobacter jejuni ABC transport system permease iamb or cj1646 TR:Q9PM30 (EMBL:AL139079) (369 aa) fasta scores: E(): 3.2e-31, 34.451% id in 328 aa; hypothetical protein 96210..97340 Bordetella pertussis Tohama I 2665229 NP_879002.1 CDS BP0100 NC_002929.2 97340 98179 D Similar to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa3212 TR:Q9HZ28 (EMBL:AE004744) (264 aa) fasta scores: E(): 1.3e-42, 54.251% id in 247 aa, and to Caulobacter crescentus ABC transporter ATP-binding protein cc2319 TR:Q9A5X8 (EMBL:AE005902) (278 aa) fasta scores: E(): 2e-42, 54.032% id in 248 aa; ABC transporter ATP-binding protein 97340..98179 Bordetella pertussis Tohama I 2665235 NP_879003.1 CDS BP0101A NC_002929.2 99112 99714 D Similar to Agrobacterium tumefaciens Agr_c_3031p TR:AAK87420 (EMBL:AE008086) (201 aa) fasta scores: E(): 2.5e-05, 31.551% id in 187 aa, and to Rhizobium meliloti hypothetical protein Smc00177 TR:CAC46409 (EMBL:AL591788) (204 aa) fasta scores: E(): 0.00019, 28.042% id in 189 aa; hypothetical protein 99112..99714 Bordetella pertussis Tohama I 2665297 NP_879004.1 CDS BP0101B NC_002929.2 99744 100397 D Similar to Neisseria meningitidis hypothetical protein Nmb0868 TR:Q9JZW7 (EMBL:AE002439) (213 aa) fasta scores: E(): 4.5e-24, 43.578% id in 218 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4440 TR:Q9HVX5 (EMBL:AE004858) (209 aa) fasta scores: E(): 2.9e-19, 40.909% id in 220 aa; hypothetical protein 99744..100397 Bordetella pertussis Tohama I 2665302 NP_879005.1 CDS BP0102 NC_002929.2 100530 101786 D Similar to Escherichia coli penicillin-binding protein 6 precursor DacC or B0839 SW:DACC_ECOLI (P08506) (400 aa) fasta scores: E(): 3.9e-51, 46.703% id in 364 aa, and to Pseudomonas aeruginosa penicillin-binding protein 5 precursor DacA or DacC or PA3999 TR:Q9X6V7 (EMBL:AF147448) (386 aa) fasta scores: E(): 1.3e-54, 45.528% id in 369 aa; penicillin-binding protein 100530..101786 Bordetella pertussis Tohama I 2665303 NP_879006.1 CDS BP0103 NC_002929.2 101834 102733 D Similar to Staphylococcus aureus D-alanine aminotransferase TR:Q9KWZ6 (EMBL:Y14816) (282 aa) fasta scores: E(): 3.7e-37, 38.849% id in 278 aa, and to Staphylococcus haemolyticus D-alanine aminotransferase Dat SW:DAAA_STAHA (P54694) (282 aa) fasta scores: E(): 1.1e-38, 38.989% id in 277 aa; class IV aminotransferase 101834..102733 Bordetella pertussis Tohama I 2665309 NP_879007.1 CDS BP0104 NC_002929.2 102809 103084 D Similar to Neisseria meningitidis hypothetical protein Nma1380 or Nmb1218 TR:Q9JRI4 (EMBL:AL162755) (91 aa) fasta scores: E(): 4.4e-11, 46.988% id in 83 aa, and to Escherichia coli hypothetical protein YbeD or B0631 or Z0776 or ECS0669 SW:YBED_ECOLI (P30977) (87 aa) fasta scores: E(): 4.4e-06, 38.554% id in 83 aa; hypothetical protein 102809..103084 Bordetella pertussis Tohama I 2665310 NP_879008.1 CDS lipB NC_002929.2 103092 103754 D lipoyl/octanoyltransferase; catalyzes the transfer of the lipoyl/octanoyl moiety of lipoyl/octanoyl-ACP onto lipoate-dependent enzymes like pyruvate dehydrogenase and the glycine cleavage system H protein; lipoate-protein ligase B 103092..103754 Bordetella pertussis Tohama I 2667428 NP_879009.1 CDS lipA NC_002929.2 103816 104817 D catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group; lipoyl synthase 103816..104817 Bordetella pertussis Tohama I 2665325 NP_879010.1 CDS rfbC NC_002929.2 104832 105380 R Similar to Escherichia coli dTDP-4-dehydrorhamnose 3,5-epimerase RfbC or RmlC or B2038 SW:RFBC_ECOLI (P37745) (185 aa) fasta scores: E(): 8.2e-34, 52.326% id in 172 aa, and to Pseudomonas aeruginosa dTDP-4-dehydrorhamnose 3,5-epimerase RmlC or PA5164 TR:Q9HU21 (EMBL:AE004929) (181 aa) fasta scores: E(): 4.6e-49, 64.641% id in 181 aa; dTDP-4-dehydrorhamnose 3,5-epimerase complement(104832..105380) Bordetella pertussis Tohama I 2665304 NP_879011.1 CDS rfbD NC_002929.2 105438 106334 R Similar to Escherichia coli dTDP-4-dehydrorhamnose reductase RfbD or RmlD or B2040 SW:RBD1_ECOLI (P37760) (299 aa) fasta scores: E(): 2.6e-40, 44.444% id in 297 aa, and to Pseudomonas aeruginosa dTDP-4-dehydrorhamnose reductase RmlD or PA5162 TR:Q9HU23 (EMBL:AE004929) (302 aa) fasta scores: E(): 7.8e-44, 47.651% id in 298 aa; dTDP-4-dehydrorhamnose reductase complement(105438..106334) Bordetella pertussis Tohama I 2665305 NP_879012.1 CDS rfbB NC_002929.2 106331 107392 R Similar to Escherichia coli dTDP-glucose 4,6-dehydratase RfbB or RmlB or B2041 SW:RBB1_ECOLI (P37759) (361 aa) fasta scores: E(): 4.6e-73, 52.925% id in 359 aa, and to Pseudomonas aeruginosa dTDP-D-glucose 4,6-dehydratase RmlB or PA5161 TR:Q9HU24 (EMBL:AE004929) (352 aa) fasta scores: E(): 4e-92, 64.672% id in 351 aa; dTDP-glucose 4,6-dehydratase complement(106331..107392) Bordetella pertussis Tohama I 2665329 NP_879013.1 CDS BP0110 NC_002929.2 107428 108378 R transposase for IS481 element; transposase complement(107428..108378) Bordetella pertussis Tohama I 2665337 NP_879014.1 CDS metC NC_002929.2 109278 110471 D Similar to Bordetella avium cystathionine beta-lyase MetC SW:METC_BORAV (Q07703) (395 aa) fasta scores: E(): 1.1e-130, 79.747% id in 395 aa, and to Escherichia coli cystathionine beta-lyase MetC or B3008 SW:METC_ECOLI (P06721) (395 aa) fasta scores: E(): 5.5e-48, 36.567% id in 402 aa. Also similar to BP0815, 42.784% identity in 388 aa overlap; cystathionine beta-lyase 109278..110471 Bordetella pertussis Tohama I 2665150 NP_879015.1 CDS dsbA NC_002929.2 110553 111182 R Similar to Burkholderia cepacia thiol:disulfide interchange protein DsbA precursor SW:DSBA_BURCE (Q9RHV8) (212 aa) fasta scores: E(): 1e-22, 36.620% id in 213 aa, and to Azotobacter vinelandii thiol:disulfide interchange protein DsbA precursor SW:DSBA_AZOVI (Q44504) (214 aa) fasta scores: E(): 2.5e-22, 37.619% id in 210 aa; thiol:disulfide interchange protein DsbA precursor complement(110553..111182) Bordetella pertussis Tohama I 2667558 NP_879016.1 CDS BP0114 NC_002929.2 111244 111927 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5052 TR:Q9HUC7 (EMBL:AE004918) (231 aa) fasta scores: E(): 0.001, 28.807% id in 243 aa, and to Xylella fastidiosa hypothetical protein Xf0146 TR:Q9PH00 (EMBL:AE003868) (252 aa) fasta scores: E(): 6.8e-05, 29.167% id in 192 aa; hypothetical protein complement(111244..111927) Bordetella pertussis Tohama I 2667419 NP_879017.1 CDS argS NC_002929.2 111937 113724 R catalyzes a two-step reaction, first charging an arginine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class-I aminoacyl-tRNA synthetase; arginyl-tRNA synthetase complement(111937..113724) Bordetella pertussis Tohama I 2667420 NP_879018.1 CDS BP0116 NC_002929.2 113874 114254 D Similar to Ralstonia solanacearum hypothetical protein Rsc0288 or Rs03255 SWALL:Q8Y2P7 (EMBL:AL646058) (105 aa) fasta scores: E(): 0.0019, 32.74% id in 113 aa; hypothetical protein 113874..114254 Bordetella pertussis Tohama I 2664336 NP_879019.1 CDS BP0117 NC_002929.2 114303 114662 D no significant database matches; hypothetical protein 114303..114662 Bordetella pertussis Tohama I 2664337 NP_879020.1 CDS BP0118 NC_002929.2 114945 115961 D Similar to Neisseria meningitidis invertase/transposase nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein chnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 114945..115961 Bordetella pertussis Tohama I 2664726 NP_879021.1 CDS BP0119 NC_002929.2 116037 116837 R Similar to Thermotoga maritima sugar ABC transporter permease Tm0598 TR:Q9WZ67 (EMBL:AE001734) (277 aa) fasta scores: E(): 3.9e-36, 43.860% id in 228 aa, and to Rhizobium meliloti sugar ABC transporter permease Smb20233 TR:CAC48624 (EMBL:AL603642) (282 aa) fasta scores: E(): 2.5e-30, 34.717% id in 265 aa; binding-protein-dependent transport system inner membrane protein complement(116037..116837) Bordetella pertussis Tohama I 2664310 NP_879022.1 CDS BP0120 NC_002929.2 116834 117709 R Similar to Erwinia chrysanthemi inner membrane protein togM TR:CAC44118 (EMBL:AJ305144) (296 aa) fasta scores: E(): 9.7e-31, 37.091% id in 275 aa, and to Rhizobium loti permease of sugar ABC transporter mll1715 TR:Q98JZ2 (EMBL:AP002998) (307 aa) fasta scores: E(): 6.2e-41, 40.569% id in 281 aa; binding-protein-dependent transport system inner membrane protein complement(116834..117709) Bordetella pertussis Tohama I 2664359 NP_879023.1 CDS BP0121 NC_002929.2 117720 119012 R Similar to Escherichia coli glycerol-3-phosphate-binding periplasmic protein precursor UgpB or B3453 SW:UGPB_ECOLI (P10904) (438 aa) fasta scores: E(): 1.1e-30, 29.120% id in 443 aa, and to Thermotoga maritima glycerol-3-phosphate ABC transporter periplasmic glycerol-3- phosphate-binding protein Tm1120 TR:Q9X0K4 (EMBL:AE001770) (436 aa) fasta scores: E(): 3.1e-35, 31.829% id in 421 aa; glycerol-3-phosphate ABC transporter substrate-binding protein complement(117720..119012) Bordetella pertussis Tohama I 2664053 NP_879024.1 CDS BP0122 NC_002929.2 119055 120095 R Similar to Thermococcus litoralis trehalose/maltose transport ATP-hydrolyzing subunit MalK TR:Q9V306 (EMBL:AF126010) (372 aa) fasta scores: E(): 7.4e-44, 45.205% id in 365 aa, and to Rhizobium meliloti probable glycerol-3-phosphate ABC transporter ATP-binding protein TR:CAC48805 (EMBL:AL603643) (349 aa) fasta scores: E(): 2.1e-49, 50.000% id in 352 aa; sugar ABC transporter ATP-binding protein complement(119055..120095) Bordetella pertussis Tohama I 2667425 NP_879025.1 CDS BP0123 NC_002929.2 120201 121022 R Similar to Escherichia coli Icc protein or B3032 or Z4389 or ECS3920 SW:ICC_ECOLI (P36650) (275 aa) fasta scores: E(): 1.7e-14, 27.509% id in 269 aa, and to Rhizobium loti 3',5'-cyclic-nucleotide phosphodiesterase CpdA or Mll3631 TR:Q98FT1 (EMBL:AP003002) (305 aa) fasta scores: E(): 7.1e-25, 36.078% id in 255 aa; cAMP phosphodiesterase complement(120201..121022) Bordetella pertussis Tohama I 2665353 NP_879026.1 CDS BP0124 NC_002929.2 121123 122073 R transposase for IS481 element; transposase complement(121123..122073) Bordetella pertussis Tohama I 2664307 NP_879027.1 CDS BP0126 NC_002929.2 123074 123922 R Similar to Rhizobium loti ABC transporter permease Mlr9016 TR:Q982L0 (EMBL:AP003015) (278 aa) fasta scores: E(): 9.8e-17, 31.395% id in 258 aa, and to Treponema pallidum spermidine/putrescine ABC transporter permease Tp0654 TR:O83660 (EMBL:AE001240) (272 aa) fasta scores: E(): 5.7e-13, 28.077% id in 260 aa; ABC transporter permease complement(123074..123922) Bordetella pertussis Tohama I 2664090 NP_879028.1 CDS BP0128 NC_002929.2 124744 125754 R Similar to Campylobacter jejuni periplasmic solute-binding protein Cj0727 TR:Q9PPI0 (EMBL:AL139076) (348 aa) fasta scores: E(): 1.5e-26, 32.333% id in 300 aa, and to Rhizobium loti ABC transporter periplasmic binding protein Mll3069 TR:Q98H18 (EMBL:AP003001) (368 aa) fasta scores: E(): 2.8e-24, 33.981% id in 309 aa; ABC transporter substrate-binding protein complement(124744..125754) Bordetella pertussis Tohama I 2664129 NP_879029.1 CDS BP0130 NC_002929.2 127034 128287 D Similar to Pseudomonas putida amidase SW:AMID_PSEPU (O69768) (466 aa) fasta scores: E(): 6.3e-24, 35.526% id in 380 aa, and to Bradyrhizobium japonicum malonamidase E2 TR:Q9ZIV5 (EMBL:AF012735) (432 aa) fasta scores: E(): 2.5e-34, 39.012% id in 405 aa. Also similar to BP3713 (45.679% identity in 405 aa overlap); amidase 127034..128287 Bordetella pertussis Tohama I 2664497 NP_879030.1 CDS leuA NC_002929.2 128378 130078 R Similar to Rhizobium meliloti 2-isopropylmalate synthase LeuA SW:LEU1_RHIME (Q9X7L2) (569 aa) fasta scores: E(): 5e-105, 49.374% id in 559 aa, and to Pseudomonas aeruginosa 2-isopropylmalate synthase LeuA or PA3792 TR:Q9HXK5 (EMBL:AE004798) (592 aa) fasta scores: E(): 7.9e-135, 58.803% id in 568 aa. The N-terminal region of this CDS is similar to BP0287, 68.598% identity (68.598% ungapped) in 328 aa overlap; 2-isopropylmalate synthase complement(128378..130078) Bordetella pertussis Tohama I 2664074 NP_879031.1 CDS BP0132 NC_002929.2 130505 131152 R no significant database matches; hypothetical protein complement(130505..131152) Bordetella pertussis Tohama I 2664382 NP_879032.1 CDS rpoN NC_002929.2 131169 132590 D Similar to Escherichia coli RNA polymerase sigma-54 factor RpoN or GlnF or NtrA or B3202 SW:RP54_ECOLI (P24255) (477 aa) fasta scores: E(): 2.1e-63, 42.946% id in 482 aa, and to Alcaligenes eutrophus RNA polymerase sigma-54 factor TR:Q9EX69 (EMBL:AJ131690) (492 aa) fasta scores: E(): 9.5e-66, 49.600% id in 500 aa; RNA polymerase sigma-54 factor 131169..132590 Bordetella pertussis Tohama I 2665377 NP_879033.1 CDS BP0134 NC_002929.2 132683 132985 D Similar to Azotobacter vinelandii bacterioferritin-associated ferredoxin Bfd TR:Q9Z5W9 (EMBL:AF121138) (73 aa) fasta scores: E(): 0.004, 40.426% id in 47 aa, and to Neisseria meningitidis ferredoxin Nma0965 or Nmb0752 TR:Q9JQR7 (EMBL:AL162754) (66 aa) fasta scores: E(): 4.5e-08, 53.704% id in 54 aa; bacterioferritin-associated ferredoxin 132683..132985 Bordetella pertussis Tohama I 2664088 NP_879034.1 CDS BP0135 NC_002929.2 133013 133933 R Similar to Escherichia coli probable transcriptional regulator LrhA or GenR or B2289 SW:LRHA_ECOLI (P36771) (312 aa) fasta scores: E(): 5.4e-21, 33.212% id in 274 aa, and to Rhizobium meliloti LysR-family transcriptional regulator Sma1979 TR:AAK65745 (EMBL:AE007294) (290 aa) fasta scores: E(): 6.7e-40, 49.810% id in 263 aa; LysR family transcriptional regulator complement(133013..133933) Bordetella pertussis Tohama I 2664089 NP_879035.1 CDS BP0137 NC_002929.2 135158 136108 R transposase for IS481 element; transposase complement(135158..136108) Bordetella pertussis Tohama I 2664165 NP_879036.1 CDS ilvA NC_002929.2 136527 138035 R threonine deaminase; threonine dehydratase; in Escherichia coli, IlvA is part of the isoleucine biosynthetic pathway; threonine dehydratase complement(136527..138035) Bordetella pertussis Tohama I 2664284 NP_879037.1 CDS BP0141 NC_002929.2 138845 142744 D Similar to Neisseria meningitidis oxidoreductase, nmb0998 TR:Q9JZL6 (EMBL:AE002451) (1277 aa) fasta scores: E(): 3e-169, 61.515% id in 1307 aa; iron-sulfur binding oxidase 138845..142744 Bordetella pertussis Tohama I 2664365 NP_879038.1 CDS BP0142 NC_002929.2 142797 143579 D Similar to Deinococcus radiodurans transcriptional regulator, GntR family Dr0815 TR:Q9RW54 (EMBL:AE001936) (267 aa) fasta scores: E(): 1.7e-09, 30.041% id in 243 aa, and to Bacillus subtilis hypothetical transcriptional regulator YdhC SW:YDHC_BACSU (O05494) (224 aa) fasta scores: E(): 3e-10, 29.469% id in 207 aa; GntR family transcriptional regulator 142797..143579 Bordetella pertussis Tohama I 2664031 NP_879039.1 CDS BP0143 NC_002929.2 143667 144890 R Identical to the N-terminal region of Bordetella pertussis hypothetical 29.3 kDa protein TR:O30450 (EMBL:AF006000) (273 aa) fasta scores: E(): 9.8e-105, 100.000% id in 273 aa, and similar to Pseudomonas aeruginosa hypothetical protein PA0446 TR:Q9I672 (EMBL:AE004482) (407 aa) fasta scores: E(): 2.7e-92, 57.248% id in 407 aa. Also similar to BP1779 (68.059% identity in 407 aa overlap), and BP3309 (57.143% identity in 399 aa overlap).; hypothetical protein complement(143667..144890) Bordetella pertussis Tohama I 2664124 NP_879040.1 CDS BP0144 NC_002929.2 144874 145806 R This CDS start with an isoleucine, whereas parapertussis and bronchiseptica start with a methionine. The sequence has been checked and believed to be correct. Identical to the previously sequenced Bordetella pertussis hypothetical 34.3 kDa protein TR:O30449 (EMBL:AF006000) (324 aa) fasta scores: E(): 2.8e-116, 100.000% id in 303 aa, and to Acinetobacter spSE19. acetyl-hydrolase chnC TR:Q9F7D7 (EMBL:AF282240) (300 aa) fasta scores: E(): 1.8e-28, 34.507% id in 284 aa. Also similar to BP2097, 39.583% identity in 288 aa overlap; lipase complement(144874..145806) Bordetella pertussis Tohama I 2664023 NP_879041.1 CDS BP0145 NC_002929.2 145812 146624 R Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase complement(145812..146624) Bordetella pertussis Tohama I 2664041 NP_879042.1 CDS BP0148 NC_002929.2 147937 148908 R Identical to the previously sequenced Bordetella pertussis hypothetical 34.9 kDa protein in brg1 3'region precursor SW:YBR5_BORPE (O30446) (323 aa) fasta scores: E(): 6.7e-122, 100.000% id in 323 aa, and similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 8.9e-35, 35.220% id in 318 aa; hypothetical protein complement(147937..148908) Bordetella pertussis Tohama I 2667584 NP_879043.1 CDS BP0149 NC_002929.2 149027 149809 D Identical to the previously sequenced Bordetella pertussis hypothetical 29.0 kDa protein TR:O30445 (EMBL:AF006000) (260 aa) fasta scores: E(): 2.1e-107, 100.000% id in 260 aa, and similar to Pseudomonas aeruginosa probable transcriptional regulator pa1630 TR:Q9I392 (EMBL:AE004590) (288 aa) fasta scores: E(): 3e-31, 40.329% id in 243 aa; transcriptional regulator 149027..149809 Bordetella pertussis Tohama I 2665215 NP_879044.1 CDS BP0151 NC_002929.2 150576 151556 R Identical to the previously sequenced Bordetella pertussis hypothetical 59.5 kDa protein TR:O30443 (EMBL:AF006000) (568 aa) fasta scores: E(): 2.8e-122, 100.000% id in 326 aa, and similar to Bacillus halodurans Bh1818 protein TR:Q9KBV6 (EMBL:AP001513) (331 aa) fasta scores: E(): 2.6e-41, 43.344% id in 323 aa; hypothetical protein complement(150576..151556) Bordetella pertussis Tohama I 2667407 NP_879045.1 CDS BP0152 NC_002929.2 151553 152281 R Identical to the previously sequenced Bordetella pertussis hypothetical 59.5 kDa protein TR:O30443 (EMBL:AF006000) (568 aa) fasta scores: E(): 3.9e-82, 99.103% id in 223 aa, and similar to Bacillus halodurans Bh1817 protein TR:Q9KBV7 (EMBL:AP001513) (225 aa) fasta scores: E(): 2.6e-26, 44.144% id in 222 aa; hypothetical protein complement(151553..152281) Bordetella pertussis Tohama I 2664142 NP_879046.1 CDS BP0153 NC_002929.2 152306 152737 R Identical to the previously sequenced Bordetella pertussis hypothetical 15.6 kDa protein TR:O30442 (EMBL:AF006000) (143 aa) fasta scores: E(): 6.4e-60, 100.000% id in 143 aa, and similar to Pseudomonas aeruginosa probable ring-cleaving dioxygenase Pa0817 TR:Q9I5C2 (EMBL:AE004517) (141 aa) fasta scores: E(): 6.1e-33, 60.584% id in 137 aa; dioxygenase complement(152306..152737) Bordetella pertussis Tohama I 2664153 NP_879047.1 CDS brg1 NC_002929.2 152839 153714 D Identical to the previously sequenced Bordetella pertussis Brg1 TR:O30441 (EMBL:AF006000) (291 aa) fasta scores: E(): 6.6e-108, 99.656% id in 291 aa, and similar to Pseudomonas aeruginosa probable transcriptional regulator pa0816 TR:Q9I5C3 (EMBL:AE004516) (294 aa) fasta scores: E(): 1.9e-38, 46.259% id in 294 aa; LysR family transcriptional regulator 152839..153714 Bordetella pertussis Tohama I 2664483 NP_879048.1 CDS serA NC_002929.2 153767 154987 R catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate; D-3-phosphoglycerate dehydrogenase complement(153767..154987) Bordetella pertussis Tohama I 2664335 NP_879049.1 CDS BP0156 NC_002929.2 155071 155532 R Similar to Pasteurella multocida hypothetical protein Pm1939 TR:Q9CJQ5 (EMBL:AE006230) (151 aa) fasta scores: E(): 1.5e-25, 51.370% id in 146 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4714 TR:Q9HV84 (EMBL:AE004885) (149 aa) fasta scores: E(): 8.1e-21, 46.853% id in 143 aa; hypothetical protein complement(155071..155532) Bordetella pertussis Tohama I 2664025 NP_879050.1 CDS BP0157 NC_002929.2 155638 157035 R Similar to Escherichia coli sensor kinase CusS or B0570 SW:CUSS_ECOLI (P77485) (480 aa) fasta scores: E(): 3e-34, 33.124% id in 477 aa, and to Pseudomonas aeruginosa probable two-component sensor pa1438 TR:Q9I3Q9 (EMBL:AE004573) (481 aa) fasta scores: E(): 1e-37, 35.177% id in 452 aa; two-component sensor kinase complement(155638..157035) Bordetella pertussis Tohama I 2664026 NP_879051.1 CDS BP0158 NC_002929.2 157032 157709 R Similar to Escherichia coli transcriptional regulatory protein PcoR SW:PCOR_ECOLI (Q47456) (226 aa) fasta scores: E(): 4.7e-46, 53.846% id in 221 aa, and to Pseudomonas aeruginosa probable two-component response regulator Pa1437 TR:Q9I3R0 (EMBL:AE004573) (229 aa) fasta scores: E(): 9.4e-56, 63.393% id in 224 aa; two-component response regulator complement(157032..157709) Bordetella pertussis Tohama I 2664421 NP_879052.1 CDS phoR NC_002929.2 157765 159075 R Similar to Escherichia coli phosphate regulon sensor protein PhoR or NmpB or B0400 SW:PHOR_ECOLI (P08400) (431 aa) fasta scores: E(): 1e-55, 41.458% id in 439 aa, and to Klebsiella pneumoniae phosphate regulon sensor protein PhoR SW:PHOR_KLEPN (P45608) (431 aa) fasta scores: E(): 3.2e-55, 40.961% id in 437 aa; phosphate regulon sensor protein complement(157765..159075) Bordetella pertussis Tohama I 2664400 NP_879053.1 CDS phoB NC_002929.2 159087 159785 R Similar to Escherichia coli phosphate regulon transcriptional regulatory protein PhoB or B0399 or Z0497 or ECS0449 SW:PHOB_ECOLI (P08402) (229 aa) fasta scores: E(): 2.6e-52, 59.211% id in 228 aa, and to Vibrio cholerae DNA-binding response regulator PhoB or VC0719 TR:Q9KU11 (EMBL:AE004158) (229 aa) fasta scores: E(): 1.3e-54, 60.526% id in 228 aa; phosphate regulon transcriptional regulatory protein complement(159087..159785) Bordetella pertussis Tohama I 2664409 NP_879054.1 CDS ubiE NC_002929.2 159949 160725 D Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone; ubiquinone/menaquinone biosynthesis methyltransferase 159949..160725 Bordetella pertussis Tohama I 2664411 NP_879055.1 CDS BP0162 NC_002929.2 160891 161913 D Similar to Pseudomonas aeruginosa hypothetical protein Pa5528 TR:Q9HT45 (EMBL:AE004965) (284 aa) fasta scores: E(): 1.7e-05, 35.294% id in 323 aa, and to Agrobacterium tumefaciens Agr_l_2266p agr_l_2266 TR:AAK89700 (EMBL:AE008313) (378 aa) fasta scores: E(): 2.7e-05, 28.075% id in 374 aa; hypothetical protein 160891..161913 Bordetella pertussis Tohama I 2664287 NP_879056.1 CDS BP0163 NC_002929.2 162091 162777 D Similar to Escherichia coli hypothetical 22.2 kDa protein in ubiE-rfaH intergenic region YigP or B3834 SW:YIGP_ECOLI (P27852) (201 aa) fasta scores: E(): 0.0058, 27.397% id in 219 aa, and to Vibrio cholerae hypothetical protein Vc0084 TR:Q9KVQ5 (EMBL:AE004099) (207 aa) fasta scores: E(): 0.00021, 24.413% id in 213 aa; hypothetical protein 162091..162777 Bordetella pertussis Tohama I 2664207 NP_879057.1 CDS ubiB NC_002929.2 162774 164336 D an Escherichia coli mutant results in accumulation of octaprenylphenol and no ubiquinone; functions in the formation of 2-octaprenyl-6-hydroxy-phenol from 2-octaprenylphenol in ubiquinone (coenzyme Q) biosynthesis; similar to eukaryotic proteins that exhibit kinase functions; ubiquinone biosynthesis protein UbiB 162774..164336 Bordetella pertussis Tohama I 2664208 NP_879058.1 CDS BP0166 NC_002929.2 164895 165845 R transposase for IS481 element; transposase complement(164895..165845) Bordetella pertussis Tohama I 2664524 NP_879059.1 CDS BP0168 NC_002929.2 167287 168189 R Similar to Pseudomonas aeruginosa hypothetical protein Pa1451 TR:Q9I3Q0 (EMBL:AE004574) (447 aa) fasta scores: E(): 4.6e-21, 48.387% id in 217 aa, and to Rhizobium loti Mll4127 protein Mll4127 TR:Q98EQ9 (EMBL:AP003003) (294 aa) fasta scores: E(): 3.1e-18, 37.011% id in 281 aa; hypothetical protein complement(167287..168189) Bordetella pertussis Tohama I 2664178 NP_879060.1 CDS BP0169 NC_002929.2 168167 168796 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0537 TR:Q9I5Z9 (EMBL:AE004490) (202 aa) fasta scores: E(): 8.8e-51, 71.981% id in 207 aa, and to Rhizobium loti Mll4130 protein TR:Q98EQ7 (EMBL:AP003003) (212 aa) fasta scores: E(): 2.3e-29, 48.205% id in 195 aa; hypothetical protein complement(168167..168796) Bordetella pertussis Tohama I 2664346 NP_879061.1 CDS rhlE NC_002929.2 169079 170509 D Similar to Escherichia coli ATP-dependent RNA helicase RhlE or B0797 SW:RHLE_ECOLI (P25888) (454 aa) fasta scores: E(): 9.3e-80, 58.658% id in 462 aa, and to Anabaena variabilis dead box RNA helicase homolog CrhA TR:Q9ZI52 (EMBL:AF040045) (425 aa) fasta scores: E(): 4e-74, 59.953% id in 422 aa. Also similar to BP3395 (50.740% identity in 473 aa overlap), and to BP3057 (41.314% identity in 472 aa overlap).; ATP-dependent RNA helicase 169079..170509 Bordetella pertussis Tohama I 2667429 NP_879062.1 CDS BP0171 NC_002929.2 170543 171172 D Similar to Escherichia coli homoserine/homoserine lactone efflux protein RhtB or B3824 SW:RHTB_ECOLI (P27847) (206 aa) fasta scores: E(): 2e-23, 37.198% id in 207 aa, and to Pseudomonas aeruginosa hypothetical protein Pa5249 TR:Q9HTU5 (EMBL:AE004937) (209 aa) fasta scores: E(): 4.7e-39, 54.106% id in 207 aa. Also similar to BP0568, 42.654% identity in 211 aa overlap; LysE family efflux protein 170543..171172 Bordetella pertussis Tohama I 2664301 NP_879063.1 CDS prfC NC_002929.2 171197 172828 D stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein; peptide chain release factor 3 171197..172828 Bordetella pertussis Tohama I 2664775 NP_879064.1 CDS BP0173 NC_002929.2 172853 173536 D Similar to Mycobacterium leprae hypothetical proline rich protein Ml1505 TR:Q9CBW9 (EMBL:AL583922) (182 aa) fasta scores: E(): 7, 23.977% id in 171 aa; hypothetical protein 172853..173536 Bordetella pertussis Tohama I 2664007 NP_879065.1 CDS bfr NC_002929.2 173618 174094 R Similar to Escherichia coli bacterioferritin Bfr or B3336 SW:BFR_ECOLI (P11056) (158 aa) fasta scores: E(): 7.8e-33, 60.759% id in 158 aa, and to Pseudomonas aeruginosa bacterioferritin BfrB or Pa3531 TR:Q9HY79 (EMBL:AE004773) (158 aa) fasta scores: E(): 5.6e-39, 68.790% id in 157 aa; bacterioferritin complement(173618..174094) Bordetella pertussis Tohama I 2664291 NP_879066.1 CDS BP0175 NC_002929.2 174301 175251 D transposase for IS481 element; transposase 174301..175251 Bordetella pertussis Tohama I 2664276 NP_879067.1 CDS BP0177 NC_002929.2 176367 176894 D Similar to Synechocystis sp hypothetical 31.6 kDa protein Slr0841 TR:Q55426 (EMBL:D64003) (291 aa) fasta scores: E(): 3.1e-05, 31.081% id in 148 aa, and to Escherichia coli heat shock protein HslJ or B1379 SW:HSLJ_ECOLI (P52644) (140 aa) fasta scores: E(): 0.38, 28.571% id in 84 aa. Also similar to the N-terminal region of the adjacent CDS, BP0178, 44.643% identity (46.584% ungapped) in 168 aa overlap; lipoprotein 176367..176894 Bordetella pertussis Tohama I 2664356 NP_879068.1 CDS BP0178 NC_002929.2 176986 177801 D Similar to Synechocystis sp hypothetical 31.6 kDa protein slr0841 TR:Q55426 (EMBL:D64003) (291 aa) fasta scores: E(): 0.00023, 33.775% id in 151 aa. Its N-terminal region is similar to the adjacent CDS, BP0177, 44.643% identity (46.584% ungapped) in 168 aa overlap; lipoprotein 176986..177801 Bordetella pertussis Tohama I 2664354 NP_879069.1 CDS BP0179 NC_002929.2 177862 178596 D Similar to Xylella fastidiosa hypothetical protein Xf2609 TR:Q9PAA9 (EMBL:AE004068) (299 aa) fasta scores: E(): 9.9e-46, 55.230% id in 239 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0858 TR:Q9I583 (EMBL:AE004520) (312 aa) fasta scores: E(): 1.2e-32, 42.017% id in 238 aa; rhodanese superfamily protein 177862..178596 Bordetella pertussis Tohama I 2664355 NP_879070.1 CDS metG NC_002929.2 178634 180712 R methionine--tRNA ligase; MetRS; adds methionine to tRNA(Met) with cleavage of ATP to AMP and diphosphate; some MetRS enzymes form dimers depending on a C-terminal domain that is also found in other proteins such as Trbp111 in Aquifex aeolicus and the cold-shock protein CsaA from Bacillus subtilis while others do not; four subfamilies exist based on sequence motifs and zinc content; methionyl-tRNA synthetase complement(178634..180712) Bordetella pertussis Tohama I 2664345 NP_879071.1 CDS BP0181 NC_002929.2 180962 181234 R Similar to Rhizobium meliloti hypothetical/unknown transmembrane protein Smc03794 TR:CAC47756 (EMBL:AL591793) (83 aa) fasta scores: E(): 4.5, 30.488% id in 82 aa; hypothetical protein complement(180962..181234) Bordetella pertussis Tohama I 2664334 NP_879072.1 CDS BP0182 NC_002929.2 181333 182421 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3481 TR:Q9HYC8 (EMBL:AE004769) (364 aa) fasta scores: E(): 6.1e-63, 54.270% id in 363 aa, and to Xylella fastidiosa polysaccharide export protein Xf2301 TR:Q9PB44 (EMBL:AE004041) (303 aa) fasta scores: E(): 3.8e-62, 67.424% id in 264 aa. Also similar to BP1467, 60.000% identity (60.167% ungapped) in 360 aa overlap.; iron sulfur binding protein 181333..182421 Bordetella pertussis Tohama I 2664282 NP_879073.1 CDS BP0183 NC_002929.2 182425 184329 D Similar to Xanthomonas oryzae pvoryzae outer membrane protein TR:Q9EY32 (EMBL:AY010120) (593 aa) fasta scores: E(): 8.2e-16, 24.540% id in 652 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2543 TR:Q9I0U1 (EMBL:AE004682) (579 aa) fasta scores: E(): 9.1e-13, 24.342% id in 608 aa; hypothetical protein 182425..184329 Bordetella pertussis Tohama I 2664065 NP_879074.1 CDS BP0184 NC_002929.2 184326 188024 D Similar to Neisseria meningitidis periplasmic protein Nma0295 TR:Q9JWM6 (EMBL:AL162752) (1371 aa) fasta scores: E(): 1.4e-18, 23.644% id in 1383 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2542 TR:Q9I0U2 (EMBL:AE004682) (1221 aa) fasta scores: E(): 7.2e-14, 27.344% id in 1280 aa; hypothetical protein 184326..188024 Bordetella pertussis Tohama I 2664179 NP_879075.1 CDS dcd NC_002929.2 188085 188648 D Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis; deoxycytidine triphosphate deaminase 188085..188648 Bordetella pertussis Tohama I 2664838 NP_879076.1 CDS BP0186 NC_002929.2 188656 189078 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0803 TR:Q9I5D5 (EMBL:AE004515) (146 aa) fasta scores: E(): 1.4e-32, 61.111% id in 144 aa, and to Rhizobium loti Mlr1197 protein TR:Q98L34 (EMBL:AP002996) (137 aa) fasta scores: E(): 3.1e-19, 44.203% id in 138 aa; hypothetical protein complement(188656..189078) Bordetella pertussis Tohama I 2665394 NP_879077.1 CDS BP0187 NC_002929.2 189106 189525 R Similar to Streptomyces coelicolor lyase Sci7.11C TR:Q9X9X9 (EMBL:AL096743) (130 aa) fasta scores: E(): 0.0041, 33.846% id in 130 aa, and to Streptomyces sp daunomycin C-14 hydroxylase TR:Q55078 (EMBL:U50973) (275 aa) fasta scores: E(): 0.015, 29.851% id in 134 aa; lyase complement(189106..189525) Bordetella pertussis Tohama I 2667701 NP_879078.1 CDS BP0189 NC_002929.2 190127 190624 D Similar to the C-terminal regions of Deinococcus radiodurans conserved hypothetical protein Dr0535 TR:Q9RWY0 (EMBL:AE001911) (825 aa) fasta scores: E(): 1.1, 29.762% id in 168 aa, and to Neisseria meningitidis alanyl-tRNA synthetase Nmb1595 TR:Q9JYG6 (EMBL:AE002510) (874 aa) fasta scores: E(): 1.2, 27.273% id in 154 aa; hypothetical protein 190127..190624 Bordetella pertussis Tohama I 2664018 NP_879079.1 CDS BP0190 NC_002929.2 190779 193049 D Similar to Escherichia coli biodegradative arginine decarboxylase AdiA or Adi or B4117 SW:ADIA_ECOLI (P28629) (755 aa) fasta scores: E(): 4.9e-69, 38.070% id in 767 aa, and to Pseudomonas aeruginosa probable orn/arg/lys decarboxylase Pa1818 TR:Q9I2S7 (EMBL:AE004608) (751 aa) fasta scores: E(): 3.1e-150, 49.340% id in 758 aa; Orn/Arg/Lys decarboxylase 190779..193049 Bordetella pertussis Tohama I 2664019 NP_879080.1 CDS BP0191 NC_002929.2 193098 194330 D Similar to Rhizobium meliloti conserved hypothetical protein Smc00763 TR:CAC45279 (EMBL:AL591784) (394 aa) fasta scores: E(): 4.8e-59, 57.431% id in 397 aa, and to Haemophilus influenzae hypothetical protein Hi0933 SW:YHIN_HAEIN (P44941) (401 aa) fasta scores: E(): 5.7e-65, 44.444% id in 396 aa; hypothetical protein 193098..194330 Bordetella pertussis Tohama I 2664468 NP_879081.1 CDS BP0192 NC_002929.2 194429 195379 D transposase for IS481 element; transposase 194429..195379 Bordetella pertussis Tohama I 2664033 NP_879082.1 CDS sodA NC_002929.2 195482 196117 D Previously sequenced as Bordetella pertussis superoxide dismutase [Mn] SodA SW:SODM_BORPE (P53642) (211 aa) fasta scores: E(): 1.1e-85, 100.000% id in 211 aa, and similar to Pseudomonas putida superoxide dismutase [Mn] SodA SW:SODM_PSEPU (P77929) (203 aa) fasta scores: E(): 1.4e-58, 73.399% id in 203 aa. Also similar to BP2761, 40.201% identity (41.885% ungapped) in 199 aa overlap.; superoxide dismutase 195482..196117 Bordetella pertussis Tohama I 2664387 NP_879083.1 CDS BP0194 NC_002929.2 196114 197007 D Similar to Pseudomonas aeruginosa hypothetical protein Pa4467 TR:Q9HVV1 (EMBL:AE004860) (310 aa) fasta scores: E(): 2.5e-41, 54.864% id in 257 aa, and to Myxococcus xanthus GufA protein SW:GUFA_MYXXA (Q06916) (254 aa) fasta scores: E(): 2.1e-36, 49.412% id in 255 aa. Also similar to BP2140, 47.458% identity (47.782% ungapped) in 295 aa overlap.; metal transporter 196114..197007 Bordetella pertussis Tohama I 2664388 NP_879084.1 CDS gcvT NC_002929.2 197402 198502 D catalyzes the transfer of a methylene carbon from the methylamine-loaded GcvH protein to tetrahydrofolate, causing the release of ammonia and the generation of reduced GcvH protein; glycine cleavage system aminomethyltransferase T 197402..198502 Bordetella pertussis Tohama I 2664003 NP_879085.1 CDS gcvH NC_002929.2 198584 198958 D part of multienzyme complex composed of H, L, P, and T proteins which catalyzes oxidation of glycine to yield carbon dioxide, ammonia, 5,10-CH2-H4folate and a reduced pyridine nucleotide; protein H is involved in transfer of methylamine group from the P to T protein; covalently bound to a lipoyl cofactor; glycine cleavage system protein H 198584..198958 Bordetella pertussis Tohama I 2663988 NP_879086.1 CDS gcvP NC_002929.2 199018 201882 D acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; glycine dehydrogenase 199018..201882 Bordetella pertussis Tohama I 2664002 NP_879087.1 CDS BP0198 NC_002929.2 202027 202767 R Similar to Escherichia coli L-lactate dehydrogenase operon regulatory protein LldR or LctR or B3604 SW:LLDR_ECOLI (P33233) (258 aa) fasta scores: E(): 4.3e-12, 31.915% id in 235 aa, and to Streptomyces coelicolor GntR-family transcriptional regulator Scc24.13C TR:Q9L0A4 (EMBL:AL163003) (235 aa) fasta scores: E(): 4.3e-14, 34.222% id in 225 aa; GntR family transcriptional regulator complement(202027..202767) Bordetella pertussis Tohama I 2667698 NP_879088.1 CDS BP0199 NC_002929.2 202837 204048 D Similar to Rhizobium meliloti conserved membrane-anchored protein Smb21182 TR:CAC49248 (EMBL:AL603645) (394 aa) fasta scores: E(): 2e-56, 40.769% id in 390 aa, and to Sphingomonas aromaticivorans hypothetical 41.0 kDa protein TR:O86014 (EMBL:AF079317) (388 aa) fasta scores: E(): 8.9e-55, 41.732% id in 381 aa; hypothetical protein 202837..204048 Bordetella pertussis Tohama I 2664596 NP_879089.1 CDS BP0200 NC_002929.2 204077 205045 D Similar to Pseudomonas putida and Pseudomonas sp hypothetical 34.5 kDa protein in clcB-clcD intergenic region precursor SW:YCLC_PSEPU (Q47100) (329 aa) fasta scores: E(): 1.3e-33, 36.246% id in 309 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.8e-32, 34.663% id in 326 aa; hypothetical protein 204077..205045 Bordetella pertussis Tohama I 2664581 NP_879090.1 CDS BP0202 NC_002929.2 205659 206609 D transposase for IS481 element; transposase 205659..206609 Bordetella pertussis Tohama I 2664149 NP_879091.1 CDS BP0203 NC_002929.2 206729 207679 R transposase for IS481 element; transposase complement(206729..207679) Bordetella pertussis Tohama I 2665242 NP_879092.1 CDS BP0204 NC_002929.2 207794 208795 R Similar to Escherichia coli EcoVIII restriction endonuclease TR:Q46974 (EMBL:U48806) (333 aa) fasta scores: E(): 9.4e-22, 34.677% id in 248 aa, and to Haemophilus influenzae type II restriction enzyme HindIII or Hi1393 SW:T2D3_HAEIN (P43870) (300 aa) fasta scores: E(): 7.4e-20, 30.420% id in 286 aa; restriction endonuclease complement(207794..208795) Bordetella pertussis Tohama I 2665762 NP_879093.1 CDS BP0205 NC_002929.2 208886 209452 R Similar to the C-terminal regions of Thermus thermophilus nusA/infB operon DNA TR:Q56428 (EMBL:Z48001) (275 aa) fasta scores: E(): 0.00019, 39.583% id in 96 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4718 TR:Q9HV80 (EMBL:AE004885) (158 aa) fasta scores: E(): 0.00051, 33.962% id in 106 aa; hypothetical protein complement(208886..209452) Bordetella pertussis Tohama I 2665763 NP_879094.1 CDS thiC NC_002929.2 209771 211684 D required for the synthesis of the hydromethylpyrimidine moiety of thiamine; thiamine biosynthesis protein ThiC 209771..211684 Bordetella pertussis Tohama I 2665806 NP_879095.1 CDS BP0207 NC_002929.2 211726 213156 R Similar to Rhizobium meliloti aldehyde dehydrogenase Smb20891 TR:CAC49585 (EMBL:AL603646) (477 aa) fasta scores: E(): 5.1e-123, 68.697% id in 476 aa, and to Rhizobium loti aldehyde dehydrogenase Mlr5236 TR:Q98CA3 (EMBL:AP003006) (479 aa) fasta scores: E(): 1.8e-118, 67.230% id in 473 aa. Similar to several B. pertussis CDSs including BP0360 (44.025% identity in 477 aa overlap), BP2303, BP0757, BP1976.; aldehyde dehydrogenase complement(211726..213156) Bordetella pertussis Tohama I 2667559 NP_879096.1 CDS BP0208 NC_002929.2 213269 214681 R Similar to Rhizobium loti oxidoreductase Mlr7440 TR:Q986B0 (EMBL:AP003011) (476 aa) fasta scores: E(): 8.5e-78, 46.970% id in 462 aa, and to Rhizobium meliloti oxidoreductase Smc00985 TR:CAC45439 (EMBL:AL591785) (496 aa) fasta scores: E(): 1.5e-76, 44.255% id in 470 aa. Also similar to BP3139, 49.785% identity in 466 aa overlap.; oxidoreductase complement(213269..214681) Bordetella pertussis Tohama I 2664737 NP_879097.1 CDS BP0209 NC_002929.2 214698 215393 R Similar to Rhizobium meliloti GntR-family transcriptional regulator Sma0246 TR:AAK64788 (EMBL:AE007207) (233 aa) fasta scores: E(): 4e-20, 36.771% id in 223 aa, and to Rhizobium loti transcriptional regulator Mll8575 TR:Q982M5 (EMBL:AP003014) (247 aa) fasta scores: E(): 5.4e-19, 36.123% id in 227 aa; GntR family transcriptional regulator complement(214698..215393) Bordetella pertussis Tohama I 2664753 NP_879098.1 CDS BP0210 NC_002929.2 215612 216562 D transposase for IS481 element; transposase 215612..216562 Bordetella pertussis Tohama I 2664735 NP_879099.1 CDS BP0211 NC_002929.2 216661 217611 D transposase for IS481 element; transposase 216661..217611 Bordetella pertussis Tohama I 2664731 NP_879100.1 CDS BP0212 NC_002929.2 217636 218535 R Similar to Staphylococcus cohnii streptogramin B lactonase VgbB TR:O87275 (EMBL:AF015628) (295 aa) fasta scores: E(): 1.4e-42, 41.637% id in 281 aa, and to Streptomyces coelicolor hydrolase Scd6.27C TR:Q9KZX7 (EMBL:AL353815) (299 aa) fasta scores: E(): 3.6e-47, 46.875% id in 288 aa; hydrolase complement(217636..218535) Bordetella pertussis Tohama I 2664730 NP_879101.1 CDS BP0213 NC_002929.2 218690 219238 D Similar to Alcaligenes faecalis phosphinothricin N-acetyltransferase Pat SW:PAT_ALCFA (P31668) (197 aa) fasta scores: E(): 1.4e-35, 59.884% id in 172 aa, and to Caulobacter crescentus phosphinothricin N-acetyltransferase Cc0935 TR:Q9A9P1 (EMBL:AE005770) (180 aa) fasta scores: E(): 3.6e-32, 53.757% id in 173 aa; acetyltransferase 218690..219238 Bordetella pertussis Tohama I 2664733 NP_879102.1 CDS BP0214 NC_002929.2 219277 219996 R Similar to Caulobacter crescentus ExsB protein Cc3160 TR:Q9A3P2 (EMBL:AE005980) (242 aa) fasta scores: E(): 2.7e-64, 63.983% id in 236 aa, and to Rhizobium loti Mll5936 protein TR:Q98AM3 (EMBL:AP003007) (245 aa) fasta scores: E(): 8.9e-59, 60.606% id in 231 aa; hypothetical protein complement(219277..219996) Bordetella pertussis Tohama I 2664734 NP_879103.1 CDS ppc NC_002929.2 220068 223010 D catalyzes the formation of oxaloacetate from phosphoenolpyruvate; phosphoenolpyruvate carboxylase 220068..223010 Bordetella pertussis Tohama I 2664728 NP_879104.1 CDS sphB1 NC_002929.2 223601 226399 D Previously sequenced as Bordetella pertussis autotransporter subtilisin-like protease SphB1 TR:CAC44081 (EMBL:AJ318229) (1039 aa) fasta scores: E(): 0, 100.000% id in 932 aa, and dimilar to Xylella fastidiosa serine protease Xf1026 TR:Q9PEK2 (EMBL:AE003939) (905 aa) fasta scores: E(): 1.1e-45, 31.919% id in 943 aa; autotransporter subtilisin-like protease 223601..226399 Bordetella pertussis Tohama I 2664729 NP_879105.1 CDS BP0217 NC_002929.2 226857 227789 D converts (S)-3-hydroxybutanoyl-CoA to 3-acetoacetyl-CoA; 3-hydroxybutyryl-CoA dehydrogenase 226857..227789 Bordetella pertussis Tohama I 2664727 NP_879106.1 CDS BP0218 NC_002929.2 227901 229250 D Similar to Escherichia coli short-chain fatty acids transporter AtoE or B2223 SW:ATOE_ECOLI (P76460) (440 aa) fasta scores: E(): 1.4e-62, 39.636% id in 439 aa, and to Alcaligenes eutrophus hypothetical 47.8 kDa protein TR:Q9F189 (EMBL:AF042280) (446 aa) fasta scores: E(): 1.5e-125, 75.281% id in 445 aa. Also similar to BP0404, 44.988% identity (46.283% ungapped) in 429 aa overlap.; short-chain fatty acids transporter 227901..229250 Bordetella pertussis Tohama I 2664749 NP_879107.1 CDS BP0219 NC_002929.2 229282 230007 D Similar to Pseudomonas aeruginosa probable short-chain dehydrogenase Pa4162 TR:Q9HWL9 (EMBL:AE004832) (238 aa) fasta scores: E(): 3.1e-29, 45.887% id in 231 aa, and to Streptomyces coelicolor short chain oxidoreductase 2 Scg61.28C TR:Q9K3Y7 (EMBL:AL359949) (253 aa) fasta scores: E(): 1.8e-20, 42.324% id in 241 aa. Similar to BP3244 (49.153% identity in 236 aa overlap) and to BP1222 (44.726% identity in 237 aa overlap; short-chain dehydrogenase 229282..230007 Bordetella pertussis Tohama I 2664739 NP_879108.1 CDS BP0220 NC_002929.2 230058 230909 R Similar to Rhodococcus opacus PcaR TR:O67983 (EMBL:AF003947) (265 aa) fasta scores: E(): 1.2e-41, 50.602% id in 249 aa, and to Rhizobium meliloti transcriptional regulator, IclR family protein Smb20586 TR:CAC49898 (EMBL:AL603647) (251 aa) fasta scores: E(): 2.2e-39, 48.780% id in 246 aa; transcriptional regulator complement(230058..230909) Bordetella pertussis Tohama I 2664738 NP_879109.1 CDS catI NC_002929.2 231039 231725 D Similar to Pseudomonas putida 3-oxoadipate CoA-transferase subunit A PcaI SW:PCAI_PSEPU (Q01103) (231 aa) fasta scores: E(): 3.6e-59, 71.689% id in 219 aa, and to Acinetobacter calcoaceticus 3-oxoadipate CoA-transferase subunit A PcaI and CatI SW:PCAI_ACICA (Q43973) (228 aa) fasta scores: E(): 7.8e-54, 65.929% id in 226 aa. Also similar to BP1788 (50.228% identity in 219 aa overlap), and to BP2401 (48.684% identity in 228 aa overlap).; 3-oxoadipate CoA-transferase subunit A 231039..231725 Bordetella pertussis Tohama I 2664742 NP_879110.1 CDS catJ NC_002929.2 231725 232369 D Similar to Pseudomonas putida 3-oxoadipate CoA-transferase subunit B PcaJ SW:PCAJ_PSEPU (Q01104) (212 aa) fasta scores: E(): 1.9e-53, 66.190% id in 210 aa, and to Acinetobacter calcoaceticus 3-oxoadipate CoA-transferase subunit B PcaJ and CatJ SW:PCAJ_ACICA (Q59091) (218 aa) fasta scores: E(): 4.1e-50, 62.981% id in 208 aa. Also similar to BP1789 (50.472% identity in 212 aa overlap), and to BP2400 (49.268% identity in 205 aa overlap).; 3-oxoadipate CoA-transferase subunit B 231725..232369 Bordetella pertussis Tohama I 2664751 NP_879111.1 CDS catC2 NC_002929.2 232426 232701 D Similar to Alcaligenes eutrophus methylmuconolactone isomerase MmlJ TR:O51800 (EMBL:X99639) (91 aa) fasta scores: E(): 5.3e-23, 63.736% id in 91 aa, and to Acinetobacter lwoffii muconolactone delta-isomerase 2 CatC2 SW:CTC2_ACILW (O33951) (96 aa) fasta scores: E(): 1.7e-22, 63.736% id in 91 aa; methylmuconolactone isomerase 232426..232701 Bordetella pertussis Tohama I 2664752 NP_879112.1 CDS BP0224 NC_002929.2 232727 233023 D unknown function; YciI from Haemophilus influenzae presents crystal structure similarity to a muconolactone isomerase, but does not seem to catalyze any of the predicted reactions based on sequence and structure similarity; hypothetical protein 232727..233023 Bordetella pertussis Tohama I 2664755 NP_879113.1 CDS catD2 NC_002929.2 233069 233848 D Similar to Alcaligenes eutrophus 3-oxoadipate enol-lactone hydrolase CatD2 TR:Q9EV45 (EMBL:AF042280) (259 aa) fasta scores: E(): 4.2e-56, 58.915% id in 258 aa, and to Pseudomonas putida PcaD-like protein TR:Q9WWZ4 (EMBL:AF031417) (228 aa) fasta scores: E(): 1.1e-35, 45.778% id in 225 aa; 3-oxoadipate enol-lactone hydrolase 233069..233848 Bordetella pertussis Tohama I 2664747 NP_879114.1 CDS BP0226 NC_002929.2 233845 234894 D Similar to Streptomyces coelicolor hypothetical 34.1 kDa protein Scif3.09C TR:CAC37528 (EMBL:AL590982) (320 aa) fasta scores: E(): 1e-08, 33.529% id in 340 aa; hypothetical protein 233845..234894 Bordetella pertussis Tohama I 2664748 NP_879115.1 CDS psiF NC_002929.2 234999 235322 R Similar to Escherichia coli phosphate starvation-inducible protein PsiF precursor or B0384 SW:PSIF_ECOLI (P27295) (106 aa) fasta scores: E(): 0.00082, 51.220% id in 82 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4874 TR:Q9HUT9 (EMBL:AE004901) (138 aa) fasta scores: E(): 2.9e-11, 50.562% id in 89 aa; phosphate starvation-inducible protein complement(234999..235322) Bordetella pertussis Tohama I 2664743 NP_879116.1 CDS BP0228 NC_002929.2 235479 236429 R transposase for IS481 element; transposase complement(235479..236429) Bordetella pertussis Tohama I 2664744 NP_879117.1 CDS BP0229 NC_002929.2 236528 237325 R Similar to Pseudomonas putida beta-D-hydroxybutyrate dehydrogenase BdhA TR:Q9AE70 (EMBL:AJ310211) (256 aa) fasta scores: E(): 1.6e-35, 45.349% id in 258 aa, and to Pseudomonas SpGM101 beta-hydroxybutyrate dehydrogenase HbdH TR:Q9KH52 (EMBL:AF271714) (255 aa) fasta scores: E(): 2.1e-35, 45.736% id in 258 aa; beta-D-hydroxybutyrate dehydrogenase complement(236528..237325) Bordetella pertussis Tohama I 2664750 NP_879118.1 CDS pcaC NC_002929.2 238275 238685 D Similar to Acinetobacter calcoaceticus 4-carboxymuconolactone decarboxylase PcaC SW:DC4C_ACICA (P20370) (134 aa) fasta scores: E(): 1.2e-19, 43.333% id in 120 aa, and to Pseudomonas putida PcaC-like protein TR:Q9WWZ5 (EMBL:AF031417) (130 aa) fasta scores: E(): 2.7e-24, 55.556% id in 108 aa; 4-carboxymuconolactone decarboxylase 238275..238685 Bordetella pertussis Tohama I 2664746 NP_879119.1 CDS BP0233 NC_002929.2 239707 240450 R Similar to Rhizobium loti transcriptional regulator Mll6786 TR:Q988D5 (EMBL:AP003010) (223 aa) fasta scores: E(): 8.7e-21, 40.196% id in 204 aa, and to Deinococcus radiodurans transcriptional regulator, GntR family Dr0815 TR:Q9RW54 (EMBL:AE001936) (267 aa) fasta scores: E(): 2e-17, 38.839% id in 224 aa; GntR family transcriptional regulator complement(239707..240450) Bordetella pertussis Tohama I 2664736 NP_879120.1 CDS BP0234 NC_002929.2 240494 241537 R Similar to Rhodobacter capsulatus C4-dicarboxylate-binding periplasmic protein precursor DctP SW:DCTP_RHOCA (P37735) (333 aa) fasta scores: E(): 1.5e-08, 24.074% id in 324 aa, and to Rhizobium meliloti ABC transporter periplasmic solute-binding protein Smb20036 TR:CAC48439 (EMBL:AL603642) (338 aa) fasta scores: E(): 3.2e-09, 25.237% id in 317 aa; C4-dicarboxylate ABC transporter substrate-binding protein complement(240494..241537) Bordetella pertussis Tohama I 2664745 NP_879121.1 CDS BP0235 NC_002929.2 241708 243810 D Similar to Pasteurella multocida hypothetical protein Pm1708 TR:Q9CKB6 (EMBL:AE006207) (634 aa) fasta scores: E(): 7e-37, 27.192% id in 673 aa, and to Haemophilus influenzae hypothetical protein Hi0147 SW:Y147_HAEIN (P44543) (633 aa) fasta scores: E(): 4.2e-36, 27.769% id in 641 aa; hypothetical protein 241708..243810 Bordetella pertussis Tohama I 2664754 NP_879122.1 CDS BP0237 NC_002929.2 245221 246177 D Similar to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 5.4e-37, 39.048% id in 315 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.7e-39, 37.898% id in 314 aa; hypothetical protein 245221..246177 Bordetella pertussis Tohama I 2664117 NP_879123.1 CDS folK NC_002929.2 246196 246687 R Similar to Escherichia coli 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase FolK or B0142 SW:HPPK_ECOLI (P26281) (158 aa) fasta scores: E(): 3.4e-15, 38.854% id in 157 aa, and to Pseudomonas fluorescens 7,8-dihydro-6-hydroxymethylpterin -pyrophosphokinase FolK TR:Q9ZEP9 (EMBL:AJ130846) (133 aa) fasta scores: E(): 1.1e-17, 52.101% id in 119 aa; 2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase complement(246196..246687) Bordetella pertussis Tohama I 2664242 NP_879124.1 CDS pcnB NC_002929.2 246684 248039 R Similar to Escherichia coli poly(A) polymerase PcnB or B0143 SW:PCNB_ECOLI (P13685) (472 aa) fasta scores: E(): 6e-64, 43.596% id in 445 aa, and to Pseudomonas aeruginosa poly(A) polymerase PcnB or Pa4727 TR:Q9HV72 (EMBL:AE004886) (467 aa) fasta scores: E(): 7.2e-77, 48.802% id in 459 aa; poly(A) polymerase complement(246684..248039) Bordetella pertussis Tohama I 2664143 NP_879125.1 CDS BP0240 NC_002929.2 248040 248738 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0335 TR:Q9I6F6 (EMBL:AE004471) (217 aa) fasta scores: E(): 1e-33, 46.575% id in 219 aa, and to Neisseria meningitidis hypothetical protein Nma1278 TR:Q9JUK0 (EMBL:AL162755) (222 aa) fasta scores: E(): 2e-31, 41.629% id in 221 aa; hypothetical protein complement(248040..248738) Bordetella pertussis Tohama I 2664238 NP_879126.1 CDS BP0241 NC_002929.2 248735 249436 R Similar to Neisseria meningitidis hypothetical protein Nma1279 TR:Q9JUJ9 (EMBL:AL162755) (243 aa) fasta scores: E(): 1e-19, 35.470% id in 234 aa, and to Escherichia coli hypothetical protein yfge YfgE or B2496 or Z3759 or Ecs3358 SW:YFGE_ECOLI (P76570) (248 aa) fasta scores: E(): 6.5e-15, 33.906% id in 233 aa; DnaA regulatory inactivator Hda complement(248735..249436) Bordetella pertussis Tohama I 2664239 NP_879127.1 CDS purM NC_002929.2 249689 250738 D catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis; phosphoribosylaminoimidazole synthetase 249689..250738 Bordetella pertussis Tohama I 2663977 NP_879128.1 CDS miaA NC_002929.2 250844 251785 R 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; tRNA delta(2)-isopentenylpyrophosphate transferase complement(250844..251785) Bordetella pertussis Tohama I 2663978 NP_879129.1 CDS mutL NC_002929.2 251782 253671 R This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex; DNA mismatch repair protein complement(251782..253671) Bordetella pertussis Tohama I 2664116 NP_879130.1 CDS dedA NC_002929.2 253758 254396 D Similar to Escherichia coli Deda protein or B2317 or Z3579 or Ecs3201 SW:DEDA_ECOLI (P09548) (219 aa) fasta scores: E(): 6.7e-36, 51.485% id in 202 aa, and to Burkholderia mallei DedA TR:Q9AI54 (EMBL:AF285636) (226 aa) fasta scores: E(): 5.3e-51, 64.929% id in 211 aa; hypothetical protein 253758..254396 Bordetella pertussis Tohama I 2664127 NP_879131.1 CDS amiC NC_002929.2 254539 255783 R Similar to Escherichia coli N-acetylmuramoyl-L-alanine amidase AmiC precursor or B2817 SW:AMIC_ECOLI (Q46929) (417 aa) fasta scores: E(): 8.8e-41, 50.608% id in 411 aa, and to Pseudomonas aeruginosa N-acetylmuramoyl-L-alanine amidase AmiA or Pa5538 TR:Q9HT36 (EMBL:AE004966) (397 aa) fasta scores: E(): 1e-33, 41.667% id in 408 aa; N-acetylmuramoyl-L-alanine amidase complement(254539..255783) Bordetella pertussis Tohama I 2664107 NP_879132.1 CDS BP0247 NC_002929.2 255855 256391 R Similar to Escherichia coli hypothetical protein YjeE or B4168 or Z5775 or Ecs5144 SW:YJEE_ECOLI (P31805) (153 aa) fasta scores: E(): 1.6e-19, 44.218% id in 147 aa, and to Neisseria meningitidis hypothetical protein Nmb0457 TR:Q9K0V2 (EMBL:AE002401) (153 aa) fasta scores: E(): 8.7e-18, 44.375% id in 160 aa; hypothetical protein complement(255855..256391) Bordetella pertussis Tohama I 2664146 NP_879133.1 CDS fumC NC_002929.2 256543 257934 D class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle; fumarate hydratase 256543..257934 Bordetella pertussis Tohama I 2664150 NP_879134.1 CDS BP0249 NC_002929.2 257951 258931 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5466 TR:Q9HTA4 (EMBL:AE004959) (314 aa) fasta scores: E(): 1.1e-31, 43.189% id in 301 aa, and to Rhizobium meliloti hypothetical transmembrane protein Smc01358 TR:CAC45885 (EMBL:AL591786) (311 aa) fasta scores: E(): 3.2e-19, 31.922% id in 307 aa; hypothetical protein complement(257951..258931) Bordetella pertussis Tohama I 2664135 NP_879135.1 CDS BP0250 NC_002929.2 259067 260050 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.1e-49, 44.207% id in 328 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1.3e-40, 39.752% id in 322 aa.; hypothetical protein 259067..260050 Bordetella pertussis Tohama I 2664520 NP_879136.1 CDS BP0251 NC_002929.2 260115 261014 R Similar to Escherichia coli transcriptional activator protein LysR or B2839 SW:LYSR_ECOLI (P03030) (311 aa) fasta scores: E(): 5.5e-19, 32.155% id in 283 aa, and to Rhizobium loti transcriptional regulator Mlr7023 TR:Q987J8 (EMBL:AP003010) (301 aa) fasta scores: E(): 1.7e-21, 34.237% id in 295 aa; LysR family transcriptional regulator complement(260115..261014) Bordetella pertussis Tohama I 2664136 NP_879137.1 CDS ggt NC_002929.2 261121 262875 D Similar to Escherichia coli gamma-glutamyltranspeptidase precursor Ggt or B3447 SW:GGT_ECOLI (P18956) (580 aa) fasta scores: E(): 1.6e-52, 35.484% id in 589 aa, and to Vibrio cholerae gamma-glutamyltranspeptidase Vc0194 TR:Q9KVF2 (EMBL:AE004109) (588 aa) fasta scores: E(): 5e-98, 49.206% id in 567 aa; gamma-glutamyltranspeptidase 261121..262875 Bordetella pertussis Tohama I 2664101 NP_879138.1 CDS BP0253 NC_002929.2 262883 264007 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3592 TR:Q9HY34 (EMBL:AE004779) (395 aa) fasta scores: E(): 1.4e-94, 68.144% id in 361 aa, and to Rhizobium meliloti conserved membrane-anchored protein Smb21182 TR:CAC49248 (EMBL:AL603645) (394 aa) fasta scores: E(): 7.2e-57, 44.986% id in 369 aa; hypothetical protein complement(262883..264007) Bordetella pertussis Tohama I 2664140 NP_879139.1 CDS BP0254 NC_002929.2 264021 265001 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 5.2e-48, 45.122% id in 328 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 4.8e-44, 43.750% id in 320 aa.; hypothetical protein complement(264021..265001) Bordetella pertussis Tohama I 2664141 NP_879140.1 CDS BP0256 NC_002929.2 265732 266682 D transposase for IS481 element; transposase 265732..266682 Bordetella pertussis Tohama I 2664144 NP_879141.1 CDS BP0258 NC_002929.2 267242 267787 D Similar to Agrobacterium tumefaciens Agr_l_1535p TR:AAK89343 (EMBL:AE008274) (214 aa) fasta scores: E(): 7.4e-40, 62.941% id in 170 aa, and to Methanococcus jannaschii hypothetical protein Mj1563 SW:YF63_METJA (Q58958) (152 aa) fasta scores: E(): 2.8e-06, 30.935% id in 139 aa; hypothetical protein 267242..267787 Bordetella pertussis Tohama I 2664530 NP_879142.1 CDS cydA NC_002929.2 267871 269490 D Similar to Escherichia coli cytochrome D ubiquinol oxidase subunit I CydA or Cyd-1 or B0733 SW:CYDA_ECOLI (P11026) (522 aa) fasta scores: E(): 1.8e-121, 60.980% id in 510 aa, and to Vibrio cholerae cytochrome D ubiquinol oxidase subunit I Vc1844 TR:Q9KR03 (EMBL:AE004260) (541 aa) fasta scores: E(): 1.7e-122, 60.148% id in 542 aa; cytochrome D ubiquinol oxidase subunit I 267871..269490 Bordetella pertussis Tohama I 2664035 NP_879143.1 CDS cydB NC_002929.2 269506 270660 D Similar to Escherichia coli cytochrome D ubiquinol oxidase subunit II CydB or Cyd-2 or B0734 or Z0901 or Ecs0769 SW:CYDB_ECOLI (P11027) (379 aa) fasta scores: E(): 4.5e-71, 50.529% id in 378 aa, and to Brucella abortus cytochrome D oxidase subunit II CydB TR:Q9FDD0 (EMBL:AF284438) (384 aa) fasta scores: E(): 1.6e-78, 55.789% id in 380 aa.; cytochrome D ubiquinol oxidase subunit II 269506..270660 Bordetella pertussis Tohama I 2664111 NP_879144.1 CDS BP0261 NC_002929.2 270674 270799 D Similar to Escherichia coli protein YbgT or B0734.1 SW:YBGT_ECOLI (P56100) (37 aa) fasta scores: E(): 0.00014, 56.250% id in 32 aa, and to Vibrio cholerae hypothetical protein Vc1842 TR:Q9KR05 (EMBL:AE004260) (35 aa) fasta scores: E(): 1.3e-07, 63.636% id in 33 aa; hypothetical protein 270674..270799 Bordetella pertussis Tohama I 2664102 NP_879145.1 CDS BP0262 NC_002929.2 270796 272547 D Similar to Escherichia coli transport ATP-binding protein CydD or HtrD or B0887 SW:CYDD_ECOLI (P29018) (588 aa) fasta scores: E(): 1.9e-57, 38.529% id in 571 aa, and to Shewanella sp barophilic bacterium DNA for pressure regulated cluster CydD TR:P96012 (EMBL:D88785) (601 aa) fasta scores: E(): 7.7e-53, 37.367% id in 562 aa; ABC transporter ATP-binding protein 270796..272547 Bordetella pertussis Tohama I 2664103 NP_879146.1 CDS BP0263 NC_002929.2 272544 274223 D Similar to Escherichia coli transport ATP-binding protein CydC or MdrA or MdrH or SurB or B0886 SW:CYDC_ECOLI (P23886) (573 aa) fasta scores: E(): 5.4e-45, 34.535% id in 527 aa, and to Vibrio cholerae transport ATP-binding protein CydC or Vc1180 TR:Q9KSS6 (EMBL:AE004198) (573 aa) fasta scores: E(): 1.3e-48, 35.818% id in 550 aa; ABC transporter ATP-binding protein 272544..274223 Bordetella pertussis Tohama I 2664240 NP_879147.1 CDS apt NC_002929.2 274286 274834 D catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis; adenine phosphoribosyltransferase 274286..274834 Bordetella pertussis Tohama I 2664110 NP_879148.1 CDS BP0266 NC_002929.2 275977 276255 D no significant database matches. Similar to BP1766, BP2719, BP3099, BP3683, and BP3731; hypothetical protein 275977..276255 Bordetella pertussis Tohama I 2663987 NP_879149.1 CDS BP0268 NC_002929.2 277299 278249 R transposase for IS481 element; transposase complement(277299..278249) Bordetella pertussis Tohama I 2664044 NP_879150.1 CDS BP0270 NC_002929.2 278527 278688 D no significant database matches; hypothetical protein 278527..278688 Bordetella pertussis Tohama I 2664043 NP_879151.1 CDS BP0271 NC_002929.2 278696 278836 D no significant database matches; hypothetical protein 278696..278836 Bordetella pertussis Tohama I 2664505 NP_879153.1 CDS sspB NC_002929.2 279355 279804 R Similar to Escherichia coli stringent starvation protein B SspB or B3228 or Z4586 or Ecs4101 SW:SSPB_ECOLI (P25663) (165 aa) fasta scores: E(): 9.6e-13, 40.845% id in 142 aa, and to Neisseria meningitidis stringent starvation protein B Nmb1952 TR:Q9JXN9 (EMBL:AE002543) (130 aa) fasta scores: E(): 9.6e-19, 50.407% id in 123 aa; ClpXP protease specificity-enhancing factor complement(279355..279804) Bordetella pertussis Tohama I 2664014 NP_879154.1 CDS sspA NC_002929.2 279814 280425 R Similar to Escherichia coli stringent starvation protein A SspA or Ssp or Pog or B3229 SW:SSPA_ECOLI (P05838) (211 aa) fasta scores: E(): 5.4e-29, 42.857% id in 203 aa, and to Neisseria meningitidis stringent starvation protein A Nmb1953 TR:Q9JXN8 (EMBL:AE002543) (201 aa) fasta scores: E(): 1.4e-56, 70.443% id in 203 aa; stringent starvation protein A complement(279814..280425) Bordetella pertussis Tohama I 2664015 NP_879155.1 CDS petC NC_002929.2 280584 281432 R Similar to Chromatium vinosum cytochrome C1 precursor PetC SW:CY1_CHRVI (O31216) (244 aa) fasta scores: E(): 2.7e-26, 41.637% id in 281 aa, and to Neisseria meningitidis ubiquinol--cytochrome C reductase, cytochrome C1 Nmb2051 TR:Q9JXH1 (EMBL:AE002555) (266 aa) fasta scores: E(): 6.6e-32, 42.908% id in 282 aa; cytochrome C1 precursor complement(280584..281432) Bordetella pertussis Tohama I 2664048 NP_879156.1 CDS petB NC_002929.2 281458 282840 R Similar to Rhodocyclus gelatinosus cytochrome B PetB TR:AAK55422 (EMBL:AF380164) (423 aa) fasta scores: E(): 5.3e-99, 70.824% id in 449 aa, and to Neisseria meningitidis cytochrome B CytB or Petb or Nma0384 TR:Q9JWG5 (EMBL:AL162753) (449 aa) fasta scores: E(): 6.1e-92, 58.747% id in 463 aa; cytochrome B complement(281458..282840) Bordetella pertussis Tohama I 2664496 NP_879157.1 CDS petA NC_002929.2 282905 283546 R Similar to Chromatium vinosum ubiquinol-cytochrome C reductase iron-sulfur subunit PetA SW:UCRI_CHRVI (O31214) (207 aa) fasta scores: E(): 6.6e-34, 51.613% id in 186 aa, and to Rhodocyclus gelatinosus rieske protein PetA TR:AAK55421 (EMBL:AF380164) (198 aa) fasta scores: E(): 8.4e-50, 65.979% id in 194 aa; ubiquinol-cytochrome C reductase iron-sulfur subunit complement(282905..283546) Bordetella pertussis Tohama I 2664099 NP_879158.1 CDS mscL NC_002929.2 283686 284144 D homopentamer; channel that opens in response to pressure or hypoosmotic shock; large-conductance mechanosensitive channel 283686..284144 Bordetella pertussis Tohama I 2667692 NP_879159.1 CDS BP0279 NC_002929.2 284169 284945 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4445 TR:Q9HVX2 (EMBL:AE004859) (252 aa) fasta scores: E(): 8.6e-49, 53.516% id in 256 aa, and to Neisseria meningitidis hypothetical protein Nma0382 SW:Y382_NEIMA (Q9JWG6) (249 aa) fasta scores: E(): 6.7e-46, 50.996% id in 251 aa; hypothetical protein complement(284169..284945) Bordetella pertussis Tohama I 2664187 NP_879160.1 CDS degQ NC_002929.2 284999 286135 D Similar to Escherichia coli protease DegQ precursor or HhoA or B3234 SW:DEGQ_ECOLI (P39099) (455 aa) fasta scores: E(): 1.6e-38, 41.642% id in 341 aa, and to Pseudomonas aeruginosa AlgW protein or Pa4446 TR:Q9HVX1 (EMBL:AE004859) (389 aa) fasta scores: E(): 5.9e-58, 51.862% id in 376 aa; protease 284999..286135 Bordetella pertussis Tohama I 2664034 NP_879161.1 CDS BP0281 NC_002929.2 286132 287082 R transposase for IS481 element; transposase complement(286132..287082) Bordetella pertussis Tohama I 2663976 NP_879162.1 CDS BP0282 NC_002929.2 287181 287807 R Similar to Bacillus subtilis protease synthase and sporulation negative regulatory protein Pai2 PaiB SW:PAIB_BACSU (P21341) (207 aa) fasta scores: E(): 3.2e-17, 30.476% id in 210 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4182 TR:Q9HWJ9 (EMBL:AE004834) (212 aa) fasta scores: E(): 3.6e-27, 41.237% id in 194 aa; regulatory protein complement(287181..287807) Bordetella pertussis Tohama I 2664114 NP_879163.1 CDS BP0283 NC_002929.2 287830 288756 R Similar to Escherichia coli 2-hydroxyacid dehydrogenase in phoH-csgG intergenic region YcdW or B1033 SW:YCDW_ECOLI (P75913) (325 aa) fasta scores: E(): 2.7e-30, 36.364% id in 297 aa, and to Rhizobium loti probable dehydrogenase Mll7048 TR:Q987H7 (EMBL:AP003010) (307 aa) fasta scores: E(): 1.1e-35, 42.391% id in 276 aa; 2-hydroxyacid dehydrogenase complement(287830..288756) Bordetella pertussis Tohama I 2664121 NP_879164.1 CDS BP0284 NC_002929.2 288765 290351 R Similar to Rhizobium meliloti probable extracellular solute-binding protein, family 5 Sma2075 TR:AAK65791 (EMBL:AE007299) (543 aa) fasta scores: E(): 2e-63, 36.364% id in 539 aa, and to Rhizobium loti ABC transporter oligopeptide-binding protein Mlr3395 TR:Q98GC1 (EMBL:AP003001) (536 aa) fasta scores: E(): 8e-52, 33.594% id in 512 aa. Also similar to BP2293, 59.693% identity in 521 aa overlap.; extracellular solute-binding protein complement(288765..290351) Bordetella pertussis Tohama I 2664122 NP_879165.1 CDS BP0285 NC_002929.2 290348 291352 R Similar to Escherichia coli acetyl esterase Aes or B0476 SW:AES_ECOLI (P23872) (319 aa) fasta scores: E(): 2.7e-29, 35.032% id in 314 aa, and to Streptomyces coelicolor lipase Sc4b10.32 TR:Q9FC55 (EMBL:AL391515) (316 aa) fasta scores: E(): 2.6e-28, 36.760% id in 321 aa; acetyl esterase complement(290348..291352) Bordetella pertussis Tohama I 2664137 NP_879166.1 CDS BP0286 NC_002929.2 291552 292412 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa0791 TR:Q9I5E7 (EMBL:AE004514) (262 aa) fasta scores: E(): 1.2e-37, 44.898% id in 245 aa, and to Rhizobium loti probable transcriptional regulator Mll2686 TR:Q98HW2 (EMBL:AP003000) (292 aa) fasta scores: E(): 2.3e-36, 43.902% id in 246 aa. Also similar to BP0288 (40.840% identity in 262 aa overlap), and to BP3550 (41.121% identity in 214 aa overlap); transcriptional regulator 291552..292412 Bordetella pertussis Tohama I 2664138 NP_879167.1 CDS leuA NC_002929.2 292444 293445 R Similar to Corynebacterium glutamicum 2-isopropylmalate synthase LeuA SW:LEU1_CORGL (P42455) (616 aa) fasta scores: E(): 8.9e-69, 55.077% id in 325 aa, and to Mycobacterium tuberculosis 2-isopropylmalate synthase LeuA or Rv3710 or Mt3813 or Mtv025.058 SW:LEU1_MYCTU (P96420) (644 aa) fasta scores: E(): 3.1e-73, 58.154% id in 325 aa. Also similar to N-terminal region of BP0131, 68.598% identity (68.598% ungapped) in 328 aa overlap.; hypothetical protein complement(292444..293445) Bordetella pertussis Tohama I 2664237 NP_879168.1 CDS BP0288 NC_002929.2 293516 294325 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa1235 TR:Q9I4A3 (EMBL:AE004553) (260 aa) fasta scores: E(): 1.1e-46, 52.697% id in 241 aa, and to Rhizobium loti probable transcriptional regulator Mll2686 TR:Q98HW2 (EMBL:AP003000) (292 aa) fasta scores: E(): 3.4e-35, 40.927% id in 259 aa; transcriptional regulator 293516..294325 Bordetella pertussis Tohama I 2664128 NP_879169.1 CDS ilvD NC_002929.2 294403 296262 D catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis; dihydroxy-acid dehydratase 294403..296262 Bordetella pertussis Tohama I 2664109 NP_879170.1 CDS BP0290 NC_002929.2 296391 297593 R Similar to Rhizobium loti transmembrane efflux protein Mlr4084 TR:Q98EU2 (EMBL:AP003003) (397 aa) fasta scores: E(): 8.6e-82, 64.987% id in 397 aa, and to Streptomyces coelicolor transmembrane efflux protein Sch24.37 TR:Q9X8V1 (EMBL:AL049826) (404 aa) fasta scores: E(): 2e-71, 56.566% id in 396 aa. Also similar to BP0940 (36.896% identity in 393 aa overlap), and to BP1608 (48.947% identity in 380 aa overlap); transporter complement(296391..297593) Bordetella pertussis Tohama I 2664105 NP_879171.1 CDS BP0291 NC_002929.2 297707 298588 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa1859 TR:Q9I2N6 (EMBL:AE004612) (295 aa) fasta scores: E(): 7e-66, 59.386% id in 293 aa, and to Neisseria meningitidis LysR-family transcriptional regulator Nma0601 TR:Q9JW03 (EMBL:AL162753) (299 aa) fasta scores: E(): 7.2e-46, 45.392% id in 293 aa. Also similar to BP1607, 58.703% identity (58.703% ungapped) in 293 aa overlap.; LysR family transcriptional regulator 297707..298588 Bordetella pertussis Tohama I 2664104 NP_879172.1 CDS BP0294 NC_002929.2 300091 300651 R Similar to Homo sapiens mitochondrial 5' Dnt-2 TR:Q9NPB1 (EMBL:AJ277557) (228 aa) fasta scores: E(): 4.3e-26, 44.865% id in 185 aa, and to Mus musculus 5' Dnt or Nt TR:Q9JM14 (EMBL:AF078840) (200 aa) fasta scores: E(): 5.1e-26, 42.162% id in 185 aa, and to Staphylococcus aureus subspaureus Mu50. conserved hypothetical protein sav0725 TR:BAB56887 (EMBL:AP003360) (180 aa) fasta scores: E(): 1.4e-05, 29.609% id in 179 aa; 5'(3')-deoxyribonucleotidase complement(300091..300651) Bordetella pertussis Tohama I 2664148 NP_879173.1 CDS BP0295 NC_002929.2 300711 301661 R transposase for IS481 element; transposase complement(300711..301661) Bordetella pertussis Tohama I 2664502 NP_879175.1 CDS BP0297 NC_002929.2 302229 303179 D transposase for IS481 element; transposase 302229..303179 Bordetella pertussis Tohama I 2663979 NP_879176.1 CDS BP0298 NC_002929.2 303176 304174 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2789 TR:Q9I054 (EMBL:AE004706) (359 aa) fasta scores: E(): 6.5e-06, 33.134% id in 335 aa, and to Agrobacterium tumefaciens Agr_l_258p TR:AAK88699 (EMBL:AE008210) (357 aa) fasta scores: E(): 0.042, 26.897% id in 290 aa; hypothetical protein complement(303176..304174) Bordetella pertussis Tohama I 2663962 NP_879177.1 CDS BP0299 NC_002929.2 304217 304720 R Similar to Rhodopseudomonas palustris transcriptional activatory protein BadR SW:BADR_RHOPA (O07458) (175 aa) fasta scores: E(): 7.3e-06, 28.873% id in 142 aa, and to Rhizobium loti transcriptional regulator Mll5432 TR:Q98BT7 (EMBL:AP003006) (156 aa) fasta scores: E(): 6.6e-22, 48.905% id in 137 aa; MarR family transcriptional regulator complement(304217..304720) Bordetella pertussis Tohama I 2663963 NP_879178.1 CDS BP0300 NC_002929.2 304724 305614 R Similar to Pseudomonas paucimobilis esterase TR:Q9APE2 (EMBL:AF305841) (284 aa) fasta scores: E(): 4.4e-12, 28.058% id in 278 aa, and to Pseudomonas spCA10. hypothetical 31.6 kDa protein TR:Q9AQQ0 (EMBL:AB047272) (289 aa) fasta scores: E(): 2.2e-63, 58.845% id in 277 aa; esterase complement(304724..305614) Bordetella pertussis Tohama I 2664377 NP_879179.1 CDS BP0301 NC_002929.2 305837 307000 D Similar to Rhodopseudomonas palustris ABC transporter substrate-binding protein HbaE TR:O07470 (EMBL:U75364) (392 aa) fasta scores: E(): 4.5e-32, 32.741% id in 394 aa, and to Pseudomonas spCA10. ABC transporter subunit TR:Q9AQP4 (EMBL:AB047548) (386 aa) fasta scores: E(): 1.7e-50, 41.237% id in 388 aa; ABC transporter substrate-binding protein 305837..307000 Bordetella pertussis Tohama I 2664378 NP_879180.1 CDS BP0302 NC_002929.2 307097 308017 D Similar to Rhodopseudomonas palustris ABC transporter subunit HbaF TR:O07469 (EMBL:U75364) (286 aa) fasta scores: E(): 1.9e-34, 45.333% id in 300 aa, and to Rhizobium meliloti permease ABC transporter protein smc03118 TR:CAC47554 (EMBL:AL591792) (295 aa) fasta scores: E(): 1.9e-22, 35.593% id in 295 aa; branched chain amino acid ABC transporter permease 307097..308017 Bordetella pertussis Tohama I 2663993 NP_879181.1 CDS BP0303 NC_002929.2 308021 308986 D Similar to Rhizobium meliloti permease ABC transporter protein Smc03117 TR:CAC47555 (EMBL:AL591792) (330 aa) fasta scores: E(): 4.2e-27, 39.000% id in 300 aa, and to Agrobacterium tumefaciens Agr_l_1453p TR:AAK89305 (EMBL:AE008271) (335 aa) fasta scores: E(): 4.9e-28, 38.658% id in 313 aa; branched chain amino acid ABC transporter permease 308021..308986 Bordetella pertussis Tohama I 2663992 NP_879182.1 CDS BP0304 NC_002929.2 308983 309777 D Similar to Streptomyces coelicolor branched-chain amino acid transport ATP-binding protein Scf42.19C TR:Q9L2J9 (EMBL:AL137165) (266 aa) fasta scores: E(): 9.1e-30, 43.243% id in 259 aa, and to Rhizobium meliloti branched-chain amino acid uptake ABC transporter ATP-binding protein Smb20785 TR:CAC49877 (EMBL:AL603647) (254 aa) fasta scores: E(): 1.8e-26, 41.057% id in 246 aa; branched-chain amino acid transporter ATP-binding protein 308983..309777 Bordetella pertussis Tohama I 2663991 NP_879183.1 CDS BP0305 NC_002929.2 309771 310475 D Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivF or B3454 SW:LIVF_ECOLI (P22731) (237 aa) fasta scores: E(): 7.5e-27, 44.915% id in 236 aa, and to Alcaligenes eutrophus TR:P95538 (EMBL:D64144) (240 aa) fasta scores: E(): 7e-54, 67.521% id in 234 aa; high-affinity branched-chain amino acid transporter ATP-binding protein 309771..310475 Bordetella pertussis Tohama I 2664463 NP_879184.1 CDS BP0309 NC_002929.2 313839 314702 D Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 313839..314702 Bordetella pertussis Tohama I 2664145 NP_879185.1 CDS BP0310 NC_002929.2 314705 315874 D Similar to Azoarcus evansii acyl-CoA dehydrogenase TR:AAL02066 (EMBL:AF320253) (404 aa) fasta scores: E(): 2.7e-99, 71.318% id in 387 aa, and to Thauera aromatica acyl-CoA dehydrogenase TR:Q9AJS9 (EMBL:AJ278289) (388 aa) fasta scores: E(): 3e-95, 67.700% id in 387 aa; acyl-CoA dehydrogenase 314705..315874 Bordetella pertussis Tohama I 2664454 NP_879186.1 CDS BP0311 NC_002929.2 315915 317564 D Similar to Rhodopseudomonas palustris benzoate-coenzyme A ligase BadA TR:Q59760 (EMBL:L42322) (521 aa) fasta scores: E(): 1.1e-49, 34.990% id in 523 aa, and to Azoarcus evansii 2-aminobenzoate-CoA ligase TR:AAL02069 (EMBL:AF320253) (542 aa) fasta scores: E(): 5.2e-121, 58.165% id in 545 aa; acid-coenzyme A ligase 315915..317564 Bordetella pertussis Tohama I 2664317 NP_879187.1 CDS BP0312 NC_002929.2 317566 318000 D Similar to Pseudomonas SpdJ-12. 4-hydroxybenzoyl-CoA thioesterase FcbC TR:Q9RBQ8 (EMBL:AF051771) (142 aa) fasta scores: E(): 7.8e-07, 33.333% id in 132 aa, and to Bacillus halodurans 4-hydroxybenzoyl-CoA thioesterase Bh1999 TR:Q9KBC9 (EMBL:AP001514) (138 aa) fasta scores: E(): 3.8e-05, 26.772% id in 127 aa; 4-hydroxybenzoyl CoA thioesterase 317566..318000 Bordetella pertussis Tohama I 2664176 NP_879188.1 CDS BP0313 NC_002929.2 318025 318426 D Similar to Azoarcus evansii hypothetical 14.6 kDa protein TR:AAL02075 (EMBL:AF320254) (132 aa) fasta scores: E(): 3e-28, 55.303% id in 132 aa, and to Rhizobium loti Mll5429 protein TR:Q98BU0 (EMBL:AP003006) (137 aa) fasta scores: E(): 3.2e-31, 62.879% id in 132 aa; hypothetical protein 318025..318426 Bordetella pertussis Tohama I 2664177 NP_879189.1 CDS BP0314 NC_002929.2 318520 320145 R Similar to Vibrio cholerae hypothetical protein Vca1085 TR:Q9KKL8 (EMBL:AE004434) (556 aa) fasta scores: E(): 3.5e-23, 27.632% id in 456 aa, and to Thermotoga maritima conserved hypothetical protein Tm0735 TR:Q9WZJ4 (EMBL:AE001744) (455 aa) fasta scores: E(): 2.1e-13, 30.947% id in 475 aa; hypothetical protein complement(318520..320145) Bordetella pertussis Tohama I 2664167 NP_879190.1 CDS hemL NC_002929.2 320385 321668 R Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway; glutamate-1-semialdehyde aminotransferase complement(320385..321668) Bordetella pertussis Tohama I 2664168 NP_879191.1 CDS thiE NC_002929.2 321685 322338 R Condenses 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate to form thiamine monophosphate; thiamine-phosphate pyrophosphorylase complement(321685..322338) Bordetella pertussis Tohama I 2664389 NP_879192.1 CDS thiD NC_002929.2 322335 323183 R Similar to Escherichia coli phosphomethylpyrimidine kinase ThiD or B2103 SW:THID_ECOLI (P76422) (266 aa) fasta scores: E(): 0.0004, 24.255% id in 235 aa, and to Pseudomonas aeruginosa phosphomethylpyrimidine kinase ThiD or Pa3975 TR:Q9HX41 (EMBL:AE004815) (265 aa) fasta scores: E(): 3.6e-12, 31.298% id in 262 aa; phosphomethylpyrimidine kinase complement(322335..323183) Bordetella pertussis Tohama I 2664390 NP_879193.1 CDS rubA NC_002929.2 323300 323464 D Similar to Acinetobacter calcoaceticus rubredoxin RubA SW:RUBR_ACICA (P42453) (54 aa) fasta scores: E(): 1.2e-15, 55.556% id in 54 aa, and to Pseudomonas aeruginosa rubredoxin Pa5350 TR:Q9HTK8 (EMBL:AE004947) (55 aa) fasta scores: E(): 6.2e-16, 62.963% id in 54 aa; rubredoxin 323300..323464 Bordetella pertussis Tohama I 2664155 NP_879194.1 CDS BP0319 NC_002929.2 323552 324157 D Similar to Pseudomonas aeruginosa AlgH or Pa0405 TR:Q9RQ16 (EMBL:AF137022) (189 aa) fasta scores: E(): 2.9e-31, 49.730% id in 185 aa, and to Neisseria meningitidis hypothetical protein Nma1550 TR:Q9JU12 (EMBL:AL162756) (182 aa) fasta scores: E(): 7.6e-30, 43.407% id in 182 aa; hypothetical protein 323552..324157 Bordetella pertussis Tohama I 2664108 NP_879195.1 CDS BP0320 NC_002929.2 324150 324551 D similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function; Holliday junction resolvase-like protein 324150..324551 Bordetella pertussis Tohama I 2664112 NP_879196.1 CDS pyrB NC_002929.2 324565 325518 D catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis; aspartate carbamoyltransferase 324565..325518 Bordetella pertussis Tohama I 2664113 NP_879197.1 CDS pyrC NC_002929.2 325515 326690 D Catalyzes the reversible hydrolysis of the amide bond within dihydroorotate. This metabolic intermediate is required for the biosynthesis of pyrimidine nucleotides; dihydroorotase 325515..326690 Bordetella pertussis Tohama I 2664465 NP_879198.1 CDS BP0323 NC_002929.2 326810 327550 D Similar to Neisseria gonorrhoeae 1-acyl-sn-glycerol-3-phosphate acyltransferase PlsC SW:PLSC_NEIGO (Q59601) (255 aa) fasta scores: E(): 5.3e-21, 33.862% id in 189 aa, and to Burkholderia pseudomallei 1-acyl-sn-glycerol-3-phosphate acyltransferase PlsC TR:O69114 (EMBL:AF064070) (289 aa) fasta scores: E(): 6.4e-25, 34.694% id in 245 aa; acyltransferase 326810..327550 Bordetella pertussis Tohama I 2664466 NP_879199.1 CDS apaH NC_002929.2 327587 328420 R hydrolyzes P(1),P(4)-bis(5'-adenosyl) tetraphosphate to form 2 ADP; diadenosine tetraphosphatase complement(327587..328420) Bordetella pertussis Tohama I 2667709 NP_879200.1 CDS BP0325 NC_002929.2 328417 329595 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3827 TR:Q9HXH5 (EMBL:AE004800) (355 aa) fasta scores: E(): 3e-11, 28.212% id in 358 aa, and to Vibrio cholerae hypothetical protein Vc2499 TR:Q9KP76 (EMBL:AE004319) (356 aa) fasta scores: E(): 9.1e-10, 25.956% id in 366 aa; hypothetical protein complement(328417..329595) Bordetella pertussis Tohama I 2667710 NP_879201.1 CDS mtgA NC_002929.2 329692 330363 R glycosyltransferase; polymerizes glycan strands in the peptidoglycan; monofunctional biosynthetic peptidoglycan transglycosylase complement(329692..330363) Bordetella pertussis Tohama I 2667711 NP_879202.1 CDS BP0327 NC_002929.2 330543 331493 D transposase for IS481 element; transposase 330543..331493 Bordetella pertussis Tohama I 2664175 NP_879203.1 CDS BP0328 NC_002929.2 331490 331864 R Similar to Bacillus halodurans Bh0200 protein TR:Q9KGB0 (EMBL:AP001507) (107 aa) fasta scores: E(): 3.3, 30.108% id in 93 aa, and to the N-terminal region of Vibrio cholerae UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase Vc0918 TR:Q9KTI4 (EMBL:AE004175) (413 aa) fasta scores: E(): 8.2, 26.126% id in 111 aa. Also similar to BP0934, 48.598% identity (48.598% ungapped) in 107 aa overlap.; hypothetical protein complement(331490..331864) Bordetella pertussis Tohama I 2663964 NP_879204.1 CDS BP0329 NC_002929.2 331861 333540 R Similar to Pseudomonas diterpeniphila coenzyme A ligase TdtL TR:AAK95584 (EMBL:AF274704) (543 aa) fasta scores: E(): 3.2e-55, 36.813% id in 546 aa, and to Streptomyces griseus subspgriseus NonL TR:O85737 (EMBL:AF074603) (555 aa) fasta scores: E(): 4.4e-53, 35.754% id in 537 aa. Also similar to BP0930, 60.517% identity (61.308% ungapped) in 542 aa overlap.; coenzyme A ligase complement(331861..333540) Bordetella pertussis Tohama I 2663965 NP_879205.1 CDS BP0330 NC_002929.2 333550 334566 R Similar to Pseudomonas chlororaphis hypothetical 35.8 kDa protein TR:Q9L3W5 (EMBL:AJ271325) (336 aa) fasta scores: E(): 4e-24, 30.380% id in 316 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.3e-23, 31.288% id in 326 aa; hypothetical protein complement(333550..334566) Bordetella pertussis Tohama I 2664151 NP_879206.1 CDS BP0331 NC_002929.2 334579 334992 R Similar to Methanococcus jannaschii hypothetical protein Mj1552 TR:Q58947 (EMBL:U67596) (141 aa) fasta scores: E(): 4.3e-07, 36.842% id in 95 aa, and to Archaeoglobus fulgidus conserved hypothetical protein TR:O29957 (EMBL:AE001085) (165 aa) fasta scores: E(): 2.2e-06, 25.424% id in 118 aa. Also similar to BP0932, 50.400% identity (50.806% ungapped) in 125 aa overlap.; hypothetical protein complement(334579..334992) Bordetella pertussis Tohama I 2664152 NP_879207.1 CDS BP0332 NC_002929.2 334989 336185 R Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation; acetyl-CoA acetyltransferase complement(334989..336185) Bordetella pertussis Tohama I 2664467 NP_879208.1 CDS BP0333 NC_002929.2 336272 337156 R Similar to Alteromonas carrageenovora arylsulfatase precursor AtsA or Ats SW:ARS_ALTCA (P28607) (328 aa) fasta scores: E(): 8.2e-09, 27.541% id in 305 aa, and to Caulobacter crescentus metallo-beta-lactamase family protein Cc1176 TR:Q9A918 (EMBL:AE005795) (317 aa) fasta scores: E(): 6.4e-13, 29.097% id in 299 aa; metallo-beta-lactamase family protein complement(336272..337156) Bordetella pertussis Tohama I 2664125 NP_879209.1 CDS BP0334 NC_002929.2 337169 338164 R Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1.3e-37, 41.176% id in 323 aa, and to Pseudomonas putida hypothetical 34.5 kDa protein in clcB-clcD intergenic region precursor SW:YCLC_PSEPU (Q47100) (329 aa) fasta scores: E(): 8.8e-35, 38.816% id in 304 aa; hypothetical protein complement(337169..338164) Bordetella pertussis Tohama I 2664126 NP_879210.1 CDS BP0337 NC_002929.2 339852 340682 D Similar to Rhizobium meliloti hypothetical 34.3 kDa protein Sma0689 TR:AAK65023 (EMBL:AE007228) (316 aa) fasta scores: E(): 4.7e-14, 32.971% id in 276 aa; hypothetical protein 339852..340682 Bordetella pertussis Tohama I 2664477 NP_879211.1 CDS BP0338 NC_002929.2 340692 341834 R no significant database matches; hypothetical protein complement(340692..341834) Bordetella pertussis Tohama I 2667689 NP_879212.1 CDS ogt NC_002929.2 341929 342516 R Similar to Escherichia coli methylated-DNA--protein-cysteine methyltransferase Ogt or B1335 SW:OGT_ECOLI (P09168) (171 aa) fasta scores: E(): 1e-25, 42.857% id in 168 aa, and to Caulobacter crescentus methylated-DNA--protein-cysteine methyltransferase Cc0689 TR:Q9AAB5 (EMBL:AE005744) (220 aa) fasta scores: E(): 2.5e-30, 53.254% id in 169 aa; methylated-DNA--protein-cysteine methyltransferase complement(341929..342516) Bordetella pertussis Tohama I 2664472 NP_879213.1 CDS alkB NC_002929.2 342537 343187 R Similar to Escherichia coli alkylated DNA repair protein AlkB or AidD or B2212 SW:ALKB_ECOLI (P05050) (216 aa) fasta scores: E(): 9.4e-44, 56.808% id in 213 aa, and to Brucella melitensis AlkB TR:Q9LA70 (EMBL:AF148683) (212 aa) fasta scores: E(): 9.9e-47, 58.294% id in 211 aa; alkylated DNA repair protein complement(342537..343187) Bordetella pertussis Tohama I 2664473 NP_879214.1 CDS BP0341 NC_002929.2 343199 343921 R Similar to Rhizobium loti Mlr1862 protein TR:Q98JN4 (EMBL:AP002998) (247 aa) fasta scores: E(): 2.1e-59, 61.039% id in 231 aa, and to Caulobacter crescentus hypothetical protein Cc0708 TR:Q9AA98 (EMBL:AE005746) (234 aa) fasta scores: E(): 7.4e-54, 57.778% id in 225 aa; hypothetical protein complement(343199..343921) Bordetella pertussis Tohama I 2664474 NP_879215.1 CDS BP0342 NC_002929.2 344066 344566 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0312 TR:Q9I6H9 (EMBL:AE004469) (164 aa) fasta scores: E(): 5.4e-27, 58.182% id in 165 aa, and to Rhizobium loti Mll0105 protein TR:Q98NK1 (EMBL:AP002994) (167 aa) fasta scores: E(): 1.1e-26, 59.236% id in 157 aa; hypothetical protein 344066..344566 Bordetella pertussis Tohama I 2664475 NP_879216.1 CDS hmuV NC_002929.2 344570 345358 R with HmuTU is involved in the transport of hemin; hemin importer ATP-binding protein complement(344570..345358) Bordetella pertussis Tohama I 2664027 NP_879217.1 CDS bhuU NC_002929.2 345373 346308 R Similar to Yersinia enterocolitica hemin permease HemU TR:P74980 (EMBL:X77867) (334 aa) fasta scores: E(): 4.8e-47, 50.000% id in 286 aa, and to Yersinia pestis hemin transport system permease HmuU SW:HMUU_YERPE (Q56992) (334 aa) fasta scores: E(): 7.3e-47, 49.141% id in 291 aa. Also similar to BP3340, 40.256% identity (42.568% ungapped) in 313 aa overlap.; hemin permease complement(345373..346308) Bordetella pertussis Tohama I 2664478 NP_879218.1 CDS bhuT NC_002929.2 346361 347230 R Similar to Yersinia enterocolitica hemin binding protein HemT TR:P74979 (EMBL:X77867) (279 aa) fasta scores: E(): 8.2e-29, 37.638% id in 271 aa, and to Yersinia pestis hemin-binding periplasmic protein HmuT precursor SW:HMUT_YERPE (Q56991) (279 aa) fasta scores: E(): 9.4e-29, 37.638% id in 271 aa; hemin binding protein complement(346361..347230) Bordetella pertussis Tohama I 2664024 NP_879219.1 CDS bhuS NC_002929.2 347227 348273 R Similar to Yersinia pestis hemin transport protein HmuS SW:HMUS_YERPE (Q56990) (345 aa) fasta scores: E(): 1.1e-46, 42.486% id in 346 aa, and to Yersinia enterocolitica hemin transport protein HemS SW:HEMS_YEREN (P31517) (345 aa) fasta scores: E(): 1.2e-46, 43.413% id in 334 aa; hemin transport protein complement(347227..348273) Bordetella pertussis Tohama I 2664029 NP_879220.1 CDS bhuR NC_002929.2 348309 350846 R Previously sequenced as Bordetella pertussis outer membrane heme receptor BhuR TR:AAK38153 (EMBL:AY032627) (149 aa) fasta scores: E(): 2.7e-49, 100.000% id in 149 aa. Similar to Rhizobium meliloti iron transport protein Smc02726 TR:CAC46967 (EMBL:AL591790) (743 aa) fasta scores: E(): 4.6e-37, 37.630% id in 768 aa; outer membrane heme receptor complement(348309..350846) Bordetella pertussis Tohama I 2664030 NP_879221.1 CDS hurR NC_002929.2 351054 351971 R Similar to Escherichia coli protein FecR or B4292 SW:FECR_ECOLI (P23485) (317 aa) fasta scores: E(): 1e-22, 32.459% id in 305 aa, and to Pseudomonas aeruginosa probable transmembrane sensor Pa1911 TR:Q9I2J3 (EMBL:AE004617) (316 aa) fasta scores: E(): 2.4e-32, 41.118% id in 304 aa; heme uptake transmembrane sensor complement(351054..351971) Bordetella pertussis Tohama I 2663989 NP_879222.1 CDS hurI NC_002929.2 352007 352516 R Similar to Escherichia coli probable RNA polymerase sigma factor FecI or B4293 SW:FECI_ECOLI (P23484) (173 aa) fasta scores: E(): 1.2e-26, 50.649% id in 154 aa, and to Pseudomonas aeruginosa RNA polymerase sigma factor Pa1912 TR:Q9I2J2 (EMBL:AE004617) (168 aa) fasta scores: E(): 8.9e-31, 55.689% id in 167 aa. Also similar to BP1136, 46.875% identity in 160 aa overlap; heme uptake regulator complement(352007..352516) Bordetella pertussis Tohama I 2663990 NP_879223.1 CDS BP0350 NC_002929.2 352690 352860 R no significant database matches; hypothetical protein complement(352690..352860) Bordetella pertussis Tohama I 2664214 NP_879224.1 CDS BP0351 NC_002929.2 353195 353512 D Similar to Synechocystis sp ferredoxin PetF or Sll1382 TR:P74159 (EMBL:D90912) (122 aa) fasta scores: E(): 0.074, 28.125% id in 96 aa, and to Anabaena variabilis TR:AAL05047 (EMBL:AF410434) (99 aa) fasta scores: E(): 0.015, 30.526% id in 95 aa; ferredoxin 353195..353512 Bordetella pertussis Tohama I 2664215 NP_879225.1 CDS BP0352 NC_002929.2 353514 353813 D no significant database matches; hypothetical protein 353514..353813 Bordetella pertussis Tohama I 2663966 NP_879226.1 CDS BP0353 NC_002929.2 353832 354137 D Similar to Ralstonia spKN1 ferredoxin-like protein PhyF TR:Q9RAF3 (EMBL:AB031996) (115 aa) fasta scores: E(): 0.00015, 36.957% id in 92 aa, and to Pseudomonas putida ferredoxin, plant-type NahT SW:FERN_PSEPU (P23263) (108 aa) fasta scores: E(): 0.00022, 30.303% id in 99 aa; ferredoxin 353832..354137 Bordetella pertussis Tohama I 2663967 NP_879227.1 CDS BP0354 NC_002929.2 354148 355080 D Similar to Halobacterium sp ornithine cyclodeaminase Ocd2 or Vng1364G TR:Q9HQ24 (EMBL:AE005056) (328 aa) fasta scores: E(): 3.7e-18, 31.494% id in 308 aa, and to Rhizobium loti ornithine cyclodeaminase Ocd2 or Mlr3204 TR:Q98GR8 (EMBL:AP003001) (321 aa) fasta scores: E(): 5.4e-16, 33.127% id in 323 aa; ornithine cyclodeaminase 354148..355080 Bordetella pertussis Tohama I 2664320 NP_879228.1 CDS BP0355 NC_002929.2 355077 356027 R transposase for IS481 element; transposase complement(355077..356027) Bordetella pertussis Tohama I 2664401 NP_879229.1 CDS BP0356 NC_002929.2 356139 356861 R Similar to Rhizobium leguminosarum transcription activator MatR TR:Q9JP74 (EMBL:AF117694) (222 aa) fasta scores: E(): 9.1e-15, 37.824% id in 193 aa, and to Streptomyces coelicolor transcriptional regulator Sc4b5.15 TR:Q9ZBV3 (EMBL:AL034443) (225 aa) fasta scores: E(): 1.1e-17, 33.028% id in 218 aa. Also similar to BP2975, 56.034% identity (56.522% ungapped) in 232 aa overlap.; GntR family transcriptional regulator complement(356139..356861) Bordetella pertussis Tohama I 2664275 NP_879230.1 CDS BP0357 NC_002929.2 356960 357703 R Similar to Rhizobium meliloti hypothetical protein Sma1368 TR:AAK65408 (EMBL:AE007262) (241 aa) fasta scores: E(): 1e-21, 36.325% id in 234 aa, and to Vibrio cholerae hypothetical protein Vca1052 TR:Q9KKQ0 (EMBL:AE004431) (240 aa) fasta scores: E(): 2.8e-14, 28.507% id in 221 aa; hypothetical protein complement(356960..357703) Bordetella pertussis Tohama I 2664271 NP_879231.1 CDS BP0358 NC_002929.2 357934 359442 D Similar to Bacillus halodurans Bh2161 protein TR:Q9KAX5 (EMBL:AP001514) (477 aa) fasta scores: E(): 2.9e-34, 46.573% id in 496 aa, and to Bacillus subtilis hypothetical 48.8 kDa protein YhfA TR:O07599 (EMBL:Y14083) (463 aa) fasta scores: E(): 2.6e-16, 32.520% id in 492 aa. Also similar to BP2974, 65.139% identity (65.663% ungapped) in 502 aa overlap.; hypothetical protein 357934..359442 Bordetella pertussis Tohama I 2664192 NP_879232.1 CDS BP0359 NC_002929.2 359562 360293 D Similar to Chlamydia muridarum coenzyme pqq synthesis protein C Tc0900 TR:Q9PJC9 (EMBL:AE002356) (236 aa) fasta scores: E(): 2.5e-11, 28.729% id in 181 aa, and to Pseudomonas aeruginosa pyrroloquinoline quinone biosynthesis protein C Pqqc or Pa1987 TR:Q9I2C2 (EMBL:AE004625) (250 aa) fasta scores: E(): 2e-06, 28.638% id in 213 aa; hypothetical protein 359562..360293 Bordetella pertussis Tohama I 2664366 NP_879233.1 CDS BP0360 NC_002929.2 360338 361798 D Similar to Bacillus stearothermophilus aldehyde dehydrogenase, thermostable AldhT SW:DHAL_BACST (P42329) (488 aa) fasta scores: E(): 1.1e-77, 46.008% id in 476 aa, and to Bacillus subtilis probable aldehyde dehydrogenase YcbD SW:DHA1_BACSU (P42236) (488 aa) fasta scores: E(): 7.9e-77, 45.702% id in 477 aa; aldehyde dehydrogenase 360338..361798 Bordetella pertussis Tohama I 2664361 NP_879234.1 CDS BP0361 NC_002929.2 361823 362302 D Similar to Citrobacter freundii hypothetical 15.0 kDa protein in dhaT-dhaS intergenic region SW:YDHY_CITFR (P45517) (142 aa) fasta scores: E(): 4.1e-11, 33.803% id in 142 aa, and to Clostridium pasteurianum hypothetical 15.1 kDa protein TR:O30453 (EMBL:AF006034) (143 aa) fasta scores: E(): 5.6e-11, 36.957% id in 138 aa; hypothetical protein 361823..362302 Bordetella pertussis Tohama I 2667703 NP_879235.1 CDS BP0362 NC_002929.2 362321 363331 D Similar to Yersinia pseudotuberculosis CDP-6-deoxy-delta-3,4-glucoseen reductase AscD or RfbI SW:ASCD_YERPS (P37911) (328 aa) fasta scores: E(): 1.2e-35, 33.846% id in 325 aa, and to Yersinia pestis CDP-6-deoxy-delta-3,4-glucoseen reductase DdhD TR:CAB63270 (EMBL:AJ251713) (329 aa) fasta scores: E(): 4.9e-36, 33.739% id in 329 aa. Also similar to BP1817, 40.000% identity in 350 aa overlap; CDP-6-deoxy-delta-3,4-glucoseen reductase 362321..363331 Bordetella pertussis Tohama I 2667704 NP_879236.1 CDS BP0363 NC_002929.2 363546 364286 D Similar to Rhizobium loti probable binding protein component of amino acid ABC transporter Mlr2201 TR:Q98IX6 (EMBL:AP002999) (262 aa) fasta scores: E(): 0.0001, 29.104% id in 134 aa, and to Synechocystis sp hypothetical 30.6 kDa protein Sll0174 TR:Q55556 (EMBL:D63999) (284 aa) fasta scores: E(): 4.9e-29, 41.304% id in 230 aa; extracellular solute-binding protein 363546..364286 Bordetella pertussis Tohama I 2664094 NP_879237.1 CDS BP0364 NC_002929.2 364493 365467 D Similar to Rhizobium meliloti conserved hypothetical protein Smb20179 TR:CAC48579 (EMBL:AL603642) (324 aa) fasta scores: E(): 1.3e-14, 24.615% id in 325 aa, and to Rhizobium loti Mlr3473 protein TR:Q98G63 (EMBL:AP003002) (390 aa) fasta scores: E(): 6.7e-12, 30.864% id in 324 aa; hypothetical protein 364493..365467 Bordetella pertussis Tohama I 2664095 NP_879238.1 CDS BP0365 NC_002929.2 365464 366414 R transposase for IS481 element; transposase complement(365464..366414) Bordetella pertussis Tohama I 2664059 NP_879239.1 CDS BP0367 NC_002929.2 367463 368101 D Similar to Pseudomonas aeruginosa hypothetical protein Pa1037 TR:Q9I4T7 (EMBL:AE004536) (206 aa) fasta scores: E(): 1.7e-45, 60.294% id in 204 aa, and to Vibrio cholerae hypothetical protein Vc2115 TR:Q9KQ86 (EMBL:AE004285) (207 aa) fasta scores: E(): 3.4e-37, 51.515% id in 198 aa; hypothetical protein 367463..368101 Bordetella pertussis Tohama I 2664296 NP_879240.1 CDS gdhA NC_002929.2 368138 369481 R converts 2-oxoglutarate to glutamate; in Escherichia coli this enzyme plays a role in glutamate synthesis when the cell is under energy restriction; uses NADPH; forms a homohexamer; glutamate dehydrogenase complement(368138..369481) Bordetella pertussis Tohama I 2664297 NP_879241.1 CDS BP0369 NC_002929.2 369904 370692 R Similar to Neisseria meningitidis nuclease Nma0348 or Nmb2082 TR:Q9JR99 (EMBL:AL162752) (259 aa) fasta scores: E(): 5e-63, 56.705% id in 261 aa, and to Streptomyces coelicolor exodeoxyribonuclease Sce87.25C TR:Q9RKB3 (EMBL:AL132674) (274 aa) fasta scores: E(): 2.3e-48, 47.388% id in 268 aa; endonuclease complement(369904..370692) Bordetella pertussis Tohama I 2664397 NP_879242.1 CDS pyrE NC_002929.2 370830 371504 D involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate; orotate phosphoribosyltransferase 370830..371504 Bordetella pertussis Tohama I 2664399 NP_879243.1 CDS gatB NC_002929.2 371618 373072 R 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; aspartyl/glutamyl-tRNA amidotransferase subunit B complement(371618..373072) Bordetella pertussis Tohama I 2664723 NP_879244.1 CDS gatA NC_002929.2 373075 374613 R 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; aspartyl/glutamyl-tRNA amidotransferase subunit A complement(373075..374613) Bordetella pertussis Tohama I 2664191 NP_879245.1 CDS gatC NC_002929.2 374616 374924 R 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; aspartyl/glutamyl-tRNA amidotransferase subunit C complement(374616..374924) Bordetella pertussis Tohama I 2663974 NP_879246.1 CDS mreB NC_002929.2 375155 376198 D functions in MreBCD complex in some organisms; rod shape-determining protein MreB 375155..376198 Bordetella pertussis Tohama I 2663975 NP_879247.1 CDS mreC NC_002929.2 376287 377171 D 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; rod shape-determining protein MreC 376287..377171 Bordetella pertussis Tohama I 2664384 NP_879248.1 CDS mreD NC_002929.2 377257 377721 D Similar to Escherichia coli rod shape-determining protein MreD or B3249 or Z4607 or Ecs4121 SW:MRED_ECOLI (P16927) (162 aa) fasta scores: E(): 1.5e-06, 33.333% id in 117 aa, and to Pseudomonas aeruginosa rod shape-determining protein MreD or Pa4479 TR:Q9HVU2 (EMBL:AE004862) (164 aa) fasta scores: E(): 1.5e-09, 31.507% id in 146 aa; rod shape-determining protein 377257..377721 Bordetella pertussis Tohama I 2664385 NP_879249.1 CDS mrdA NC_002929.2 377735 379687 D Similar to Escherichia coli penicillin-binding protein 2 MrdA or PbpA or B0635 or Z0781 or Ecs0673 SW:PBP2_ECOLI (P08150) (633 aa) fasta scores: E(): 9.7e-85, 40.065% id in 614 aa, and to Pseudomonas aeruginosa penicillin-binding protein 2 PbpA or Pb or Pa4003 TR:Q9X6V3 (EMBL:AF147448) (646 aa) fasta scores: E(): 3.3e-93, 43.472% id in 651 aa; penicillin-binding protein 2 377735..379687 Bordetella pertussis Tohama I 2664521 NP_879250.1 CDS mrdB NC_002929.2 379684 380820 D Similar to Escherichia coli rod shape-determining protein MrdB or RodA or B0634 or Z0780 or Ecs0672 SW:RODA_ECOLI (P15035) (370 aa) fasta scores: E(): 5.6e-36, 45.278% id in 360 aa, and to Vibrio cholerae rod shape-determining protein RodA or Vc0949 TR:Q9KTF3 (EMBL:AE004177) (373 aa) fasta scores: E(): 1.3e-35, 48.753% id in 361 aa; rod shape-determining protein 379684..380820 Bordetella pertussis Tohama I 2664417 NP_879251.1 CDS ldh NC_002929.2 380846 381901 R Similar to Alcaligenes eutrophus L-lactate dehydrogenase Ldh SW:LDH_ALCEU (Q07251) (349 aa) fasta scores: E(): 1.4e-89, 66.097% id in 351 aa, and to Escherichia coli hypothetical 38.9 kDa protein in dinG-glnQ intergenic region YbiC or B0801 SW:YBIC_ECOLI (P30178) (361 aa) fasta scores: E(): 5.4e-36, 35.277% id in 343 aa; L-lactate dehydrogenase complement(380846..381901) Bordetella pertussis Tohama I 2664318 NP_879252.1 CDS BP0380 NC_002929.2 381912 383405 R Similar to Escherichia coli tartrate carrier YgjE or B3063 SW:TTDT_ECOLI (P39414) (487 aa) fasta scores: E(): 1.6e-25, 26.141% id in 482 aa, and to Alcaligenes eutrophus membrane protein SW:MEMP_ALCEU (Q07252) (513 aa) fasta scores: E(): 1.6e-127, 72.525% id in 495 aa; Sodium:sulfate symportert complement(381912..383405) Bordetella pertussis Tohama I 2664319 NP_879253.1 CDS slmA NC_002929.2 383618 384193 R FtsZ binding protein; synthetically lethal with a defect in the Min system; this protein is the first identified nucleoid occlusion factor which works along with the Min system to properly position the FtsZ ring assembly; nucleoid occlusion protein complement(383618..384193) Bordetella pertussis Tohama I 2664323 NP_879254.1 CDS BP0382 NC_002929.2 384243 384989 R Similar to Neisseria meningitidis hydrolase, Nmb0040 TR:Q9K1P1 (EMBL:AE002362) (237 aa) fasta scores: E(): 1e-20, 37.674% id in 215 aa, and to Rhizobium meliloti conserved hypothetical protein Smc01730 TR:CAC41872 (EMBL:AL591783) (258 aa) fasta scores: E(): 4.3e-20, 36.058% id in 208 aa; hydrolase complement(384243..384989) Bordetella pertussis Tohama I 2664367 NP_879255.1 CDS argB NC_002929.2 384989 385891 R catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate; acetylglutamate kinase complement(384989..385891) Bordetella pertussis Tohama I 2664344 NP_879256.1 CDS BP0385 NC_002929.2 386153 386941 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3931 TR:Q9HX85 (EMBL:AE004811) (259 aa) fasta scores: E(): 3.5e-62, 68.775% id in 253 aa, and to Xylella fastidiosa outer membrane protein Xf0873 TR:Q9PF05 (EMBL:AE003927) (261 aa) fasta scores: E(): 1.8e-53, 57.812% id in 256 aa. Also similar to BP2818, 53.585% identity in 265 aa overlap.; hypothetical protein 386153..386941 Bordetella pertussis Tohama I 2664509 NP_879257.1 CDS BP0386 NC_002929.2 387082 387573 R Similar to Treponema pallidum thioredoxin TptrX TR:Q9R788 (EMBL:U95250) (185 aa) fasta scores: E(): 1.5e-08, 32.143% id in 140 aa, and to Neisseria meningitidis thioredoxin, Nmb1958 TR:Q9JXN4 (EMBL:AE002544) (166 aa) fasta scores: E(): 8e-16, 34.375% id in 160 aa; thioredoxin complement(387082..387573) Bordetella pertussis Tohama I 2664510 NP_879258.1 CDS BP0387 NC_002929.2 387570 388313 R Similar to Haemophilus influenzae hypothetical protein Hi1658 precursor SW:YRAP_HAEIN (P45301) (193 aa) fasta scores: E(): 8.2e-20, 39.037% id in 187 aa, and to Pasteurella multocida hypothetical protein Pm0649 TR:Q9CN01 (EMBL:AE006101) (194 aa) fasta scores: E(): 5.4e-16, 36.464% id in 181 aa; hypothetical protein complement(387570..388313) Bordetella pertussis Tohama I 2664495 NP_879259.1 CDS BP0388 NC_002929.2 388310 388912 R catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate; phosphoheptose isomerase complement(388310..388912) Bordetella pertussis Tohama I 2664527 NP_879260.1 CDS BP0390 NC_002929.2 389513 390451 D Similar to Rhizobium meliloti conserved hypothetical protein Smc00416 TR:CAC41773 (EMBL:AL591783) (309 aa) fasta scores: E(): 5.7e-38, 49.286% id in 280 aa, and to Neisseria meningitidis hypothetical protein Nma0342 TR:Q9JWJ7 (EMBL:AL162752) (291 aa) fasta scores: E(): 1.4e-37, 46.290% id in 283 aa; tetrapyrrole methylase 389513..390451 Bordetella pertussis Tohama I 2664132 NP_879261.1 CDS ogt NC_002929.2 390448 391020 D Similar to Escherichia coli methylated-DNA--protein-cysteine methyltransferase Ogt or B1335 SW:OGT_ECOLI (P09168) (171 aa) fasta scores: E(): 8.1e-17, 48.598% id in 107 aa, and to Mycobacterium leprae methylated-DNA--protein-cysteine methyltransferase Ogt or Ml1151 SW:OGT_MYCLE (P52982) (165 aa) fasta scores: E(): 1.4e-24, 45.342% id in 161 aa; methylated-DNA--protein-cysteine methyltransferase 390448..391020 Bordetella pertussis Tohama I 2664528 NP_879262.1 CDS BP0392 NC_002929.2 391017 391967 R transposase for IS481 element; transposase complement(391017..391967) Bordetella pertussis Tohama I 2664171 NP_879263.1 CDS BP0394 NC_002929.2 392967 393626 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2306 TR:Q9I1G9 (EMBL:AE004657) (205 aa) fasta scores: E(): 2.9e-42, 57.436% id in 195 aa, and to Rhizobium meliloti hypothetical transmembrane protein Smc01425 TR:CAC46687 (EMBL:AL591789) (197 aa) fasta scores: E(): 2.5e-40, 55.959% id in 193 aa; hypothetical protein 392967..393626 Bordetella pertussis Tohama I 2663980 NP_879264.1 CDS BP0395 NC_002929.2 393716 394639 D Similar to Mycobacterium tuberculosis hypothetical 29.7 kDa protein Rv2307c or Mt2364 or Mtcy339.02 SW:YN07_MYCTU (Q50658) (281 aa) fasta scores: E(): 7.3e-16, 32.491% id in 277 aa, and to Escherichia coli from bases 2662068 to 2677236 Bem46 or B2534 TR:P77538 (EMBL:AE000340) (293 aa) fasta scores: E(): 9.3e-15, 28.279% id in 244 aa; hypothetical protein 393716..394639 Bordetella pertussis Tohama I 2663981 NP_879265.1 CDS BP0396 NC_002929.2 394645 395100 R Similar to Rhizobium meliloti hypothetical protein Sma1780 TR:AAK65640 (EMBL:AE007284) (147 aa) fasta scores: E(): 5.4e-17, 39.855% id in 138 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2880 TR:Q9HZW7 (EMBL:AE004714) (171 aa) fasta scores: E(): 1.1e-27, 51.064% id in 141 aa; hypothetical protein complement(394645..395100) Bordetella pertussis Tohama I 2664188 NP_879266.1 CDS BP0397 NC_002929.2 395097 396200 R Similar to Escherichia coli hypothetical 27.8 kDa protein in celF-katE intergenic region YdjC or B1733 SW:YDJC_ECOLI (P37794) (249 aa) fasta scores: E(): 0.00011, 25.993% id in 277 aa, and to Rhizobium loti Mll3087 protein TR:Q98H07 (EMBL:AP003001) (272 aa) fasta scores: E(): 2.7e-11, 34.420% id in 276 aa; hypothetical protein complement(395097..396200) Bordetella pertussis Tohama I 2664189 NP_879267.1 CDS BP0398 NC_002929.2 396388 398007 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3556 TR:Q9HY61 (EMBL:AE004776) (549 aa) fasta scores: E(): 4.1e-31, 30.059% id in 509 aa, and to Salmonella typhimurium hypothetical 61.8 kDa protein in pmrG-pmrD intergenic region TR:O52327 (EMBL:AF036677) (548 aa) fasta scores: E(): 3.1e-26, 31.445% id in 353 aa; hypothetical protein complement(396388..398007) Bordetella pertussis Tohama I 2664054 NP_879268.1 CDS BP0399 NC_002929.2 398004 399062 R Similar to Shigella flexneri GtrbI TR:Q9RPZ6 (EMBL:AF139596) (306 aa) fasta scores: E(): 1.2e-41, 40.000% id in 305 aa, and to Synechocystis sp glycosyl transferase Sll0501 sll0501 SW:Y501_SYNY3 (Q55487) (318 aa) fasta scores: E(): 3.7e-50, 44.118% id in 306 aa; glycosyl transferase family protein complement(398004..399062) Bordetella pertussis Tohama I 2667695 YP_008691072.1 CDS BP0401 NC_002929.2 399779 400756 D integrase 399779..400756 Bordetella pertussis Tohama I 2664272 NP_879269.1 CDS gltS NC_002929.2 400952 402157 D Similar to Escherichia coli sodium/glutamate symport carrier protein GltS or GltC or B3653 SW:GLTS_ECOLI (P19933) (401 aa) fasta scores: E(): 1.3e-51, 40.786% id in 407 aa, and to Helicobacter pylori glutamate permease Hp1506 TR:O26036 (EMBL:AE000648) (408 aa) fasta scores: E(): 3.1e-54, 42.928% id in 403 aa; sodium/glutamate symport carrier protein 400952..402157 Bordetella pertussis Tohama I 2664393 NP_879270.1 CDS BP0403 NC_002929.2 402154 403665 D no significant database matches; hypothetical protein 402154..403665 Bordetella pertussis Tohama I 2664394 NP_879271.1 CDS atoE NC_002929.2 403681 404994 R Similar to Escherichia coli short-chain fatty acids transporter AtoE or B2223 SW:ATOE_ECOLI (P76460) (440 aa) fasta scores: E(): 2.5e-76, 47.018% id in 436 aa, and to Bacillus halodurans short-chain fatty acids transporter AtoE or bh0358 TR:Q9KFW3 (EMBL:AP001508) (441 aa) fasta scores: E(): 2.8e-96, 57.437% id in 437 aa. Also similar to BP0218, 44.988% identity (46.283% ungapped) in 429 aa overlap; short-chain fatty acids transporter complement(403681..404994) Bordetella pertussis Tohama I 2664058 NP_879272.1 CDS BP0405 NC_002929.2 405185 405364 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2501 TR:Q9I0Y1 (EMBL:AE004677) (55 aa) fasta scores: E(): 0.93, 40.476% id in 42 aa; hypothetical protein complement(405185..405364) Bordetella pertussis Tohama I 2664522 NP_879273.1 CDS dnaQ NC_002929.2 405774 406508 R 3'-5' exonuclease of DNA polymerase III; DNA polymerase III subunit epsilon complement(405774..406508) Bordetella pertussis Tohama I 2664004 NP_879274.1 CDS BP0408 NC_002929.2 408953 409903 D transposase for IS481 element; transposase 408953..409903 Bordetella pertussis Tohama I 2664264 NP_879275.1 CDS BP0410 NC_002929.2 410844 411314 R Similar to Bacillus subtilis hypothetical 15.9 kDa protein in bglH-wapA intergenic region precursor YxiE or N17E SW:YXIE_BACSU (P42297) (148 aa) fasta scores: E(): 6.3e-09, 33.775% id in 151 aa, and to Agrobacterium tumefaciens Agr_c_878p TR:AAK86309 (EMBL:AE007985) (160 aa) fasta scores: E(): 2.6e-13, 41.216% id in 148 aa; universal stress protein complement(410844..411314) Bordetella pertussis Tohama I 2664383 NP_879276.1 CDS BP0411 NC_002929.2 411403 411747 R Similar to Caulobacter crescentus hypothetical protein Cc0924 TR:Q9A9Q0 (EMBL:AE005769) (135 aa) fasta scores: E(): 1.6e-09, 42.991% id in 107 aa, and to Rhizobium loti Mll8311 protein TR:Q983I8 (EMBL:AP003013) (112 aa) fasta scores: E(): 1e-13, 44.860% id in 107 aa; hypothetical protein complement(411403..411747) Bordetella pertussis Tohama I 2664285 NP_879277.1 CDS BP0412 NC_002929.2 411847 413247 R Similar to Rhizobium meliloti transcriptional regulator protein Smb20039 TR:CAC48442 (EMBL:AL603642) (474 aa) fasta scores: E(): 3.8e-58, 40.517% id in 464 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa5283 TR:Q9HTS1 (EMBL:AE004941) (458 aa) fasta scores: E(): 3.7e-44, 38.987% id in 454 aa; GntR family transcriptional regulator complement(411847..413247) Bordetella pertussis Tohama I 2664286 NP_879278.1 CDS BP0414 NC_002929.2 415036 415554 R Similar to Salmonella typhimurium Mg(2+) transport ATPase C MgtC SW:ATMC_SALTY (P22037) (231 aa) fasta scores: E(): 1.3e-12, 40.972% id in 144 aa, and to Agrobacterium radiobacter AttV TR:Q9WWC7 (EMBL:U59485) (194 aa) fasta scores: E(): 1e-30, 58.750% id in 160 aa; Mg(2+) transporter complement(415036..415554) Bordetella pertussis Tohama I 2664222 NP_879279.1 CDS BP0415 NC_002929.2 415665 416420 D Similar to Rhizobium meliloti hypothetical transmembrane protein Smc03171 TR:CAC47481 (EMBL:AL591792) (250 aa) fasta scores: E(): 2.2e-67, 75.410% id in 244 aa, and to Agrobacterium tumefaciens Agr_l_786p TR:AAK88966 (EMBL:AE008238) (275 aa) fasta scores: E(): 8.8e-68, 74.502% id in 251 aa. Also similar to the N-terminal regions of BP1903 (51.261% identity in 238 aa overlap), and to BP1173 (51.250% identity in 240 aa overlap); hypothetical protein 415665..416420 Bordetella pertussis Tohama I 2664196 NP_879280.1 CDS BP0416 NC_002929.2 416616 417848 D Similar to Rhodococcus spAD45 racemase IsoG TR:Q9RBP6 (EMBL:AJ249207) (405 aa) fasta scores: E(): 6.1e-48, 37.940% id in 398 aa, and to Streptomyces coelicolor racemase Scf41.21 TR:Q9RJU8 (EMBL:AL117387) (403 aa) fasta scores: E(): 5.3e-41, 37.317% id in 410 aa; hypothetical protein 416616..417848 Bordetella pertussis Tohama I 2667694 NP_879281.1 CDS BP0417 NC_002929.2 417841 418626 D Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 417841..418626 Bordetella pertussis Tohama I 2667696 NP_879282.1 CDS BP0418 NC_002929.2 418693 419664 D Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1.8e-32, 36.218% id in 312 aa, and to Pseudomonas putida hypothetical 34.5 kDa protein in clcB-clcD intergenic region precursor SW:YCLC_PSEPU (Q47100) (329 aa) fasta scores: E(): 3.2e-32, 35.294% id in 306 aa; hypothetical protein 418693..419664 Bordetella pertussis Tohama I 2667697 NP_879283.1 CDS BP0419 NC_002929.2 419675 420592 R Similar to Bacillus subtilis als operon regulatory protein AlsR SW:ALSR_BACSU (Q04778) (302 aa) fasta scores: E(): 1.9e-26, 30.592% id in 304 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa1826 TR:Q9I2R9 (EMBL:AE004609) (301 aa) fasta scores: E(): 4.1e-30, 39.781% id in 274 aa; LysR family transcriptional regulator complement(419675..420592) Bordetella pertussis Tohama I 2664347 NP_879284.1 CDS BP0420 NC_002929.2 420790 421950 D Similar to Pseudomonas aeruginosa probable acyl-CoA dehydrogenase Pa1022 TR:Q9I4V2 (EMBL:AE004534) (381 aa) fasta scores: E(): 2.4e-29, 33.159% id in 383 aa, and to Mycobacterium tuberculosis CDC1551 acyl-CoA dehydrogenase, Mt3665 TR:AAK48023 (EMBL:AE007168) (385 aa) fasta scores: E(): 5.6e-27, 33.508% id in 382 aa; acyl-CoA dehydrogenase 420790..421950 Bordetella pertussis Tohama I 2667588 NP_879285.1 CDS BP0421 NC_002929.2 421977 423005 D Similar to Mycobacterium tuberculosis CDC1551 acyl-CoA dehydrogenase, Mt3669 TR:AAK48027 (EMBL:AE007168) (318 aa) fasta scores: E(): 1.4e-09, 30.132% id in 302 aa, and to Streptomyces coelicolor acyl-CoA dehydrogenase Scf37.28C TR:Q9RJX3 (EMBL:AL133210) (362 aa) fasta scores: E(): 2.6e-05, 28.691% id in 359 aa; acyl-CoA dehydrogenase 421977..423005 Bordetella pertussis Tohama I 2664195 NP_879286.1 CDS BP0422 NC_002929.2 423071 424264 D Similar to Alcaligenes eutrophus acetyl-CoA acetyltransferase PhbA SW:THIL_ALCEU (P14611) (393 aa) fasta scores: E(): 1.5e-60, 46.530% id in 389 aa, and to Rhizobium meliloti probable thiolase Sma1450 TR:AAK65449 (EMBL:AE007266) (396 aa) fasta scores: E(): 7e-83, 60.870% id in 391 aa. Also similar to BP0447 (53.684% identity in 380 aa overlap); thiolase 423071..424264 Bordetella pertussis Tohama I 2664269 NP_879287.1 CDS BP0424 NC_002929.2 426046 426996 R transposase for IS481 element; transposase complement(426046..426996) Bordetella pertussis Tohama I 2664086 NP_879288.1 CDS BP0425 NC_002929.2 427095 428000 R Similar to Alcaligenes eutrophus regulator of catechol degradation CatR TR:Q9EV43 (EMBL:AF042281) (330 aa) fasta scores: E(): 2.1e-15, 28.136% id in 295 aa, and to Azorhizobium caulinodans nac gene TR:O66393 (EMBL:AJ006238) (311 aa) fasta scores: E(): 1.2e-21, 33.333% id in 300 aa; LysR family transcriptional regulator complement(427095..428000) Bordetella pertussis Tohama I 2667691 NP_879289.1 CDS cspA NC_002929.2 428176 428379 R Similar to Escherichia coli cold shock protein CspA or B3556 SW:CSPA_ECOLI (P15277) (69 aa) fasta scores: E(): 9.5e-12, 55.385% id in 65 aa, and to Bordetella pertussis cold shock-like protein CspA SW:CSPA_BORPE (Q9Z5R4) (67 aa) fasta scores: E(): 2.9e-16, 68.657% id in 67 aa. Also similar to BP1770 (68.657% identity in 67 aa overlap), BP1772 (71.186% identity in 59 aa overlap), BP2757 (61.905% identity in 63 aa overlap), and to BP3871 (54.545% identity in 66 aa overlap).; cold shock protein complement(428176..428379) Bordetella pertussis Tohama I 2664305 NP_879290.1 CDS BP0427 NC_002929.2 428890 429330 D Similar to Caulobacter crescentus hypothetical protein Cc3247 TR:Q9A3F7 (EMBL:AE005988) (108 aa) fasta scores: E(): 4, 34.524% id in 84 aa; hypothetical protein 428890..429330 Bordetella pertussis Tohama I 2664404 NP_879291.1 CDS BP0428 NC_002929.2 429360 430019 R Similar to Rhizobium meliloti transcriptional regulator, GntR family protein Smb20773 TR:CAC49865 (EMBL:AL603647) (228 aa) fasta scores: E(): 7e-10, 32.203% id in 177 aa, and to Streptomyces coelicolor GntR-family regulatory protein Scbac8d1.07C TR:CAC37896 (EMBL:AL591084) (263 aa) fasta scores: E(): 5.8e-22, 38.164% id in 207 aa; GntR family transcriptional regulator complement(429360..430019) Bordetella pertussis Tohama I 2664405 NP_879292.1 CDS BP0429 NC_002929.2 430105 431745 R Similar to Homo sapiens delta-1-pyrroline-5-carboxylate dehydrogenase precursor AldH4a1 or P5cdh or AldH4 SW:PUT2_HUMAN (P30038) (563 aa) fasta scores: E(): 7.8e-101, 50.094% id in 531 aa, and to Mycobacterium tuberculosis delta-1-pyrroline-5-carboxylate dehydrogenase RocA or Rv1187 or Mtv005.23 TR:O50443 (EMBL:AL010186) (543 aa) fasta scores: E(): 1.7e-118, 58.868% id in 530 aa; delta-1-pyrroline-5-carboxylate dehydrogenase complement(430105..431745) Bordetella pertussis Tohama I 2664251 NP_879293.1 CDS BP0430 NC_002929.2 431742 433205 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2002 TR:Q9I2A7 (EMBL:AE004626) (474 aa) fasta scores: E(): 7.3e-97, 53.564% id in 463 aa, and to Haemophilus influenzae short-chain fatty acids transporter AtoE or Hi0772 SW:ATOE_HAEIN (P44051) (447 aa) fasta scores: E(): 9.5e-33, 28.788% id in 462 aa; short-chain fatty acids transporter complement(431742..433205) Bordetella pertussis Tohama I 2665148 NP_879294.1 CDS BP0431 NC_002929.2 433236 436622 R Similar to Salmonella typhimurium thiosulfate reductase precursor PhsA SW:PHSA_SALTY (P37600) (758 aa) fasta scores: E(): 6.8e-17, 23.279% id in 799 aa, and to Archaeoglobus fulgidus molybdopterin oxidoreductase, molybdopterin binding subunit Af1203 TR:O29065 (EMBL:AE001021) (741 aa) fasta scores: E(): 2.9e-26, 26.489% id in 789 aa; molybdopterin oxidoreductase complement(433236..436622) Bordetella pertussis Tohama I 2665149 NP_879295.1 CDS BP0432 NC_002929.2 436764 437168 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4173 TR:Q9HWK8 (EMBL:AE004833) (132 aa) fasta scores: E(): 1.7e-40, 75.194% id in 129 aa, and to Escherichia coli O157:H7 EDL933 Orf, hypothetical protein YjgH TR:AAG59447 (EMBL:AE005657) (131 aa) fasta scores: E(): 3.7e-30, 62.791% id in 129 aa; hypothetical protein complement(436764..437168) Bordetella pertussis Tohama I 2667763 NP_879296.1 CDS BP0433 NC_002929.2 437312 438298 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa4174 TR:Q9HWK7 (EMBL:AE004834) (307 aa) fasta scores: E(): 3.7e-80, 70.588% id in 306 aa, and to Rhizobium meliloti transcription regulator protein Smc01092 TR:CAC41866 (EMBL:AL591783) (296 aa) fasta scores: E(): 5.1e-50, 46.918% id in 292 aa; LysR family transcriptional regulator 437312..438298 Bordetella pertussis Tohama I 2664228 NP_879297.1 CDS BP0435 NC_002929.2 439312 440544 R Similar to Rhodococcus erythropolis dehydratase/racemase TR:Q9AH11 (EMBL:AF323606) (400 aa) fasta scores: E(): 2.6e-21, 29.398% id in 415 aa, and to Caulobacter crescentus hypothetical protein Cc3562 TR:Q9A2J9 (EMBL:AE006014) (433 aa) fasta scores: E(): 7.5e-21, 29.056% id in 413 aa; dehydratase/racemase complement(439312..440544) Bordetella pertussis Tohama I 2664450 NP_879298.1 CDS BP0436 NC_002929.2 440544 441038 R Similar to Salmonella enteritidis FkbR2 =TR:AAK97549 (EMBL:AF376036) (175 aa) fasta scores: E(): 1.7e-27, 55.634% id in 142 aa, and to Streptomyces hygroscopicus varascomyceticus FkbR2 TR:Q9KIF1 (EMBL:AF235504) (175 aa) fasta scores: E(): 7e-27, 52.055% id in 146 aa; hypothetical protein complement(440544..441038) Bordetella pertussis Tohama I 2664799 NP_879299.1 CDS BP0437 NC_002929.2 441170 442132 D Similar to Escherichia coli cyn operon transcriptional activator CynR or B0338 SW:CYNR_ECOLI (P27111) (311 aa) fasta scores: E(): 2.3e-21, 31.119% id in 286 aa, and to Rhizobium meliloti transcriptional regulator protein Smb20123 TR:CAC48523 (EMBL:AL603642) (298 aa) fasta scores: E(): 7.4e-25, 30.104% id in 289 aa; LysR family transcriptional regulator 441170..442132 Bordetella pertussis Tohama I 2664330 NP_879300.1 CDS BP0438 NC_002929.2 442110 443363 R Similar to Caulobacter crescentus hypothetical protein Cc3562 TR:Q9A2J9 (EMBL:AE006014) (433 aa) fasta scores: E(): 1.5e-66, 42.750% id in 400 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3733 TR:Q9HXQ9 (EMBL:AE004792) (409 aa) fasta scores: E(): 2.3e-59, 40.786% id in 407 aa; hypothetical protein complement(442110..443363) Bordetella pertussis Tohama I 2663958 NP_879301.1 CDS BP0439 NC_002929.2 443485 444435 D transposase for IS481 element; transposase 443485..444435 Bordetella pertussis Tohama I 2664716 NP_879302.1 CDS BP0441 NC_002929.2 444990 445364 R Similar to Rhizobium loti probable transcriptional regulator Mll1317 TR:Q98KU4 (EMBL:AP002997) (128 aa) fasta scores: E(): 1.2e-16, 44.915% id in 118 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa2016 TR:Q9I295 (EMBL:AE004628) (134 aa) fasta scores: E(): 1.9e-16, 50.000% id in 122 aa; MerR family transcriptional regulator complement(444990..445364) Bordetella pertussis Tohama I 2667708 NP_879303.1 CDS BP0442 NC_002929.2 445439 446497 D Similar to Caulobacter crescentus metallo-beta-lactamase family protein Cc0395 TR:Q9AB39 (EMBL:AE005712) (317 aa) fasta scores: E(): 2.2e-44, 39.812% id in 319 aa, and to Deinococcus radiodurans conserved hypothetical protein Dr2076 TR:Q9RSP8 (EMBL:AE002043) (347 aa) fasta scores: E(): 1.8e-14, 29.969% id in 327 aa; metallo-beta-lactamase family protein 445439..446497 Bordetella pertussis Tohama I 2664498 NP_879304.1 CDS BP0443 NC_002929.2 446521 447471 R transposase for IS481 element; transposase complement(446521..447471) Bordetella pertussis Tohama I 2664499 NP_879305.1 CDS BP0447 NC_002929.2 450353 451522 D Similar to Clostridium acetobutylicum acetyl-CoA acetyltransferase Thl or Cac2873 SW:THL_CLOAB (P45359) (392 aa) fasta scores: E(): 4e-66, 50.674% id in 371 aa, and to Pseudomonas putida FadaX fadaX TR:Q9AHY0 (EMBL:AF290950) (397 aa) fasta scores: E(): 4e-84, 61.579% id in 380 aa; acetyl-CoA acetyltransferase 450353..451522 Bordetella pertussis Tohama I 2664694 NP_879306.1 CDS accB NC_002929.2 451617 453230 D Similar to Myxococcus xanthus acetyl-CoA carboxylase carboxyltransferase AccB TR:Q9FAF6 (EMBL:AB039884) (538 aa) fasta scores: E(): 1.7e-93, 47.330% id in 543 aa, and to Homo sapiens 3-methylcrotonyl-Coa carboxylase subunit MccB TR:AAK49409 (EMBL:AF261884) (563 aa) fasta scores: E(): 8.1e-142, 68.182% id in 528 aa; carboxyltransferase subunit of acetyl-CoA carboxylase 451617..453230 Bordetella pertussis Tohama I 2664106 NP_879307.1 CDS accA NC_002929.2 453277 455298 D Similar to Myxococcus xanthus acetyl-Coa Carboxylase biotin carboxylase subunit AccA TR:Q9FAF5 (EMBL:AB039884) (573 aa) fasta scores: E(): 8.6e-85, 46.667% id in 570 aa, and to Escherichia coli biotin carboxylase AccC or FabG or B3256 SW:ACCC_ECOLI (P24182) (449 aa) fasta scores: E(): 6.6e-76, 51.106% id in 452 aa. Also similar to BP0889 (50.224% identity in 446 aa overlap), and BP2996 (47.903% identity in 453 aa overlap); biotin carboxylase 453277..455298 Bordetella pertussis Tohama I 2664232 NP_879308.1 CDS BP0450 NC_002929.2 455327 455572 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3012 TR:Q9HZJ4 (EMBL:AE004726) (124 aa) fasta scores: E(): 9.3e-07, 42.667% id in 75 aa, and to Clostridium acetobutylicum hypothetical protein Cac1208 TR:Q97JR5 (EMBL:AE007634) (173 aa) fasta scores: E(): 0.75, 33.333% id in 57 aa; hypothetical protein complement(455327..455572) Bordetella pertussis Tohama I 2664229 NP_879309.1 CDS argD NC_002929.2 455586 456776 R DapATase; functions in arginine biosynthetic pathway; catalyzes the formation of N-acetyl-L-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine; acetylornithine transaminase complement(455586..456776) Bordetella pertussis Tohama I 2664230 NP_879310.1 CDS BP0452 NC_002929.2 456972 457937 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.9e-42, 41.956% id in 317 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 3.3e-40, 41.009% id in 317 aa; hypothetical protein 456972..457937 Bordetella pertussis Tohama I 2664236 NP_879311.1 CDS BP0453 NC_002929.2 457960 459099 R Similar to Arthrobacter sp metal-activated pyridoxal enzyme TR:O82872 (EMBL:AB010956) (379 aa) fasta scores: E(): 8.3e-99, 71.698% id in 371 aa, and to Alcaligenes xylosoxydans xylosoxydans low-specificity D-threonine aldolase TR:Q9RBG6 (EMBL:AB026892) (377 aa) fasta scores: E(): 8.3e-44, 45.195% id in 385 aa; low-specificity D-threonine aldolase complement(457960..459099) Bordetella pertussis Tohama I 2664447 NP_879312.1 CDS BP0454 NC_002929.2 459311 460273 D Similar to Brucella abortus 31 kDa immunogenic protein precursor Bcsp31 SW:BCSP_BRUAB (P12920) (329 aa) fasta scores: E(): 1.8e-68, 61.329% id in 331 aa, and to Archaeoglobus fulgidus immunogenic protein Af0635 TR:O29620 (EMBL:AE001060) (330 aa) fasta scores: E(): 1.7e-37, 45.098% id in 306 aa; hypothetical protein 459311..460273 Bordetella pertussis Tohama I 2664448 NP_879313.1 CDS BP0455 NC_002929.2 460397 462421 D Similar to Bacillus halodurans Bh2945 protein Bh2945 TR:Q9K8Q8 (EMBL:AP001517) (656 aa) fasta scores: E(): 1.6e-57, 41.705% id in 657 aa, and to Pasteurella multocida hypothetical protein Pm1580 TR:Q9CKN1 (EMBL:AE006195) (660 aa) fasta scores: E(): 1.5e-56, 37.065% id in 661 aa; hypothetical protein 460397..462421 Bordetella pertussis Tohama I 2664449 NP_879314.1 CDS hemC NC_002929.2 462618 464861 D Similar to Haemophilus ducreyi TonB-dependent heme receptor A precursor TdhA TR:O87381 (EMBL:AF052977) (739 aa) fasta scores: E(): 1.4e-134, 48.743% id in 716 aa, and to Haemophilus influenzae heme/hemopexin utilization protein C precursor HxuC or Hi0113 SW:HXC1_HAEIN (P44523) (744 aa) fasta scores: E(): 2.8e-139, 48.299% id in 735 aa; heme receptor 462618..464861 Bordetella pertussis Tohama I 2664098 NP_879315.1 CDS BP0457 NC_002929.2 465140 465598 D Similar to Escherichia coli protein Smg or B3284 SW:SMG_ECOLI (P30853) (157 aa) fasta scores: E(): 3.5e-12, 40.506% id in 158 aa, and to Vibrio cholerae Smg protein Vc0049 TR:Q9KVU0 (EMBL:AE004096) (158 aa) fasta scores: E(): 4.1e-12, 39.490% id in 157 aa; hypothetical protein 465140..465598 Bordetella pertussis Tohama I 2664055 NP_879316.1 CDS BP0459 NC_002929.2 466526 469147 R Similar to Pasteurella multocida hypothetical protein Pm0986 TR:Q9CM56 (EMBL:AE006137) (824 aa) fasta scores: E(): 4e-10, 26.310% id in 897 aa; hypothetical protein complement(466526..469147) Bordetella pertussis Tohama I 2664489 NP_879317.1 CDS topB NC_002929.2 469211 471838 D decatenates replicating daughter chromosomes; DNA topoisomerase III 469211..471838 Bordetella pertussis Tohama I 2664490 NP_879318.1 CDS BP0461 NC_002929.2 471990 473054 D Similar to Rhizobium loti ABC transporter substrate-binding protein Mlr7949 TR:Q984L7 (EMBL:AP003013) (337 aa) fasta scores: E(): 2.5e-08, 25.085% id in 295 aa, and to Agrobacterium tumefaciens Agr_l_1197p TR:AAK89177 (EMBL:AE008258) (333 aa) fasta scores: E(): 2.6e-07, 25.267% id in 281 aa; hypothetical protein 471990..473054 Bordetella pertussis Tohama I 2664455 NP_879319.1 CDS BP0462 NC_002929.2 473051 473824 D Similar to Streptomyces coelicolor ABC transporter ATP-binding protein Sc8g12.21 TR:Q9KYY4 (EMBL:AL355753) (270 aa) fasta scores: E(): 3.4e-32, 45.312% id in 256 aa, and to Agrobacterium tumefaciens Agr_l_1200p agr_l_1200 TR:AAK89178 (EMBL:AE008258) (273 aa) fasta scores: E(): 2.9e-34, 48.261% id in 230 aa; ABC transporter ATP-binding protein 473051..473824 Bordetella pertussis Tohama I 2664456 NP_879320.1 CDS BP0463 NC_002929.2 473833 474666 D Similar to Escherichia coli taurine transport system permease TauC or SsiC or B0367 SW:TAUC_ECOLI (Q47539) (275 aa) fasta scores: E(): 7.1e-16, 28.195% id in 266 aa, and to Rhizobium loti ABC transporter permease Mlr7951 TR:Q984L5 (EMBL:AP003013) (292 aa) fasta scores: E(): 8.7e-36, 37.681% id in 276 aa; ABC transporter permease 473833..474666 Bordetella pertussis Tohama I 2664457 NP_879321.1 CDS idnO NC_002929.2 474679 475458 D Involved in the nonphosphorylative, ketogenic oxidation of glucose and oxidizes gluconate to 5-ketogluconate; gluconate 5-dehydrogenase 474679..475458 Bordetella pertussis Tohama I 2664198 NP_879322.1 CDS BP0465 NC_002929.2 475532 476965 D Similar to Ustilago maydis indole-3-acetaldehyde dehydrogenase Iad1 TR:Q92460 (EMBL:U74468) (497 aa) fasta scores: E(): 1.2e-68, 42.827% id in 474 aa, and to Bacillus halodurans NADP-dependent aldehyde dehydrogenase DhaS or Bh0539 TR:Q9KFE2 (EMBL:AP001508) (498 aa) fasta scores: E(): 1.3e-69, 41.788% id in 481 aa; aldehyde dehydrogenase 475532..476965 Bordetella pertussis Tohama I 2664488 NP_879323.1 CDS fabG NC_002929.2 476993 477751 D Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 476993..477751 Bordetella pertussis Tohama I 2664481 NP_879324.1 CDS BP0467 NC_002929.2 477807 479657 R Similar to Saccharomyces cerevisiae acetolactate synthase, mitochondrial precursor Ilv2 or Smr1 or Ymr108w or Ym9718.07 SW:ILVB_YEAST (P07342) (687 aa) fasta scores: E(): 1.7e-87, 42.710% id in 583 aa, and to Rhizobium meliloti probable acetolactate synthase isozyme III large subunit protein TR:CAC46693 (EMBL:AL591789) (592 aa) fasta scores: E(): 1.3e-81, 52.860% id in 577 aa. Also similar to BP0789 (50.000% identity in 580 aa overlap); acetolactate synthase large subunit complement(477807..479657) Bordetella pertussis Tohama I 2664487 NP_879325.1 CDS BP0468 NC_002929.2 479751 480227 D Similar to Pseudomonas putida bkd operon transcriptional regulator BkdR SW:BKDR_PSEPU (P42179) (161 aa) fasta scores: E(): 1.3e-19, 39.073% id in 151 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa4508 TR:Q9HVR3 (EMBL:AE004864) (157 aa) fasta scores: E(): 1.4e-20, 42.105% id in 152 aa. Also similar to BP2981 (41.333% identity in 150 aa overlap), and to BP1122 (42.667% identity in 150 aa overlap); transcription regulator AsnC 479751..480227 Bordetella pertussis Tohama I 2664484 NP_879326.1 CDS BP0469 NC_002929.2 480244 481200 R Similar to Escherichia coli O157:H7 hypothetical 36.8 kDa protein Ecs2127 TR:BAB35550 (EMBL:AP002557) (321 aa) fasta scores: E(): 2.3e-34, 38.170% id in 317 aa, and to Rhizobium loti Mll4386 protein TR:Q98E66 (EMBL:AP003004) (309 aa) fasta scores: E(): 8.8e-45, 45.724% id in 304 aa; hypothetical protein complement(480244..481200) Bordetella pertussis Tohama I 2664485 NP_879327.1 CDS BP0470 NC_002929.2 481262 481771 D Similar to Xylella fastidiosa hypothetical protein Xf1478 TR:Q9PDA1 (EMBL:AE003977) (139 aa) fasta scores: E(): 4.3e-20, 48.227% id in 141 aa, and to Homo sapiens similar to kiaa0304 gene product TR:AAH07353 (EMBL:BC007353) (175 aa) fasta scores: E(): 1.8e-14, 37.908% id in 153 aa; hypothetical protein 481262..481771 Bordetella pertussis Tohama I 2664649 NP_879328.1 CDS ribB NC_002929.2 482145 482837 D DHBP synthase; functions during riboflavin biosynthesis; 3,4-dihydroxy-2-butanone 4-phosphate synthase 482145..482837 Bordetella pertussis Tohama I 2664648 NP_879329.1 CDS BP0473 NC_002929.2 483146 484096 D transposase for IS481 element; transposase 483146..484096 Bordetella pertussis Tohama I 2664486 NP_879330.1 CDS BP0474 NC_002929.2 484213 485280 D Similar to Clostridium perfringens choloylglycine hydrolase SW:CBH_CLOPE (P54965) (329 aa) fasta scores: E(): 1.7e-06, 25.959% id in 339 aa, and to Rhizobium loti Mlr8141 protein TR:Q983W5 (EMBL:AP003013) (350 aa) fasta scores: E(): 7.4e-110, 80.059% id in 341 aa; choloylglycine hydrolase 484213..485280 Bordetella pertussis Tohama I 2664651 NP_879331.1 CDS rne NC_002929.2 485356 488484 R Similar to Escherichia coli ribonuclease E Rne or Ams or Hmp1 or B1084 SW:RNE_ECOLI (P21513) (1061 aa) fasta scores: E(): 1.6e-93, 44.328% id in 1049 aa, and to Neisseria meningitidis ribonuclease E Nmb0196 TR:Q9K1F8 (EMBL:AE002377) (919 aa) fasta scores: E(): 5.8e-109, 50.558% id in 985 aa; ribonuclease E complement(485356..488484) Bordetella pertussis Tohama I 2664654 NP_879332.1 CDS rluC NC_002929.2 489007 489957 D Similar to Escherichia coli ribosomal large subunit pseudouridine synthase C RluC or B1086 SW:RLUC_ECOLI (P23851) (319 aa) fasta scores: E(): 5.8e-52, 50.000% id in 316 aa, and to Pasteurella multocida RluC or Pm0992 TR:Q9CM51 (EMBL:AE006138) (326 aa) fasta scores: E(): 1e-53, 50.157% id in 319 aa; ribosomal large subunit pseudouridine synthase C 489007..489957 Bordetella pertussis Tohama I 2664656 NP_879333.1 CDS BP0478 NC_002929.2 489960 490631 D Similar to Erwinia chrysanthemi indigoidine systhesis protein IdgB TR:Q9KHB5 (EMBL:AF265211) (230 aa) fasta scores: E(): 4.8e-18, 40.777% id in 206 aa, and to Pseudomonas aeruginosa probable hydrolase Pa2974 TR:Q9HZN0 (EMBL:AE004723) (230 aa) fasta scores: E(): 2.1e-26, 44.340% id in 212 aa; hydrolase 489960..490631 Bordetella pertussis Tohama I 2664210 NP_879334.1 CDS BP0479 NC_002929.2 490788 491747 D 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; sulfite oxidase subunit YedY 490788..491747 Bordetella pertussis Tohama I 2664658 NP_879335.1 CDS BP0480 NC_002929.2 491797 492417 D in Escherichia coli this inner membrane protein was found to anchor the periplasmic catalytic oxidoreductase YedY; sulfite oxidase activity not demonstrated; contains heme; sulfite oxidase subunit YedZ 491797..492417 Bordetella pertussis Tohama I 2664659 NP_879336.1 CDS BP0481 NC_002929.2 492414 493364 R transposase for IS481 element; transposase complement(492414..493364) Bordetella pertussis Tohama I 2664662 NP_879337.1 CDS BP0483 NC_002929.2 494921 495766 R Similar to Rhizobium meliloti transcription regulator protein Smc03170 TR:CAC47480 (EMBL:AL591792) (279 aa) fasta scores: E(): 2.4e-11, 30.515% id in 272 aa, and to Bacillus halodurans Bh0401 protein TR:Q9KFS6 (EMBL:AP001508) (299 aa) fasta scores: E(): 4.2e-08, 27.119% id in 295 aa; AraC family transcriptional regulator complement(494921..495766) Bordetella pertussis Tohama I 2664667 NP_879338.1 CDS lldD NC_002929.2 495854 497017 R Similar to Escherichia coli L-lactate dehydrogenase LldD or LctD or B3605 SW:LLDD_ECOLI (P33232) (396 aa) fasta scores: E(): 3.5e-63, 46.825% id in 378 aa, and to Pseudomonas aeruginosa L-lactate dehydrogenase LldA or Pa2382 TR:Q9I197 (EMBL:AE004664) (383 aa) fasta scores: E(): 2.1e-118, 78.068% id in 383 aa; L-lactate dehydrogenase complement(495854..497017) Bordetella pertussis Tohama I 2664668 NP_879339.1 CDS BP0486 NC_002929.2 497436 498407 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 4.4e-38, 36.013% id in 311 aa, and to Comamonas testosteroni Orf4 protein TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 3e-34, 32.923% id in 325 aa; hypothetical protein complement(497436..498407) Bordetella pertussis Tohama I 2664673 NP_879340.1 CDS BP0487 NC_002929.2 498446 499873 R Similar to Pseudomonas aeruginosa probable amidase Pa4342 TR:Q9HW59 (EMBL:AE004850) (494 aa) fasta scores: E(): 3.5e-67, 45.436% id in 482 aa, and to Rhizobium loti amidotransferase, subunit A Mlr3187 TR:Q98GT2 (EMBL:AP003001) (472 aa) fasta scores: E(): 1.8e-58, 41.226% id in 473 aa; amidase complement(498446..499873) Bordetella pertussis Tohama I 2664674 NP_879341.1 CDS BP0488 NC_002929.2 499948 500784 D Similar to Pseudomonas putida pca regulon regulatory protein PcaR SW:PCAR_PSEPU (Q52154) (291 aa) fasta scores: E(): 1.8e-22, 31.250% id in 272 aa, and to Rhizobium meliloti transcriptional regulator, Iclr family protein Smb20586 TR:CAC49898 (EMBL:AL603647) (251 aa) fasta scores: E(): 1.8e-23, 33.471% id in 242 aa; transcriptional regulator 499948..500784 Bordetella pertussis Tohama I 2664675 NP_879342.1 CDS gyrB NC_002929.2 500903 503356 R negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit B complement(500903..503356) Bordetella pertussis Tohama I 2664676 NP_879343.1 CDS dnaN NC_002929.2 503451 504560 R binds the polymerase to DNA and acts as a sliding clamp; DNA polymerase III subunit beta complement(503451..504560) Bordetella pertussis Tohama I 2664677 NP_879344.1 CDS dnaA NC_002929.2 504563 505972 R 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.; chromosomal replication initiation protein complement(504563..505972) Bordetella pertussis Tohama I 2664678 NP_879345.1 CDS rpmH NC_002929.2 506378 506512 D in Escherichia coli transcription of this gene is enhanced by polyamines; 50S ribosomal protein L34 506378..506512 Bordetella pertussis Tohama I 2664682 NP_879346.1 CDS rnpA NC_002929.2 506608 506979 D protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates; ribonuclease P 506608..506979 Bordetella pertussis Tohama I 2664680 NP_879347.1 CDS BP0494 NC_002929.2 506976 507248 D Similar to Pseudomonas putida hypothetical 9.2 kDa protein in rnpA 3'region SW:YIDD_PSEPU (P25753) (81 aa) fasta scores: E(): 2.2e-18, 65.714% id in 70 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2045 SW:YK45_PSEAE (Q9I270) (86 aa) fasta scores: E(): 3.4e-16, 57.831% id in 83 aa; hypothetical protein 506976..507248 Bordetella pertussis Tohama I 2664685 NP_879348.1 CDS BP0495 NC_002929.2 507297 508988 D functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria; inner membrane protein translocase component YidC 507297..508988 Bordetella pertussis Tohama I 2664686 NP_879349.1 CDS BP0496 NC_002929.2 509219 510169 R transposase for IS481 element; transposase complement(509219..510169) Bordetella pertussis Tohama I 2664687 NP_879350.1 CDS BP0498 NC_002929.2 510627 511550 D Similar to Rhizobium meliloti transcription regulator protein Smc01330 TR:CAC45914 (EMBL:AL591787) (313 aa) fasta scores: E(): 1.1e-45, 44.027% id in 293 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa1961 TR:Q9I2E3 (EMBL:AE004622) (311 aa) fasta scores: E(): 2.4e-42, 43.464% id in 306 aa; LysR family transcriptional regulator 510627..511550 Bordetella pertussis Tohama I 2664690 NP_879351.1 CDS BP0499 NC_002929.2 511559 511957 R no significant database matches; hypothetical protein complement(511559..511957) Bordetella pertussis Tohama I 2664691 NP_879352.1 CDS BP0500 NC_002929.2 512199 514169 D no significant database matches; hypothetical protein 512199..514169 Bordetella pertussis Tohama I 2664714 NP_879354.1 CDS BP0502 NC_002929.2 515656 516645 D Similar to Escherichia coli shufflon-specific DNA recombinase Rci SW:RCI1_ECOLI (P10487) (384 aa) fasta scores: E(): 7.5e-17, 30.796% id in 289 aa, and to Pasteurella multocida integrase/recombinase Rci TR:Q9L6A5 (EMBL:AF237934) (329 aa) fasta scores: E(): 2.4e-36, 37.651% id in 332 aa; integrase 515656..516645 Bordetella pertussis Tohama I 2664717 NP_879355.1 CDS BP0503 NC_002929.2 516642 516842 R Similar to Bacteriophage P4 hypothetical 9.7 kDa protein SW:Y9K_BPP4 (P12552) (88 aa) fasta scores: E(): 0.82, 30.357% id in 56 aa, and to Vibrio cholerae transcriptional regulator Vc0497 TR:Q9KUL8 (EMBL:AE004136) (66 aa) fasta scores: E(): 0.023, 28.571% id in 63 aa; hypothetical protein complement(516642..516842) Bordetella pertussis Tohama I 2664225 NP_879356.1 CDS BP0504 NC_002929.2 516843 516962 R no significant database matches; hypothetical protein complement(516843..516962) Bordetella pertussis Tohama I 2664226 NP_879357.1 CDS BP0505 NC_002929.2 516955 517296 R Similar to Bacteriophage D3 Orf39 orf39 TR:Q9MC83 (EMBL:AF165214) (108 aa) fasta scores: E(): 0.018, 36.937% id in 111 aa, and to Mycobacteriophage TM4 Gp13 TR:Q9ZX64 (EMBL:AF068845) (139 aa) fasta scores: E(): 9.6, 32.609% id in 92 aa; hypothetical protein complement(516955..517296) Bordetella pertussis Tohama I 2664439 NP_879358.1 CDS BP0506 NC_002929.2 517307 518494 R no significant database matches; hypothetical protein complement(517307..518494) Bordetella pertussis Tohama I 2664440 NP_879359.1 CDS BP0507 NC_002929.2 518528 519055 R Similar to the internal region of Bordetella pertussis pertactin outer membrane protein PrnA TR:AAK92093 (EMBL:AF348485) (910 aa) fasta scores: E(): 2.5, 25.767% id in 163 aa, and to Bordetella pertussis pertactin Prn7 TR:Q9S6N1 (EMBL:AJ133784) (910 aa) fasta scores: E(): 3.4, 24.540% id in 163 aa; hypothetical protein complement(518528..519055) Bordetella pertussis Tohama I 2664441 NP_879360.1 CDS BP0508 NC_002929.2 519113 519760 R Similar to Escherichia coli O157:H7 exonuclease Ecs1174 TR:BAB34597 (EMBL:AP002554) (226 aa) fasta scores: E(): 2.4e-11, 30.918% id in 207 aa, and to Bacteriophage VT2-Sa exonuclease Exo TR:Q9T1N7 (EMBL:AP000363) (226 aa) fasta scores: E(): 2.8e-11, 30.918% id in 207 aa; phage-related exonuclease complement(519113..519760) Bordetella pertussis Tohama I 2664695 NP_879361.1 CDS BP0509 NC_002929.2 519757 520743 R Similar to Escherichia coli RecT protein RecT or B1349 SW:RECT_ECOLI (P33228) (269 aa) fasta scores: E(): 3.4e-09, 30.047% id in 213 aa, and to Escherichia coli O157:H7 recombinase RecT protein Ecs1933 TR:BAB35356 (EMBL:AP002556) (269 aa) fasta scores: E(): 1.3e-09, 30.516% id in 213 aa; phage-related DNA recombination protein complement(519757..520743) Bordetella pertussis Tohama I 2664696 NP_879362.1 CDS BP0510 NC_002929.2 520747 520929 R no significant database matches; phage-related membrane protein complement(520747..520929) Bordetella pertussis Tohama I 2664697 NP_879363.1 CDS BP0511 NC_002929.2 520926 521303 R no significant database matches; hypothetical protein complement(520926..521303) Bordetella pertussis Tohama I 2664705 NP_879364.1 CDS BP0513 NC_002929.2 521537 522004 R no significant database matches; hypothetical protein complement(521537..522004) Bordetella pertussis Tohama I 2664700 NP_879365.1 CDS BP0514 NC_002929.2 522040 522990 R transposase for IS481 element; transposase complement(522040..522990) Bordetella pertussis Tohama I 2664701 NP_879366.1 CDS BP0515 NC_002929.2 523089 523331 R no significant database matches; hypothetical protein complement(523089..523331) Bordetella pertussis Tohama I 2664719 NP_879368.1 CDS BP0517 NC_002929.2 524150 525100 R transposase for IS481 element; transposase complement(524150..525100) Bordetella pertussis Tohama I 2664706 NP_879369.1 CDS BP0518 NC_002929.2 525210 525605 R Similar to Saccharomyces cerevisiae highdosage growth inhibitor Hig1 TR:BAB20815 (EMBL:AB050475) (129 aa) fasta scores: E(): 6.3e-10, 34.579% id in 107 aa, and to Halobacterium sp Vng2099C TR:Q9HNH7 (EMBL:AE005099) (127 aa) fasta scores: E(): 2e-10, 38.532% id in 109 aa; hypothetical protein complement(525210..525605) Bordetella pertussis Tohama I 2664252 NP_879370.1 CDS BP0519 NC_002929.2 525775 526476 D Similar to Loligo opalescens S-crystallin TR:Q25368 (EMBL:U19300) (217 aa) fasta scores: E(): 3.2e-06, 24.537% id in 216 aa, and to Rhizobium meliloti probable glutathione S-transferase TR:CAC49678 (EMBL:AL603646) (240 aa) fasta scores: E(): 5.3e-42, 52.321% id in 237 aa; glutathione S-transferase 525775..526476 Bordetella pertussis Tohama I 2664253 NP_879371.1 CDS BP0520 NC_002929.2 526740 527600 D Similar to Escherichia coli HflC protein HflC or HflA or B4175 or Z5782 or Ecs5151 SW:HFLC_ECOLI (P25661) (334 aa) fasta scores: E(): 2.4e-06, 24.806% id in 258 aa, and to Thermotoga maritima FtsH protease activity modulator HflC Tm1823 TR:Q9X2E3 (EMBL:AE001819) (283 aa) fasta scores: E(): 4.3e-09, 26.210% id in 248 aa; hypothetical protein 526740..527600 Bordetella pertussis Tohama I 2664722 NP_879372.1 CDS BP0521 NC_002929.2 527675 528010 R Similar to Escherichia coli hypothetical 12.0 kDa protein in baeR-ogrK intergenic region YegP or B2080 SW:YEGP_ECOLI (P76402) (110 aa) fasta scores: E(): 2.1e-17, 54.545% id in 110 aa, and to Pasteurella multocida hypothetical protein Pm0519 TR:Q9CNB3 (EMBL:AE006087) (114 aa) fasta scores: E(): 7.9e-14, 47.222% id in 108 aa; hypothetical protein complement(527675..528010) Bordetella pertussis Tohama I 2664709 NP_879373.1 CDS BP0522 NC_002929.2 528151 529296 R Similar to Arthrobacter sp metal-activated pyridoxal enzyme TR:O82872 (EMBL:AB010956) (379 aa) fasta scores: E(): 1.6e-16, 31.026% id in 390 aa, and to Agrobacterium tumefaciens Agr_l_1808p TR:AAK89478 (EMBL:AE008289) (397 aa) fasta scores: E(): 7.1e-74, 55.526% id in 380 aa; metal-activated pyridoxal enzyme complement(528151..529296) Bordetella pertussis Tohama I 2664710 NP_879374.1 CDS BP0523 NC_002929.2 529324 529983 R Similar to Pseudomonas putida 2-haloalkanoic acid dehalogenase H-109 DehH109 SW:HAD2_PSEPU (Q59728) (224 aa) fasta scores: E(): 1.5e-05, 28.241% id in 216 aa, and to Thermus thermophilus hypothetical 24.1 kDa protein YsaA TR:Q9F1Q2 (EMBL:AB048605) (218 aa) fasta scores: E(): 6.3e-07, 35.567% id in 194 aa; haloacid dehalogenase complement(529324..529983) Bordetella pertussis Tohama I 2664711 NP_879375.1 CDS BP0525 NC_002929.2 530988 531194 D Pseudogene (remnant). Similar to the N-terminal region of Escherichia coli lambdoid prophage Rac integrase IntR or B1345 SW:INTR_ECOLI (P76056) (411 aa) fasta scores: E(): 0.7, 39.583% id in 48 aa, and to Bacteriophage 933W integrase Int TR:Q9XJG6 (EMBL:AF125520) (444 aa) fasta scores: E(): 5.1, 37.778% id in 45 aa; integrase (remnant) 530988..531194 Bordetella pertussis Tohama I 2664692 NP_879376.2 CDS BP0526 NC_002929.2 531267 531428 D no significant database matches; hypothetical protein 531267..531428 Bordetella pertussis Tohama I 2664707 NP_879377.1 CDS ecnA1 NC_002929.2 531460 531591 D Similar to Escherichia coli anti-toxin entericidin A precursor EcnA or B4147.1 SW:ECNA_ECOLI (P56548) (41 aa) fasta scores: E(): 0.86, 42.857% id in 42 aa, and to Rickettsia conorii hypothetical 6.7 kDa protein Rc1154 TR:AAL03692 (EMBL:AE008664) (64 aa) fasta scores: E(): 0.008, 46.512% id in 43 aa. Note in E. coli ecnA is located next to the bacteriolytic toxin ecnB. This is not the situation in B. pertusis. However, B. pertusis does possess an ecnB orthologue BP2531. B. pertusis also carries a second possible ecnA paralogue, BP2565; entericidin A anti-toxin 531460..531591 Bordetella pertussis Tohama I 2664708 NP_879378.1 CDS BP0529 NC_002929.2 532218 538940 D Similar to Mycobacterium tuberculosis PgrS-family protein Rv3345c or Mtv004.01C or Mtv016.45C TR:O53395 (EMBL:AL021841) (1538 aa) fasta scores: E(): 5.8e-17, 26.329% id in 1618 aa, and to Salmonella typhimurium ShdA TR:Q9XCJ4 (EMBL:AF140550) (2035 aa) fasta scores: E(): 6.6e-16, 26.428% id in 2206 aa; autotransporter 532218..538940 Bordetella pertussis Tohama I 2664183 NP_879379.1 CDS BP0530 NC_002929.2 538974 539573 D Similar to Burkholderia cepacia ureidoglycolate hydrolase AllA TR:Q9AP01 (EMBL:AF317836) (177 aa) fasta scores: E(): 0.0025, 28.289% id in 152 aa, and to Rhodobacter capsulatus probable ureidoglycolate hydrolase SW:ALLA_RHOCA (O68109) (161 aa) fasta scores: E(): 0.0036, 32.558% id in 129 aa; hypothetical protein 538974..539573 Bordetella pertussis Tohama I 2664060 NP_879380.1 CDS BP0531 NC_002929.2 539846 540823 D Similar to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 3.2e-27, 34.323% id in 303 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 3.5e-28, 32.407% id in 324 aa; hypothetical protein 539846..540823 Bordetella pertussis Tohama I 2664061 NP_879381.1 CDS BP0532 NC_002929.2 540858 542411 D Similar to Mycobacterium tuberculosis CDC1551 substrate--CoA ligase Mt2580 TR:AAK46884 (EMBL:AE007094) (547 aa) fasta scores: E(): 2.8e-44, 32.422% id in 512 aa, and to Rhizobium meliloti fatty-acid-CoA ligase Smc00261 TR:CAC46268 (EMBL:AL591788) (549 aa) fasta scores: E(): 1.5e-41, 32.184% id in 522 aa; substrate-CoA ligase 540858..542411 Bordetella pertussis Tohama I 2664062 NP_879382.1 CDS BP0533 NC_002929.2 542419 543159 D Similar to Pseudomonas putida efflux pump regulator SrpS TR:Q9R9U0 (EMBL:AF061937) (259 aa) fasta scores: E(): 4.8e-12, 33.471% id in 242 aa, and to Streptomyces coelicolor transcriptional regulator Stah10.11C TR:Q9RKU6 (EMBL:AL132824) (270 aa) fasta scores: E(): 1.6e-11, 33.065% id in 248 aa; transcriptional regulator 542419..543159 Bordetella pertussis Tohama I 2664028 NP_879383.1 CDS BP0534 NC_002929.2 543183 543947 D Similar to Clostridium acetobutylicum 3-hydroxybutyryl-CoA dehydratase Crt or Cac2712 SW:CRT_CLOAB (P52046) (261 aa) fasta scores: E(): 1.8e-17, 31.624% id in 234 aa, and to Sulfolobus solfataricus enoyl CoA hydratase Orf-C09_013 or Paaf-2 TR:Q9UX44 (EMBL:Y18930) (252 aa) fasta scores: E(): 2.7e-17, 29.279% id in 222 aa; enoyl-CoA hydratase/isomerase 543183..543947 Bordetella pertussis Tohama I 2664396 NP_879384.1 CDS BP0535 NC_002929.2 543992 544327 D Similar to Haemophilus influenzae hypothetical protein Hi1053 SW:YA53_HAEIN (Q57498) (113 aa) fasta scores: E(): 3.8e-17, 52.885% id in 104 aa, and to Neisseria meningitidis hypothetical protein Nmb1590 TR:Q9JYH0 (EMBL:AE002509) (111 aa) fasta scores: E(): 6.7e-16, 50.459% id in 109 aa; carboxymuconolactone decarboxylase 543992..544327 Bordetella pertussis Tohama I 2664064 NP_879385.1 CDS BP0537 NC_002929.2 545270 546220 R transposase for IS481 element; transposase complement(545270..546220) Bordetella pertussis Tohama I 2664333 NP_879386.1 CDS BP0538 NC_002929.2 546339 547283 R Similar to Bacillus caldovelox arginase RocF SW:ARGI_BACCD (P53608) (299 aa) fasta scores: E(): 3.5e-44, 44.000% id in 300 aa, and to Rhizobium loti arginase Mll6778 TR:Q988E1 (EMBL:AP003010) (310 aa) fasta scores: E(): 3.2e-44, 45.847% id in 301 aa; arginase complement(546339..547283) Bordetella pertussis Tohama I 2664092 NP_879387.1 CDS rocD NC_002929.2 547280 548521 R Similar to Bacillus subtilis ornithine aminotransferase RocD SW:OAT_BACSU (P38021) (401 aa) fasta scores: E(): 7.1e-82, 52.083% id in 384 aa, and to Bacillus halodurans ornithine aminotransferase RocD or Bh3943 TR:Q9K5Z2 (EMBL:AP001520) (400 aa) fasta scores: E(): 2.7e-84, 50.249% id in 402 aa; ornithine--oxo-acid transaminase complement(547280..548521) Bordetella pertussis Tohama I 2664241 NP_879388.1 CDS BP0540 NC_002929.2 548683 549633 D transposase for IS481 element; transposase 548683..549633 Bordetella pertussis Tohama I 2664683 NP_879389.1 CDS BP0541 NC_002929.2 549630 550304 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa1269 TR:Q9I475 (EMBL:AE004556) (222 aa) fasta scores: E(): 1.7e-28, 42.347% id in 196 aa, and to Rhizobium loti transcriptional regulator Mlr7144 TR:Q986Z8 (EMBL:AP003011) (253 aa) fasta scores: E(): 2.9e-20, 34.715% id in 193 aa; transcriptional regulator complement(549630..550304) Bordetella pertussis Tohama I 2664470 NP_879390.1 CDS BP0542 NC_002929.2 550389 551384 R Similar to Pseudomonas chlororaphis hypothetical 35.8 kDa protein TR:Q9L3W5 (EMBL:AJ271325) (336 aa) fasta scores: E(): 1.2e-36, 39.264% id in 326 aa, and to Pseudomonas sp hypothetical 35.9 kDa protein in tcbD-tcbE intergenic region precursor SW:YTCB_PSESQ (P27103) (336 aa) fasta scores: E(): 3.5e-36, 39.144% id in 327 aa; hypothetical protein complement(550389..551384) Bordetella pertussis Tohama I 2664471 NP_879391.1 CDS BP0543 NC_002929.2 551539 552828 R Similar to Rhizobium loti probable oxidoreductase Mll7103 TR:Q987C9 (EMBL:AP003011) (427 aa) fasta scores: E(): 1.1e-46, 39.394% id in 396 aa, and to Pseudomonas aeruginosa probable oxidoreductase Pa1028 TR:Q9I4U6 (EMBL:AE004535) (428 aa) fasta scores: E(): 7e-40, 37.084% id in 391 aa; hypothetical protein complement(551539..552828) Bordetella pertussis Tohama I 2664338 NP_879392.1 CDS BP0544 NC_002929.2 553080 553271 D 4-OT; member of subfamily 5; forms a dimer; the function in the Escherichia coli cell is unknown; 4-oxalocrotonate tautomerase 553080..553271 Bordetella pertussis Tohama I 2664339 NP_879393.1 CDS rimO NC_002929.2 553378 554697 D catalyzes the methylthiolation of an aspartic acid residue of the S12 protein of the 30S ribosomal subunit; ribosomal protein S12 methylthiotransferase 553378..554697 Bordetella pertussis Tohama I 2664340 NP_879394.1 CDS BP0546 NC_002929.2 554768 555337 R Similar to Azotobacter vinelandii bacterioferritin Bfr SW:BFR_AZOVI (P22759) (156 aa) fasta scores: E(): 3.5e-05, 30.345% id in 145 aa, and to Pseudomonas aeruginosa probable bacterioferritin Pa4880 TR:Q9HUT3 (EMBL:AE004901) (177 aa) fasta scores: E(): 3.7e-41, 71.084% id in 166 aa; bacterioferritin complement(554768..555337) Bordetella pertussis Tohama I 2664460 NP_879395.1 CDS BP0547 NC_002929.2 555518 556105 D Similar to Eikenella corrodens lysine decarboxylase TR:Q9Z4R8 (EMBL:U89166) (183 aa) fasta scores: E(): 7.3e-25, 43.353% id in 173 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4923 SW:YDC3_PSEAE (P48636) (195 aa) fasta scores: E(): 8.9e-40, 53.684% id in 190 aa; lysine decarboxylase 555518..556105 Bordetella pertussis Tohama I 2664172 NP_879396.1 CDS BP0548 NC_002929.2 556112 556714 D no significant database matches; hypothetical protein 556112..556714 Bordetella pertussis Tohama I 2664173 NP_879397.1 CDS BP0549 NC_002929.2 556711 557367 D Similar to Caulobacter crescentus hydrolase, haloacid dehalogenase-like family cc1643 TR:Q9A7S7 (EMBL:AE005839) (246 aa) fasta scores: E(): 2.3e-26, 42.574% id in 202 aa, and to Agrobacterium radiobacter VirP protein TR:O52276 (EMBL:AF242881) (210 aa) fasta scores: E(): 1.4e-21, 36.318% id in 201 aa; haloacid dehalogenase 556711..557367 Bordetella pertussis Tohama I 2664174 NP_879398.1 CDS BP0550 NC_002929.2 557364 557990 D Similar to Caulobacter crescentus hypothetical protein Cc2577 TR:Q9A580 (EMBL:AE005926) (204 aa) fasta scores: E(): 4.3e-46, 60.099% id in 203 aa, and to Rhizobium loti Mll0539 protein TR:Q98MK8 (EMBL:AP002995) (203 aa) fasta scores: E(): 9e-44, 58.000% id in 200 aa; hypothetical protein 557364..557990 Bordetella pertussis Tohama I 2664702 NP_879399.1 CDS fmt NC_002929.2 558013 558951 R 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; methionyl-tRNA formyltransferase complement(558013..558951) Bordetella pertussis Tohama I 2664703 NP_879400.1 CDS def NC_002929.2 559017 559529 R cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+); peptide deformylase complement(559017..559529) Bordetella pertussis Tohama I 2664170 NP_879401.1 CDS BP0553 NC_002929.2 559631 560881 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2080 TR:Q9I235 (EMBL:AE004635) (416 aa) fasta scores: E(): 6.6e-108, 63.462% id in 416 aa, and to Rhizobium loti probable kynureninase Mll0621 TR:Q98MD7 (EMBL:AP002995) (415 aa) fasta scores: E(): 1.4e-87, 54.348% id in 414 aa; hypothetical protein complement(559631..560881) Bordetella pertussis Tohama I 2664262 NP_879402.1 CDS lrp NC_002929.2 560970 561503 D Similar to Escherichia coli leucine-responsive regulatory protein Lrp or AlsB or LivR or Ihb or Oppi or b0889 SW:LRP_ECOLI (P19494) (163 aa) fasta scores: E(): 4.8e-16, 38.667% id in 150 aa, and to Rhizobium meliloti leucine-responsive regulatory protein Lrp or R01568 or Smc01223 SW:LRP_RHIME (P56901) (156 aa) fasta scores: E(): 1.6e-18, 43.243% id in 148 aa; leucine-responsive regulatory protein 560970..561503 Bordetella pertussis Tohama I 2664263 NP_879403.1 CDS smf NC_002929.2 561604 562716 D Similar to Escherichia coli Smf protein Smf or B3285/B3286 SW:SMF_ECOLI (P30852) (374 aa) fasta scores: E(): 1.5e-32, 43.974% id in 307 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0021 pa0021 TR:Q9I7A6 (EMBL:AE004441) (362 aa) fasta scores: E(): 5.2e-50, 51.639% id in 366 aa; hypothetical protein 561604..562716 Bordetella pertussis Tohama I 2664256 NP_879404.1 CDS hmgcL NC_002929.2 562830 563738 D catalyzes the formation of acetoacetate and acetyl-CoA from 3-hydroxy-3-methylglutaryl-CoA; hydroxymethylglutaryl-CoA lyase 562830..563738 Bordetella pertussis Tohama I 2664257 NP_879405.1 CDS BP0557 NC_002929.2 563881 564357 D no significant database matches; hypothetical protein 563881..564357 Bordetella pertussis Tohama I 2664084 NP_879406.1 CDS BP0558 NC_002929.2 564392 565408 R Similar to Rhizobium leguminosarum general L-amino acid-binding periplasmic protein AapJ precursor SW:AAPJ_RHILV (Q52812) (341 aa) fasta scores: E(): 3.3e-75, 56.932% id in 339 aa, and to Vibrio cholerae amino acid ABC transporter periplasmic amino acid-binding protein vc1362 TR:Q9KS97 (EMBL:AE004216) (342 aa) fasta scores: E(): 5.2e-79, 58.333% id in 336 aa; amino acid ABC transporter substrate-binding protein complement(564392..565408) Bordetella pertussis Tohama I 2664085 NP_879407.1 CDS BP0559 NC_002929.2 565522 566763 R Similar to Thermococcus profundus multiple substrate aminotransferase TR:Q9V2W5 (EMBL:AB027131) (417 aa) fasta scores: E(): 2.9e-42, 36.693% id in 387 aa, and to Streptomyces coelicolor aminotransferase Sce68.04C TR:Q9WX27 (EMBL:AL079345) (404 aa) fasta scores: E(): 8.4e-59, 48.429% id in 382 aa; aminotransferase complement(565522..566763) Bordetella pertussis Tohama I 2664650 NP_879408.1 CDS BP0561 NC_002929.2 567897 568862 D Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 8.8e-35, 36.957% id in 322 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 8.3e-40, 38.907% id in 311 aa; hypothetical protein 567897..568862 Bordetella pertussis Tohama I 2664298 NP_879409.1 CDS BP0562 NC_002929.2 568909 569400 R Similar to Rhizobium loti Mll3326 protein TR:Q98GH4 (EMBL:AP003001) (179 aa) fasta scores: E(): 6.4e-18, 41.830% id in 153 aa, and to Neisseria meningitidis hypothetical protein Nmb1557 TR:Q9JYJ5 (EMBL:AE002506) (157 aa) fasta scores: E(): 1e-15, 40.541% id in 148 aa; hypothetical protein complement(568909..569400) Bordetella pertussis Tohama I 2664299 NP_879410.1 CDS BP0563 NC_002929.2 569496 570395 R specific inhibitor of chromosomal initiation of replication in vitro; binds the three 13-mers in the origin (oriC) to block initiation of replication; also controls genes involved in arginine transport; chromosome replication initiation inhibitor protein complement(569496..570395) Bordetella pertussis Tohama I 2664300 NP_879411.1 CDS BP0564 NC_002929.2 570525 571160 D Similar to Streptomyces coelicolor membrane transport protein Sc5f8.18 TR:Q9K4K6 (EMBL:AL357613) (204 aa) fasta scores: E(): 4.7e-24, 42.714% id in 199 aa, and to Pseudomonas aeruginosa probable transporter Pa4365 TR:Q9HW36 (EMBL:AE004852) (200 aa) fasta scores: E(): 2.7e-22, 41.500% id in 200 aa; transporter 570525..571160 Bordetella pertussis Tohama I 2664261 NP_879412.1 CDS BP0565 NC_002929.2 571157 572107 R transposase for IS481 element; transposase complement(571157..572107) Bordetella pertussis Tohama I 2664458 NP_879413.1 CDS BP0566 NC_002929.2 572242 573090 R Similar to Rhizobium meliloti hypothetical/unknown protein Smc01026 TR:CAC46020 (EMBL:AL591787) (296 aa) fasta scores: E(): 0.25, 27.090% id in 299 aa, and to Agrobacterium tumefaciens Agr_c_2627p TR:AAK87216 (EMBL:AE008068) (292 aa) fasta scores: E(): 0.21, 27.852% id in 298 aa; dioxygenase complement(572242..573090) Bordetella pertussis Tohama I 2664386 NP_879414.1 CDS BP0567 NC_002929.2 573224 574000 D catalyzes the formation of L-aspartate to iminoaspartate in NAD(+) biosynthesis; L-aspartate dehydrogenase 573224..574000 Bordetella pertussis Tohama I 2664063 NP_879415.1 CDS BP0568 NC_002929.2 574046 574675 R Similar to Escherichia coli homoserine/homoserine lactone efflux protein RhtB or B3824 SW:RHTB_ECOLI (P27847) (206 aa) fasta scores: E(): 1.6e-14, 31.100% id in 209 aa, and to Rhizobium meliloti amino acid efflux transmembrane protein Smc02981 TR:CAC47452 (EMBL:AL591792) (211 aa) fasta scores: E(): 1.3e-40, 58.852% id in 209 aa; amino acid efflux protein complement(574046..574675) Bordetella pertussis Tohama I 2663971 NP_879416.1 CDS BP0569 NC_002929.2 574783 576117 D Similar to Escherichia coli Sun protein Sun or Fmu or Fmv or Rsmb or B3289 SW:SUN_ECOLI (P36929) (429 aa) fasta scores: E(): 7.1e-43, 36.406% id in 434 aa, and to Neisseria meningitidis Sun homolog Nma0162 TR:Q9JWZ0 (EMBL:AL162752) (419 aa) fasta scores: E(): 3.8e-54, 44.651% id in 430 aa; hypothetical protein 574783..576117 Bordetella pertussis Tohama I 2664511 NP_879417.1 CDS BP0570 NC_002929.2 576136 576747 D Similar to Neisseria meningitidis hypothetical protein Nma0161 TR:Q9JWZ1 (EMBL:AL162752) (199 aa) fasta scores: E(): 3.5e-12, 31.088% id in 193 aa, and to Neisseria meningitidis hypothetical protein Nmb0113 TR:Q9K1K4 (EMBL:AE002370) (180 aa) fasta scores: E(): 5.1e-11, 32.278% id in 158 aa; hypothetical protein 576136..576747 Bordetella pertussis Tohama I 2664380 NP_879418.1 CDS BP0571 NC_002929.2 576744 579053 D Similar to Azorhizobium caulinodans nitrogen regulation protein NtrY SW:NTRY_AZOCA (Q04850) (771 aa) fasta scores: E(): 8.8e-14, 29.107% id in 773 aa, and to Neisseria meningitidis nitrogen regulation protein NtrY, Nmb0114 TR:Q9K1K3 (EMBL:AE002370) (706 aa) fasta scores: E(): 6.2e-41, 37.748% id in 755 aa; two-component sensor kinase 576744..579053 Bordetella pertussis Tohama I 2664381 NP_879419.1 CDS BP0572 NC_002929.2 579064 579753 D Similar to Salmonella typhimurium transcriptional regulatory protein HydG SW:HYDG_SALTY (P25852) (441 aa) fasta scores: E(): 7.1e-09, 35.849% id in 159 aa, and to Neisseria meningitidis two-component trancriptional regulator Nma0159 TR:Q9JWZ3 (EMBL:AL162752) (425 aa) fasta scores: E(): 1.2e-25, 53.939% id in 165 aa; two-component response regulator 579064..579753 Bordetella pertussis Tohama I 2664756 NP_879420.1 CDS trkA NC_002929.2 579750 581129 D involved in potassium uptake; found to be peripherally associated with the inner membrane in Escherichia coli; contains an NAD-binding domain; potassium transporter peripheral membrane protein 579750..581129 Bordetella pertussis Tohama I 2664757 NP_879421.1 CDS trkH NC_002929.2 581178 582647 D Similar to Escherichia coli Trk system potassium uptake protein TrkH or B3849 or Z5371 or Ecs4777 SW:TRKH_ECOLI (P21166) (483 aa) fasta scores: E(): 4e-74, 42.798% id in 486 aa, and to Salmonella typhimurium Trk system potassium uptake protein TrkH or Stmd1.3 SW:TRKH_SALTY (Q9L6L2) (483 aa) fasta scores: E(): 2e-74, 43.004% id in 486 aa; Trk system potassium uptake protein 581178..582647 Bordetella pertussis Tohama I 2664758 NP_879422.1 CDS BP0575 NC_002929.2 582793 583260 D Similar to Escherichia coli transcriptional regulator protein SlyA TR:Q9F8R8 (EMBL:AF242208) (135 aa) fasta scores: E(): 2.1e-06, 29.630% id in 135 aa, and to Streptomyces coelicolor transcriptional regulator Sc4c6.14 TR:Q9XAM6 (EMBL:AL079355) (154 aa) fasta scores: E(): 8.9e-15, 40.000% id in 135 aa; MarR family transcriptional regulator 582793..583260 Bordetella pertussis Tohama I 2664762 NP_879423.1 CDS BP0576 NC_002929.2 583268 584263 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4618 TR:Q9HVH3 (EMBL:AE004876) (323 aa) fasta scores: E(): 7.3e-44, 42.271% id in 317 aa. Also similar to BP2128, 50.893% identity (53.271% ungapped) in 336 aa overlap.; hypothetical protein complement(583268..584263) Bordetella pertussis Tohama I 2664759 NP_879424.1 CDS BP0577 NC_002929.2 584397 584996 D Similar to Caulobacter crescentus hypothetical protein Cc0019 TR:Q9AC47 (EMBL:AE005676) (210 aa) fasta scores: E(): 7e-13, 41.176% id in 204 aa, and to Agrobacterium tumefaciens Agr_pat_742p TR:AAK90876 (EMBL:AE007918) (230 aa) fasta scores: E(): 1.5e-09, 37.056% id in 197 aa; hypothetical protein 584397..584996 Bordetella pertussis Tohama I 2664760 NP_879425.1 CDS BP0578 NC_002929.2 585320 586282 D Similar to Synechocystis sp hypothetical 38.3 kDa protein Slr0619 TR:Q55861 (EMBL:D64004) (348 aa) fasta scores: E(): 1e-44, 47.569% id in 288 aa, and to Agrobacterium tumefaciens Agr_c_4595p TR:AAK88260 (EMBL:AE008165) (327 aa) fasta scores: E(): 3.2e-35, 45.260% id in 327 aa; hypothetical protein 585320..586282 Bordetella pertussis Tohama I 2664761 NP_879426.1 CDS maiA NC_002929.2 586308 587060 D Similar to Serratia marcescens maleate cis-trans isomerase MaiA TR:Q9KWI0 (EMBL:AB035810) (250 aa) fasta scores: E(): 3.6e-69, 78.800% id in 250 aa, and to Bacillus stearothermophilus maleate cis-trans isomerase MaiA TR:Q9WX57 (EMBL:AB015134) (251 aa) fasta scores: E(): 4.3e-57, 65.339% id in 251 aa. Identical to BP1955, 99.600% identity (99.600% ungapped) in 250 aa overlap.; maleate cis-trans isomerase 586308..587060 Bordetella pertussis Tohama I 2664763 NP_879427.1 CDS BP0581 NC_002929.2 587927 588958 D Similar to Pyrococcus horikoshii hypothetical 34.8 kDa protein Ph1048 TR:O58749 (EMBL:AP000004) (320 aa) fasta scores: E(): 1.5e-06, 25.429% id in 350 aa. Identical to BP1957, 100.000% identity (100.000% ungapped) in 343 aa overlap.; hypothetical protein 587927..588958 Bordetella pertussis Tohama I 2664765 NP_879428.1 CDS BP0582 NC_002929.2 588974 589591 D Similar to Arthrobacter sp N-carbamoylsarcosine amidase SW:CSH_ARTSP (P32400) (264 aa) fasta scores: E(): 2e-14, 32.673% id in 202 aa, and to Thermoplasma volcanium isochorismatase Tvg0787823 TR:Q97AM6 (EMBL:AP000993) (175 aa) fasta scores: E(): 6.1e-07, 28.409% id in 176 aa. Identical to BP1958, 100.000% identity (100.000% ungapped) in 205 aa overlap.; isochorismatase 588974..589591 Bordetella pertussis Tohama I 2664766 NP_879429.1 CDS BP0583 NC_002929.2 589662 590177 R Similar to Pseudomonas sp salicylate-5-hydroxylase small oxygenase component NagH TR:O52380 (EMBL:AF036940) (161 aa) fasta scores: E(): 1.4e-17, 36.364% id in 154 aa, and to Burkholderia sp RasC ferredoxin oxidoreductase TR:Q9Z5Q7 (EMBL:U62430) (161 aa) fasta scores: E(): 8.8e-18, 36.364% id in 154 aa; ring hydroxylating subunit beta complement(589662..590177) Bordetella pertussis Tohama I 2664767 NP_879430.1 CDS BP0584 NC_002929.2 590192 591481 R Similar to Pseudomonas sp salicylate-5-hydroxylase large oxygenase component NagG TR:O52379 (EMBL:AF036940) (423 aa) fasta scores: E(): 4.2e-80, 46.731% id in 413 aa, and to Pseudomonas aeruginosa O-halobenzoate dioxygenase alpha subunit OhbB TR:O87618 (EMBL:AF087482) (421 aa) fasta scores: E(): 2.5e-76, 46.229% id in 411 aa; ring hydroxylating subunit alpha complement(590192..591481) Bordetella pertussis Tohama I 2664768 NP_879431.1 CDS BP0585 NC_002929.2 591517 592779 R Similar to Pseudomonas sp ferredoxin reductase BphA4 TR:Q52437 (EMBL:D16831) (408 aa) fasta scores: E(): 5.8e-45, 40.244% id in 410 aa, and to Rhizobium meliloti MocF TR:Q9R9P5 (EMBL:AF076471) (408 aa) fasta scores: E(): 2.2e-49, 43.826% id in 413 aa; ferredoxin reductase complement(591517..592779) Bordetella pertussis Tohama I 2664769 NP_879432.1 CDS BP0586 NC_002929.2 592782 593093 R Similar to Pseudomonas putida naphthalene 1,2-dioxygenase system ferredoxin component NdoA or NahaB or DoxA or NdoC1 SW:NDOA_PSEPU (P23082) (103 aa) fasta scores: E(): 1.4e-20, 55.882% id in 102 aa, and to Pseudomonas sp ferredoxin NagaB or PahaB TR:O52381 (EMBL:AF036940) (104 aa) fasta scores: E(): 1.9e-19, 49.505% id in 101 aa; ferredoxin complement(592782..593093) Bordetella pertussis Tohama I 2664770 NP_879433.1 CDS BP0589 NC_002929.2 593563 594666 D Similar to Rhodobacter sphaeroides periplasmic mannitol-binding protein SmoM TR:O30835 (EMBL:AF018073) (365 aa) fasta scores: E(): 2.1e-68, 47.411% id in 367 aa, and to Agrobacterium tumefaciens Agr_pat_385p TR:AAK90643 (EMBL:AE007896) (370 aa) fasta scores: E(): 3.8e-69, 48.189% id in 359 aa. Also similar to BP2963 (55.249% identity in 362 aa overlap), BP1487 (54.521% identity in 365 aa overlap), and to BP2661 (48.916% identity in 323 aa overlap); hypothetical protein 593563..594666 Bordetella pertussis Tohama I 2664771 NP_879434.1 CDS BP0590 NC_002929.2 594696 597068 D Similar to Pseudomonas putida quinoline 2-oxidoreductase, large chain QorL TR:P72224 (EMBL:X98131) (788 aa) fasta scores: E(): 1.2e-91, 36.882% id in 789 aa, and to Mycobacterium tuberculosis CDC1551 carbon monoxide dehydrogenase, large subunit, Mt0388 TR:AAK44610 (EMBL:AE006943) (799 aa) fasta scores: E(): 3.4e-84, 36.181% id in 796 aa; oxidoreductase large subunit 594696..597068 Bordetella pertussis Tohama I 2664772 NP_879435.1 CDS BP0591 NC_002929.2 597065 597901 D Similar to Pseudomonas putida quinoline 2-oxidoreductase, medium chain QorM TR:P72222 (EMBL:X98131) (288 aa) fasta scores: E(): 4.4e-20, 38.182% id in 220 aa, and to Arthrobacter nicotinovorans nicotine dehydrogenase, medium chain NdhA TR:Q59127 (EMBL:X75338) (283 aa) fasta scores: E(): 4.5e-23, 36.015% id in 261 aa; oxidoreductase medium subunit 597065..597901 Bordetella pertussis Tohama I 2664773 NP_879436.1 CDS BP0592 NC_002929.2 597898 599085 D The N-terminal region of this CDS is similar to Pseudomonas putida quinoline 2-oxidoreductase, small chain QorS TR:P72223 (EMBL:X98131) (168 aa) fasta scores: E(): 2.3e-22, 47.260% id in 146 aa, and to Mycobacterium tuberculosis CDC1551 carbon monoxide dehydrogenase, small subunit, Mt0389 TR:AAK44611 (EMBL:AE006943) (159 aa) fasta scores: E(): 4.7e-22, 50.000% id in 146 aa.; iron-sulfur binding protein 597898..599085 Bordetella pertussis Tohama I 2664774 NP_879437.1 CDS BP0593 NC_002929.2 599120 600148 D Similar to Rhizobium loti Mlr6799 protein Mlr6799 TR:Q988C5 (EMBL:AP003010) (336 aa) fasta scores: E(): 1.4e-16, 27.879% id in 330 aa, and to Agrobacterium tumefaciens Agr_l_129gMp TR:AAK88849 (EMBL:AE008228) (329 aa) fasta scores: E(): 2.8e-16, 26.074% id in 326 aa; hypothetical protein 599120..600148 Bordetella pertussis Tohama I 2664776 NP_879438.1 CDS BP0594 NC_002929.2 600145 600933 D Similar to Arthrobacter keyseri transporter ATPase PtrA TR:Q9AGL2 (EMBL:AF331043) (275 aa) fasta scores: E(): 3.8e-32, 48.018% id in 227 aa, and to Agrobacterium tumefaciens Agr_l_1027gMp TR:AAK88847 (EMBL:AE008228) (269 aa) fasta scores: E(): 1.5e-36, 48.583% id in 247 aa; ABC transporter ATP-binding protein 600145..600933 Bordetella pertussis Tohama I 2664777 NP_879439.1 CDS BP0595 NC_002929.2 600930 601703 D Similar to Rhizobium loti ABC transporter permease Mlr6798 TR:Q988C6 (EMBL:AP003010) (275 aa) fasta scores: E(): 9.2e-31, 39.592% id in 245 aa, and to Agrobacterium tumefaciens Agr_l_128gMp TR:AAK88848 (EMBL:AE008228) (267 aa) fasta scores: E(): 8e-32, 42.105% id in 228 aa; ABC transporter permease 600930..601703 Bordetella pertussis Tohama I 2664778 NP_879440.1 CDS BP0596 NC_002929.2 601743 602372 D Similar to Rhizobium loti Mll5171 protein Mll5171 TR:Q98CF5 (EMBL:AP003005) (194 aa) fasta scores: E(): 5.1e-34, 50.785% id in 191 aa, and to Agrobacterium tumefaciens Agr_pat_389p TR:AAK90645 (EMBL:AE007896) (222 aa) fasta scores: E(): 5.4e-38, 53.333% id in 180 aa. Almost identical to BP1488, 99.522% identity in 209 aa overlap.; hypothetical protein 601743..602372 Bordetella pertussis Tohama I 2664779 NP_879441.1 CDS BP0597 NC_002929.2 602375 604033 D Similar to Rhizobium meliloti hypothetical transmembrane protein Smc04249 TR:CAC46498 (EMBL:AL591788) (597 aa) fasta scores: E(): 4.8e-127, 61.922% id in 562 aa, and to Rhizobium loti Mll5170 protein TR:Q98CF6 (EMBL:AP003005) (589 aa) fasta scores: E(): 7.4e-122, 61.749% id in 549 aa; hypothetical protein 602375..604033 Bordetella pertussis Tohama I 2664780 NP_879442.1 CDS BP0598 NC_002929.2 604382 605623 D ATP-dependent; carboxylate-amine ligase with weak glutamate--cysteine ligase activity; carboxylate-amine ligase 604382..605623 Bordetella pertussis Tohama I 2664781 NP_879443.1 CDS BP0599 NC_002929.2 605639 606562 R Similar to Neisseria meningitidis hypothetical protein Nmb0271 TR:Q9K196 (EMBL:AE002383) (262 aa) fasta scores: E(): 1.6e-17, 35.102% id in 245 aa, and to Xylella fastidiosa biotin synthesis protein Xf2099 TR:Q9PBP1 (EMBL:AE004025) (295 aa) fasta scores: E(): 1.1e-13, 33.910% id in 289 aa; hypothetical protein complement(605639..606562) Bordetella pertussis Tohama I 2664782 NP_879444.1 CDS BP0600 NC_002929.2 606770 607384 D Similar to Pseudomonas aeruginosa probable phosphoribosyl transferase Pa0489 TR:Q9I629 (EMBL:AE004486) (241 aa) fasta scores: E(): 2.9e-13, 39.109% id in 202 aa, and to Neisseria meningitidis hypothetical protein Nma2217 TR:Q9JSM9 (EMBL:AL162758) (241 aa) fasta scores: E(): 1.5e-12, 35.644% id in 202 aa; hypothetical protein 606770..607384 Bordetella pertussis Tohama I 2664783 NP_879445.1 CDS BP0601 NC_002929.2 607459 607929 D Similar to Escherichia coli hypothetical tRNA/rRNA methyltransferase YibK or B3606 SW:YIBK_ECOLI (P33899) (157 aa) fasta scores: E(): 5.4e-28, 51.282% id in 156 aa, and to Neisseria meningitidis RNA methyltransferase, TrmH family Nmb0268 TR:Q9K199 (EMBL:AE002383) (154 aa) fasta scores: E(): 8.9e-33, 58.974% id in 156 aa; rRNA methylase 607459..607929 Bordetella pertussis Tohama I 2664784 NP_879446.1 CDS gpsA NC_002929.2 609000 610055 R catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate; NAD(P)H-dependent glycerol-3-phosphate dehydrogenase complement(609000..610055) Bordetella pertussis Tohama I 2664786 NP_879447.1 CDS secB NC_002929.2 610071 610598 R molecular chaperone that is required for the normal export of envelope proteins out of the cell cytoplasm; in Escherichia coli this proteins forms a homotetramer in the cytoplasm and delivers proteins to be exported to SecA; preprotein translocase subunit SecB complement(610071..610598) Bordetella pertussis Tohama I 2664787 NP_879448.1 CDS grxC NC_002929.2 610652 610912 R Similar to Escherichia coli glutaredoxin 3 GrxC or B3610 SW:GLR3_ECOLI (P37687) (82 aa) fasta scores: E(): 5.4e-14, 56.250% id in 80 aa, and to Pseudomonas fluorescens glutaredoxin 3 Grx3 TR:AAK38716 (EMBL:AF359453) (84 aa) fasta scores: E(): 4.2e-15, 56.627% id in 83 aa; glutaredoxin 3 complement(610652..610912) Bordetella pertussis Tohama I 2664788 NP_879449.1 CDS BP0606 NC_002929.2 610946 611368 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5130 TR:Q9HU54 (EMBL:AE004926) (139 aa) fasta scores: E(): 6.5e-09, 33.846% id in 130 aa, and to Xylella fastidiosa hypothetical protein Xf1800 TR:Q9PCH9 (EMBL:AE004001) (161 aa) fasta scores: E(): 2.8e-08, 30.935% id in 139 aa; hypothetical protein complement(610946..611368) Bordetella pertussis Tohama I 2664789 NP_879450.1 CDS gpmA NC_002929.2 611521 612273 D 2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate; phosphoglyceromutase 611521..612273 Bordetella pertussis Tohama I 2664790 NP_879451.1 CDS BP0608 NC_002929.2 612277 613842 D Similar to Pseudomonas aeruginosa hypothetical protein Pa5133 TR:Q9HU51 (EMBL:AE004926) (428 aa) fasta scores: E(): 4.3e-20, 33.665% id in 502 aa, and to Escherichia coli hypothetical 46.6 kDa protein in secB-tdh intergenic region YibP or B3613 SW:YIBP_ECOLI (P37690) (419 aa) fasta scores: E(): 1e-14, 31.218% id in 394 aa; peptidase 612277..613842 Bordetella pertussis Tohama I 2664791 NP_879452.1 CDS ctpA NC_002929.2 613869 615314 D Similar to Bartonella bacilliformis carboxy-terminal processing protease precursor CtpA SW:CTPA_BARBA (Q44879) (434 aa) fasta scores: E(): 8.3e-36, 44.545% id in 440 aa, and to Bartonella quintana carboxy-terminal protease CtpA TR:Q9ZF67 (EMBL:AF110497) (441 aa) fasta scores: E(): 1.5e-38, 44.622% id in 437 aa; carboxy-terminal processing protease 613869..615314 Bordetella pertussis Tohama I 2664792 NP_879453.1 CDS thiF NC_002929.2 615311 616105 D Similar to Escherichia coli adenylyltransferase ThiF or B3992 SW:THIF_ECOLI (P30138) (251 aa) fasta scores: E(): 1.1e-41, 50.000% id in 252 aa, and to Pseudomonas aeruginosa molybdopterin biosynthesis MoeB protein or Pa4663 TR:Q9HVC9 (EMBL:AE004880) (252 aa) fasta scores: E(): 5.7e-48, 54.365% id in 252 aa; adenylyltransferase 615311..616105 Bordetella pertussis Tohama I 2664793 NP_879454.1 CDS BP0611 NC_002929.2 616102 617052 R transposase for IS481 element; transposase complement(616102..617052) Bordetella pertussis Tohama I 2664794 NP_879455.1 CDS BP0612 NC_002929.2 617222 618193 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 6.5e-37, 36.196% id in 326 aa, and to Comamonas testosteroni Orf4 protein TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 3.9e-36, 35.831% id in 307 aa; hypothetical protein 617222..618193 Bordetella pertussis Tohama I 2664796 NP_879456.1 CDS BP0613 NC_002929.2 618253 619059 R Similar to Erwinia chrysanthemi pectin degradation repressor protein KdgR SW:KDGR_ERWCH (P37728) (305 aa) fasta scores: E(): 1.7e-11, 29.057% id in 265 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa2010 TR:Q9I2A1 (EMBL:AE004627) (267 aa) fasta scores: E(): 2.3e-26, 35.178% id in 253 aa. Also similar to BP3482 (47.244% identity in 254 aa overlap); transcriptional regulator complement(618253..619059) Bordetella pertussis Tohama I 2664797 NP_879457.1 CDS BP0615 NC_002929.2 621022 621981 D Similar to Comamonas testosteroni Orf4 protein TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 1.7e-32, 38.782% id in 312 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 5.6e-29, 32.399% id in 321 aa; hypothetical protein 621022..621981 Bordetella pertussis Tohama I 2664531 NP_879458.1 CDS BP0616 NC_002929.2 622035 622880 D Similar to Mycobacterium tuberculosis CDC1551 conserved hypothetical protein Mt3614 TR:AAK47972 (EMBL:AE007164) (278 aa) fasta scores: E(): 4.2e-15, 27.698% id in 278 aa, and to Agrobacterium tumefaciens Agr_c_2623p TR:AAK87214 (EMBL:AE008068) (291 aa) fasta scores: E(): 8.6e-11, 30.516% id in 213 aa; hypothetical protein 622035..622880 Bordetella pertussis Tohama I 2664532 NP_879459.1 CDS BP0617 NC_002929.2 622934 623548 R Similar to Caulobacter crescentus transcriptional regulator, TetR family Cc0992 TR:Q9A9I8 (EMBL:AE005777) (210 aa) fasta scores: E(): 1.8e-13, 34.503% id in 171 aa, and to Rhodococcus spNCIMB 9784. transcriptional repressor CampR TR:AAK50621 (EMBL:AF323755) (206 aa) fasta scores: E(): 2.3e-11, 25.000% id in 184 aa; TetR family transcriptional regulator complement(622934..623548) Bordetella pertussis Tohama I 2664494 NP_879460.1 CDS lpdA NC_002929.2 623630 625039 R Similar to Escherichia coli dihydrolipoamide dehydrogenase LpdA or Lpd or B0116 SW:DLDH_ECOLI (P00391) (473 aa) fasta scores: E(): 4.1e-94, 55.579% id in 466 aa, and to Salmonella enterica subspenterica serovar Typhimurium. dihydrolipoamide dehydrogenase Lpd TR:Q9ACP1 (EMBL:AJ297525) (475 aa) fasta scores: E(): 4.7e-94, 55.246% id in 467 aa; dihydrolipoamide dehydrogenase complement(623630..625039) Bordetella pertussis Tohama I 2664372 NP_879461.1 CDS BP0619 NC_002929.2 625056 625796 R Similar to Thermotoga maritima branched chain amino acid ABC transporter ATP-binding protein Tm1139 TR:Q9X0M3 (EMBL:AE001771) (239 aa) fasta scores: E(): 4.2e-29, 46.186% id in 236 aa, and to Deinococcus radiodurans branched-chain amino acid ABC transporter ATP-binding protein Dr2118 TR:Q9RSK6 (EMBL:AE002047) (236 aa) fasta scores: E(): 8.1e-29, 43.644% id in 236 aa; branched-chain amino acid ABC transporter ATP-binding protein complement(625056..625796) Bordetella pertussis Tohama I 2664795 NP_879462.1 CDS BP0620 NC_002929.2 625789 627612 R Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivG or B3455 or Z4825 or Ecs4302 SW:LIVG_ECOLI (P22730) (255 aa) fasta scores: E(): 2.2e-23, 36.905% id in 252 aa, and to Deinococcus radiodurans branched-chain amino acid ABC tranpsorter, ATP binding protein Dra0261 TR:Q9RYP8 (EMBL:AE001863) (587 aa) fasta scores: E(): 6.1e-44, 34.028% id in 576 aa; branched-chain amino acid ABC transporter permease complement(625789..627612) Bordetella pertussis Tohama I 2664067 NP_879463.1 CDS BP0621 NC_002929.2 627609 628493 R Similar to Escherichia coli high-affinity branched-chain amino acid transport system permease LivH or B3457 SW:LIVH_ECOLI (P08340) (308 aa) fasta scores: E(): 8.7e-22, 32.895% id in 304 aa, and to Salmonella typhimurium high-affinity branched-chain amino acid transport system permease LivH or LivA SW:LIVH_SALTY (P30295) (308 aa) fasta scores: E(): 2.1e-22, 32.895% id in 304 aa; branched-chain amino acid ABC transporter permease complement(627609..628493) Bordetella pertussis Tohama I 2664083 NP_879464.1 CDS BP0622 NC_002929.2 628563 629771 R Similar to Escherichia coli leu/ile/val-binding protein precursor LivJ or B3460 SW:LIVJ_ECOLI (P02917) (367 aa) fasta scores: E(): 5e-13, 28.428% id in 299 aa, and to Rhizobium meliloti probable leu/ile/val-binding protein TR:CAC45495 (EMBL:AL591785) (368 aa) fasta scores: E(): 6.4e-15, 32.861% id in 353 aa; leu/Ile/val-binding protein complement(628563..629771) Bordetella pertussis Tohama I 2664724 NP_879465.1 CDS BP0624 NC_002929.2 631264 632757 R activates fatty acids by binding to coenzyme A; acyl-CoA synthetase complement(631264..632757) Bordetella pertussis Tohama I 2667762 NP_879466.1 CDS BP0625 NC_002929.2 632837 634012 R Similar to Pseudomonas putida FadfX TR:Q9AHX9 (EMBL:AF290950) (375 aa) fasta scores: E(): 8.8e-34, 33.425% id in 362 aa, and to Archaeoglobus fulgidus acyl-CoA dehydrogenase Af0964 TR:O29298 (EMBL:AE001038) (394 aa) fasta scores: E(): 5.4e-66, 44.810% id in 395 aa; acyl-CoA dehydrogenase complement(632837..634012) Bordetella pertussis Tohama I 2664804 NP_879467.1 CDS BP0627 NC_002929.2 634843 635628 R Similar to Clostridium acetobutylicum 3-hydroxybutyryl-coa dehydratase Crt or Cac2712 SW:CRT_CLOAB (P52046) (261 aa) fasta scores: E(): 8.7e-33, 39.764% id in 254 aa, and to Clostridium thermosaccharolyticum crotonase Crt TR:P97087 (EMBL:Z92974) (259 aa) fasta scores: E(): 8.7e-33, 40.698% id in 258 aa; enoyl-CoA hydratase/isomerase complement(634843..635628) Bordetella pertussis Tohama I 2665121 NP_879468.1 CDS BP0628 NC_002929.2 635643 636617 R Similar to Zea mays pyruvate dehydrogenase E1 beta subunit isoform 2 Pdh2 TR:Q9ZQY2 (EMBL:AF069909) (374 aa) fasta scores: E(): 4.3e-56, 47.077% id in 325 aa, and to Rhizobium loti acetoin dehydrogenase Mll3628 TR:Q98FT4 (EMBL:AP003002) (332 aa) fasta scores: E(): 3.5e-60, 51.713% id in 321 aa; pyruvate dehydrogenase E1 subunit beta complement(635643..636617) Bordetella pertussis Tohama I 2665368 NP_879469.1 CDS pdhA NC_002929.2 636619 637590 R Similar to Clostridium magnum TPP-dependent acetoin dehydrogenase alpha-subunit TR:Q46142 (EMBL:L31844) (326 aa) fasta scores: E(): 8.2e-48, 43.631% id in 314 aa, and to Pseudomonas aeruginosa probable dehydrogenase e1 component Pa4150 TR:Q9HWN1 (EMBL:AE004831) (324 aa) fasta scores: E(): 3.1e-48, 45.541% id in 314 aa; pyruvate dehydrogenase E1 component subunit alpha complement(636619..637590) Bordetella pertussis Tohama I 2665369 NP_879470.1 CDS BP0630 NC_002929.2 637904 638737 R Similar to Escherichia coli negative regulator of allantoin and glyoxylate utilization operons AllR or GlxA3 or B0506 or Z0660 or Ecs0567 SW:ALLR_ECOLI (P77734) (271 aa) fasta scores: E(): 1.7e-10, 27.237% id in 257 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa1015 TR:Q9I4V8 (EMBL:AE004534) (266 aa) fasta scores: E(): 4.6e-31, 39.184% id in 245 aa; transcriptional regulator complement(637904..638737) Bordetella pertussis Tohama I 2664712 NP_879471.1 CDS BP0633 NC_002929.2 641252 642244 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 5.4e-41, 39.577% id in 331 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 7.1e-42, 42.368% id in 321 aa; hypothetical protein complement(641252..642244) Bordetella pertussis Tohama I 2664268 NP_879472.1 CDS BP0634 NC_002929.2 642492 643640 D Similar to Bacillus subtilis acyl-CoA dehydrogenase AcdA or Acd SW:ACDA_BACSU (P45867) (379 aa) fasta scores: E(): 1.1e-49, 40.849% id in 377 aa, and to Bacillus halodurans acyl-CoA dehydrogenase AcdA or Bh3798 TR:Q9K6D1 (EMBL:AP001520) (380 aa) fasta scores: E(): 5.8e-53, 41.270% id in 378 aa; acyl-CoA dehydrogenase 642492..643640 Bordetella pertussis Tohama I 2664424 NP_879473.1 CDS BP0635 NC_002929.2 643637 644443 D Similar to Escherichia coli probable enoyl-CoA hydratase PaaG or B1394 SW:PAAG_ECOLI (P77467) (262 aa) fasta scores: E(): 5.2e-25, 33.846% id in 260 aa, and to Rhizobium meliloti enoyl-CoA hydratase TR:CAC49952 (EMBL:AL603647) (263 aa) fasta scores: E(): 8.5e-28, 39.147% id in 258 aa; enoyl-CoA hydratase 643637..644443 Bordetella pertussis Tohama I 2664425 NP_879474.1 CDS BP0636 NC_002929.2 644440 645594 D Similar to Rhodococcus spNCIMB 9784 non-specific lipid carrier-like protein CampC TR:AAK50624 (EMBL:AF323755) (408 aa) fasta scores: E(): 8.1e-37, 35.106% id in 376 aa, and to Pseudomonas aeruginosa hypothetical protein Pa1016 TR:Q9I4V7 (EMBL:AE004534) (383 aa) fasta scores: E(): 2.1e-46, 41.425% id in 379 aa; hypothetical protein 644440..645594 Bordetella pertussis Tohama I 2663986 NP_879475.1 CDS BP0637 NC_002929.2 645596 645997 D Similar to Thermoplasma volcanium hypothetical protein Tvg0142586 TR:Q97CG7 (EMBL:AP000991) (135 aa) fasta scores: E(): 1.1e-07, 36.522% id in 115 aa, and to Archaeoglobus fulgidus conserved hypothetical protein Af0284 TR:O29957 (EMBL:AE001085) (165 aa) fasta scores: E(): 2.2e-06, 29.091% id in 110 aa; hypothetical protein 645596..645997 Bordetella pertussis Tohama I 2664500 NP_879476.1 CDS BP0638 NC_002929.2 645994 646389 D no significant database matches; hypothetical protein 645994..646389 Bordetella pertussis Tohama I 2664501 NP_879477.1 CDS BP0639 NC_002929.2 646386 646778 D Similar to Archaeoglobus fulgidus monoamine oxidase regulatory protein, Af0198 TR:O30041 (EMBL:AE001092) (146 aa) fasta scores: E(): 6.9e-07, 44.444% id in 90 aa, and to Archaeoglobus fulgidus conserved hypothetical protein Af1124 TR:O29141 (EMBL:AE001026) (159 aa) fasta scores: E(): 1.6e-06, 28.182% id in 110 aa; hypothetical protein 646386..646778 Bordetella pertussis Tohama I 2664402 NP_879478.1 CDS BP0640 NC_002929.2 646789 647949 D Similar to Pseudomonas putida FadfX TR:Q9AHX9 (EMBL:AF290950) (375 aa) fasta scores: E(): 3.6e-38, 33.858% id in 381 aa, and to Pseudomonas aeruginosa probable acyl-CoA dehydrogenase Pa2889 TR:Q9HZV8 (EMBL:AE004715) (386 aa) fasta scores: E(): 6.2e-86, 55.584% id in 385 aa; acyl-CoA dehydrogenase 646789..647949 Bordetella pertussis Tohama I 2664403 NP_879479.1 CDS BP0641 NC_002929.2 647987 648958 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.5e-40, 40.000% id in 315 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 4.7e-39, 40.312% id in 320 aa; hypothetical protein 647987..648958 Bordetella pertussis Tohama I 2664513 NP_879480.1 CDS BP0642 NC_002929.2 648966 650114 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3592 TR:Q9HY34 (EMBL:AE004779) (395 aa) fasta scores: E(): 1.9e-30, 35.567% id in 388 aa, and to Rhodococcus erythropolis dehydratase/racemase TR:Q9AH11 (EMBL:AF323606) (400 aa) fasta scores: E(): 8.9e-30, 32.626% id in 377 aa; hypothetical protein 648966..650114 Bordetella pertussis Tohama I 2664514 NP_879481.1 CDS BP0643 NC_002929.2 650111 651001 R Similar to Escherichia coli transcriptional activator protein LysR or B2839 SW:LYSR_ECOLI (P03030) (311 aa) fasta scores: E(): 1.9e-27, 34.843% id in 287 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa5085 TR:Q9HU98 (EMBL:AE004921) (318 aa) fasta scores: E(): 1e-25, 35.395% id in 291 aa; LysR family transcriptional regulator complement(650111..651001) Bordetella pertussis Tohama I 2664515 NP_879482.1 CDS BP0644 NC_002929.2 651208 652155 D Similar to Thermotoga maritima dihydrodipicolinate synthase DapA or Tm1521 SW:DAPA_THEMA (Q9X1K9) (294 aa) fasta scores: E(): 8.1e-16, 28.400% id in 250 aa, and to Agrobacterium tumefaciens Agr_pat_671p TR:AAK90832 (EMBL:AE007915) (302 aa) fasta scores: E(): 6.3e-20, 32.056% id in 287 aa; dihydrodipicolinate synthase 651208..652155 Bordetella pertussis Tohama I 2664350 NP_879483.1 CDS BP0645 NC_002929.2 652254 653204 D transposase for IS481 element; transposase 652254..653204 Bordetella pertussis Tohama I 2664351 NP_879484.1 CDS BP0646 NC_002929.2 653303 654253 D transposase for IS481 element; transposase 653303..654253 Bordetella pertussis Tohama I 2667714 NP_879485.1 CDS BP0647 NC_002929.2 654250 654657 R Similar to Pyrococcus abyssi hypothetical 13.6 kDa protein Pab1062 TR:Q9UY93 (EMBL:AJ248288) (130 aa) fasta scores: E(): 4e-09, 30.328% id in 122 aa, and to Pyrococcus horikoshii hypothetical 14.0 kDa protein Ph0353 SW:Y353_PYRHO (O58091) (134 aa) fasta scores: E(): 2.1e-08, 31.405% id in 121 aa; hypothetical protein complement(654250..654657) Bordetella pertussis Tohama I 2664156 NP_879486.1 CDS BP0649 NC_002929.2 655941 656912 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.4e-43, 43.168% id in 322 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 5.1e-43, 41.667% id in 324 aa; hypothetical protein complement(655941..656912) Bordetella pertussis Tohama I 2664158 NP_879487.1 CDS BP0650 NC_002929.2 657019 657981 D Similar to Azospirillum brasilense galactose-binding protein regulator GbpR SW:GBPR_AZOBR (P52661) (342 aa) fasta scores: E(): 1.7e-23, 31.683% id in 303 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa2206 TR:Q9I1R1 (EMBL:AE004647) (315 aa) fasta scores: E(): 4.2e-28, 32.468% id in 308 aa; LysR family transcriptional regulator 657019..657981 Bordetella pertussis Tohama I 2667716 NP_879488.1 CDS dld NC_002929.2 658100 659821 D component of the membrane-bound D-lactate oxidase, FAD-binding, NADH independent; D-lactate dehydrogenase 658100..659821 Bordetella pertussis Tohama I 2667686 NP_879489.1 CDS BP0652 NC_002929.2 659865 660995 R Similar to Caulobacter crescentus acyl-CoA dehydrogenase family protein Cc1311 TR:Q9A8P2 (EMBL:AE005806) (401 aa) fasta scores: E(): 2.8e-46, 40.476% id in 378 aa, and to Pseudomonas aeruginosa probable acyl-CoA dehydrogenase Pa0746 TR:Q9I5I3 (EMBL:AE004509) (387 aa) fasta scores: E(): 3.9e-26, 31.622% id in 370 aa; acyl-CoA dehydrogenase complement(659865..660995) Bordetella pertussis Tohama I 2667715 NP_879490.1 CDS BP0653 NC_002929.2 661009 662199 R Similar to Caulobacter crescentus acyl-CoA dehydrogenase family protein Cc1310 TR:Q9A8P3 (EMBL:AE005806) (404 aa) fasta scores: E(): 2e-81, 50.495% id in 404 aa, and to Pseudomonas aeruginosa probable acyl-CoA dehydrogenase Pa1022 TR:Q9I4V2 (EMBL:AE004534) (381 aa) fasta scores: E(): 2e-46, 41.582% id in 392 aa; acyl-CoA dehydrogenase complement(661009..662199) Bordetella pertussis Tohama I 2664805 NP_879491.1 CDS BP0654 NC_002929.2 662380 663399 R Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1.4e-36, 37.690% id in 329 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 4.1e-35, 36.677% id in 319 aa; hypothetical protein complement(662380..663399) Bordetella pertussis Tohama I 2667684 NP_879492.1 CDS BP0655 NC_002929.2 663532 664704 R catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine; acetylornithine deacetylase complement(663532..664704) Bordetella pertussis Tohama I 2667685 NP_879493.1 CDS BP0656 NC_002929.2 664697 665371 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5391 TR:Q9HTH3 (EMBL:AE004951) (224 aa) fasta scores: E(): 1.9e-54, 68.304% id in 224 aa, and to Aeropyrum pernix hypothetical 32.5 kDa protein Ape1388 TR:Q9YC63 (EMBL:AP000061) (301 aa) fasta scores: E(): 2.2e-18, 42.771% id in 166 aa; hypothetical protein complement(664697..665371) Bordetella pertussis Tohama I 2667723 NP_879494.1 CDS BP0657 NC_002929.2 665382 665810 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5392 TR:Q9HTH2 (EMBL:AE004951) (140 aa) fasta scores: E(): 5.7e-50, 92.086% id in 139 aa, and to Rhizobium meliloti hypothetical 14.1 kDa protein Sma2289 TR:AAK65890 (EMBL:AE007308) (130 aa) fasta scores: E(): 2.3e-07, 33.333% id in 123 aa; endoribonuclease complement(665382..665810) Bordetella pertussis Tohama I 2667724 NP_879495.1 CDS BP0658 NC_002929.2 665841 667115 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5393 TR:Q9HTH1 (EMBL:AE004951) (450 aa) fasta scores: E(): 2.8e-129, 75.962% id in 416 aa, and to Synechocystis sp hypothetical 46.6 kDa protein Slr0801 TR:Q55951 (EMBL:D64005) (416 aa) fasta scores: E(): 1.8e-54, 40.594% id in 404 aa; hypothetical protein complement(665841..667115) Bordetella pertussis Tohama I 2667725 NP_879496.1 CDS BP0659 NC_002929.2 667480 668463 D Similar to Escherichia coli protein YhdH or B3253 SW:YHDH_ECOLI (P26646) (324 aa) fasta scores: E(): 3.9e-65, 57.500% id in 320 aa, and to Rhizobium loti dehydrogenase, zinc-binding alcohol dehydrogenase, NADPH quinone oxidoreductase, oxidoreductase Mlr3212 TR:Q98GR0 (EMBL:AP003001) (329 aa) fasta scores: E(): 8.3e-71, 59.752% id in 323 aa; zinc-binding dehydrogenase 667480..668463 Bordetella pertussis Tohama I 2667726 NP_879497.1 CDS BP0660 NC_002929.2 668547 669491 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa0218 TR:Q9I6S0 (EMBL:AE004459) (306 aa) fasta scores: E(): 9.4e-28, 32.886% id in 298 aa, and to Rhizobium loti transcriptional regulator Mll7443 TR:Q986A7 (EMBL:AP003011) (303 aa) fasta scores: E(): 2.3e-21, 29.097% id in 299 aa; LysR family transcriptional regulator complement(668547..669491) Bordetella pertussis Tohama I 2667727 NP_879498.1 CDS BP0661 NC_002929.2 669639 671780 R Similar to Entamoeba histolytica acetyl-CoA synthetase TR:Q9NAT4 (EMBL:AF286346) (713 aa) fasta scores: E(): 7.1e-57, 32.460% id in 687 aa, and to Pseudomonas aeruginosa pimeloyl-CoA synthetase pa1017 TR:Q9I4V6 (EMBL:AE004534) (715 aa) fasta scores: E(): 5.4e-63, 32.345% id in 708 aa; acetyl-CoA synthetase complement(669639..671780) Bordetella pertussis Tohama I 2667729 NP_879499.1 CDS BP0662 NC_002929.2 671780 672559 R Similar to Clostridium acetobutylicum 3-hydroxybutyryl-CoA dehydratase Crt or Cac2712 SW:CRT_CLOAB (P52046) (261 aa) fasta scores: E(): 8.8e-24, 33.725% id in 255 aa, and to Halobacterium sp enoyl-CoA hydratase Fad2 or Vng0428G TR:Q9HS32 (EMBL:AE004998) (256 aa) fasta scores: E(): 8.7e-24, 35.878% id in 262 aa; enoyl-CoA hydratase complement(671780..672559) Bordetella pertussis Tohama I 2667730 NP_879500.1 CDS BP0663 NC_002929.2 672958 673851 D Similar to Streptomyces coelicolor lipoprotein Scbac1a6.20C TR:Q9ADG7 (EMBL:AL589708) (367 aa) fasta scores: E(): 0.0011, 26.549% id in 226 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3449 TR:Q9HYF7 (EMBL:AE004765) (333 aa) fasta scores: E(): 0.006, 24.473% id in 237 aa; hypothetical protein 672958..673851 Bordetella pertussis Tohama I 2667731 NP_879501.1 CDS BP0664 NC_002929.2 673915 674934 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.9e-44, 39.752% id in 322 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 1.4e-44, 40.426% id in 329 aa; hypothetical protein 673915..674934 Bordetella pertussis Tohama I 2667732 NP_879502.1 CDS BP0665 NC_002929.2 674991 675971 D Similar to Saccharopolyspora erythraea thymidine diphosphoglucose 4,6-dehydratase Gdh TR:Q54116 (EMBL:L37354) (329 aa) fasta scores: E(): 2.7e-13, 26.524% id in 328 aa, and to Streptomyces tenebrarius AprE TR:Q9F5R6 (EMBL:AF306787) (332 aa) fasta scores: E(): 3.6e-13, 29.429% id in 333 aa; thymidine diphosphoglucose 4,6-dehydratase 674991..675971 Bordetella pertussis Tohama I 2667733 NP_879503.1 CDS glmS NC_002929.2 676169 678001 R Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source; glucosamine--fructose-6-phosphate aminotransferase complement(676169..678001) Bordetella pertussis Tohama I 2667728 NP_879504.1 CDS BP0667 NC_002929.2 678151 678639 D Similar to Escherichia coli hypothetical transcriptional regulator YbaO or B0447 SW:YBAO_ECOLI (P54986) (152 aa) fasta scores: E(): 2.4e-13, 33.333% id in 150 aa, and to Haemophilus influenzae hypothetical transcriptional regulator Hi0224 SW:Y224_HAEIN (P44580) (168 aa) fasta scores: E(): 1.6e-17, 37.162% id in 148 aa; transcription regulator AsnC 678151..678639 Bordetella pertussis Tohama I 2667734 NP_879505.1 CDS BP0668 NC_002929.2 678661 679845 R Similar to Cucurbita maxima 3-ketoacyl-CoA thiolase precursor TR:P93112 (EMBL:D70895) (461 aa) fasta scores: E(): 1.1e-50, 42.569% id in 397 aa, and to Deinococcus radiodurans acetyl-CoA acetyltransferase Dr1428 TR:Q9RUF8 (EMBL:AE001987) (402 aa) fasta scores: E(): 4.6e-94, 65.140% id in 393 aa; thiolase complement(678661..679845) Bordetella pertussis Tohama I 2667735 NP_879506.1 CDS BP0669 NC_002929.2 679875 681992 R Similar to Cavia porcellus peroxisomal bifunctional enzyme EhhadH SW:ECHP_CAVPO (P55100) (725 aa) fasta scores: E(): 1.9e-65, 41.018% id in 707 aa, and to Rhizobium loti enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase Nll4199 TR:Q98EK7 (EMBL:AP003003) (689 aa) fasta scores: E(): 6.5e-103, 46.802% id in 688 aa; bifunctional enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase complement(679875..681992) Bordetella pertussis Tohama I 2667736 NP_879507.1 CDS BP0670 NC_002929.2 682250 684052 D Similar to Escherichia coli AidB protein B4187 SW:AIDB_ECOLI (P33224) (541 aa) fasta scores: E(): 1.4e-32, 30.983% id in 468 aa, and to Pseudomonas aeruginosa probable acyl-CoA dehydrogenase Pa3593 TR:Q9HY33 (EMBL:AE004779) (575 aa) fasta scores: E(): 7.1e-91, 47.120% id in 573 aa; acyl-CoA dehydrogenase 682250..684052 Bordetella pertussis Tohama I 2667737 NP_879508.1 CDS BP0671 NC_002929.2 684134 685120 D Similar to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 1.3e-29, 32.288% id in 319 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 7.6e-31, 32.110% id in 327 aa; hypothetical protein 684134..685120 Bordetella pertussis Tohama I 2667738 NP_879509.1 CDS BP0672 NC_002929.2 685172 687361 D Similar to Pseudomonas mendocina pimeloyl-CoA synthetase TR:Q9ZER2 (EMBL:AJ012480) (711 aa) fasta scores: E(): 2.2e-99, 40.979% id in 715 aa, and to Entamoeba histolytica acetyl-CoA synthetase TR:Q9NAT4 (EMBL:AF286346) (713 aa) fasta scores: E(): 1.1e-55, 31.549% id in 710 aa; acetyl-CoA synthetase 685172..687361 Bordetella pertussis Tohama I 2667739 NP_879510.1 CDS BP0673 NC_002929.2 687358 688155 D Catalyzes the first step in the citric acid cycle. Oxaloacetate and acetyl-CoA bind to citrate synthase, which then catalyzes the reaction which joins the two compounds together; citrate synthase 687358..688155 Bordetella pertussis Tohama I 2667740 NP_879511.1 CDS BP0674 NC_002929.2 688152 688988 D Similar to Salmonella typhimurium acetate operon repressor IclR SW:ICLR_SALTY (P17430) (274 aa) fasta scores: E(): 9.3e-08, 25.410% id in 244 aa, and to Caulobacter crescentus transcriptional regulator, Cc1811 TR:Q9A7B3 (EMBL:AE005855) (257 aa) fasta scores: E(): 3.5e-17, 29.555% id in 247 aa; transcriptional regulator 688152..688988 Bordetella pertussis Tohama I 2667741 NP_879512.1 CDS BP0675 NC_002929.2 689008 691383 D Similar to Rhodobacter sphaeroides biotin sulfoxide reductase SW:BISC_RHOSH (P54934) (744 aa) fasta scores: E(): 9.8e-113, 42.457% id in 749 aa, and to Mycobacterium tuberculosis CDC1551 molybdopterin oxidoreductase Mt1487 TR:AAK45750 (EMBL:AE007018) (766 aa) fasta scores: E(): 6.1e-146, 49.547% id in 773 aa; molybdopterin oxidoreductase 689008..691383 Bordetella pertussis Tohama I 2667742 NP_879513.1 CDS BP0676 NC_002929.2 691482 692432 D transposase for IS481 element; transposase 691482..692432 Bordetella pertussis Tohama I 2667743 NP_879514.1 CDS hemA NC_002929.2 693155 694429 D catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins; glutamyl-tRNA reductase 693155..694429 Bordetella pertussis Tohama I 2667744 NP_879515.1 CDS prfA NC_002929.2 694516 695598 D recognizes the termination signals UAG and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF1; this protein is similar to release factor 2; peptide chain release factor 1 694516..695598 Bordetella pertussis Tohama I 2667745 NP_879516.1 CDS hemK NC_002929.2 695609 696421 D Similar to Escherichia coli HemK protein or B1212 SW:HEMK_ECOLI (P37186) (277 aa) fasta scores: E(): 1.2e-32, 42.578% id in 256 aa, and to Neisseria meningitidis HemK protein or Nma0369 TR:Q9JWH6 (EMBL:AL162753) (273 aa) fasta scores: E(): 7.5e-41, 48.846% id in 260 aa; heme biosynthesis protein 695609..696421 Bordetella pertussis Tohama I 2667746 NP_879517.1 CDS BP0680 NC_002929.2 696458 696784 D Similar to Neisseria meningitidis hypothetical protein Nma0984 or Nmb0773 TR:Q9JR73 (EMBL:AL162754) (103 aa) fasta scores: E(): 2.8e-24, 66.337% id in 101 aa, and to Rhizobium meliloti conserved hypothetical protein Smc00538 TR:CAC46360 (EMBL:AL591788) (111 aa) fasta scores: E(): 9.6e-21, 57.009% id in 107 aa; hypothetical protein 696458..696784 Bordetella pertussis Tohama I 2667747 NP_879518.1 CDS BP0681 NC_002929.2 696789 697349 D catalyzes the formation of 2-octaprenylphenol from 3-octaprenyl-4-hydroxybenzoate; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase 696789..697349 Bordetella pertussis Tohama I 2667748 NP_879519.1 CDS BP0682 NC_002929.2 697590 698582 D Similar to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 1.4e-38, 36.577% id in 298 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 2.3e-42, 38.769% id in 325 aa; hypothetical protein 697590..698582 Bordetella pertussis Tohama I 2667749 NP_879520.1 CDS BP0683 NC_002929.2 698601 699596 D Similar to Burkholderia cepacia 4,5-dihydroxyphthalate decarboxylase OphC TR:Q9ZFR0 (EMBL:AF095748) (330 aa) fasta scores: E(): 6.3e-68, 49.848% id in 329 aa, and to Comamonas testosteroni 4,5-dihydroxyphthalate decarboxylase PhtD SW:PHTD_COMTE (Q59727) (330 aa) fasta scores: E(): 3.6e-65, 48.632% id in 329 aa; 4,5-dihydroxyphthalate decarboxylase 698601..699596 Bordetella pertussis Tohama I 2667750 NP_879521.1 CDS BP0684A NC_002929.2 700479 700988 D Similar to Pseudomonas thermocarboxydovorans carbon monoxide oxygenase [cytochrome b-561], small chain Cut C TR:Q52589 (EMBL:X77931) (163 aa) fasta scores: E(): 1.1e-31, 57.051% id in 156 aa, and to Sulfolobus solfataricus carbon monoxide dehydrogenase, small chain amino-end fragment CutC-2 TR:Q97VI6 (EMBL:AE006859) (163 aa) fasta scores: E(): 5.3e-32, 54.658% id in 161 aa; 2Fe-2S ferredoxin 700479..700988 Bordetella pertussis Tohama I 2667752 NP_879522.1 CDS BP0685 NC_002929.2 700981 703362 D Similar to Pseudomonas putida quinoline 2-oxidoreductase, large chain QorL TR:P72224 (EMBL:X98131) (788 aa) fasta scores: E(): 7.5e-52, 36.189% id in 782 aa, and to Arthrobacter nicotinovorans ketone dehydrogenase large subunit KdhL TR:CAC37487 (EMBL:AJ306904) (794 aa) fasta scores: E(): 9.9e-82, 35.379% id in 766 aa; dehydrogenase/oxidase 700981..703362 Bordetella pertussis Tohama I 2667753 NP_879523.1 CDS BP0688 NC_002929.2 704230 705180 R transposase for IS481 element; transposase complement(704230..705180) Bordetella pertussis Tohama I 2667755 NP_879524.1 CDS BP0689 NC_002929.2 705279 706229 R Similar to Pseudomonas aeruginosa rare lipoprotein A precursor RlpA or Pa4000 TR:Q9X6V6 (EMBL:AF147448) (342 aa) fasta scores: E(): 8.6e-23, 39.869% id in 306 aa, and to Vibrio cholerae rare lipoprotein A, Vc0948 TR:Q9KTF4 (EMBL:AE004177) (263 aa) fasta scores: E(): 3.4e-23, 37.079% id in 267 aa; lipoprotein complement(705279..706229) Bordetella pertussis Tohama I 2667756 NP_879525.1 CDS BP0690 NC_002929.2 706226 707098 R Similar to Neisseria meningitidis hypothetical protein Nmb0738 TR:Q9K080 (EMBL:AE002428) (284 aa) fasta scores: E(): 6e-48, 46.643% id in 283 aa, and to Vibrio cholerae hypothetical protein Vc2532 TR:Q9KP47 (EMBL:AE004322) (286 aa) fasta scores: E(): 1.9e-42, 43.554% id in 287 aa; hypothetical protein complement(706226..707098) Bordetella pertussis Tohama I 2667757 NP_879526.1 CDS BP0692 NC_002929.2 708029 709315 D Similar to Pectobacterium cypripedii cytochrome C precursor TR:O34215 (EMBL:U97665) (441 aa) fasta scores: E(): 2.7e-35, 41.106% id in 416 aa, and to Acetobacter pasteurianus cytochrome C subunit of alcohol dehydrogenase TR:Q57536 (EMBL:D13893) (472 aa) fasta scores: E(): 2.7e-34, 40.146% id in 411 aa; cytochrome C 708029..709315 Bordetella pertussis Tohama I 2667759 NP_879527.1 CDS BP0693 NC_002929.2 709369 710295 R catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system; HPr kinase/phosphorylase complement(709369..710295) Bordetella pertussis Tohama I 2667760 NP_879528.1 CDS rpoP NC_002929.2 710314 710769 R Similar to Escherichia coli nitrogen regulatory IIA protein PtsN or RpoP or B3204 SW:PTSN_ECOLI (P31222) (163 aa) fasta scores: E(): 6.2e-13, 40.000% id in 120 aa, and to Alcaligenes eutrophus hypothetical 16.5 kDa protein TR:Q9EX66 (EMBL:AJ131690) (151 aa) fasta scores: E(): 1.6e-37, 65.986% id in 147 aa; nitrogen regulatory IIA protein complement(710314..710769) Bordetella pertussis Tohama I 2664273 NP_879529.1 CDS BP0697 NC_002929.2 711621 712412 R Similar to Rhizobium leguminosarum ABC-type permease homolog TR:Q52785 (EMBL:U23471) (258 aa) fasta scores: E(): 3.3e-47, 60.938% id in 256 aa, and to Alcaligenes eutrophus hypothetical 28.7 kDa protein TR:Q9EX70 (EMBL:AJ131690) (263 aa) fasta scores: E(): 1.6e-57, 69.811% id in 265 aa; ABC transporter permease complement(711621..712412) Bordetella pertussis Tohama I 2664398 NP_879530.1 CDS BP0698 NC_002929.2 712444 713064 R Similar to Escherichia coli protein YhbN precursor YhbN or B3200 or Z4563 or Ecs4079 SW:YHBN_ECOLI (P38685) (185 aa) fasta scores: E(): 0.19, 28.877% id in 187 aa, and to Alcaligenes eutrophus hypothetical 16.9 kDa protein TR:Q9EX71 (EMBL:AJ131690) (155 aa) fasta scores: E(): 2.3e-09, 37.984% id in 129 aa; hypothetical protein complement(712444..713064) Bordetella pertussis Tohama I 2663959 NP_879531.1 CDS BP0699 NC_002929.2 713061 713690 R Similar to Neisseria meningitidis periplasmic hypothetical protein Nma2133 TR:Q9JSU4 (EMBL:AL162758) (193 aa) fasta scores: E(): 0.00062, 23.711% id in 194 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4459 TR:Q9HVV8 (EMBL:AE004860) (190 aa) fasta scores: E(): 0.04, 22.989% id in 174 aa; hypothetical protein complement(713061..713690) Bordetella pertussis Tohama I 2663960 NP_879532.1 CDS BP0700 NC_002929.2 713703 714311 R Similar to Neisseria meningitidis hypothetical protein Nma2134 TR:Q9JSU3 (EMBL:AL162758) (178 aa) fasta scores: E(): 3.7e-25, 44.706% id in 170 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4458 TR:Q9HVV9 (EMBL:AE004860) (179 aa) fasta scores: E(): 4.9e-25, 48.428% id in 159 aa; hydrolase complement(713703..714311) Bordetella pertussis Tohama I 2663961 NP_879533.1 CDS BP0701 NC_002929.2 714308 715297 R Similar to Escherichia coli GutQ protein GutQ or SrlQ or B2708 SW:GUTQ_ECOLI (P17115) (321 aa) fasta scores: E(): 2e-49, 48.438% id in 320 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4457 TR:Q9HVW0 (EMBL:AE004860) (326 aa) fasta scores: E(): 6.5e-60, 56.190% id in 315 aa; hypothetical protein complement(714308..715297) Bordetella pertussis Tohama I 2664069 NP_879534.1 CDS purT NC_002929.2 715403 716617 D non-folate utilizing enzyme, catalyzes the production of beta-formyl glycinamide ribonucleotide from formate, ATP, and beta-GAR and a side reaction producing acetyl phosphate and ADP from acetate and ATP; involved in de novo purine biosynthesis; phosphoribosylglycinamide formyltransferase 2 715403..716617 Bordetella pertussis Tohama I 2664246 NP_879535.1 CDS BP0704 NC_002929.2 718569 719519 D transposase for IS481 element; transposase 718569..719519 Bordetella pertussis Tohama I 2666132 NP_879536.1 CDS BP0706 NC_002929.2 720953 722239 D Similar to Roseateles depolymerans Orf428 protein TR:Q9F206 (EMBL:AB028938) (428 aa) fasta scores: E(): 7.6e-89, 58.080% id in 427 aa, and to Xylella fastidiosa hypothetical protein Xf0042 TR:Q9PHA2 (EMBL:AE003858) (420 aa) fasta scores: E(): 4.2e-44, 53.682% id in 421 aa; hypothetical protein 720953..722239 Bordetella pertussis Tohama I 2666850 NP_879537.1 CDS BP0707 NC_002929.2 722405 722713 D Similar to Streptomyces coelicolor hypothetical 10.8 kDa protein Sce22.04 TR:Q9KYV8 (EMBL:AL355832) (110 aa) fasta scores: E(): 2.8e-07, 34.653% id in 101 aa, and to Mycobacterium leprae hypothetical ser-rich C-terminus protein Ml0180 TR:Q9CD66 (EMBL:AL583917) (99 aa) fasta scores: E(): 9.8e-05, 32.673% id in 101 aa; hypothetical protein 722405..722713 Bordetella pertussis Tohama I 2667607 NP_879538.1 CDS BP0708 NC_002929.2 722714 723379 D Similar to Neisseria meningitidis integral membrane protein Nma2020 TR:Q9JT22 (EMBL:AL162757) (245 aa) fasta scores: E(): 1.3e-33, 47.143% id in 210 aa, and to Rhizobium meliloti hypothetical transmembrane protein Smc00229 TR:CAC46233 (EMBL:AL591788) (230 aa) fasta scores: E(): 3.8e-26, 41.627% id in 209 aa; hypothetical protein 722714..723379 Bordetella pertussis Tohama I 2667608 NP_879539.1 CDS aspS NC_002929.2 723420 725210 D catalyzes a two-step reaction, first charging an aspartate molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; contains discriminating and non-discriminating subtypes; aspartyl-tRNA synthetase 723420..725210 Bordetella pertussis Tohama I 2667609 NP_879540.1 CDS BP0710 NC_002929.2 725323 726183 D Similar to Escherichia coli hypothetical protein YbhP or B0790 or Z1009 or Ecs0868 SW:YBHP_ECOLI (P75772) (253 aa) fasta scores: E(): 2.3e-20, 36.426% id in 291 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2156 TR:Q9I1V9 (EMBL:AE004642) (245 aa) fasta scores: E(): 4.6e-20, 37.457% id in 291 aa. Also similar to BP1340, 37.801% identity (46.610% ungapped) in 291 aa overlap.; endonuclease/exonuclease/phosphatase family protein 725323..726183 Bordetella pertussis Tohama I 2667029 NP_879541.1 CDS BP0711 NC_002929.2 726180 727385 D Similar to Escherichia coli cardiolipin synthetase Cls or Nov or B1249 SW:CLS_ECOLI (P31071) (486 aa) fasta scores: E(): 2.8e-13, 28.378% id in 370 aa, and to Escherichia coli hypothetical protein YbhO or B0789 or Z1008 or Ecs0867 SW:YBHO_ECOLI (P75771) (413 aa) fasta scores: E(): 9.9e-28, 38.265% id in 392 aa; phospholipase 726180..727385 Bordetella pertussis Tohama I 2667030 NP_879542.1 CDS BP0712 NC_002929.2 727382 728266 R Similar to Vibrio cholerae hypothetical protein Vca0090 TR:Q9KN75 (EMBL:AE004352) (297 aa) fasta scores: E(): 9.3e-45, 47.887% id in 284 aa, and to Rhizobium loti Mlr1585 protein TR:Q98K88 (EMBL:AP002997) (305 aa) fasta scores: E(): 4.8e-22, 34.343% id in 297 aa; hypothetical protein complement(727382..728266) Bordetella pertussis Tohama I 2666521 YP_008691073.1 CDS BP0716 NC_002929.2 730180 731178 R integrase complement(730180..731178) Bordetella pertussis Tohama I 2665921 NP_879543.1 CDS BP0718 NC_002929.2 731338 732210 R Similar to Streptomyces hygroscopicus carboxyvinyl-carboxyphosphonate phosphorylmutase BcpA SW:CPPM_STRHY (P11435) (294 aa) fasta scores: E(): 2.5e-36, 39.789% id in 284 aa, and to Sulfolobus solfataricus carboxyphosphonoenolpyruvate phosphonomutase PrpB TR:Q97VN2 (EMBL:AE006855) (285 aa) fasta scores: E(): 1e-39, 46.099% id in 282 aa; carboxyvinyl-carboxyphosphonate phosphorylmutase complement(731338..732210) Bordetella pertussis Tohama I 2666338 NP_879544.1 CDS BP0720 NC_002929.2 732551 732769 D Similar to Thermoplasma volcanium Tvg1306680 protein TR:Q978Z7 (EMBL:AP000996) (64 aa) fasta scores: E(): 7.1, 33.333% id in 48 aa, and to Agrobacterium tumefaciens Agr_c_4413p TR:AAK88168 (EMBL:AE008157) (121 aa) fasta scores: E(): 1.3e-13, 59.375% id in 64 aa; hypothetical protein 732551..732769 Bordetella pertussis Tohama I 2667349 NP_879545.1 CDS BP0721 NC_002929.2 732809 734188 R Similar to Bilophila wadsworthia taurine:pyruvate aminotransferase TR:Q9APM5 (EMBL:AF269146) (456 aa) fasta scores: E(): 9.3e-99, 54.000% id in 450 aa, and to Bacillus subtilis probable aminotransferase YhxA SW:YHXA_BACSU (P33189) (450 aa) fasta scores: E(): 7.4e-62, 37.418% id in 457 aa; aminotransferase complement(732809..734188) Bordetella pertussis Tohama I 2667350 NP_879546.1 CDS BP0722 NC_002929.2 734230 735627 R catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia; amidase complement(734230..735627) Bordetella pertussis Tohama I 2667351 NP_879547.1 CDS BP0723 NC_002929.2 735667 737319 R Similar to Rhizobium meliloti probable ABC transporter ATP-binding protein Sma1434 TR:AAK65441 (EMBL:AE007265) (550 aa) fasta scores: E(): 1e-76, 46.125% id in 542 aa, and to Agrobacterium tumefaciens Agr_l_3504p TR:AAK90329 (EMBL:AE008378) (575 aa) fasta scores: E(): 7.1e-84, 48.780% id in 533 aa; ABC transporter ATP-binding protein complement(735667..737319) Bordetella pertussis Tohama I 2666778 NP_879548.1 CDS BP0724 NC_002929.2 737323 738207 R Similar to Rhizobium sp probable peptide ABC transporter permease Y4tQ SW:Y4TQ_RHISN (Q53192) (291 aa) fasta scores: E(): 1.4e-52, 53.307% id in 257 aa, and to Rhizobium loti ABC transporter permease mlr6290 TR:Q989T2 (EMBL:AP003008) (280 aa) fasta scores: E(): 5.7e-46, 47.547% id in 265 aa. Also similar to several B. pertussis CDSs such as BP3161 (57.348% identity in 279 aa overlap), BP1825 (57.977% identity in 257 aa overlap), BP3459 (55.725% identity in 262 aa overlap), P2592 (40.304% identity in 263 aa overlap); ABC transporter permease complement(737323..738207) Bordetella pertussis Tohama I 2665086 NP_879549.1 CDS BP0725 NC_002929.2 738207 739148 R Similar to Rhizobium sp probable peptide ABC transporter permease Y4tP SW:Y4TP_RHISN (Q53191) (313 aa) fasta scores: E(): 3.2e-65, 54.839% id in 310 aa, and to Rhizobium loti ABC transporter permease Mlr6289 TR:Q989T3 (EMBL:AP003008) (314 aa) fasta scores: E(): 5e-52, 47.284% id in 313 aa. Also similar to several B. pertussis CDSs such as BP3160 (58.147% identity in 313 aa overlap), BP3458 (54.633% identity in 313 aa overlap), BP1824 (53.922% identity in 306 aa overlap), BP2395 (44.268% identity in 314 aa overlap), and BP2691 (40.256% identity in 313 aa overlap); ABC transporter permease complement(738207..739148) Bordetella pertussis Tohama I 2665125 NP_879550.1 CDS BP0726 NC_002929.2 739227 740846 R Similar to Rhizobium sp probable peptide ABC transporter periplasmic binding protein Y4tO precursor SW:Y4TO_RHISN (P55669) (531 aa) fasta scores: E(): 5.6e-64, 37.786% id in 524 aa, and to Bradyrhizobium japonicum ABC transporter TR:Q9RH65 (EMBL:AF065159) (516 aa) fasta scores: E(): 1.1e-62, 37.670% id in 515 aa; peptide ABC transporter substrate-binding protein complement(739227..740846) Bordetella pertussis Tohama I 2665144 NP_879551.1 CDS BP0727 NC_002929.2 741013 741828 D Similar to Rhodococcus opacus regulator of catechol degradative operon CatR TR:O33539 (EMBL:X99622) (256 aa) fasta scores: E(): 1.1e-17, 33.468% id in 248 aa, and to Alcaligenes eutrophus hypothetical 30.8 kDa protein TR:Q9L789 (EMBL:AF225972) (279 aa) fasta scores: E(): 3.4e-22, 33.871% id in 248 aa; transcriptional regulator 741013..741828 Bordetella pertussis Tohama I 2665145 NP_879552.1 CDS BP0728 NC_002929.2 741896 742465 R Similar to Streptomyces roseosporus TetR homologue WhiR TR:P72569 (EMBL:U58281) (179 aa) fasta scores: E(): 0.00038, 28.814% id in 118 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa1283 TR:Q9I461 (EMBL:AE004558) (186 aa) fasta scores: E(): 8.1e-17, 32.973% id in 185 aa. IS481 inserted immediately upstream of the start codon. It is not clear whether this insertion has any effect on the expression of this gene; transcriptional regulator complement(741896..742465) Bordetella pertussis Tohama I 2665211 NP_879553.1 CDS BP0729 NC_002929.2 742466 743416 R transposase for IS481 element; transposase complement(742466..743416) Bordetella pertussis Tohama I 2665334 NP_879554.1 CDS nspC NC_002929.2 744071 745168 D Similar to Vibrio alginolyticus carboxynorspermidine decarboxylase NspC TR:Q56575 (EMBL:D31783) (377 aa) fasta scores: E(): 1.4e-71, 52.291% id in 371 aa, and to Rhizobium meliloti carboxynorspermidine decarboxylase TR:CAC49950 (EMBL:AL603647) (365 aa) fasta scores: E(): 6.7e-103, 69.041% id in 365 aa; carboxynorspermidine decarboxylase 744071..745168 Bordetella pertussis Tohama I 2663994 NP_879555.1 CDS BP0732 NC_002929.2 745202 746467 D Similar to Rhizobium meliloti conserved hypothetical protein Smb21630 TR:CAC49949 (EMBL:AL603647) (413 aa) fasta scores: E(): 2.6e-117, 67.317% id in 410 aa, and to Agrobacterium tumefaciens Agr_l_1365p TR:AAK89265 (EMBL:AE008267) (412 aa) fasta scores: E(): 4.7e-117, 67.317% id in 410 aa; hypothetical protein 745202..746467 Bordetella pertussis Tohama I 2663995 NP_879556.1 CDS BP0733 NC_002929.2 746625 747575 D transposase for IS481 element; transposase 746625..747575 Bordetella pertussis Tohama I 2664357 NP_879558.1 CDS BP0735 NC_002929.2 747819 748409 D Similar to Xylella fastidiosa hypothetical protein Xf1840 TR:Q9PCE1 (EMBL:AE004005) (237 aa) fasta scores: E(): 4e-29, 47.486% id in 179 aa, and to Zymomonas mobilis hypothetical 22.3 kDa protein zm10orf9 TR:Q9XBR4 (EMBL:AF157493) (204 aa) fasta scores: E(): 1.4e-18, 34.807% id in 181 aa; hypothetical protein 747819..748409 Bordetella pertussis Tohama I 2664051 NP_879559.1 CDS bfrF NC_002929.2 748425 750869 R Similar to Escherichia coli ferrichrome-iron receptor precursor FhuA or TonA or B0150 SW:FHUA_ECOLI (P06971) (747 aa) fasta scores: E(): 7.8e-38, 40.000% id in 725 aa, and to Pseudomonas aeruginosa probable hydroxamate-type ferrisiderophore receptor Pa0470 TR:Q9I648 (EMBL:AE004484) (802 aa) fasta scores: E(): 1.4e-103, 40.000% id in 815 aa; ferric siderophore receptor complement(748425..750869) Bordetella pertussis Tohama I 2664052 NP_879560.1 CDS BP0737 NC_002929.2 750989 751960 R Similar to Bordetella bronchiseptica inner membrane sensor BupR TR:Q9L429 (EMBL:AJ251793) (344 aa) fasta scores: E(): 7.6e-19, 33.025% id in 324 aa, and to Pseudomonas aeruginosa probable transmembrane sensor Pa2388 TR:Q9I192 (EMBL:AE004665) (331 aa) fasta scores: E(): 3.9e-47, 44.377% id in 329 aa; inner membrane sensor for iron transport complement(750989..751960) Bordetella pertussis Tohama I 2663984 NP_879561.1 CDS BP0739 NC_002929.2 752576 753526 R transposase for IS481 element; transposase complement(752576..753526) Bordetella pertussis Tohama I 2664087 NP_879562.1 CDS BP0740 NC_002929.2 753748 755943 R no significant database matches; DNA methylase complement(753748..755943) Bordetella pertussis Tohama I 2664369 NP_879563.1 CDS BP0741 NC_002929.2 756016 756444 R Similar to Bacteriophage 434 repressor protein CI SW:RPC1_BP434 (P16117) (94 aa) fasta scores: E(): 1.2, 35.088% id in 57 aa, and to Bacillus subtilis hypothetical 15.6 kDa protein TR:O52855 (EMBL:U09819) (139 aa) fasta scores: E(): 0.38, 33.333% id in 69 aa. It's possible that the upstream IS481 element has inserted within the N-terminus of this CDS. Also similar to BP0744, 65.972% identity (70.370% ungapped) in 144 aa overlap.; transcriptional regulator complement(756016..756444) Bordetella pertussis Tohama I 2664370 NP_879564.1 CDS BP0744 NC_002929.2 757609 758052 R Similar to Bacteriophage 434 repressor protein CI SW:RPC1_BP434 (P16117) (94 aa) fasta scores: E(): 0.021, 37.097% id in 62 aa, and to Bacillus subtilis hypothetical transcriptional regulator YqaE yqaE SW:YQAE_BACSU (P45902) (116 aa) fasta scores: E(): 0.058, 27.083% id in 96 aa. Also similar to BP0741, 65.972% identity (70.370% ungapped) in 144 aa overlap.; transcriptional regulator complement(757609..758052) Bordetella pertussis Tohama I 2664220 NP_879565.1 CDS BP0745 NC_002929.2 758160 758909 D Similar to Neisseria cinerea BasR TR:Q9F9Y4 (EMBL:AF139614) (222 aa) fasta scores: E(): 0.17, 28.729% id in 181 aa, and to Bordetella pertussis transcriptional regulatory protein, BasR TR:Q9S3M3 (EMBL:AJ132741) (223 aa) fasta scores: E(): 0.0027, 28.319% id in 226 aa; transcriptional regulator 758160..758909 Bordetella pertussis Tohama I 2664218 NP_879566.2 CDS proB NC_002929.2 759075 760211 R catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis; gamma-glutamyl kinase complement(759075..760211) Bordetella pertussis Tohama I 2664219 NP_879567.1 CDS obgE NC_002929.2 760282 761415 R essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication; GTPase ObgE complement(760282..761415) Bordetella pertussis Tohama I 2664049 NP_879568.1 CDS rpmA NC_002929.2 761565 761825 R involved in the peptidyltransferase reaction during translation; 50S ribosomal protein L27 complement(761565..761825) Bordetella pertussis Tohama I 2664507 NP_879569.1 CDS rplU NC_002929.2 761859 762170 R Similar to Escherichia coli 50S ribosomal protein L21 RplU or B3186 or Z4549 or Ecs4065 SW:RL21_ECOLI (P02422) (103 aa) fasta scores: E(): 4.8e-18, 47.573% id in 103 aa, and to Burkholderia pseudomallei 50S ribosomal protein L21 RplU TR:Q9FD29 (EMBL:AF292383) (103 aa) fasta scores: E(): 1.4e-29, 80.583% id in 103 aa; 50S ribosomal protein L21 complement(761859..762170) Bordetella pertussis Tohama I 2664508 NP_879570.1 CDS BP0750 NC_002929.2 762595 763743 D Similar to Streptomyces coelicolor hypothetical 41.1 kDa protein Scf41.20C TR:Q9RJU9 (EMBL:AL117387) (390 aa) fasta scores: E(): 2.9e-72, 54.856% id in 381 aa, and to Agrobacterium tumefaciens Agr_c_4970p TR:AAK88456 (EMBL:AE008188) (386 aa) fasta scores: E(): 7e-73, 53.457% id in 376 aa; hypothetical protein 762595..763743 Bordetella pertussis Tohama I 2664352 NP_879571.1 CDS ispB NC_002929.2 763858 764823 D Similar to Escherichia coli octaprenyl-diphosphate synthase IspB or Cel or B3187 SW:ISPB_ECOLI (P19641) (323 aa) fasta scores: E(): 1.2e-63, 53.560% id in 323 aa, and to Vibrio cholerae octaprenyl-diphosphate synthase Vc0434 TR:Q9KUT1 (EMBL:AE004131) (348 aa) fasta scores: E(): 3.1e-63, 53.870% id in 323 aa; octaprenyl-diphosphate synthase 763858..764823 Bordetella pertussis Tohama I 2664353 NP_879572.1 CDS BP0752 NC_002929.2 765092 765958 R Similar to Escherichia coli transcriptional activator protein LysR or B2839 SW:LYSR_ECOLI (P03030) (311 aa) fasta scores: E(): 4.6e-23, 34.507% id in 284 aa, and to Agrobacterium tumefaciens regulatory protein NocR SW:NOCR_AGRT5 (Q00678) (300 aa) fasta scores: E(): 5.3e-22, 33.333% id in 285 aa; LysR family transcriptional regulator complement(765092..765958) Bordetella pertussis Tohama I 2664292 NP_879573.1 CDS hyuA NC_002929.2 766089 768137 D Similar to Pseudomonas sp hydantoin utilization protein A HyuA SW:HYUA_PSESN (Q01262) (690 aa) fasta scores: E(): 2.8e-78, 35.044% id in 682 aa, and to Rhizobium loti hydantoin utilization protein A Mlr7024 TR:Q987J7 (EMBL:AP003010) (692 aa) fasta scores: E(): 2.1e-118, 47.415% id in 677 aa; hydantoin utilization protein A 766089..768137 Bordetella pertussis Tohama I 2664039 NP_879574.1 CDS hyuB NC_002929.2 768155 770152 D Similar to Pseudomonas sp hydantoin utilization protein B HyuB SW:HYUB_PSESN (Q01263) (592 aa) fasta scores: E(): 1.7e-52, 31.134% id in 591 aa, and to Rhizobium loti hydantoin utilization protein B Mlr7025 TR:Q987J6 (EMBL:AP003010) (661 aa) fasta scores: E(): 4.6e-142, 55.807% id in 663 aa. Also similar to BP0821 (58.133% identity in 664 aa overlap); hydantoin utilization protein B 768155..770152 Bordetella pertussis Tohama I 2664040 NP_879575.1 CDS BP0755 NC_002929.2 770187 771524 D Similar to Proteus vulgaris L-amino acid deaminase Lad TR:Q9LCB2 (EMBL:AB030003) (471 aa) fasta scores: E(): 9.2e-29, 31.628% id in 430 aa, and to Proteus mirabilis amino acid deaminase Aad TR:Q51890 (EMBL:U35383) (473 aa) fasta scores: E(): 7e-29, 28.638% id in 426 aa; amino acid deaminase 770187..771524 Bordetella pertussis Tohama I 2667712 NP_879576.1 CDS gabD NC_002929.2 773695 775176 D Similar to Escherichia coli succinate-semialdehyde dehydrogenase [NADP+] GabD or B2661 SW:GABD_ECOLI (P25526) (482 aa) fasta scores: E(): 4.7e-99, 52.664% id in 488 aa, and to Agrobacterium radiobacter AttK TR:Q9WWD5 (EMBL:U59485) (484 aa) fasta scores: E(): 4.7e-106, 57.819% id in 486 aa; succinate-semialdehyde dehydrogenase 773695..775176 Bordetella pertussis Tohama I 2664529 NP_879577.1 CDS cyaC NC_002929.2 775192 775749 R Identical to the previously sequenced Bordetella pertussis cyclolysin-activating lysine-acyltransferase CyaC SW:CYAC_BORPE (Q45359) (185 aa) fasta scores: E(): 2.1e-78, 99.459% id in 185 aa, and to Escherichia coli hemolysin-activating lysine-acyltransferase HlyC SW:HLYC_ECOLI (P06736) (170 aa) fasta scores: E(): 1.5e-24, 40.698% id in 172 aa; cyclolysin-activating lysine-acyltransferase complement(775192..775749) Bordetella pertussis Tohama I 2664491 NP_879578.1 CDS cyaA NC_002929.2 776228 781348 D Identical to the previously sequenced Bordetella pertussis bifunctional hemolysin-adenylate cyclase precursor Cya or CyaA SW:CYAA_BORPE (P15318) (1706 aa) fasta scores: E(): 0, 99.941% id in 1706 aa, and to Bordetella parapertussis bifunctional hemolysin-adenylate cyclase precursor CyaA TR:Q9L469 (EMBL:AJ249835) (1706 aa) fasta scores: E(): 0, 97.714% id in 1706 aa; bifunctional hemolysin-adenylate cyclase 776228..781348 Bordetella pertussis Tohama I 2664492 NP_879579.1 CDS cyaB NC_002929.2 781426 783564 D Identical to the previously sequenced Bordetella pertussis cyclolysin secretion ATP-binding protein CyaB SW:CYAB_BORPE (P18770) (712 aa) fasta scores: E(): 0, 97.199% id in 714 aa, and to Escherichia coli hemolysin secretion ATP-binding protein, chromosomal HlyB SW:HLY2_ECOLI (P10089) (707 aa) fasta scores: E(): 1.6e-133, 52.841% id in 704 aa; cyclolysin secretion ATP-binding protein 781426..783564 Bordetella pertussis Tohama I 2664566 NP_879580.1 CDS cyaD NC_002929.2 783561 784883 D Identical to the previously sequenced Bordetella pertussis CyaD protein cyaD SW:CYAD_BORPE (P11091) (440 aa) fasta scores: E(): 6.9e-151, 99.318% id in 440 aa; cyclolysin secretion protein 783561..784883 Bordetella pertussis Tohama I 2664600 NP_879581.1 CDS cyaE NC_002929.2 784885 786309 D Identical to the previously sequenced Bordetella pertussis protein CyaE precursor CyaE SW:CYAE_BORPE (P11092) (474 aa) fasta scores: E(): 2.3e-165, 100.000% id in 474 aa; cyclolysin secretion protein 784885..786309 Bordetella pertussis Tohama I 2664625 NP_879582.1 CDS cyaX NC_002929.2 786400 787308 D Identical to the previously sequenced Bordetella pertussis unknown Orf CyaX TR:Q45360 (EMBL:X14199) (285 aa) fasta scores: E(): 1.6e-99, 93.411% id in 258 aa, and similar to Escherichia coli transcriptional activator protein IlvY or B3773 SW:ILVY_ECOLI (P05827) (297 aa) fasta scores: E(): 1.3e-09, 26.733% id in 303 aa; LysR family transcriptional regulator 786400..787308 Bordetella pertussis Tohama I 2664626 NP_879583.1 CDS BP0765 NC_002929.2 787373 788287 D Similar to Escherichia coli amino acid ABC transporter binding protein YbeJ precursor YbeJ or B0655 SW:YBEJ_ECOLI (P37902) (302 aa) fasta scores: E(): 2.3e-50, 47.038% id in 287 aa, and to Pseudomonas aeruginosa probable binding protein component of ABC transporter Pa1342 TR:Q9I402 (EMBL:AE004563) (302 aa) fasta scores: E(): 2.5e-52, 47.797% id in 295 aa. Also similar to BP0057, 51.325% identity (52.013% ungapped) in 302 aa overlap.; extracellular solute-binding protein 787373..788287 Bordetella pertussis Tohama I 2664578 NP_879584.1 CDS gltK NC_002929.2 789125 789808 D Similar to Escherichia coli glutamate/aspartate transport system permease GltK or B0653 or Z0803 or Ecs0692 SW:GLTK_ECOLI (P41075) (224 aa) fasta scores: E(): 6.2e-33, 48.214% id in 224 aa, and to Pseudomonas aeruginosa probable permease of ABC transporter Pa1340 TR:Q9I404 (EMBL:AE004563) (222 aa) fasta scores: E(): 3e-32, 45.701% id in 221 aa. Also similar to BP0055, 56.696% identity (56.696% ungapped) in 224 aa overlap.; glutamate/aspartate transport system permease 789125..789808 Bordetella pertussis Tohama I 2664418 NP_879585.1 CDS gltL NC_002929.2 789825 790568 D Similar to Escherichia coli glutamate/aspartate transport ATP-binding protein GltL or B0652 or Z0802 or Ecs0691 SW:GLTL_ECOLI (P41076) (241 aa) fasta scores: E(): 5.2e-51, 65.000% id in 240 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa1339 TR:Q9I405 (EMBL:AE004563) (244 aa) fasta scores: E(): 5.5e-57, 69.262% id in 244 aa. Similar to several B. pertussis CDSs: BP1181, P3828, BP1534, BP1855, BP1575, BP1362, P0054, and BP1510.; glutamate/aspartate transport ATP-binding protein 789825..790568 Bordetella pertussis Tohama I 2664419 NP_879586.1 CDS BP0769 NC_002929.2 790598 791458 D Similar to Staphylococcus aureus D-alanine aminotransferase TR:Q9KWZ6 (EMBL:Y14816) (282 aa) fasta scores: E(): 4.4e-32, 39.130% id in 276 aa, and to Brucella suis hypothetical 32.0 kDa protein TR:CAC67779 (EMBL:AJ305234) (289 aa) fasta scores: E(): 1.5e-47, 48.387% id in 279 aa; aminotransferase 790598..791458 Bordetella pertussis Tohama I 2664428 NP_879587.1 CDS BP0770 NC_002929.2 791466 792032 R Similar to Rhizobium meliloti conserved hypothetical protein Smb20087 TR:CAC48487 (EMBL:AL603642) (201 aa) fasta scores: E(): 0.00043, 27.807% id in 187 aa, and to Rhizobium loti Mll2445 protein Mll2445 TR:Q98ID9 (EMBL:AP002999) (200 aa) fasta scores: E(): 9e-06, 28.495% id in 186 aa; hypothetical protein complement(791466..792032) Bordetella pertussis Tohama I 2664429 NP_879588.1 CDS BP0771 NC_002929.2 792121 793077 R Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 3e-27, 34.727% id in 311 aa, and to Alcaligenes eutrophus hypothetical 35.6 kDa protein in gbd 5'region precursor SW:YGB7_ALCEU (Q44018) (327 aa) fasta scores: E(): 3.9e-30, 37.294% id in 303 aa; hypothetical protein complement(792121..793077) Bordetella pertussis Tohama I 2664071 NP_879589.1 CDS fabG NC_002929.2 793122 793874 R catalyzes the conversion of 3-hydroxyacyl-CoA to 3-oxyacyl-CoA; acetoacetyl-CoA reductase complement(793122..793874) Bordetella pertussis Tohama I 2664072 NP_879590.1 CDS BP0773 NC_002929.2 793871 795616 R catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; catalytic; acetolactate synthase catalytic subunit complement(793871..795616) Bordetella pertussis Tohama I 2664279 NP_879591.1 CDS BP0774 NC_002929.2 795701 796435 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa5525 TR:Q9HT48 (EMBL:AE004965) (246 aa) fasta scores: E(): 8.4e-20, 37.069% id in 232 aa, and to Rhizobium loti probable transcriptional regulator Mlr1038 TR:Q98LF9 (EMBL:AP002996) (226 aa) fasta scores: E(): 1e-19, 34.483% id in 203 aa; GntR family transcriptional regulator 795701..796435 Bordetella pertussis Tohama I 2664280 NP_879592.1 CDS BP0775 NC_002929.2 796752 797774 D Similar to the C-terminal region of Serratia marcescens extracellular serine protease precursor SW:PRTS_SERMA (P09489) (1045 aa) fasta scores: E(): 1.2e-19, 30.435% id in 276 aa, and to Rhizobium loti serine proteinase Mlr1935 TR:Q98JH8 (EMBL:AP002998) (1213 aa) fasta scores: E(): 1.9e-29, 35.275% id in 309 aa. Also similar to the C-terminal regions of BP1661 (43.344% identity in 323 aa overlap) and BP1110 (42.722% identity in 316 aa overlap); hypothetical protein 796752..797774 Bordetella pertussis Tohama I 2667560 NP_879593.1 CDS BP0776 NC_002929.2 797790 798500 R Similar to Chelatobacter heintzii nta operon transcriptional regulator NtaR or NmoR SW:NTRA_CHEHE (P54988) (210 aa) fasta scores: E(): 5.8e-21, 40.476% id in 210 aa, and to EDTA-degrading bacterium BNC1 EmoR TR:Q9F9T1 (EMBL:AF176664) (207 aa) fasta scores: E(): 7.5e-20, 37.255% id in 204 aa; GntR family transcriptional regulator complement(797790..798500) Bordetella pertussis Tohama I 2667561 NP_879594.1 CDS BP0777 NC_002929.2 798657 799664 R Similar to Rhodopseudomonas palustris NADPH:quinone oxidoreductase BadC TR:O07459 (EMBL:U75363) (339 aa) fasta scores: E(): 5.9e-22, 34.393% id in 346 aa, and to Halobacterium sp alcohol dehydrogenase Adh4 or Vng1821G TR:Q9HP38 (EMBL:AE005083) (347 aa) fasta scores: E(): 5.3e-29, 43.875% id in 351 aa; Zinc-binding dehydrogenase complement(798657..799664) Bordetella pertussis Tohama I 2664623 NP_879595.1 CDS BP0778 NC_002929.2 799705 801237 R Similar to Amycolatopsis spHR167 feruloyl-CoA synthetase Fcs TR:Q9EY88 (EMBL:AJ290449) (491 aa) fasta scores: E(): 2.9e-35, 33.758% id in 471 aa, and to Rhizobium loti probable acid-CoA ligase mlr1843 TR:Q98JP7 (EMBL:AP002998) (495 aa) fasta scores: E(): 1.3e-35, 31.911% id in 492 aa; acetyl-CoA synthetase complement(799705..801237) Bordetella pertussis Tohama I 2664624 NP_879596.1 CDS BP0779 NC_002929.2 801234 802352 R Weakly similar to Vibrio cholerae hypothetical protein Vca0936 TR:Q9KL13 (EMBL:AE004420) (312 aa) fasta scores: E(): 0.077, 25.258% id in 194 aa. Similar to BP2869, 43.785% identity (43.909% ungapped) in 354 aa overlap.; hypothetical protein complement(801234..802352) Bordetella pertussis Tohama I 2664533 NP_879597.1 CDS BP0780 NC_002929.2 802349 803131 R Similar to Pasteurella multocida hypothetical protein Pm1265 TR:Q9CLG9 (EMBL:AE006165) (254 aa) fasta scores: E(): 1.9e-27, 35.628% id in 247 aa, and to Agrobacterium tumefaciens Agr_l_128gMp TR:AAK88848 (EMBL:AE008228) (267 aa) fasta scores: E(): 4.4e-29, 36.052% id in 233 aa; hypothetical protein complement(802349..803131) Bordetella pertussis Tohama I 2664534 NP_879598.1 CDS BP0781 NC_002929.2 803143 804006 R Similar to Arthrobacter keyseri transporter ATPase PtrA TR:Q9AGL2 (EMBL:AF331043) (275 aa) fasta scores: E(): 2.6e-35, 48.963% id in 241 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa2294 TR:Q9I1I1 (EMBL:AE004655) (284 aa) fasta scores: E(): 1.1e-36, 46.457% id in 254 aa; ABC transporter ATP-binding protein complement(803143..804006) Bordetella pertussis Tohama I 2664535 NP_879599.1 CDS BP0782 NC_002929.2 804025 805122 R Similar to Agrobacterium tumefaciens Agr_l_3061p TR:AAK90103 (EMBL:AE008354) (316 aa) fasta scores: E(): 3.6e-08, 27.181% id in 298 aa, and to Rhizobium loti Mll8573 protein Mll8573 TR:Q982M7 (EMBL:AP003014) (342 aa) fasta scores: E(): 7.9e-11, 26.796% id in 362 aa. Also similar to BP2866, 46.197% identity (47.536% ungapped) in 355 aa overlap.; hypothetical protein complement(804025..805122) Bordetella pertussis Tohama I 2664552 NP_879600.1 CDS BP0783 NC_002929.2 805191 806117 R Similar to Rhizobium loti Mlr0372 protein Mlr0372 TR:Q98MZ7 (EMBL:AP002994) (296 aa) fasta scores: E(): 0.00021, 24.510% id in 306 aa, and to Agrobacterium tumefaciens Agr_c_2627p TR:AAK87216 (EMBL:AE008068) (292 aa) fasta scores: E(): 0.022, 28.525% id in 305 aa; dioxygenase complement(805191..806117) Bordetella pertussis Tohama I 2664553 NP_879601.1 CDS ilvB NC_002929.2 806152 807846 R Similar to Escherichia coli acetolactate synthase isozyme III large subunit IlvI or B0077 SW:ILVI_ECOLI (P00893) (574 aa) fasta scores: E(): 1e-42, 30.515% id in 544 aa, and to Methanococcus aeolicus acetohydroxyacid synthase large subunit IlvB TR:O08353 (EMBL:U35458) (599 aa) fasta scores: E(): 5.4e-59, 34.581% id in 561 aa; acetolactate synthase large subunit complement(806152..807846) Bordetella pertussis Tohama I 2664541 NP_879602.1 CDS BP0785 NC_002929.2 808046 808981 R Similar to Rhizobium loti probable integral membrane protein Mlr0973 TR:Q98LL9 (EMBL:AP002996) (410 aa) fasta scores: E(): 1.5e-13, 28.019% id in 207 aa, and to Rhizobium meliloti conserved hypothetical membrane protein Smb20863 TR:CAC49557 (EMBL:AL603646) (343 aa) fasta scores: E(): 6.1e-13, 26.054% id in 261 aa; mechanosensitive channel protein complement(808046..808981) Bordetella pertussis Tohama I 2664616 NP_879603.1 CDS BP0786 NC_002929.2 809087 810037 R transposase for IS481 element; transposase complement(809087..810037) Bordetella pertussis Tohama I 2664617 NP_879604.1 CDS ilvI NC_002929.2 811201 812916 D Similar to Escherichia coli acetolactate synthase isozyme III large subunit IlvI or B0077 SW:ILVI_ECOLI (P00893) (574 aa) fasta scores: E(): 4.5e-129, 56.098% id in 574 aa, and to Neisseria meningitidis acetolactate synthase III, large subunit Nmb1577 TR:Q9JYI0 (EMBL:AE002508) (575 aa) fasta scores: E(): 2.2e-152, 64.311% id in 566 aa; acetolactate synthase large subunit 811201..812916 Bordetella pertussis Tohama I 2664081 NP_879605.1 CDS ilvH NC_002929.2 812927 813418 D with IlvI catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase 3 small subunit; acetolactate synthase 3 regulatory subunit 812927..813418 Bordetella pertussis Tohama I 2664082 NP_879606.1 CDS ilvC NC_002929.2 813491 814507 D catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis; ketol-acid reductoisomerase 813491..814507 Bordetella pertussis Tohama I 2664321 NP_879607.1 CDS pssA NC_002929.2 814675 815454 D Similar to Agrobacterium sp31749 phosphatidylserine synthase TR:AAL01116 (EMBL:AF410774) (274 aa) fasta scores: E(): 2.3e-21, 40.930% id in 215 aa, and to Pseudomonas aeruginosa phosphatidylserine synthase PssA or Pa4693 TR:Q9HVA3 (EMBL:AE004883) (271 aa) fasta scores: E(): 2.5e-47, 61.778% id in 225 aa; CDP-diacylglycerol--serine O-phosphatidyltransferase 814675..815454 Bordetella pertussis Tohama I 2664322 NP_879608.1 CDS BP0793 NC_002929.2 815473 816000 R no significant database matches; lipoprotein complement(815473..816000) Bordetella pertussis Tohama I 2664607 NP_879609.1 CDS rpsO NC_002929.2 816294 816563 D primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence; 30S ribosomal protein S15 816294..816563 Bordetella pertussis Tohama I 2664608 NP_879610.1 CDS pnp NC_002929.2 816654 818813 D Similar to Escherichia coli polyribonucleotide nucleotidyltransferase Pnp or B3164 SW:PNP_ECOLI (P05055) (711 aa) fasta scores: E(): 2.2e-165, 62.691% id in 721 aa, and to Neisseria meningitidis polyribonucleotide nucleotidyltransferase Pnp or Nma0969 TR:Q9JV72 (EMBL:AL162754) (706 aa) fasta scores: E(): 1.9e-172, 65.260% id in 711 aa; polynucleotide phosphorylase 816654..818813 Bordetella pertussis Tohama I 2664379 NP_879611.1 CDS BP0796 NC_002929.2 818934 819653 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3069 TR:Q9HZD9 (EMBL:AE004731) (205 aa) fasta scores: E(): 3.5e-40, 54.634% id in 205 aa, and to Pseudomonas sp hypothetical 28.9 kDa protein Orf58 TR:AAK50290 (EMBL:U66917) (257 aa) fasta scores: E(): 1.1e-35, 45.852% id in 229 aa; lipoprotein 818934..819653 Bordetella pertussis Tohama I 2664358 NP_879612.1 CDS BP0797 NC_002929.2 819650 820600 R transposase for IS481 element; transposase complement(819650..820600) Bordetella pertussis Tohama I 2664610 NP_879613.1 CDS tdcB NC_002929.2 820741 821958 D catalyzes the formation of 2-oxobutanoate from L-threonine; threonine dehydratase 820741..821958 Bordetella pertussis Tohama I 2664324 NP_879614.1 CDS BP0799 NC_002929.2 821952 822563 R Similar to Sphingomonas aromaticivorans hypothetical 21.4 kDa protein TR:O85864 (EMBL:AF079317) (196 aa) fasta scores: E(): 0.0065, 28.571% id in 161 aa; hypothetical protein complement(821952..822563) Bordetella pertussis Tohama I 2664325 NP_879615.1 CDS BP0800 NC_002929.2 823197 824174 D Similar to Rhizobium loti NADPH quinone oxidoreductase Mll3767 TR:Q98FI0 (EMBL:AP003002) (326 aa) fasta scores: E(): 3e-60, 57.669% id in 326 aa, and to Rhizobium meliloti oxidoreductase Smc00034 TR:CAC45525 (EMBL:AL591785) (327 aa) fasta scores: E(): 8.3e-58, 53.681% id in 326 aa; zinc-binding dehydrogenase 823197..824174 Bordetella pertussis Tohama I 2664443 NP_879616.1 CDS tpiA NC_002929.2 824318 825064 D Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate; triosephosphate isomerase 824318..825064 Bordetella pertussis Tohama I 2664444 NP_879617.1 CDS secG NC_002929.2 825086 825532 D Similar to Escherichia coli protein-export membrane protein SecG or B3175 or Z4537 or Ecs4054 SW:SECG_ECOLI (P33582) (110 aa) fasta scores: E(): 3.4e-06, 35.965% id in 114 aa, and to Xylella fastidiosa protein-export membrane protein Xf0304 TR:Q9PGJ6 (EMBL:AE003883) (132 aa) fasta scores: E(): 1.3e-08, 39.098% id in 133 aa; preprotein translocase subunit SecG 825086..825532 Bordetella pertussis Tohama I 2664605 NP_879618.1 CDS betT NC_002929.2 826320 828551 D Similar to Escherichia coli high-affinity choline transport protein BetT or B0314 or Z0401 or Ecs0360 SW:BETT_ECOLI (P17447) (677 aa) fasta scores: E(): 2.5e-111, 44.296% id in 675 aa, and to Erwinia amylovora high-affinity choline transport protein BetT TR:Q9F806 (EMBL:AF264948) (676 aa) fasta scores: E(): 1.5e-109, 43.004% id in 679 aa. Also similar to BP0831, 37.348% identity (38.522% ungapped) in 656 aa overlap.; high-affinity choline transport protein 826320..828551 Bordetella pertussis Tohama I 2664606 NP_879619.1 CDS BP0805 NC_002929.2 828574 829374 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa3174 TR:Q9HZ60 (EMBL:AE004741) (242 aa) fasta scores: E(): 1.4e-13, 31.048% id in 248 aa, and to Rhizobium meliloti transcription regulator protein Smc00263 TR:CAC46270 (EMBL:AL591788) (282 aa) fasta scores: E(): 1.4e-14, 30.000% id in 250 aa; transcriptional regulator complement(828574..829374) Bordetella pertussis Tohama I 2664595 NP_879620.1 CDS BP0806 NC_002929.2 829656 830888 D Similar to Clostridium tetanomorphum methylaspartate ammonia-lyase SW:MAAL_CLOTT (Q05514) (413 aa) fasta scores: E(): 4.5e-51, 36.520% id in 408 aa, and to Citrobacter amalonaticus 3-methylaspartate ammonia-lyase TR:O66145 (EMBL:AB005294) (413 aa) fasta scores: E(): 1e-53, 38.107% id in 412 aa. Also similar to BP3177, 40.500% identity (40.704% ungapped) in 400 aa overlap.; methylaspartate ammonia-lyase 829656..830888 Bordetella pertussis Tohama I 2664644 NP_879621.1 CDS BP0807 NC_002929.2 830999 831988 D Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1.3e-34, 35.737% id in 319 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 3.9e-38, 39.048% id in 315 aa; hypothetical protein 830999..831988 Bordetella pertussis Tohama I 2664645 NP_879622.1 CDS BP0808 NC_002929.2 832019 833407 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0881 TR:Q9I564 (EMBL:AE004522) (450 aa) fasta scores: E(): 8e-29, 33.842% id in 393 aa, and to Agrobacterium tumefaciens Agr_l_2924p TR:AAK90029 (EMBL:AE008346) (448 aa) fasta scores: E(): 4.2e-31, 35.280% id in 428 aa; hypothetical protein 832019..833407 Bordetella pertussis Tohama I 2664646 NP_879623.1 CDS BP0810 NC_002929.2 835006 835989 D Similar to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 9e-44, 42.415% id in 323 aa, and to Burkholderia cepacia hypothetical 35.5 kDa protein TR:AAK81675 (EMBL:AF029344) (337 aa) fasta scores: E(): 9e-44, 42.415% id in 323 aa; hypothetical protein 835006..835989 Bordetella pertussis Tohama I 2664560 NP_879624.1 CDS BP0812 NC_002929.2 836186 837202 D Similar to Neisseria meningitidis invertase/transposase nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein chnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 836186..837202 Bordetella pertussis Tohama I 2664593 NP_879625.1 CDS BP0813 NC_002929.2 837399 838223 R Similar to Rhizobium loti probable short-chain dehydrogenase/reductase Mlr0808 TR:Q98LZ5 (EMBL:AP002995) (259 aa) fasta scores: E(): 1.2e-30, 45.985% id in 274 aa, and to Rhizobium meliloti oxidoreductase Smc01157 TR:CAC41799 (EMBL:AL591783) (259 aa) fasta scores: E(): 2.3e-21, 41.791% id in 268 aa; short-chain dehydrogenase complement(837399..838223) Bordetella pertussis Tohama I 2664594 NP_879626.1 CDS BP0814 NC_002929.2 838301 839191 R Similar to Escherichia coli probable transcriptional regulator LrhA or GenR or B2289 SW:LRHA_ECOLI (P36771) (312 aa) fasta scores: E(): 3.9e-37, 36.396% id in 283 aa, and to Erwinia chrysanthemi pectinase gene transcriptional regulator PecT SW:PECT_ERWCH (P52662) (316 aa) fasta scores: E(): 3.5e-36, 36.704% id in 267 aa; LysR family transcriptional regulator complement(838301..839191) Bordetella pertussis Tohama I 2663969 NP_879627.1 CDS metC NC_002929.2 839395 840546 D Similar to Escherichia coli cystathionine beta-lyase MetC or B3008 SW:METC_ECOLI (P06721) (395 aa) fasta scores: E(): 1.1e-56, 41.795% id in 390 aa, and to Rhizobium meliloti probable cystathionine beta-lyase TR:CAC46058 (EMBL:AL591787) (395 aa) fasta scores: E(): 2.6e-63, 46.073% id in 382 aa. Also similar to BP0112, 42.784% identity in 388 aa overlap.; cystathionine beta-lyase 839395..840546 Bordetella pertussis Tohama I 2663970 NP_879628.1 CDS BP0816 NC_002929.2 840550 841581 D Similar to Rhizobium loti Mlr7142 protein TR:Q987A0 (EMBL:AP003011) (349 aa) fasta scores: E(): 2.1e-12, 26.901% id in 342 aa, and to Rhizobium meliloti hypothetical protein Smb20435 TR:CAC48821 (EMBL:AL603643) (331 aa) fasta scores: E(): 2.3e-12, 26.586% id in 331 aa; hypothetical protein 840550..841581 Bordetella pertussis Tohama I 2664184 NP_879629.1 CDS BP0817 NC_002929.2 841710 842681 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 5.6e-32, 35.474% id in 327 aa, and to Agrobacterium tumefaciens Agr_l_312p TR::AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 6e-30, 33.739% id in 329 aa; hypothetical protein 841710..842681 Bordetella pertussis Tohama I 2664185 NP_879630.1 CDS BP0818 NC_002929.2 842706 844790 D Similar to Pseudomonas aeruginosa probable thiosulfate sulfurtransferase Pa2603 TR:Q9I0N4 (EMBL:AE004689) (527 aa) fasta scores: E(): 1.4e-45, 40.310% id in 516 aa, and to Agrobacterium tumefaciens Agr_pti_bx104p TR:AAK91049 (EMBL:AE007935) (395 aa) fasta scores: E(): 9.6e-31, 41.987% id in 312 aa; hypothetical protein 842706..844790 Bordetella pertussis Tohama I 2664186 NP_879631.1 CDS BP0819 NC_002929.2 844857 845849 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 4.4e-35, 37.037% id in 324 aa, and to Pseudomonas putida hypothetical 34.5 kDa protein in clcB-clcD intergenic region precursor SW:YCLC_PSEPU (Q47100) (329 aa) fasta scores: E(): 3.7e-32, 34.375% id in 320 aa; hypothetical protein complement(844857..845849) Bordetella pertussis Tohama I 2664567 NP_879632.1 CDS BP0820 NC_002929.2 845958 847292 R Similar to Agrobacterium tumefaciens Agr_l_1811p TR:AAK89479 (EMBL:AE008289) (440 aa) fasta scores: E(): 1.4e-42, 32.143% id in 448 aa, and to Rhizobium meliloti oxidoreductase Sma1850 TR:AAK65676 (EMBL:AE007288) (425 aa) fasta scores: E(): 2.5e-39, 33.724% id in 427 aa; hypothetical protein complement(845958..847292) Bordetella pertussis Tohama I 2664568 NP_879633.1 CDS hyuB NC_002929.2 847318 849330 R Similar to Pseudomonas sp hydantoin utilization protein B HyuB SW:HYUB_PSESN (Q01263) (592 aa) fasta scores: E(): 4.3e-44, 29.223% id in 592 aa, and to Rhizobium loti hydantoin utilization protein B Mlr7025 TR:Q987J6 (EMBL:AP003010) (661 aa) fasta scores: E(): 5.8e-133, 52.108% id in 664 aa; hydantoin utilization protein B complement(847318..849330) Bordetella pertussis Tohama I 2664569 NP_879634.1 CDS hyuA NC_002929.2 849327 851399 R Similar to Pseudomonas sp hydantoin utilization protein A hyuA SW:HYUA_PSESN (Q01262) (690 aa) fasta scores: E(): 1.3e-75, 34.776% id in 693 aa, and to Rhizobium loti hydantoin utilization protein A Mlr7024 TR:Q987J7 (EMBL:AP003010) (692 aa) fasta scores: E(): 8.9e-130, 53.254% id in 676 aa; hydantoin utilization protein A complement(849327..851399) Bordetella pertussis Tohama I 2664341 NP_879635.1 CDS BP0823 NC_002929.2 851479 852126 D Similar to Pseudomonas putida pca regulon regulatory protein PcaR SW:PCAR_PSEPU (Q52154) (291 aa) fasta scores: E(): 6e-07, 31.655% id in 139 aa, and to Rhodococcus opacus PcaR TR:O67983 (EMBL:AF003947) (265 aa) fasta scores: E(): 3.5e-08, 28.108% id in 185 aa; transcriptional regulator 851479..852126 Bordetella pertussis Tohama I 2664342 NP_879636.1 CDS BP0824 NC_002929.2 852309 852761 D Identical to the previously sequenced Bordetella bronchiseptica azurin SW:AZUR_BORBR (P00278) (129 aa) fasta scores: E(): 4.2e-49, 100.000% id in 129 aa,and similar to Alcaligenes xylosoxydans xylosoxydans azurin-I precursor Az1 TR:O87169 (EMBL:AB013077) (150 aa) fasta scores: E(): 4e-42, 74.667% id in 150 aa; azurin 852309..852761 Bordetella pertussis Tohama I 2664343 NP_879637.1 CDS BP0825 NC_002929.2 852805 853476 R Similar to Vibrio cholerae hypothetical protein Vc2666 TR:Q9KNR5 (EMBL:AE004332) (205 aa) fasta scores: E(): 2.1e-30, 43.781% id in 201 aa, and to Bacillus halodurans Bh3429 protein Bh3429 TR:Q9K7D5 (EMBL:AP001518) (215 aa) fasta scores: E(): 3.8e-14, 31.818% id in 198 aa; hypothetical protein complement(852805..853476) Bordetella pertussis Tohama I 2664618 NP_879638.1 CDS BP0826 NC_002929.2 853491 854984 R Similar to Pseudomonas aeruginosa mexE, mexF & oprN genes OprN TR:P95423 (EMBL:X99514) (472 aa) fasta scores: E(): 5e-47, 39.703% id in 471 aa, and to Xanthomonas maltophilia (Pseudomonas maltophilia) (Stenotrophomonas SmeC TR:Q9RBY7 (EMBL:AF173226) (471 aa) fasta scores: E(): 1.1e-31, 33.612% id in 479 aa; multidrug efflux system outer membrane protein complement(853491..854984) Bordetella pertussis Tohama I 2664619 NP_879639.1 CDS BP0827 NC_002929.2 854981 858094 R Similar to Pseudomonas aeruginosa probable Rnd efflux transporter Pa4207 TR:Q9HWH4 (EMBL:AE004837) (1029 aa) fasta scores: E(): 0, 69.697% id in 1023 aa, and to Vibrio cholerae multidrug resistance protein, Vc0164 TR:Q9KVI2 (EMBL:AE004106) (1036 aa) fasta scores: E(): 3.4e-183, 48.309% id in 1035 aa; multidrug efflux system membrane protein complement(854981..858094) Bordetella pertussis Tohama I 2664249 NP_879640.1 CDS BP0828 NC_002929.2 858107 859213 R Similar to Pseudomonas aeruginosa probable Rnd efflux membrane fusion protein precursor Pa4206 TR:Q9HWH5 (EMBL:AE004837) (370 aa) fasta scores: E(): 4.6e-48, 48.011% id in 352 aa, and to Vibrio cholerae hypothetical protein Vc0165 TR:Q9KVI1 (EMBL:AE004106) (368 aa) fasta scores: E(): 1.7e-30, 36.593% id in 317 aa; HlyD family secretion protein complement(858107..859213) Bordetella pertussis Tohama I 2664373 NP_879641.1 CDS BP0829 NC_002929.2 859337 860005 R Similar to Streptomyces lipmanii StgU TR:O88133 (EMBL:AJ006517) (210 aa) fasta scores: E(): 7.2e-21, 41.743% id in 218 aa, and to Streptomyces coelicolor hypothetical 23.3 kDa protein Sc2h4.05 TR:O86588 (EMBL:AL031514) (216 aa) fasta scores: E(): 1.1e-19, 39.524% id in 210 aa; transcriptional regulator complement(859337..860005) Bordetella pertussis Tohama I 2664374 NP_879642.1 CDS BP0830 NC_002929.2 860226 861176 D transposase for IS481 element; transposase 860226..861176 Bordetella pertussis Tohama I 2664453 NP_879643.1 CDS betT NC_002929.2 861259 863217 D Similar to Escherichia coli high-affinity choline transport protein BetT or B0314 or Z0401 or Ecs0360 SW:BETT_ECOLI (P17447) (677 aa) fasta scores: E(): 2.1e-92, 42.249% id in 658 aa, and to Pseudomonas aeruginosa probable choline transporter Pa5291 TR:Q9HTR3 (EMBL:AE004941) (661 aa) fasta scores: E(): 2.5e-188, 74.732% id in 653 aa. Also similar to BP0804, 37.348% identity (38.522% ungapped) in 656 aa overlap.; high-affinity choline transport protein 861259..863217 Bordetella pertussis Tohama I 2664250 NP_879644.1 CDS BP0832 NC_002929.2 863245 863946 D Similar to Yersinia pestis hypothetical transcriptional regulator TR:Q9ZC44 (EMBL:AL031866) (320 aa) fasta scores: E(): 3.9e-39, 54.091% id in 220 aa, and to Rhizobium meliloti LysR-type regulator Sma0498 TR:AAK64920 (EMBL:AE007219) (299 aa) fasta scores: E(): 2.7e-13, 31.364% id in 220 aa; LysR family transcriptional regulator 863245..863946 Bordetella pertussis Tohama I 2664633 NP_879645.1 CDS BP0834 NC_002929.2 864905 865720 D Similar to Rhizobium loti 3',5'-cyclic-nucleotide phosphodiesterase CpdA homolog Mll9676 TR:Q98NZ2 (EMBL:AP003017) (269 aa) fasta scores: E(): 2.2e-26, 35.659% id in 258 aa, and to Caulobacter crescentus hypothetical protein Cc3556 TR:Q9A2K5 (EMBL:AE006014) (262 aa) fasta scores: E(): 5.4e-20, 35.484% id in 248 aa; DNA repair exonuclease 864905..865720 Bordetella pertussis Tohama I 2664562 NP_879646.1 CDS BP0835 NC_002929.2 865737 866540 D Similar to Bacillus megaterium hypothetical 24.9 kDa protein in cytochrome p450meg gene 3'region TR:Q06074 (EMBL:Z21972) (216 aa) fasta scores: E(): 9.7e-13, 31.658% id in 199 aa, and to Caulobacter crescentus Pap2 superfamily protein Cc3019 TR:Q9A424 (EMBL:AE005965) (259 aa) fasta scores: E(): 1.3e-10, 36.134% id in 238 aa; hypothetical protein 865737..866540 Bordetella pertussis Tohama I 2664563 NP_879647.1 CDS BP0836 NC_002929.2 866524 866958 R Similar to Rhizobium meliloti oxidoreductase Smc01572 TR:CAC46902 (EMBL:AL591790) (155 aa) fasta scores: E(): 0.00047, 32.593% id in 135 aa, and to Rhizobium loti probable oxidoreductase Mlr0254 TR:Q98N82 (EMBL:AP002994) (305 aa) fasta scores: E(): 0.016, 30.075% id in 133 aa; hypothetical protein complement(866524..866958) Bordetella pertussis Tohama I 2664597 NP_879648.1 CDS BP0837 NC_002929.2 866955 867389 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4093 TR:Q9HWT5 (EMBL:AE004825) (138 aa) fasta scores: E(): 1.2e-09, 40.164% id in 122 aa, and to Rhizobium meliloti hypothetical transmembrane protein Smc01805 TR:CAC45823 (EMBL:AL591786) (143 aa) fasta scores: E(): 3e-08, 34.815% id in 135 aa; hypothetical protein complement(866955..867389) Bordetella pertussis Tohama I 2664598 YP_008691074.1 CDS BP0838 NC_002929.2 867391 868128 R TetR family transcriptional regulator complement(867391..868128) Bordetella pertussis Tohama I 2664599 NP_879649.1 CDS BP0839 NC_002929.2 867963 868913 R transposase for IS481 element; transposase complement(867963..868913) Bordetella pertussis Tohama I 2664609 NP_879650.1 CDS BP0840 NC_002929.2 869226 870383 D Identical to the previously sequenced Bordetella pertussis outer membrane porin protein precursor SW:OMP_BORPE (Q04064) (385 aa) fasta scores: E(): 4e-149, 100.000% id in 385 aa. Also similar to BP2851 (53.728%% identity in 389 aa overlap), and BP0267 (58.844% identity in 294 aa overlap), and its C-terminus is similar to BP0138 (66.667% identity in 90 aa overlap).; outer membrane porin protein 869226..870383 Bordetella pertussis Tohama I 2664642 NP_879651.1 CDS nuoA NC_002929.2 870572 870931 D Similar to Paracoccus denitrificans NADH-ubiquinone oxidoreductase chain 7 Nqo7 SW:NQO7_PARDE (P29919) (121 aa) fasta scores: E(): 5e-28, 60.345% id in 116 aa, and to Rhodobacter capsulatus NADH dehydrogenase I chain A NuoA SW:NUOA_RHOCA (O84969) (126 aa) fasta scores: E(): 1.1e-28, 60.345% id in 116 aa; NADH-ubiquinone oxidoreductase chain 3 870572..870931 Bordetella pertussis Tohama I 2667693 NP_879652.1 CDS nuoB NC_002929.2 870968 871444 D The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen; NADH dehydrogenase subunit B 870968..871444 Bordetella pertussis Tohama I 2664576 NP_879653.1 CDS nuoC NC_002929.2 871519 872142 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit C 871519..872142 Bordetella pertussis Tohama I 2664577 NP_879654.1 CDS nuoD NC_002929.2 872145 873401 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit D 872145..873401 Bordetella pertussis Tohama I 2664628 NP_879655.1 CDS nuoE NC_002929.2 873447 873941 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit E 873447..873941 Bordetella pertussis Tohama I 2667687 NP_879656.1 CDS nuoF NC_002929.2 873938 875305 D Similar to Rhizobium meliloti NADH dehydrogenase I chain F 2 NuoF2 SW:NUF2_RHIME (P56913) (421 aa) fasta scores: E(): 3.8e-86, 52.518% id in 417 aa, and to Neisseria meningitidis NADH dehydrogenase I chain F NuoF or Nma0014 TR:Q9JX83 (EMBL:AL162752) (433 aa) fasta scores: E(): 2.7e-133, 77.240% id in 413 aa; respiratory-chain NADH dehydrogenase, 51 kDa subunit 873938..875305 Bordetella pertussis Tohama I 2667688 NP_879657.1 CDS nuoG NC_002929.2 875321 877648 D Catalyzes the transfer of electrons from NADH to ubiquinone; NADH dehydrogenase subunit G 875321..877648 Bordetella pertussis Tohama I 2664266 NP_879658.1 CDS nuoH NC_002929.2 877648 878721 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit H 877648..878721 Bordetella pertussis Tohama I 2664413 NP_879659.1 CDS nuoI NC_002929.2 878743 879231 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit I 878743..879231 Bordetella pertussis Tohama I 2664166 NP_879660.1 CDS nuoJ NC_002929.2 879249 879896 D Similar to Paracoccus denitrificans NADH-ubiquinone oxidoreductase chain 10 Nqo10 SW:NQOA_PARDE (P29922) (200 aa) fasta scores: E(): 4.2e-21, 46.927% id in 179 aa, and to Neisseria meningitidis NADH dehydrogenase I, J subunit Nmb0253 TR:Q9K1B2 (EMBL:AE002382) (223 aa) fasta scores: E(): 5.4e-28, 46.009% id in 213 aa; NADH-ubiquinone oxidoreductase subunit J 879249..879896 Bordetella pertussis Tohama I 2665216 NP_879661.1 CDS nuoK NC_002929.2 879893 880201 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit K 879893..880201 Bordetella pertussis Tohama I 2664406 NP_879662.1 CDS nuoL NC_002929.2 880219 882231 D Similar to Synechococcus sp NADH-plastoquinone oxidoreductase chain 5 NdhF SW:NU5C_SYNP2 (P31971) (664 aa) fasta scores: E(): 3.2e-81, 42.285% id in 674 aa, and to Neisseria meningitidis NADH dehydrogenase I chain L NuoL or Nma0002 SW:NUOL_NEIMA (Q9JX92) (674 aa) fasta scores: E(): 9.9e-147, 61.367% id in 673 aa; NADH-ubiquinone oxidoreductase subunit L 880219..882231 Bordetella pertussis Tohama I 2664407 NP_879663.1 CDS nuoM NC_002929.2 882231 883730 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit M 882231..883730 Bordetella pertussis Tohama I 2664408 NP_879664.1 CDS nuoN NC_002929.2 883741 885225 D Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit N 883741..885225 Bordetella pertussis Tohama I 2664414 NP_879665.1 CDS BP0855 NC_002929.2 885242 885571 D Similar to Neisseria meningitidis hypothetical inner membrane protein Nma2227 TR:Q9JSL9 (EMBL:AL162758) (116 aa) fasta scores: E(): 4.5e-10, 36.634% id in 101 aa; hypothetical protein 885242..885571 Bordetella pertussis Tohama I 2664415 NP_879666.1 CDS bfrD NC_002929.2 885872 888103 D Similar to Pseudomonas aeruginosa hydroxamate-type ferrisiderophore receptor PiuA or Fiu or Pa4514 TR:O68590 (EMBL:AF051690) (753 aa) fasta scores: E(): 1.1e-95, 37.317% id in 753 aa, and to Caulobacter crescentus TonB-dependent receptor Cc0028 TR:Q9AC38 (EMBL:AE005677) (851 aa) fasta scores: E(): 1.7e-47, 38.562% id in 765 aa; TonB-dependent receptor for iron transport 885872..888103 Bordetella pertussis Tohama I 2664308 NP_879667.1 CDS bfrE NC_002929.2 888327 890585 D Similar to Pseudomonas aeruginosa hydroxamate-type ferrisiderophore receptor PiuA or Fiu or Pa4514 TR:O68590 (EMBL:AF051690) (753 aa) fasta scores: E(): 3.4e-106, 43.742% id in 775 aa, and to Escherichia coli probable TonB-dependent receptor YbiL precursor YbiL or B0805 SW:YBIL_ECOLI (P75780) (760 aa) fasta scores: E(): 7.2e-50, 35.058% id in 773 aa; TonB-dependent receptor for iron transport 888327..890585 Bordetella pertussis Tohama I 2664309 NP_879668.1 CDS BP0858 NC_002929.2 890698 891216 D Similar to Caulobacter crescentus acetyltransferase, GnaT family Cc1083 TR:Q9A9B1 (EMBL:AE005785) (173 aa) fasta scores: E(): 3.2e-14, 32.530% id in 166 aa, and to Rhizobium loti Mll3172 protein Mll3172 TR:Q98GU4 (EMBL:AP003001) (179 aa) fasta scores: E(): 1.5e-13, 32.544% id in 169 aa; GnaT-family acetyltransferase 890698..891216 Bordetella pertussis Tohama I 2664426 NP_879669.1 CDS fabG NC_002929.2 891226 892002 R catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase complement(891226..892002) Bordetella pertussis Tohama I 2664427 NP_879670.1 CDS BP0860 NC_002929.2 891999 893687 R catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; catalytic; acetolactate synthase catalytic subunit complement(891999..893687) Bordetella pertussis Tohama I 2664066 NP_879671.1 CDS BP0861 NC_002929.2 893849 894829 R Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 8.7e-43, 38.889% id in 324 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 4.2e-49, 46.226% id in 318 aa; hypothetical protein complement(893849..894829) Bordetella pertussis Tohama I 2664078 NP_879672.1 CDS BP0862 NC_002929.2 894967 895884 D Similar to Salmonella typhimurium OsmT protein OsmT TR:CAC44465 (EMBL:AJ313506) (308 aa) fasta scores: E(): 1.3e-25, 34.354% id in 294 aa, and to Rhizobium meliloti transcriptional regulator protein smb20123 TR:CAC48523 (EMBL:AL603642) (298 aa) fasta scores: E(): 8.2e-30, 35.932% id in 295 aa; LysR family transcriptional regulator 894967..895884 Bordetella pertussis Tohama I 2664079 NP_879673.1 CDS serB NC_002929.2 896013 896873 R Similar to Escherichia coli, and phosphoserine phosphatase SerB or B4388 or Z5989 or Ecs5346 SW:SERB_ECOLI (P06862) (322 aa) fasta scores: E(): 2.1e-28, 46.444% id in 239 aa, and to Neisseria meningitidis phosphoserine phosphatase SerB or nma1179 TR:Q9JUR1 (EMBL:AL162755) (277 aa) fasta scores: E(): 1.6e-31, 49.327% id in 223 aa; phosphoserine phosphatase complement(896013..896873) Bordetella pertussis Tohama I 2664525 NP_879674.1 CDS mfd NC_002929.2 896909 900340 R Similar to Escherichia coli transcription-repair coupling factor Mfd or B1114 SW:MFD_ECOLI (P30958) (1148 aa) fasta scores: E(): 6e-212, 51.619% id in 1143 aa, and to Pseudomonas aeruginosa transcription-repair coupling protein Mfd or Pa3002 TR:Q9HZK3 (EMBL:AE004725) (1148 aa) fasta scores: E(): 0, 54.440% id in 1126 aa; transcription-repair coupling factor complement(896909..900340) Bordetella pertussis Tohama I 2664526 NP_879675.1 CDS ispD NC_002929.2 900394 901077 D 4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers; 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase 900394..901077 Bordetella pertussis Tohama I 2664493 NP_879676.1 CDS ispF NC_002929.2 901074 901562 D catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate; 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 901074..901562 Bordetella pertussis Tohama I 2664205 NP_879677.1 CDS BP0867 NC_002929.2 901661 902611 D transposase for IS481 element; transposase 901661..902611 Bordetella pertussis Tohama I 2664277 NP_879678.1 CDS fbp NC_002929.2 902608 903627 R catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate; fructose-1,6-bisphosphatase complement(902608..903627) Bordetella pertussis Tohama I 2664278 NP_879679.1 CDS pepN NC_002929.2 903637 906345 R Similar to Escherichia coli aminopeptidase N PepN or B0932 SW:AMPN_ECOLI (P04825) (869 aa) fasta scores: E(): 1.6e-65, 47.052% id in 899 aa, and to Caulobacter crescentus aminopeptidase N PepN or Cc2481 SW:AMPN_CAUCR (P37893) (863 aa) fasta scores: E(): 1.3e-70, 48.946% id in 901 aa; aminopeptidase complement(903637..906345) Bordetella pertussis Tohama I 2664070 NP_879680.1 CDS BP0870 NC_002929.2 906493 907149 D Similar to Zymomonas mobilis hypothetical 23.9 kDa protein TR:Q9EZA0 (EMBL:AF300471) (220 aa) fasta scores: E(): 0.00027, 33.333% id in 207 aa; hypothetical protein 906493..907149 Bordetella pertussis Tohama I 2664016 NP_879681.1 CDS BP0871 NC_002929.2 907248 908198 D transposase for IS481 element; transposase 907248..908198 Bordetella pertussis Tohama I 2664017 NP_879682.1 CDS BP0872 NC_002929.2 908195 910027 R Similar to Rhizobium loti ATP-binding protein of ABC transporter Mll0815 TR:Q98LY9 (EMBL:AP002995) (601 aa) fasta scores: E(): 3.1e-156, 74.624% id in 599 aa, and to Agrobacterium tumefaciens Agr_l_309p TR:AAK88722 (EMBL:AE008213) (600 aa) fasta scores: E(): 4.1e-147, 68.781% id in 599 aa; ABC transporter ATP-binding protein complement(908195..910027) Bordetella pertussis Tohama I 2664512 NP_879683.1 CDS tpm NC_002929.2 910426 911085 D catalyzes the S-adenosylmethionine-dependent transmethylation of thiopurine compounds; may be involved in selenium cycling by forming dimethylselenide and/or dimethyldiselenide; thiopurine S-methyltransferase 910426..911085 Bordetella pertussis Tohama I 2664211 NP_879684.1 CDS vir-18 NC_002929.2 911173 911325 D Identical to the previously sequenced Bordetella pertussis vir-repressed protein Vir-18 TR:Q04274 (EMBL:M37228) (23 aa) fasta scores: E(): 0.0007, 100.000% id in 23 aa; vir-repressed protein 911173..911325 Bordetella pertussis Tohama I 2664212 NP_879685.1 CDS BP0875 NC_002929.2 911434 911601 D no significant database matches; hypothetical protein 911434..911601 Bordetella pertussis Tohama I 2664213 NP_879686.1 CDS BP0876 NC_002929.2 911613 912293 R Similar to Escherichia coli hypothetical lipoprotein YdcL precursor YdcL or B1431 or Z2287 or Ecs2036 SW:YDCL_ECOLI (P76101) (222 aa) fasta scores: E(): 4.1e-13, 30.942% id in 223 aa, and to Rhizobium meliloti polysaccharide export system periplasmic transmembrane protein Smc01794 TR:CAC45812 (EMBL:AL591786) (191 aa) fasta scores: E(): 2.1, 28.161% id in 174 aa; polysaccharide ABC transporter substrate-binding protein complement(911613..912293) Bordetella pertussis Tohama I 2664311 NP_879687.1 CDS BP0877 NC_002929.2 912575 913291 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3353 TR:Q9HYP3 (EMBL:AE004757) (263 aa) fasta scores: E(): 0.00072, 27.426% id in 237 aa; hypothetical protein 912575..913291 Bordetella pertussis Tohama I 2664312 NP_879688.1 CDS BP0878 NC_002929.2 913306 914607 R Similar to Campylobacter coli phospholipase A PldA TR:O32349 (EMBL:Y11031) (297 aa) fasta scores: E(): 1.3e-09, 27.170% id in 265 aa, and to Campylobacter jejuni phospholipase A PldA or Cj1351 TR:Q9PMU8 (EMBL:AL139078) (329 aa) fasta scores: E(): 2.8e-09, 26.459% id in 257 aa; phospholipase complement(913306..914607) Bordetella pertussis Tohama I 2664313 NP_879689.1 CDS BP0882 NC_002929.2 919872 921224 D Similar to Methanothermobacter thermautotrophicus conserved protein Mth965 TR:O27046 (EMBL:AE000870) (452 aa) fasta scores: E(): 2.8e-21, 27.912% id in 455 aa, and to Agrobacterium tumefaciens Agr_l_2924p TR:AAK90029 (EMBL:AE008346) (448 aa) fasta scores: E(): 2e-24, 29.899% id in 398 aa; hypothetical protein 919872..921224 Bordetella pertussis Tohama I 2664614 NP_879690.1 CDS BP0883 NC_002929.2 921253 921774 D Similar to Glycine max acetyl-CoA carboxylase AccB-1 TR:AAF80463 (EMBL:AF162283) (262 aa) fasta scores: E(): 1.8e-07, 33.939% id in 165 aa, and to Synechococcus sp biotin carboxyl carrier protein accB TR:Q54761 (EMBL:U59235) (158 aa) fasta scores: E(): 5.9e-12, 41.358% id in 162 aa. Also similar to BP2997, 41.333% identity (44.928% ungapped) in 150 aa overlap.; biotin carboxyl carrier protein 921253..921774 Bordetella pertussis Tohama I 2664615 NP_879691.1 CDS BP0884 NC_002929.2 921771 923225 D Similar to Methanococcus jannaschii pyruvate carboxylase subunit B PycB or Mj1231 SW:PYCB_METJA (Q58628) (567 aa) fasta scores: E(): 5.8e-52, 35.685% id in 482 aa, and to Pyrococcus horikoshii 571aa long hypothetical oxaloacetate decarboxylase alpha chain ph0834 TR:O58564 (EMBL:AP000003) (571 aa) fasta scores: E(): 3.8e-49, 38.073% id in 436 aa; carboxylase 921771..923225 Bordetella pertussis Tohama I 2667690 NP_879693.1 CDS BP0886 NC_002929.2 923680 924489 D Similar to Mycobacterium tuberculosis CDC1551 conserved hypothetical protein Mt2360 TR:AAK46645 (EMBL:AE007078) (307 aa) fasta scores: E(): 2e-09, 25.498% id in 251 aa, and to Agrobacterium tumefaciens Agr_c_2623p TR:AAK87214 (EMBL:AE008068) (291 aa) fasta scores: E(): 6e-07, 24.413% id in 213 aa; hypothetical protein 923680..924489 Bordetella pertussis Tohama I 2664009 NP_879694.1 CDS BP0887 NC_002929.2 924515 925570 D Similar to Arabidopsis thaliana induced upon wounding stress TR:Q39171 (EMBL:X99793) (386 aa) fasta scores: E(): 9.1e-20, 30.458% id in 371 aa, and to Arabidopsis thaliana hypothetical 44.2 kDa protein T22a6.50 or At4g24220 TR:Q9STX2 (EMBL:AL078637) (388 aa) fasta scores: E(): 6.2e-26, 31.892% id in 370 aa; hypothetical protein 924515..925570 Bordetella pertussis Tohama I 2664010 NP_879695.1 CDS BP0888 NC_002929.2 925583 926374 D Similar to Bacillus subtilis hypothetical transcriptional regulator YurK SW:YURK_BACSU (O32152) (242 aa) fasta scores: E(): 2.1e-15, 30.472% id in 233 aa, and to Deinococcus radiodurans transcriptional regulator, GntR family dra0211 TR:Q9RYU6 (EMBL:AE001863) (279 aa) fasta scores: E(): 3.7e-12, 29.046% id in 241 aa; GntR family transcriptional regulator 925583..926374 Bordetella pertussis Tohama I 2664011 NP_879696.1 CDS accC NC_002929.2 926407 927777 D Similar to Escherichia coli biotin carboxylase AccC or FabG or B3256 SW:ACCC_ECOLI (P24182) (449 aa) fasta scores: E(): 9.6e-86, 54.018% id in 448 aa, and to Anabaena sp biotin carboxylase AccC SW:ACCC_ANASP (Q06862) (447 aa) fasta scores: E(): 5.9e-93, 56.629% id in 445 aa; biotin carboxylase 926407..927777 Bordetella pertussis Tohama I 2664012 NP_879697.1 CDS BP0891 NC_002929.2 928954 929904 D transposase for IS481 element; transposase 928954..929904 Bordetella pertussis Tohama I 2664046 NP_879698.1 CDS BP0892 NC_002929.2 929957 930178 D no significant database matches; hypothetical protein 929957..930178 Bordetella pertussis Tohama I 2667700 NP_879699.1 CDS BP0893 NC_002929.2 930338 930550 D no significant database matches; hypothetical protein 930338..930550 Bordetella pertussis Tohama I 2663996 NP_879700.1 CDS pmi NC_002929.2 930649 931788 D Similar to Rhizobium meliloti mannose-6-phosphate isomerase Pmi or R02982 or Smc03111 SW:MANA_RHIME (P29954) (387 aa) fasta scores: E(): 4.5, 27.763% id in 389 aa, and to Caulobacter crescentus mannose-6-phosphate isomerase Cc3617 TR:Q9A2E8 (EMBL:AE006020) (386 aa) fasta scores: E(): 1.3e-13, 32.031% id in 384 aa; mannose-6-phosphate isomerase 930649..931788 Bordetella pertussis Tohama I 2663997 NP_879701.1 CDS BP0895 NC_002929.2 931885 932100 D Similar to Halobacterium sp 50S ribosomal protein l44E Rpl44e or Vng0551G TR:Q9HRT6 (EMBL:AE005006) (61 aa) fasta scores: E(): 8.8, 39.024% id in 41 aa; hypothetical protein 931885..932100 Bordetella pertussis Tohama I 2663998 NP_879702.1 CDS BP0896 NC_002929.2 932294 932545 D no significant database matches; hypothetical protein 932294..932545 Bordetella pertussis Tohama I 2663999 NP_879703.1 CDS BP0897 NC_002929.2 932658 933608 D transposase for IS481 element; transposase 932658..933608 Bordetella pertussis Tohama I 2664115 NP_879704.1 CDS BP0898 NC_002929.2 933605 933988 R Similar to Pseudomonas spCA10 ferredoxin component of carbazole 1,9a-dioxygenase CaraC TR:O32475 (EMBL:D89064) (107 aa) fasta scores: E(): 0.16, 28.736% id in 87 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4711 TR:Q9HV87 (EMBL:AE004885) (115 aa) fasta scores: E(): 3.9e-10, 35.965% id in 114 aa; ferredoxin complement(933605..933988) Bordetella pertussis Tohama I 2664193 NP_879705.1 CDS BP0899 NC_002929.2 934043 935860 R Similar to Rhizobium loti ABC transporter ATP-binding protein Mlr7818 TR:Q984W3 (EMBL:AP003012) (627 aa) fasta scores: E(): 1.9e-115, 56.324% id in 593 aa, and to Rhizobium meliloti probable ABC transporter ATP-binding transmembrane protein Smc00550 TR:CAC45699 (EMBL:AL591786) (627 aa) fasta scores: E(): 5.7e-117, 57.022% id in 591 aa; ABC transporter ATP-binding protein complement(934043..935860) Bordetella pertussis Tohama I 2664194 NP_879706.1 CDS BP0900 NC_002929.2 936007 936834 D Similar to Corynebacterium SP 2,5-diketo-D-gluconic acid reductase TR:P06632 (EMBL:M12799) (278 aa) fasta scores: E(): 5.9e-54, 53.008% id in 266 aa, and to Streptomyces coelicolor oxidoreductase Sc4b5.01C TR:Q9ZBW7 (EMBL:AL034443) (277 aa) fasta scores: E(): 1.7e-61, 58.303% id in 271 aa; oxidoreductase 936007..936834 Bordetella pertussis Tohama I 2664254 NP_879707.1 CDS BP0901 NC_002929.2 936880 937860 D Similar to Streptomyces coelicolor aldo/keto reductase Scf81.28C TR:Q9RJC4 (EMBL:AL133171) (307 aa) fasta scores: E(): 6.4e-83, 66.667% id in 309 aa, and to Escherichia coli hypothetical oxidoreductase YajO or b0419 SW:YAJO_ECOLI (P77735) (324 aa) fasta scores: E(): 9.9e-80, 61.846% id in 325 aa; oxidoreductase 936880..937860 Bordetella pertussis Tohama I 2664326 NP_879708.1 CDS BP0902 NC_002929.2 937857 938069 R Similar to Caulobacter crescentus hypothetical protein Cc2926 TR:Q9A4B1 (EMBL:AE005957) (70 aa) fasta scores: E(): 0.0073, 44.231% id in 52 aa; hypothetical protein complement(937857..938069) Bordetella pertussis Tohama I 2664422 NP_879709.1 CDS BP0903 NC_002929.2 938066 939247 R Similar to Pseudomonas aeruginosa hypothetical protein Pa1909 TR:Q9I2J5 (EMBL:AE004617) (383 aa) fasta scores: E(): 1.4e-72, 52.910% id in 378 aa, and to Caulobacter crescentus hypothetical protein Cc2927 TR:Q9A4B0 (EMBL:AE005957) (394 aa) fasta scores: E(): 2.4e-53, 50.681% id in 367 aa; hypothetical protein complement(938066..939247) Bordetella pertussis Tohama I 2664423 NP_879710.1 CDS pphA NC_002929.2 939411 940145 D Similar to Escherichia coli serine/threonine protein phosphatase 1 PphA or PrpA or B1838 SW:PRP1_ECOLI (P55798) (218 aa) fasta scores: E(): 1.9e-18, 34.821% id in 224 aa, and to Bacteriophage lambda serine/threonine protein phosphatase SW:PP_LAMBD (P03772) (221 aa) fasta scores: E(): 1.2e-18, 33.803% id in 213 aa; serine/threonine protein phosphatase 1 939411..940145 Bordetella pertussis Tohama I 2664315 NP_879711.1 CDS mrcA NC_002929.2 940147 942759 R Similar to Escherichia coli penicillin-binding protein 1A MrcA or PonA or B3396 SW:PBPA_ECOLI (P02918) (850 aa) fasta scores: E(): 2.1e-61, 37.243% id in 827 aa, and to Pseudomonas aeruginosa penicillin-binding protein 1A MrcA or PonA or Pa5045 SW:PBPA_PSEAE (Q07806) (822 aa) fasta scores: E(): 3.7e-62, 38.882% id in 805 aa; penicillin-binding protein 1A complement(940147..942759) Bordetella pertussis Tohama I 2664316 NP_879712.1 CDS BP0906 NC_002929.2 942895 944808 R Similar to Rickettsia conorii acylamino acid-releasing enzyme Rc0603 TR:AAL03141 (EMBL:AE008621) (676 aa) fasta scores: E(): 2.3e-62, 34.783% id in 621 aa, and to Caulobacter crescentus prolyl oligopeptidase family protein Cc3723 TR:Q9A243 (EMBL:AE006030) (667 aa) fasta scores: E(): 3.4e-42, 30.653% id in 659 aa; peptidase complement(942895..944808) Bordetella pertussis Tohama I 2663972 NP_879713.1 CDS BP0908 NC_002929.2 945424 945834 R Similar to Halobacterium halobium hypothetical 15.6 kDa protein in phr 5'region SW:YPHR_HALHA (P20378) (151 aa) fasta scores: E(): 2e-08, 29.688% id in 128 aa, and to Halobacterium sp Vng1336C TR:Q9HQ45 (EMBL:AE005055) (151 aa) fasta scores: E(): 2e-08, 29.688% id in 128 aa; hypothetical protein complement(945424..945834) Bordetella pertussis Tohama I 2664601 NP_879714.1 CDS dinP NC_002929.2 945932 947017 D involved in translesion DNA polymerization with beta clamp of polymerase III; belongs to Y family of polymerases; does not contain proofreading function; DNA polymerase IV 945932..947017 Bordetella pertussis Tohama I 2664602 NP_879715.1 CDS BP0910 NC_002929.2 947116 948066 D transposase for IS481 element; transposase 947116..948066 Bordetella pertussis Tohama I 2664571 NP_879716.1 CDS BP0911 NC_002929.2 948154 948705 R Similar to Streptomyces wedmorensis phosphonopyruvate decarboxylase Fom2 TR:Q56190 (EMBL:AB016934) (384 aa) fasta scores: E(): 0.00013, 32.278% id in 158 aa, and to Methanothermobacter thermautotrophicus phosphonopyruvate decarboxylase related protein Mth1206 TR:O27274 (EMBL:AE000888) (165 aa) fasta scores: E(): 9.5e-10, 36.957% id in 138 aa; decarboxylase complement(948154..948705) Bordetella pertussis Tohama I 2664517 NP_879717.1 CDS BP0913 NC_002929.2 949983 950957 D Similar to Escherichia coli aliphatic sulfonates binding protein precursor SsuA or B0936 SW:SSUA_ECOLI (P75853) (319 aa) fasta scores: E(): 1.7e-09, 24.903% id in 257 aa, and to Agrobacterium tumefaciens Agr_l_1399p TR:AAK89280 (EMBL:AE008268) (338 aa) fasta scores: E(): 2.9e-13, 28.197% id in 305 aa; hypothetical protein 949983..950957 Bordetella pertussis Tohama I 2664375 NP_879718.1 CDS BP0914 NC_002929.2 950977 951849 D Similar to Escherichia coli taurine transport system permease TauC or SsiC or B0367 SW:TAUC_ECOLI (Q47539) (275 aa) fasta scores: E(): 1e-26, 35.887% id in 248 aa, and to Pseudomonas aeruginosa probable permease of ABC taurine transporter Pa3936 TR:Q9HX80 (EMBL:AE004811) (272 aa) fasta scores: E(): 4.9e-27, 33.585% id in 265 aa; binding-protein-dependent transport system inner membrane protein 950977..951849 Bordetella pertussis Tohama I 2664376 NP_879719.1 CDS BP0915 NC_002929.2 951846 952673 D Similar to Escherichia coli taurine transport system permease TauC or SsiC or B0367 SW:TAUC_ECOLI (Q47539) (275 aa) fasta scores: E(): 2.1e-25, 32.530% id in 249 aa, and to Rhizobium loti taurine transport system permease Mlr4519 TR:Q98DW5 (EMBL:AP003004) (286 aa) fasta scores: E(): 4.4e-24, 32.830% id in 265 aa; binding-protein-dependent transport system inner membrane protein 951846..952673 Bordetella pertussis Tohama I 2663968 NP_879720.1 CDS BP0918 NC_002929.2 953576 954997 D Similar to Methanothermobacter thermautotrophicus conserved protein Mth965 TR:O27046 (EMBL:AE000870) (452 aa) fasta scores: E(): 3.4e-34, 32.143% id in 420 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0881 TR:Q9I564 (EMBL:AE004522) (450 aa) fasta scores: E(): 2.2e-30, 29.556% id in 450 aa; hypothetical protein 953576..954997 Bordetella pertussis Tohama I 2664637 NP_879721.1 CDS gabD NC_002929.2 955102 956556 D Similar to Escherichia coli succinate-semialdehyde dehydrogenase [NADP+] GabD or B2661 SW:GABD_ECOLI (P25526) (482 aa) fasta scores: E(): 1.3e-46, 35.532% id in 470 aa, and to Bacillus halodurans NADP-dependent glyceraldehyde-3-phosphate dehydrogenase Bh1738 TR:Q9KC36 (EMBL:AP001513) (482 aa) fasta scores: E(): 7.4e-67, 40.812% id in 468 aa; succinate-semialdehyde dehydrogenase 955102..956556 Bordetella pertussis Tohama I 2664638 NP_879722.1 CDS BP0920 NC_002929.2 956606 958009 R catalyzes the oxidation of tricarballylate to cis-aconitate; FAD-dependent; required for the utilization of tricarballylate as a carbon and energy source by S. enterica; tricarballylate dehydrogenase complement(956606..958009) Bordetella pertussis Tohama I 2664611 NP_879723.1 CDS citB NC_002929.2 958030 959214 R Similar to Escherichia coli citrate utilization protein B CitB SW:CIT2_ECOLI (P05853) (379 aa) fasta scores: E(): 2.6e-91, 60.743% id in 377 aa, and to Salmonella typhi citrate utilisation protein CitB TR:Q9L5J7 (EMBL:AF250878) (379 aa) fasta scores: E(): 2.3e-90, 60.212% id in 377 aa; citrate utilization protein B complement(958030..959214) Bordetella pertussis Tohama I 2664612 NP_879724.1 CDS BP0922 NC_002929.2 959257 960432 R Similar to Bacillus subtilis hypothetical 39.5 kDa protein in sigZ-csn intergenic region YraM SW:YRAM_BACSU (O07931) (367 aa) fasta scores: E(): 3.4e-41, 38.462% id in 364 aa, and to Vibrio cholerae hypothetical protein Vc1339 TR:Q9KSB9 (EMBL:AE004213) (400 aa) fasta scores: E(): 5.1e-39, 34.896% id in 384 aa. Also similar to BP2370, 35.459% identity (36.968% ungapped) in 392 aa overlap.; hypothetical protein complement(959257..960432) Bordetella pertussis Tohama I 2664243 NP_879725.1 CDS BP0923 NC_002929.2 960603 961418 D Similar to Methanococcus jannaschii hypothetical protein Mj0255 SW:Y255_METJA (Q57703) (251 aa) fasta scores: E(): 2.6e-16, 32.500% id in 240 aa, and to Methanothermobacter thermautotrophicus conserved protein Mth1674 TR:O27710 (EMBL:AE000925) (258 aa) fasta scores: E(): 3.5e-16, 30.116% id in 259 aa; hypothetical protein 960603..961418 Bordetella pertussis Tohama I 2664244 NP_879726.1 CDS BP0924 NC_002929.2 961460 962356 D Similar to Klebsiella oxytoca CymJ TR:Q48400 (EMBL:X86014) (268 aa) fasta scores: E(): 5.8e-10, 24.895% id in 237 aa, and to Bacillus subtilis YrhO TR:O05405 (EMBL:U93874) (275 aa) fasta scores: E(): 4.8e-13, 25.704% id in 284 aa; transcriptional regulator 961460..962356 Bordetella pertussis Tohama I 2664245 NP_879727.1 CDS BP0925 NC_002929.2 962411 963271 R Similar to Homo sapiens unknown TR:AAH09403 (EMBL:BC009403) (314 aa) fasta scores: E(): 1.5e-30, 41.702% id in 235 aa, and to naphthalenesulfonate-degrading bacterium BN6 homolog to 2-hydroxyhepta-2 TR:Q50913 (EMBL:U38978) (144 aa) fasta scores: E(): 2.1e-31, 58.451% id in 142 aa; fumarylacetoacetate family hydrolase complement(962411..963271) Bordetella pertussis Tohama I 2664548 NP_879728.1 CDS BP0926 NC_002929.2 963349 964422 R Similar to Pseudomonas aeruginosa hypothetical protein Pa1213 TR:Q9I4C5 (EMBL:AE004551) (319 aa) fasta scores: E(): 2.2e-14, 30.556% id in 288 aa; hypothetical protein complement(963349..964422) Bordetella pertussis Tohama I 2664549 NP_879729.1 CDS BP0927 NC_002929.2 964548 965522 R Similar to Comamonas testosteroni Orf4 protein TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 2.6e-40, 36.977% id in 311 aa, and to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 9.2e-39, 35.647% id in 317 aa; hypothetical protein complement(964548..965522) Bordetella pertussis Tohama I 2664550 NP_879730.1 CDS BP0928 NC_002929.2 965661 966650 D Similar to alpha proteobacterium Y3F LysR family transcriptional regulator PcaQ TR:Q9L5A8 (EMBL:AF253466) (308 aa) fasta scores: E(): 5.8e-19, 30.293% id in 307 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa2206 TR:Q9I1R1 (EMBL:AE004647) (315 aa) fasta scores: E(): 5.6e-22, 31.707% id in 287 aa; LysR family transcriptional regulator 965661..966650 Bordetella pertussis Tohama I 2664551 NP_879731.1 CDS BP0929 NC_002929.2 966675 967250 R Similar to Helicobacter pylori J99 Jhp0345 TR:Q9ZM77 (EMBL:AE001470) (189 aa) fasta scores: E(): 0.02, 22.527% id in 182 aa, and to Streptomyces coelicolor membrane protein Sc5e9.11 TR:Q9EWM6 (EMBL:AL446003) (233 aa) fasta scores: E(): 0.15, 28.333% id in 180 aa; hypothetical protein complement(966675..967250) Bordetella pertussis Tohama I 2664629 NP_879732.1 CDS BP0930 NC_002929.2 967344 969002 R Similar to Pseudomonas diterpeniphila coenzyme A ligase TdtL TR:AAK95584 (EMBL:AF274704) (543 aa) fasta scores: E(): 7.2e-54, 33.333% id in 546 aa, and to Escherichia coli probable crotonobetaine/carnitine-CoA ligase CaiC or B0037 SW:CAIC_ECOLI (P31552) (522 aa) fasta scores: E(): 1.7e-38, 29.039% id in 489 aa; CoA ligase complement(967344..969002) Bordetella pertussis Tohama I 2664586 NP_879733.1 CDS BP0931 NC_002929.2 969014 969997 R Similar to Burkholderia cepacia hypothetical 35.5 kDa protein TR:AAK81675 (EMBL:AF029344) (337 aa) fasta scores: E(): 5.3e-24, 33.779% id in 299 aa, and to Comamonas testosteroni Orf4 protein TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 3e-25, 33.750% id in 320 aa; hypothetical protein complement(969014..969997) Bordetella pertussis Tohama I 2664587 NP_879734.1 CDS BP0932 NC_002929.2 970002 970424 R Similar to Methanothermobacter thermautotrophicus conserved protein Mth1398 TR:O27449 (EMBL:AE000902) (133 aa) fasta scores: E(): 1.1e-07, 35.398% id in 113 aa, and to Archaeoglobus fulgidus conserved hypothetical protein Af2417 TR:O30254 (EMBL:AE001108) (122 aa) fasta scores: E(): 2.2e-07, 37.349% id in 83 aa; hypothetical protein complement(970002..970424) Bordetella pertussis Tohama I 2664588 NP_879735.1 CDS BP0934 NC_002929.2 971671 972030 R no significant database matches. Similar to BP0328, 48.598% identity (48.598% ungapped) in 107 aa overlap.; hypothetical protein complement(971671..972030) Bordetella pertussis Tohama I 2664631 NP_879736.1 CDS BP0935 NC_002929.2 972065 973039 R Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1e-39, 39.264% id in 326 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 9.5e-39, 38.509% id in 322 aa; hypothetical protein complement(972065..973039) Bordetella pertussis Tohama I 2664632 NP_879737.1 CDS BP0936 NC_002929.2 973185 974075 D Similar to Caulobacter crescentus isoleucine biosynthesis transcriptional activator IlvR or Cc3045 SW:ILVR_CAUCR (P52670) (296 aa) fasta scores: E(): 1.2e-22, 37.091% id in 275 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa1826 TR:Q9I2R9 (EMBL:AE004609) (301 aa) fasta scores: E(): 5.1e-28, 39.373% id in 287 aa; LysR family transcriptional regulator 973185..974075 Bordetella pertussis Tohama I 2664579 NP_879738.1 CDS BP0937 NC_002929.2 974352 974744 R Similar to Bacteriophage HP1 hypothetical 14.9 kDa protein in rep-hol intergenic region SW:YO14_BPHP1 (P51716) (133 aa) fasta scores: E(): 5.6e-11, 37.795% id in 127 aa, and to Haemophilus influenzae phage HP2 Orf14 TR:AAK37796 (EMBL:AY027935) (133 aa) fasta scores: E(): 5.6e-11, 37.795% id in 127 aa; hypothetical protein complement(974352..974744) Bordetella pertussis Tohama I 2664580 NP_879739.1 CDS BP0938 NC_002929.2 974874 975824 D transposase for IS481 element; transposase 974874..975824 Bordetella pertussis Tohama I 2664589 NP_879740.1 CDS BP0939 NC_002929.2 975854 976036 R Similar to Rhizobium loti Msr2149 protein Msr2149 TR:Q98J18 (EMBL:AP002999) (62 aa) fasta scores: E(): 2.3e-09, 51.667% id in 60 aa, and to Rhizobium meliloti hypothetical protein Smc04441 TR:CAC46618 (EMBL:AL591789) (62 aa) fasta scores: E(): 8.8e-09, 50.000% id in 60 aa; hypothetical protein complement(975854..976036) Bordetella pertussis Tohama I 2664258 NP_879741.1 CDS BP0940 NC_002929.2 976809 977990 R Similar to Erwinia chrysanthemi sugar efflux transpoter SotB TR:Q9S3J9 (EMBL:AJ249181) (395 aa) fasta scores: E(): 1.7e-30, 31.967% id in 366 aa, and to Pseudomonas aeruginosa probable Mfs transporter pa2933 TR:Q9HZR4 (EMBL:AE004719) (392 aa) fasta scores: E(): 1e-82, 64.541% id in 392 aa; sugar efflux transporter complement(976809..977990) Bordetella pertussis Tohama I 2664260 NP_879742.1 CDS BP0941 NC_002929.2 978206 978883 R Similar to Alcaligenes eutrophus phosphoglycolate phosphatase, chromosomal CbbzC SW:GPHC_ALCEU (P40852) (231 aa) fasta scores: E(): 2.9e-17, 36.316% id in 190 aa, and to Neisseria meningitidis phosphatase Nma0828 TR:Q9JVI3 (EMBL:AL162754) (220 aa) fasta scores: E(): 8.7e-29, 40.278% id in 216 aa; phosphoglycolate phosphatase complement(978206..978883) Bordetella pertussis Tohama I 2664180 NP_879743.1 CDS ubiG NC_002929.2 978880 979605 R Involved in ubiquinone biosynthesis; 3-demethylubiquinone-9 3-methyltransferase complement(978880..979605) Bordetella pertussis Tohama I 2664181 NP_879744.1 CDS ompA NC_002929.2 979731 980312 R Highly similar to Bordetella avium outer membrane protein A precursor OmpA SW:OMPA_BORAV (Q05146) (194 aa) fasta scores: E(): 5.7e-67, 91.753% id in 194 aa, and to Bordetella petrii OmpA protein OmpA TR:Q9S3M1 (EMBL:AJ242599) (152 aa) fasta scores: E(): 5.1e-49, 88.079% id in 151 aa; outer membrane protein A complement(979731..980312) Bordetella pertussis Tohama I 2664182 NP_879745.1 CDS gyrA NC_002929.2 980683 983364 D negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit A 980683..983364 Bordetella pertussis Tohama I 2664163 NP_879746.1 CDS serC NC_002929.2 983364 984497 D 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; phosphoserine aminotransferase 983364..984497 Bordetella pertussis Tohama I 2664164 NP_879747.1 CDS pheA NC_002929.2 984490 985575 D Similar to Escherichia coli P-protein [includes: chorismate mutase and prephenate dehydratase] PheA or B2599 or Z3891 or Ecs3462 SW:PHEA_ECOLI (P07022) (386 aa) fasta scores: E(): 4.9e-27, 33.773% id in 379 aa, and to Neisseria meningitidis chorismate mutase/prephenate dehydratase nmb0446 TR:Q9K0W1 (EMBL:AE002401) (362 aa) fasta scores: E(): 3.3e-66, 50.276% id in 362 aa; bifunctional chorismate mutase/prephenate dehydratase 984490..985575 Bordetella pertussis Tohama I 2664331 NP_879748.1 CDS tyrA NC_002929.2 985662 986561 D Similar to Bordetella bronchiseptica prephenate dehydrogenase TyrA TR:Q9RND8 (EMBL:AF182427) (299 aa) fasta scores: E(): 4.1e-108, 99.331% id in 299 aa, and to Rhizobium meliloti cyclohexadienyl dehydrogenase and adh prephenate dehydrogenase TR:CAC47240 (EMBL:AL591791) (307 aa) fasta scores: E(): 1.2e-33, 43.110% id in 283 aa; prephenate dehydrogenase 985662..986561 Bordetella pertussis Tohama I 2664332 NP_879749.1 CDS aroA NC_002929.2 986558 987886 D catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis; 3-phosphoshikimate 1-carboxyvinyltransferase 986558..987886 Bordetella pertussis Tohama I 2664265 NP_879750.1 CDS cmk NC_002929.2 987901 988572 D Catalyzes the formation of (d)CDP from ATP and (d)CMP; cytidylate kinase 987901..988572 Bordetella pertussis Tohama I 2664293 NP_879751.2 CDS rpsA NC_002929.2 988760 990475 D in Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins; 30S ribosomal protein S1 988760..990475 Bordetella pertussis Tohama I 2664294 NP_879752.1 CDS ihfB NC_002929.2 990477 990836 D Similar to Escherichia coli integration host factor beta-subunit IhfB or HimD or Hip or B0912 or Z1258 or Ecs0995 SW:IHFB_ECOLI (P08756) (94 aa) fasta scores: E(): 5.1e-16, 56.383% id in 94 aa, and to Pseudomonas aeruginosa integration host factor beta-subunit IhfB or HimD or Pa3161 SW:IHFB_PSEAE (Q51473) (94 aa) fasta scores: E(): 4.3e-18, 62.637% id in 91 aa; integration host factor beta-subunit 990477..990836 Bordetella pertussis Tohama I 2667705 NP_879753.1 CDS BP0952 NC_002929.2 991028 991342 D Similar to Neisseria meningitidis inner membrane hypothetical protein Nma2149 TR:Q9JST1 (EMBL:AL162758) (104 aa) fasta scores: E(): 0.0012, 33.981% id in 103 aa, and to Bacillus halodurans Bh1239 protein Bh1239 TR:Q9KDH4 (EMBL:AP001511) (105 aa) fasta scores: E(): 7.1, 27.059% id in 85 aa; hypothetical protein 991028..991342 Bordetella pertussis Tohama I 2667706 NP_879754.1 CDS BP0953 NC_002929.2 991385 992605 D Similar to Escherichia coli hypothetical protein YciM precursor YciM or B1280 or Z2526 or Ecs1853 SW:YCIM_ECOLI (P45576) (389 aa) fasta scores: E(): 4.3e-21, 31.486% id in 397 aa, and to Xylella fastidiosa hypothetical protein Xf2435 TR:Q9PAR0 (EMBL:AE004052) (398 aa) fasta scores: E(): 4e-25, 33.668% id in 398 aa; tetratricopeptide repeat protein 991385..992605 Bordetella pertussis Tohama I 2664005 NP_879755.1 CDS rfaE NC_002929.2 992602 993543 D Similar to Salmonella typhimurium ADP-heptose synthase RfaE TR:Q9AJ74 (EMBL:AF155126) (477 aa) fasta scores: E(): 7.1e-50, 52.508% id in 299 aa, and to Burkholderia pseudomallei ADP-heptose synthase WaaE TR:Q9WWX7 (EMBL:AF159428) (307 aa) fasta scores: E(): 6.6e-59, 59.603% id in 302 aa; ADP-heptose synthase 992602..993543 Bordetella pertussis Tohama I 2664006 NP_879756.1 CDS rfaD NC_002929.2 993540 994529 D Similar to Escherichia coli ADP-L-glycero-D-manno-heptose-6-epimerase RfaD or HtrM or B3619 or Z5046 or Ecs4497 SW:RFAD_ECOLI (P17963) (310 aa) fasta scores: E(): 4.9e-49, 52.134% id in 328 aa, and to Burkholderia pseudomallei ADP-glycero-mannoheptose epimerase GmhD TR:Q9WWX6 (EMBL:AF159428) (330 aa) fasta scores: E(): 2.2e-81, 62.346% id in 324 aa; ADP-L-glycero-D-manno-heptose-6-epimerase 993540..994529 Bordetella pertussis Tohama I 2664603 NP_879757.1 CDS BP0956 NC_002929.2 994660 995148 D Similar to Neisseria gonorrhoeae ComE TR:Q9EU10 (EMBL:AF268317) (99 aa) fasta scores: E(): 0.0033, 35.714% id in 84 aa, and to Xylella fastidiosa hypothetical protein Xf0593 xf0593 TR:Q9PFR4 (EMBL:AE003905) (109 aa) fasta scores: E(): 0.07, 34.524% id in 84 aa; hypothetical protein 994660..995148 Bordetella pertussis Tohama I 2664604 NP_879758.1 CDS BP0957 NC_002929.2 995247 996197 D transposase for IS481 element; transposase 995247..996197 Bordetella pertussis Tohama I 2664627 NP_879759.1 CDS cysM NC_002929.2 996278 997189 D catalyzes the formation of cysteine from 3-O-acetyl-L-serine and hydrogen sulfide; cysteine synthase B 996278..997189 Bordetella pertussis Tohama I 2664554 NP_879760.1 CDS mltB NC_002929.2 997250 998395 R Similar to Escherichia coli membrane-bound lytic murein transglycosylase B precursor MltB or B2701 SW:MLTB_ECOLI (P41052) (361 aa) fasta scores: E(): 4.8e-28, 35.696% id in 381 aa, and to Pseudomonas aeruginosa membrane-bound lytic transglycosylase precursor MltB TR:Q9X6V5 (EMBL:AF147448) (336 aa) fasta scores: E(): 5.8e-29, 39.172% id in 314 aa; membrane-bound lytic murein transglycosylase B complement(997250..998395) Bordetella pertussis Tohama I 2664555 NP_879761.1 CDS BP0960 NC_002929.2 998406 999329 D Similar to Neisseria meningitidis histone deacetylase family protein Nmb0605 TR:Q9K0J2 (EMBL:AE002416) (369 aa) fasta scores: E(): 2.4e-50, 44.156% id in 308 aa, and to Rhizobium meliloti conserved hypothetical protein Smc00969 TR:CAC45455 (EMBL:AL591785) (309 aa) fasta scores: E(): 9.7e-49, 45.192% id in 312 aa; histone deacetylase family protein 998406..999329 Bordetella pertussis Tohama I 2667582 NP_879762.1 CDS etfB NC_002929.2 999401 1000150 D Similar to Bradyrhizobium japonicum electron transfer flavoprotein beta-subunit EtfB or EtfS SW:ETFB_BRAJA (P53575) (249 aa) fasta scores: E(): 9.4e-59, 69.076% id in 249 aa, and to Pseudomonas aeruginosa electron transfer flavoprotein beta-subunit EtfB or Pa2952 TR:Q9HZP6 (EMBL:AE004721) (249 aa) fasta scores: E(): 3.5e-62, 74.297% id in 249 aa; electron transfer flavoprotein subunit beta 999401..1000150 Bordetella pertussis Tohama I 2667583 NP_879763.1 CDS etfA NC_002929.2 1000150 1001079 D Similar to Bradyrhizobium japonicum electron transfer flavoprotein alpha-subunit EtfA or EtfL SW:ETFA_BRAJA (P53573) (314 aa) fasta scores: E(): 4.3e-64, 68.065% id in 310 aa, and to Pseudomonas aeruginosa electron transfer flavoprotein alpha-subunit EtfA or Pa2951 TR:Q9HZP7 (EMBL:AE004721) (309 aa) fasta scores: E(): 2.5e-67, 70.550% id in 309 aa; electron transfer flavoprotein subunit alpha 1000150..1001079 Bordetella pertussis Tohama I 2665046 NP_879764.1 CDS BP0964 NC_002929.2 1001323 1003149 D Similar to Rhizobium loti probable acyl-CoA dehydrogenase Mlr6975 TR:Q987P3 (EMBL:AP003010) (583 aa) fasta scores: E(): 2.9e-96, 50.984% id in 610 aa, and to Rhizobium meliloti acyl-CoA dehydrogenase Smc00977 TR:CAC45447 (EMBL:AL591785) (593 aa) fasta scores: E(): 1.2e-95, 48.571% id in 595 aa; acyl-CoA dehydrogenase 1001323..1003149 Bordetella pertussis Tohama I 2665047 NP_879765.1 CDS BP0965 NC_002929.2 1003232 1003873 D Similar to Mus musculus antioxidant protein 2 Aop2 or Ltw4 or Prdx5 SW:AOP2_MOUSE (O08709) (223 aa) fasta scores: E(): 1.3e-42, 55.605% id in 223 aa, and to Pseudomonas aeruginosa probable antioxidant protein Pa3450 TR:Q9HYF6 (EMBL:AE004765) (212 aa) fasta scores: E(): 6.9e-68, 79.048% id in 210 aa; antioxidant protein 1003232..1003873 Bordetella pertussis Tohama I 2665253 NP_879766.1 CDS sbp NC_002929.2 1004063 1005097 D Similar to Escherichia coli sulfate-binding protein precursor Sbp or B3917 SW:SUBI_ECOLI (P06997) (329 aa) fasta scores: E(): 3.5e-85, 67.732% id in 313 aa, and to Enterobacter cloacae sulfur-binding protein SbP TR:Q9Z6C2 (EMBL:AF098509) (329 aa) fasta scores: E(): 5.5e-87, 68.889% id in 315 aa; sulfate-binding protein 1004063..1005097 Bordetella pertussis Tohama I 2665254 NP_879767.1 CDS cysA NC_002929.2 1006940 1008004 D Similar to Escherichia coli sulfate transport ATP-binding protein CysA or B2422 SW:CYSA_ECOLI (P16676) (365 aa) fasta scores: E(): 5.3e-56, 56.190% id in 315 aa, and to Cucumis sativus hypothetical 39.3 kDa protein TR:Q9G4F5 (EMBL:AF285185) (350 aa) fasta scores: E(): 7e-85, 88.929% id in 280 aa; sulfate transport ATP-binding protein 1006940..1008004 Bordetella pertussis Tohama I 2665382 NP_879768.1 CDS cysD NC_002929.2 1008802 1009710 D with CysN catalyzes the formation of adenylylsulfate from sulfate and ATP; sulfate adenylyltransferase subunit 2 1008802..1009710 Bordetella pertussis Tohama I 2664461 NP_879769.1 CDS BP0972 NC_002929.2 1011261 1012472 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0069 TR:Q9I763 (EMBL:AE004446) (352 aa) fasta scores: E(): 3.3e-66, 56.818% id in 308 aa, and to Rhizobium meliloti hypothetical protein Smc00866 TR:CAC45412 (EMBL:AL591785) (385 aa) fasta scores: E(): 6.7e-62, 45.170% id in 383 aa; hypothetical protein 1011261..1012472 Bordetella pertussis Tohama I 2666711 NP_879770.1 CDS BP0973 NC_002929.2 1012674 1013006 D no significant database matches; hypothetical protein 1012674..1013006 Bordetella pertussis Tohama I 2664159 NP_879771.1 CDS BP0974 NC_002929.2 1013014 1013886 R Similar to Streptomyces coelicolor integral membrane protein Sce87.15C TR:Q9RKC3 (EMBL:AL132674) (281 aa) fasta scores: E(): 4.3e-14, 29.537% id in 281 aa, and to Rhizobium loti Mll3062 protein Mll3062 TR:Q98H24 (EMBL:AP003001) (281 aa) fasta scores: E(): 1.9e-18, 31.849% id in 292 aa; hypothetical protein complement(1013014..1013886) Bordetella pertussis Tohama I 2664160 NP_879772.1 CDS rplS NC_002929.2 1014192 1014572 D this protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site; 50S ribosomal protein L19 1014192..1014572 Bordetella pertussis Tohama I 2664161 NP_879773.1 CDS BP0976 NC_002929.2 1014843 1015508 D Similar to Caulobacter crescentus MutT/NudiX family protein Cc0407 TR:Q9AB27 (EMBL:AE005713) (216 aa) fasta scores: E(): 6.1e-27, 47.959% id in 196 aa, and to Rhizobium loti Mll2727 protein mll2727 TR:Q98HS8 (EMBL:AP003000) (204 aa) fasta scores: E(): 4e-24, 42.640% id in 197 aa; hypothetical protein 1014843..1015508 Bordetella pertussis Tohama I 2666992 NP_879774.1 CDS BP0977 NC_002929.2 1015610 1016659 D Similar to Pseudomonas aeruginosa probable oxidoreductase Pa4434 TR:Q9HVY1 (EMBL:AE004857) (345 aa) fasta scores: E(): 1.1e-83, 61.318% id in 349 aa, and to Vibrio cholerae oxidoreductase Tas, aldo/keto reductase family Vc0667 TR:Q9KU57 (EMBL:AE004153) (352 aa) fasta scores: E(): 1.6e-81, 60.172% id in 349 aa; oxidoreductase 1015610..1016659 Bordetella pertussis Tohama I 2666993 YP_008691075.1 CDS BP0978 NC_002929.2 1016797 1017822 R transposase complement(1016797..1017822) Bordetella pertussis Tohama I 2664536 NP_879776.1 CDS BP0981 NC_002929.2 1019322 1019894 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5357 TR:Q9HTK1 (EMBL:AE004947) (178 aa) fasta scores: E(): 3.5, 35.519% id in 183 aa, and to Pseudomonas putida hypothetical 20.6 kDa protein TR:Q9FD32 (EMBL:AF292094) (182 aa) fasta scores: E(): 2.3, 34.884% id in 172 aa; hypothetical protein complement(1019322..1019894) Bordetella pertussis Tohama I 2664583 NP_879777.1 CDS BP0982 NC_002929.2 1019954 1020685 D Similar to Caulobacter crescentus RNA pseudouridylate synthase, Cc0855 TR:Q9A9V6 (EMBL:AE005762) (255 aa) fasta scores: E(): 5.2e-38, 49.587% id in 242 aa, and to Neisseria meningitidis RNA-binding protein Nma1016 TR:Q9JV32 (EMBL:AL162754) (252 aa) fasta scores: E(): 1e-57, 66.116% id in 242 aa; RNA pseudouridylate synthase 1019954..1020685 Bordetella pertussis Tohama I 2664584 NP_879778.1 CDS BP0983 NC_002929.2 1020737 1021672 R Similar to Rhizobium meliloti LysR-family transcriptional regulator Sma1602 TR:AAK65531 (EMBL:AE007274) (302 aa) fasta scores: E(): 3.4e-51, 51.020% id in 294 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa3135 TR:Q9HZ90 (EMBL:AE004737) (306 aa) fasta scores: E(): 4.3e-30, 39.322% id in 295 aa; LysR family transcriptional regulator complement(1020737..1021672) Bordetella pertussis Tohama I 2664585 NP_879779.1 CDS acrB NC_002929.2 1022462 1025641 D Similar to Escherichia coli acriflavine resistance protein B AcrB or AcrE or B0462 SW:ACRB_ECOLI (P31224) (1049 aa) fasta scores: E(): 0, 67.143% id in 1050 aa, and to Pseudomonas aeruginosa multidrug resistance protein MexB or Pa0426 SW:MEXB_PSEAE (P52002) (1046 aa) fasta scores: E(): 0, 71.539% id in 1033 aa; acriflavine resistance protein B 1022462..1025641 Bordetella pertussis Tohama I 2663982 NP_879780.1 CDS cusC NC_002929.2 1025638 1027020 D Similar to Escherichia coli probable outer membrane lipoprotein CusC precursor CusC or IbeB or B0572 SW:CUSC_ECOLI (P77211) (457 aa) fasta scores: E(): 4.9e-38, 39.655% id in 464 aa, and to Pseudomonas aeruginosa outer membrane protein OprM precursor OprM or OprK or Pa0427 SW:OPRM_PSEAE (Q51487) (485 aa) fasta scores: E(): 5.3e-67, 55.717% id in 481 aa; outer membrane lipoprotein 1025638..1027020 Bordetella pertussis Tohama I 2663983 NP_879781.1 CDS BP0987 NC_002929.2 1027090 1027341 R Similar to Rhizobium meliloti hypothetical protein Sma1766 TR:AAK65633 (EMBL:AE007284) (83 aa) fasta scores: E(): 3.7e-12, 52.439% id in 82 aa, and to Pseudomonas aeruginosa hypothetical protein Pa5424 TR:Q9HTE0 (EMBL:AE004955) (81 aa) fasta scores: E(): 2.6e-11, 51.250% id in 80 aa; hypothetical protein complement(1027090..1027341) Bordetella pertussis Tohama I 2664328 NP_879782.1 CDS BP0988 NC_002929.2 1027487 1028101 R Similar to Neisseria meningitidis lipoprotein Nma1767 TR:Q9JTI0 (EMBL:AL162757) (217 aa) fasta scores: E(): 1.6e-19, 39.490% id in 157 aa, and to Caulobacter crescentus Sco1/2 family protein Cc3503 TR:Q9A2Q3 (EMBL:AE006008) (190 aa) fasta scores: E(): 6.8e-18, 37.173% id in 191 aa; hypothetical protein complement(1027487..1028101) Bordetella pertussis Tohama I 2664329 NP_879783.1 CDS prlC NC_002929.2 1028288 1030348 R Similar to Escherichia coli oligopeptidase A PrlC or OpdA or B3498 SW:OPDA_ECOLI (P27298) (680 aa) fasta scores: E(): 7.2e-123, 46.009% id in 689 aa, and to Xylella fastidiosa oligopeptidase A Xf0127 TR:Q9PH19 (EMBL:AE003866) (674 aa) fasta scores: E(): 2.1e-134, 54.839% id in 682 aa; oligopeptidase A complement(1028288..1030348) Bordetella pertussis Tohama I 2664076 NP_879784.1 CDS folD NC_002929.2 1030478 1031329 R catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate; bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase complement(1030478..1031329) Bordetella pertussis Tohama I 2664077 NP_879785.1 CDS BP0991 NC_002929.2 1031326 1031952 R Similar to Bradyrhizobium japonicum transcriptional regulatory protein FixJ SW:FIXJ_BRAJA (P23221) (205 aa) fasta scores: E(): 3e-26, 41.146% id in 192 aa, and to Pseudomonas sp transcriptional activator StdR TR:O50213 (EMBL:AF031161) (207 aa) fasta scores: E(): 1.2e-27, 47.644% id in 191 aa; two-component response regulator complement(1031326..1031952) Bordetella pertussis Tohama I 2664139 NP_879786.1 CDS BP0992 NC_002929.2 1031949 1033703 R Similar to Azorhizobium caulinodans sensor protein FixL SW:FIXL_AZOCA (P26489) (504 aa) fasta scores: E(): 1.7e-37, 47.893% id in 261 aa, and to Caulobacter crescentus sensory box histidine kinase FixL Cc0759 TR:Q9AA47 (EMBL:AE005751) (504 aa) fasta scores: E(): 2.4e-35, 45.059% id in 253 aa; tw-component sensor kinase complement(1031949..1033703) Bordetella pertussis Tohama I 2664395 NP_879787.1 CDS aceE NC_002929.2 1033996 1036701 D E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC; pyruvate dehydrogenase subunit E1 1033996..1036701 Bordetella pertussis Tohama I 2664545 NP_879788.1 CDS aceF NC_002929.2 1036714 1038375 D Catalyzes the transfer of acetyl from acetyldihydrolipoamide to coenzyme A to form acetyl CoA; dihydrolipoamide acetyltransferase 1036714..1038375 Bordetella pertussis Tohama I 2664546 NP_879789.1 CDS lpdA NC_002929.2 1038388 1040178 D Similar to Escherichia coli dihydrolipoamide dehydrogenase LpdA or Lpd or B0116 or Z0126 or ecs0120 SW:DLDH_ECOLI (P00391) (473 aa) fasta scores: E(): 7.8e-97, 63.713% id in 474 aa, and to Alcaligenes eutrophus dihydrolipoamide dehydrogenase PdhL TR:Q59099 (EMBL:U09865) (594 aa) fasta scores: E(): 4.8e-147, 75.541% id in 601 aa; dihydrolipoamide dehydrogenase 1038388..1040178 Bordetella pertussis Tohama I 2667717 NP_879790.1 CDS flaA NC_002929.2 1040400 1041575 R structural flagella protein; flagellin complement(1040400..1041575) Bordetella pertussis Tohama I 2667718 NP_879791.1 CDS BP0997 NC_002929.2 1041618 1042568 R transposase for IS481 element; transposase complement(1041618..1042568) Bordetella pertussis Tohama I 2667719 NP_879792.1 CDS BP0998 NC_002929.2 1042667 1043407 R 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; 16S ribosomal RNA methyltransferase RsmE complement(1042667..1043407) Bordetella pertussis Tohama I 2667720 NP_879793.1 CDS tktA NC_002929.2 1043602 1045638 D catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase; transketolase 1043602..1045638 Bordetella pertussis Tohama I 2667721 NP_879794.1 CDS gap NC_002929.2 1045656 1046666 D Similar to Pseudomonas aeruginosa glyceraldehyde 3-phosphate dehydrogenase Gap or HexC or pa3195 SWALL:G3P_PSEAE (SWALL:P27726) (334 aa) fasta scores: E(): 9.1e-84, 66.07% id in 336 aa, and to Alcaligenes eutrophus glyceraldehyde 3-phosphate dehydrogenase, plasmid cbbgP SWALL:G3PP_ALCEU (SWALL:P50322) (336 aa) fasta scores: E(): 1.1e-107, 84.52% id in 336 aa; glyceraldehyde-3-phosphate dehydrogenase 1045656..1046666 Bordetella pertussis Tohama I 2667722 NP_879795.1 CDS pgk NC_002929.2 1046784 1047977 D Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway; phosphoglycerate kinase 1046784..1047977 Bordetella pertussis Tohama I 2664281 NP_879796.1 CDS fabI NC_002929.2 1048007 1048780 R Catalyzes a key regulatory step in fatty acid biosynthesis; enoyl-(acyl carrier protein) reductase complement(1048007..1048780) Bordetella pertussis Tohama I 2664542 NP_879797.1 CDS ackA NC_002929.2 1048777 1049967 R AckA utilizes acetate and can acetylate CheY which increases signal strength during flagellar rotation; utilizes magnesium and ATP; also involved in conversion of acetate to aceyl-CoA; acetate kinase complement(1048777..1049967) Bordetella pertussis Tohama I 2664543 NP_879798.1 CDS BP1004 NC_002929.2 1049993 1050931 R catalyzes the formation of acetyl phosphate from acetyl-CoA and phosphate; can also act with other short-chain acyl-CoAs; phosphate acetyltransferase complement(1049993..1050931) Bordetella pertussis Tohama I 2664544 NP_879799.1 CDS BP1005 NC_002929.2 1050928 1053276 R Similar to Rhizobium meliloti hypothetical 80.6 kDa protein in ackA 5'region SW:YACK_RHIME (Q9X447) (733 aa) fasta scores: E(): 4.3e-155, 56.428% id in 739 aa; hypothetical protein complement(1050928..1053276) Bordetella pertussis Tohama I 2664556 NP_879800.1 CDS BP1006 NC_002929.2 1053431 1054072 R Similar to Escherichia coli hypothetical Gst-like protein YfcF or B2301 SW:YFCF_ECOLI (P77544) (214 aa) fasta scores: E(): 1e-33, 52.683% id in 205 aa, and to Pseudomonas aeruginosa probable glutathione S-transferase Pa4401 TR:Q9HW05 (EMBL:AE004855) (211 aa) fasta scores: E(): 5.6e-08, 31.905% id in 210 aa; glutathione S-transferase complement(1053431..1054072) Bordetella pertussis Tohama I 2664557 NP_879801.1 CDS BP1009 NC_002929.2 1055586 1056134 R Similar to Bacillus subtilis DinB protein DinB SW:DINB_BACSU (Q02886) (172 aa) fasta scores: E(): 0.0003, 28.571% id in 161 aa, and to Rhizobium meliloti conserved hypothetical protein Smc00593 TR:CAC45741 (EMBL:AL591786) (170 aa) fasta scores: E(): 4.6e-09, 38.554% id in 166 aa; hypothetical protein complement(1055586..1056134) Bordetella pertussis Tohama I 2664590 NP_879802.1 CDS BP1010 NC_002929.2 1056153 1056638 R Similar to Synechocystis sp hypothetical 19.4 kDa protein Slr1340 TR:P74076 (EMBL:D90912) (178 aa) fasta scores: E(): 9.8e-35, 55.346% id in 159 aa, and to Anabaena sp acetyltransferase TR:Q9KHE3 (EMBL:AF262218) (164 aa) fasta scores: E(): 2.3e-07, 31.111% id in 135 aa; acetyltransferase complement(1056153..1056638) Bordetella pertussis Tohama I 2664591 NP_879803.1 CDS cbpA NC_002929.2 1056816 1057754 D Similar to Escherichia coli curved DNA-binding protein CbpA or B1000 SW:CBPA_ECOLI (P36659) (306 aa) fasta scores: E(): 2.9e-26, 41.772% id in 316 aa, and to Caulobacter crescentus DnaJ family protein cc2772 TR:Q9A4Q8 (EMBL:AE005942) (314 aa) fasta scores: E(): 4.2e-31, 41.742% id in 333 aa; curved DNA-binding protein 1056816..1057754 Bordetella pertussis Tohama I 2664592 NP_879804.1 CDS BP1012 NC_002929.2 1057757 1058074 D Similar to Thermus thermophilus dnaK operon DafA TR:P77527 (EMBL:Y07826) (78 aa) fasta scores: E(): 0.93, 38.776% id in 49 aa, and to Rhizobium meliloti hypothetical 13.0 kDa protein Sma0117 TR:AAK64718 (EMBL:AE007200) (112 aa) fasta scores: E(): 0.48, 39.706% id in 68 aa; hypothetical protein 1057757..1058074 Bordetella pertussis Tohama I 2664118 NP_879805.1 CDS pitA NC_002929.2 1059085 1060560 R Similar to Escherichia coli low-affinity inorganic phosphate transporter 1 PitA or Pit or B3493 or Z4893 or Ecs4365 SW:PITA_ECOLI (P37308) (499 aa) fasta scores: E(): 1.3e-66, 57.085% id in 494 aa, and to Pseudomonas aeruginosa probable phosphate transporter pa4292 TR:Q9HWA8 (EMBL:AE004845) (489 aa) fasta scores: E(): 2e-152, 80.493% id in 487 aa; phosphate transporter complement(1059085..1060560) Bordetella pertussis Tohama I 2664120 NP_879806.1 CDS mogA NC_002929.2 1060745 1061395 D forms a trimer; related to eukaryotic protein gephyrin; functions during molybdenum cofactor biosynthesis; molybdenum cofactor biosynthesis protein MogA 1060745..1061395 Bordetella pertussis Tohama I 2664564 NP_879807.1 CDS BP1016 NC_002929.2 1061449 1061784 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2759 TR:Q9I084 (EMBL:AE004704) (104 aa) fasta scores: E(): 1.1, 27.027% id in 111 aa; hypothetical protein 1061449..1061784 Bordetella pertussis Tohama I 2664565 NP_879808.1 CDS BP1017 NC_002929.2 1061781 1062641 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3787 TR:Q9HXK8 (EMBL:AE004797) (282 aa) fasta scores: E(): 1.9e-72, 68.978% id in 274 aa, and to Xylella fastidiosa hypothetical protein Xf0987 TR:Q9PEP1 (EMBL:AE003937) (285 aa) fasta scores: E(): 5.5e-25, 38.462% id in 247 aa; peptidase 1061781..1062641 Bordetella pertussis Tohama I 2664620 NP_879809.1 CDS BP1018 NC_002929.2 1062658 1062939 R no significant database matches; hypothetical protein complement(1062658..1062939) Bordetella pertussis Tohama I 2664621 NP_879810.1 CDS infA NC_002929.2 1063013 1063276 R stimulates the activities of the other two initiation factors, IF-2 and IF-3; translation initiation factor IF-1 complement(1063013..1063276) Bordetella pertussis Tohama I 2664622 NP_879811.1 CDS BP1020 NC_002929.2 1063520 1064470 D transposase for IS481 element; transposase 1063520..1064470 Bordetella pertussis Tohama I 2664574 NP_879812.1 CDS fliA NC_002929.2 1064769 1065506 R Similar to Escherichia coli RNA polymerase sigma factor for flagellar operon FliA or FlaD or B1922 or Z3012 or Ecs2661 SW:FLIA_ECOLI (P31804) (239 aa) fasta scores: E(): 9.2e-37, 52.466% id in 223 aa, and to Yersinia enterocolitica RNA polymerase sigma factor for flagellar operon FliA SW:FLIA_YEREN (P52621) (230 aa) fasta scores: E(): 1.1e-38, 52.402% id in 229 aa; RNA polymerase sigma factor for flagellar operon complement(1064769..1065506) Bordetella pertussis Tohama I 2664575 NP_879813.1 CDS flhD NC_002929.2 1065942 1066265 D with FlhC is involved in the activation of class 2 flagellar genes and is involved in the regulation of a number of other genetic systems; transcriptional activator FlhD 1065942..1066265 Bordetella pertussis Tohama I 2664538 NP_879814.1 CDS flhC NC_002929.2 1066300 1066860 D With FlhD is involved in the activation of class 2 flagellar genes and as well as a number of other genetic systems; transcriptional activator FlhC 1066300..1066860 Bordetella pertussis Tohama I 2664539 NP_879815.1 CDS motA NC_002929.2 1066981 1067856 D 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; flagellar motor protein MotA 1066981..1067856 Bordetella pertussis Tohama I 2664540 NP_879816.1 CDS motB NC_002929.2 1067869 1068816 D 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; flagellar motor protein MotB 1067869..1068816 Bordetella pertussis Tohama I 2664572 NP_879817.1 CDS cheA NC_002929.2 1069238 1071295 D Similar to Escherichia coli chemotaxis protein CheA or B1888 SW:CHEA_ECOLI (P07363) (654 aa) fasta scores: E(): 8.2e-86, 61.21% id in 673 aa, and to Salmonella typhimurium chemotaxis protein CheA SW:CHEA_SALTY (P09384) (671 aa) fasta scores: E(): 9.8e-94, 62.16% id in 674 aa; chemotaxis protein CheA 1069238..1071295 Bordetella pertussis Tohama I 2664634 NP_879818.1 CDS cheW NC_002929.2 1071310 1071810 D Similar to Escherichia coli chemotaxis protein CheW or B1887 or Z2941 or Ecs2597 SW:CHEW_ECOLI (P07365) (167 aa) fasta scores: E(): 1.3e-41, 74.83% id in 155 aa, and to Burkholderia pseudomallei (Pseudomonas pseudomallei) chemotaxis protein CheW TR:O05183 (EMBL:U92493) (175 aa) fasta scores: E(): 7e-43, 72.56% id in 164 aa; chemotaxis protein CheW 1071310..1071810 Bordetella pertussis Tohama I 2664635 NP_879819.1 CDS tsr NC_002929.2 1071884 1073590 D Similar to Escherichia coli methyl-accepting chemotaxis protein I Tsr or CheD or B4355 SW:MCP1_ECOLI (P02942) (551 aa) fasta scores: E(): 3e-64, 46.71% id in 533 aa, and to Salmonella typhimurium methyl-accepting chemotaxis protein II TaR SW:MCP2_SALTY (P02941) (553 aa) fasta scores: E(): 1.2e-63, 45.87% id in 558 aa. Also similar to BP1384 (64.476% identity in 563 aa overlap), BP1385 (61.649% identity in 558 aa overlap), BP2268 (56.415% identity in 491 aa overlap), and to BP1591 (44.216% identity in 536 aa overlap); methyl-accepting chemotaxis protein I 1071884..1073590 Bordetella pertussis Tohama I 2664643 NP_879820.1 CDS cheB NC_002929.2 1074454 1075506 D regulates chemotaxis by demethylation of methyl-accepting chemotaxis proteins; chemotaxis-specific methylesterase 1074454..1075506 Bordetella pertussis Tohama I 2664640 NP_879821.1 CDS cheY NC_002929.2 1075559 1075948 D Similar to Escherichia coli chemotaxis protein CheY or B1882 or Z2936 or Ecs2592 TR:AAG56872 (EMBL:K02175) (129 aa) fasta scores: E(): 5.1e-36, 78.73% id in 127 aa, and to Burkholderia pseudomallei (Pseudomonas pseudomallei) CheY TR:P94342 (EMBL:U78087) (131 aa) fasta scores: E(): 1.9e-37, 80.31% id in 127 aa; chemotaxis protein CheY 1075559..1075948 Bordetella pertussis Tohama I 2664641 NP_879822.1 CDS cheZ NC_002929.2 1075957 1076589 D cytosolic phosphatase which functions in the chemotaxis signal transduction complex by controlling the level of phosphorylated CheY through dephosphorylation; chemotaxis regulator CheZ 1075957..1076589 Bordetella pertussis Tohama I 2664000 NP_879823.1 CDS BP1035 NC_002929.2 1076689 1077705 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19 pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 complement(1076689..1077705) Bordetella pertussis Tohama I 2664001 NP_879824.1 CDS BP1036 NC_002929.2 1078494 1079543 D Similar to Rhizobium meliloti aldoketo reductase Smb20500 TR:CAC48882 (EMBL:AL603643) (331 aa) fasta scores: E(): 7.8e-35, 39.26% id in 326 aa, and to Agrobacterium tumefaciens Agr_l_1936p TR:AAK89542 (EMBL:AE008296) (332 aa) fasta scores: E(): 2e-31, 36.44% id in 332 aa; aldo/keto reductase 1078494..1079543 Bordetella pertussis Tohama I 2664202 NP_879825.1 CDS corC NC_002929.2 1081181 1082068 R Similar to Salmonella typhimurium magnesium and cobalt efflux protein CorC SW:CORC_SALTY (Q9R874) (292 aa) fasta scores: E(): 7.9e-39, 40.95% id in 293 aa, and to Neisseria meningitidis hypothetical protein Nma0716 TR:Q9JVS6 (EMBL:AL162754) (274 aa) fasta scores: E(): 1.5e-43, 46.44% id in 267 aa; magnesium and cobalt efflux protein complement(1081181..1082068) Bordetella pertussis Tohama I 2664204 NP_879826.1 CDS BP1039 NC_002929.2 1082209 1082658 R Similar to Xylella fastidiosa hypothetical protein Xf0903 TR:Q9PEX5 (EMBL:AE003930) (161 aa) fasta scores: E(): 2.1e-19, 45.8% id in 155 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3982 TR:Q9HX37 (EMBL:AE004816) (160 aa) fasta scores: E(): 6.9e-18, 46.35% id in 151 aa; metalloprotease complement(1082209..1082658) Bordetella pertussis Tohama I 2664133 NP_879827.1 CDS BP1040 NC_002929.2 1082672 1083694 R Similar to Escherichia coli PhoH-like protein YbeZ or B0660 or Z0809 or Ecs0698 SW:PHOL_ECOLI (P77349) (359 aa) fasta scores: E(): 2.6e-60, 54.74% id in 316 aa, and to Salmonella typhimurium YbeZ protein TR:Q9RCI1 (EMBL:AJ249116) (361 aa) fasta scores: E(): 1.8e-60, 52.94% id in 340 aa; PhoH-like protein complement(1082672..1083694) Bordetella pertussis Tohama I 2664134 NP_879828.1 CDS BP1041 NC_002929.2 1083691 1085034 R catalyzes the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine from N6-(dimethylallyl)adenosine (i(6)A); (dimethylallyl)adenosine tRNA methylthiotransferase complement(1083691..1085034) Bordetella pertussis Tohama I 2664503 NP_879829.1 CDS BP1044 NC_002929.2 1086056 1087072 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 complement(1086056..1087072) Bordetella pertussis Tohama I 2664348 NP_879830.1 CDS secF NC_002929.2 1087404 1088339 R forms a complex with SecD and YajC; SecDFyajC stimulates the proton motive force-driven protein translocation; seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF; preprotein translocase subunit SecF complement(1087404..1088339) Bordetella pertussis Tohama I 2664349 NP_879831.1 CDS secD NC_002929.2 1088389 1090269 R part of the preprotein secretory system; when complexed with proteins SecF and YajC, SecDFyajC stimulates the proton motive force-driven protein translocation, and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; preprotein translocase subunit SecD complement(1088389..1090269) Bordetella pertussis Tohama I 2664391 NP_879832.1 CDS BP1047 NC_002929.2 1090336 1090680 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3822 TR:Q9HXI0 (EMBL:AE004799) (112 aa) fasta scores: E(): 1.2e-14, 48.27% id in 116 aa, and to Escherichia coli hypothetical protein YajC or B0407 or Z0506 or Ecs0458 SW:YAJC_ECOLI (P19677) (110 aa) fasta scores: E(): 6.2e-14, 45.28% id in 106 aa; secreted protein complement(1090336..1090680) Bordetella pertussis Tohama I 2664392 NP_879833.1 CDS BP1048 NC_002929.2 1090825 1091775 R transposase for IS481 element; transposase complement(1090825..1091775) Bordetella pertussis Tohama I 2664123 NP_879834.1 CDS tgt NC_002929.2 1091874 1093010 R Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr); queuine tRNA-ribosyltransferase complement(1091874..1093010) Bordetella pertussis Tohama I 2664036 NP_879835.1 CDS queA NC_002929.2 1093007 1094050 R Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step; S-adenosylmethionine--tRNA ribosyltransferase-isomerase complement(1093007..1094050) Bordetella pertussis Tohama I 2664037 NP_879836.1 CDS BP1051 NC_002929.2 1094238 1095674 D Similar to Escherichia coli penicillin-binding protein 4 precursor DacB or B3182 SW:PBP4_ECOLI (P24228) (477 aa) fasta scores: E(): 2.5e-21, 29.19% id in 435 aa, and to Pseudomonas aeruginosa probable D-alanyl-D-alanine carboxypeptidase Pa3047 TR:Q9HZG1 (EMBL:AE004729) (476 aa) fasta scores: E(): 4.4e-57, 40.21% id in 470 aa; D-alanyl-D-alanine carboxypeptidase 1094238..1095674 Bordetella pertussis Tohama I 2664038 NP_879837.1 CDS upp NC_002929.2 1095765 1096406 D Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate; uracil phosphoribosyltransferase 1095765..1096406 Bordetella pertussis Tohama I 2664288 NP_879838.1 CDS BP1053 NC_002929.2 1096742 1097758 D Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 1096742..1097758 Bordetella pertussis Tohama I 2664289 NP_879839.1 CDS prn NC_002929.2 1098091 1100823 D Identical to the previously sequenced Bordetella pertussis pertactin precursor Prn or Omp69A SW:PERT_BORPE (P14283) (910 aa) fasta scores: E(): 0, 100% id in 910 aa, and to Bordetella bronchiseptica pertactin precursor Prn SW:PERT_BORBR (Q03035) (911 aa) fasta scores: E(): 1.4e-160, 91.31% id in 921 aa; pertactin 1098091..1100823 Bordetella pertussis Tohama I 2664290 NP_879840.1 CDS cysG NC_002929.2 1100890 1102311 R Similar to Escherichia coli siroheme synthase CysG or B3368 or Z4729 or Ecs4219 SW:CYSG_ECOLI (P11098) (457 aa) fasta scores: E(): 5.7e-77, 49.56% id in 462 aa, and to Xylella fastidiosa siroheme synthase Xf0832 TR:Q9PF46 (EMBL:AE003922) (476 aa) fasta scores: E(): 2e-95, 60% id in 470 aa; siroheme synthase complement(1100890..1102311) Bordetella pertussis Tohama I 2664362 NP_879841.1 CDS BP1056 NC_002929.2 1102575 1103291 D Weakly similar to Bacteriophage Mx8 p64 TR:AAK94399 (EMBL:AF396866) (357 aa) fasta scores: E(): 6.6, 25.54% id in 137 aa; hypothetical protein 1102575..1103291 Bordetella pertussis Tohama I 2664363 NP_879842.1 CDS BP1057 NC_002929.2 1103376 1103693 D Similar to Escherichia coli ElaB protein ElaB or B2266 or Z3526 or Ecs3154 SW:ELAB_ECOLI (P52084) (101 aa) fasta scores: E(): 1.1e-06, 35.86% id in 92 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3040 TR:Q9HZG8 (EMBL:AE004729) (109 aa) fasta scores: E(): 5.6e-10, 39.45% id in 109 aa; hypothetical protein 1103376..1103693 Bordetella pertussis Tohama I 2665217 NP_879843.1 CDS BP1058 NC_002929.2 1103734 1104147 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3041 TR:Q9HZG7 (EMBL:AE004729) (126 aa) fasta scores: E(): 0.00021, 34.48% id in 116 aa; hypothetical protein 1103734..1104147 Bordetella pertussis Tohama I 2665218 NP_879844.1 CDS BP1059 NC_002929.2 1104149 1104508 D Weakly similar to Synechocystis sp hypothetical 23.9 kDa protein Slr1949 TR:P74511 (EMBL:D90915) (212 aa) fasta scores: E(): 8.6, 22.85% id in 140 aa; hypothetical protein 1104149..1104508 Bordetella pertussis Tohama I 2665219 NP_879845.1 CDS ubiD NC_002929.2 1104551 1106110 R Similar to Escherichia coli 3-octaprenyl-4-hydroxybenzoate carboxy-lyase UbiD or B3843 SW:UBID_ECOLI (P26615) (497 aa) fasta scores: E(): 2.7e-65, 68.15% id in 515 aa, and to Neisseria meningitidis 3-octaprenyl-4-hydroxybenzoate carboxy-lyase UbiD or Nmb1694 SW:UBID_NEIMB (Q9JY86) (494 aa) fasta scores: E(): 4.6e-70, 70.68% id in 515 aa; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase complement(1104551..1106110) Bordetella pertussis Tohama I 2665220 NP_879846.1 CDS BP1061 NC_002929.2 1106179 1107009 D Similar to Neisseria meningitidis transglycosylase Nma1674 TR:Q9JTQ7 (EMBL:AL162756) (207 aa) fasta scores: E(): 0.017, 30.05% id in 193 aa, and to Caulobacter crescentus transglycosylase, Cc2416 TR:Q9A5N1 (EMBL:AE005911) (218 aa) fasta scores: E(): 0.034, 31.32% id in 166 aa; transglycosylase 1106179..1107009 Bordetella pertussis Tohama I 2665221 NP_879847.1 CDS BP1062 NC_002929.2 1107044 1108198 R Similar to Thermus aquaticus aspartate aminotransferase AspC SW:AAT_THETH (Q56232) (385 aa) fasta scores: E(): 9.9e-32, 34.27% id in 388 aa, and to Pseudomonas aeruginosa probable aminotransferase Pa4722 TR:Q9HV76 (EMBL:AE004885) (390 aa) fasta scores: E(): 7e-65, 47.89% id in 380 aa; aminotransferase complement(1107044..1108198) Bordetella pertussis Tohama I 2664800 NP_879848.1 CDS BP1063 NC_002929.2 1108241 1109113 D Similar to Mycobacterium tuberculosis hypothetical 27.6 kDa protein Rv1249c or Mtv006.21C TR:O50464 (EMBL:AL021006) (262 aa) fasta scores: E(): 0.28, 33.92% id in 168 aa, and to Streptomyces coelicolor hypothetical 37.5 kDa protein Scbac19f3.03C TR:CAC44326 (EMBL:AL596102) (377 aa) fasta scores: E(): 4, 28.98% id in 314 aa; hypothetical protein 1108241..1109113 Bordetella pertussis Tohama I 2664801 NP_879849.1 CDS maeB NC_002929.2 1109230 1111518 D NAD-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; does not decarboxylate oxaloacetate; malic enzyme 1109230..1111518 Bordetella pertussis Tohama I 2664802 NP_879850.1 CDS BP1066 NC_002929.2 1112725 1113189 D Similar to Xylella fastidiosa hypothetical protein Xf2616 TR:Q9PAA2 (EMBL:AE004068) (138 aa) fasta scores: E(): 0.34, 27.92% id in 111 aa; hypothetical protein 1112725..1113189 Bordetella pertussis Tohama I 2664021 NP_879851.1 CDS BP1067 NC_002929.2 1113216 1114166 R transposase for IS481 element; transposase complement(1113216..1114166) Bordetella pertussis Tohama I 2664022 NP_879852.1 CDS pstB NC_002929.2 1114534 1115310 R ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation; phosphate transporter ATP-binding protein complement(1114534..1115310) Bordetella pertussis Tohama I 2666694 NP_879853.1 CDS pstA NC_002929.2 1115355 1116191 R Similar to Escherichia coli phosphate transport system permease PstA or PhoT or B3726 SW:PSTA_ECOLI (P07654) (296 aa) fasta scores: E(): 1.8e-60, 58.45% id in 272 aa, and to Pasteurella multocida PstA or Pm0434 TR:Q9CNJ6 (EMBL:AE006079) (280 aa) fasta scores: E(): 7.7e-74, 72% id in 275 aa; phosphate ABC transporter permease complement(1115355..1116191) Bordetella pertussis Tohama I 2666695 NP_879854.1 CDS pstC NC_002929.2 1116234 1117250 R Similar to Escherichia coli phosphate transport system permease PstC or PhoW or B3727 or Z5218 or Ecs4663 SW:PSTC_ECOLI (P07653) (319 aa) fasta scores: E(): 9.9e-70, 64.56% id in 302 aa, and to Pasteurella multocida PstC or Pm0435 TR:Q9CNJ5 (EMBL:AE006079) (320 aa) fasta scores: E(): 1.4e-82, 71.33% id in 307 aa; phosphate ABC transporter permease complement(1116234..1117250) Bordetella pertussis Tohama I 2667489 NP_879855.1 CDS pstS NC_002929.2 1117385 1118425 R Similar to Escherichia coli phosphate-binding periplasmic protein precursor PstS or PhoS or B3728 SW:PSTS_ECOLI (P06128) (346 aa) fasta scores: E(): 1.2e-71, 56.67% id in 337 aa, and to Pasteurella multocida PstS or Pm0436 TR:Q9CNJ4 (EMBL:AE006079) (403 aa) fasta scores: E(): 1.3e-89, 69.97% id in 333 aa; phosphate ABC transporter substrate-binding protein complement(1117385..1118425) Bordetella pertussis Tohama I 2667490 NP_879856.1 CDS ppk NC_002929.2 1118620 1120701 R catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate; polyphosphate kinase complement(1118620..1120701) Bordetella pertussis Tohama I 2667491 NP_879857.1 CDS ppx NC_002929.2 1120937 1122430 D Similar to Escherichia coli, and exopolyphosphatase Ppx or B2502 or Z3765 or Ecs3364 SW:PPX_ECOLI (P29014) (512 aa) fasta scores: E(): 1.8e-68, 40.88% id in 499 aa, and to Neisseria meningitidis exopolyphosphatase Nmb1467 TR:Q9JYR3 (EMBL:AE002496) (502 aa) fasta scores: E(): 1.2e-86, 47.18% id in 498 aa; exopolyphosphatase 1120937..1122430 Bordetella pertussis Tohama I 2666028 NP_879858.1 CDS BP1074 NC_002929.2 1122661 1123455 R Similar to Streptomyces coelicolor hypothetical 28.0 kDa protein Scm10.09C TR:Q9RCY9 (EMBL:AL133469) (256 aa) fasta scores: E(): 7.9e-44, 50% id in 250 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4350 TR:Q9HW51 (EMBL:AE004851) (251 aa) fasta scores: E(): 2.3e-37, 43.9% id in 246 aa; hypothetical protein complement(1122661..1123455) Bordetella pertussis Tohama I 2666029 NP_879859.1 CDS glmM NC_002929.2 1123676 1125034 R catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate; phosphoglucosamine mutase complement(1123676..1125034) Bordetella pertussis Tohama I 2666030 NP_879860.1 CDS folP NC_002929.2 1125031 1125873 R Similar to Escherichia coli dihydropteroate synthase FolP or DhpS or B3177 SW:DHPS_ECOLI (P26282) (282 aa) fasta scores: E(): 2.1e-44, 48.47% id in 262 aa, and to Pseudomonas aeruginosa dihydropteroate synthase FolP or Pa4750 TR:Q9HV49 (EMBL:AE004888) (283 aa) fasta scores: E(): 4.9e-49, 51.3% id in 269 aa; dihydropteroate synthase complement(1125031..1125873) Bordetella pertussis Tohama I 2666031 NP_879861.1 CDS ftsH NC_002929.2 1125892 1127778 R Similar to Escherichia coli cell division protein FtsH or HflB or MrsC or TolZ or B3178 SW:FTSH_ECOLI (P28691) (644 aa) fasta scores: E(): 1.2e-139, 64.32% id in 611 aa, and to Neisseria meningitidis cell division protein FtsH or Nmb0798 TR:Q9K027 (EMBL:AE002433) (655 aa) fasta scores: E(): 2.7e-144, 66.28% id in 608 aa; cell division protein complement(1125892..1127778) Bordetella pertussis Tohama I 2667031 NP_879862.1 CDS rrmJ NC_002929.2 1128016 1128648 R Similar to Escherichia coli ribosomal RNA large subunit methyltransferase J RrmJ or FtsJ or MrsF or B3179 or Z4541 or Ecs4058 SW:RRMJ_ECOLI (P28692) (209 aa) fasta scores: E(): 1.1e-30, 46.07% id in 204 aa, and to Neisseria meningitidis cell division protein FtsJ or Nma1008 or Nmb0799 TR:Q9JQX5 (EMBL:AL162754) (206 aa) fasta scores: E(): 1.3e-39, 53.39% id in 206 aa; ribosomal RNA large subunit methyltransferase j complement(1128016..1128648) Bordetella pertussis Tohama I 2665633 NP_879863.1 CDS BP1079 NC_002929.2 1128667 1129269 D Its N-terminal region is similar to Neisseria meningitidis hypothetical protein Nmb0800 TR:Q9K026 (EMBL:AE002433) (94 aa) fasta scores: E(): 2.7e-09, 47.87% id in 94 aa, and to Escherichia coli hypothetical protein YhbY or B3180 or Z4542 or Ecs4059 SW:YHBY_ECOLI (P42550) (97 aa) fasta scores: E(): 1.1e-07, 46.59% id in 88 aa; hypothetical protein 1128667..1129269 Bordetella pertussis Tohama I 2665634 NP_879864.1 CDS BP1080 NC_002929.2 1129421 1130371 D transposase for IS481 element; transposase 1129421..1130371 Bordetella pertussis Tohama I 2665322 NP_879865.1 CDS BP1083 NC_002929.2 1131174 1131974 R no significant database matches; hypothetical protein complement(1131174..1131974) Bordetella pertussis Tohama I 2665324 NP_879866.1 CDS thrB NC_002929.2 1132018 1133004 R catalyzes the formation of O-phospho-L-homoserine from L-homoserine; homoserine kinase complement(1132018..1133004) Bordetella pertussis Tohama I 2666606 NP_879867.1 CDS BP1085 NC_002929.2 1133144 1134157 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2795 TR:Q9I048 (EMBL:AE004707) (332 aa) fasta scores: E(): 4.8e-62, 54.25% id in 317 aa, and to Neisseria meningitidis hypothetical protein Nma2139 TR:Q9JST8 (EMBL:AL162758) (336 aa) fasta scores: E(): 5.6e-62, 51.54% id in 324 aa; tRNA-dihydrouridine synthase A 1133144..1134157 Bordetella pertussis Tohama I 2666607 NP_879868.1 CDS BP1086 NC_002929.2 1134154 1135104 R transposase for IS481 element; transposase complement(1134154..1135104) Bordetella pertussis Tohama I 2666608 NP_879869.1 CDS BP1087 NC_002929.2 1135217 1135675 R Similar to Mycobacterium tuberculosis hypothetical 15.1 kDa protein Rv2406c or Mtcy253.14 TR:P71737 (EMBL:Z81368) (142 aa) fasta scores: E(): 1.6e-11, 26.61% id in 139 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0250 TR:Q9I6N9 (EMBL:AE004463) (144 aa) fasta scores: E(): 5e-10, 33.09% id in 142 aa; hypothetical protein complement(1135217..1135675) Bordetella pertussis Tohama I 2665577 NP_879870.1 CDS BP1088 NC_002929.2 1135712 1137025 R Its N-terminal region is similar to Escherichia coli ribonuclease BN rbn or B3886 or Z5425 or Ecs4809 SW:RBN_ECOLI (P32146) (290 aa) fasta scores: E(): 1.8e-33, 39.2% id in 250 aa, and to Neisseria meningitidis ribonuclease BN, Nmb0524 TR:Q9K0R0 (EMBL:AE002408) (406 aa) fasta scores: E(): 1.2e-36, 36.36% id in 396 aa; hypothetical protein complement(1135712..1137025) Bordetella pertussis Tohama I 2665578 NP_879871.1 CDS BP1089 NC_002929.2 1137043 1137414 D Similar to Neisseria meningitidis hypothetical protein Nma0801 TR:Q9JVK4 (EMBL:AL162754) (117 aa) fasta scores: E(): 1.1e-13, 45.45% id in 99 aa, and to Vibrio cholerae hypothetical protein Vc2167 TR:Q9KQ37 (EMBL:AE004288) (145 aa) fasta scores: E(): 0.00097, 31.13% id in 106 aa; hypothetical protein 1137043..1137414 Bordetella pertussis Tohama I 2665579 NP_879872.1 CDS BP1090 NC_002929.2 1137411 1138874 D Similar to Escherichia coli hypothetical protein YdiU or B1706 SW:YDIU_ECOLI (P77649) (478 aa) fasta scores: E(): 1.9e-77, 48.33% id in 480 aa, and to Pseudomonas aeruginosa hypothetical protein Pa5023 TR:Q9HUE6 (EMBL:AE004915) (486 aa) fasta scores: E(): 1.1e-76, 46.15% id in 494 aa; hypothetical protein 1137411..1138874 Bordetella pertussis Tohama I 2665316 NP_879873.1 CDS BP1091 NC_002929.2 1139015 1139743 D Similar to Rhodobacter sphaeroides DmsO/TmaO-response regulator DorR TR:O30741 (EMBL:AF016236) (232 aa) fasta scores: E(): 8.7e-18, 33.76% id in 234 aa, and to Pseudomonas aeruginosa probable two-component response regulator Pa4983 TR:Q9HUI2 (EMBL:AE004911) (244 aa) fasta scores: E(): 2.2e-17, 33.33% id in 243 aa; two-component response regulator 1139015..1139743 Bordetella pertussis Tohama I 2665317 NP_879874.1 CDS BP1092 NC_002929.2 1139725 1142574 R Similar to Escherichia coli sensor protein KdpD or B0695 SW:KDPD_ECOLI (P21865) (894 aa) fasta scores: E(): 6.1e-11, 30.9% id in 233 aa, and to Pseudomonas aeruginosa hypothetical protein Pa1433 TR:Q9I3R4 (EMBL:AE004573) (650 aa) fasta scores: E(): 2.9e-27, 24.77% id in 654 aa; two-component histidine kinase complement(1139725..1142574) Bordetella pertussis Tohama I 2665318 NP_879875.1 CDS BP1093 NC_002929.2 1142787 1143737 D transposase for IS481 element; transposase 1142787..1143737 Bordetella pertussis Tohama I 2666194 NP_879876.1 CDS livG NC_002929.2 1143905 1144729 D Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivG or B3455 or Z4825 or Ecs4302 SW:LIVG_ECOLI (P22730) (255 aa) fasta scores: E(): 7e-31, 41.73% id in 254 aa, and to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport ATP-binding protein BraF or Pa1071 SW:BRAF_PSEAE (P21629) (255 aa) fasta scores: E(): 3.5e-34, 45.85% id in 253 aa; high-affinity branched-chain amino acid transport ATP-binding protein 1143905..1144729 Bordetella pertussis Tohama I 2665341 NP_879877.1 CDS livH NC_002929.2 1144729 1145607 D Similar to Escherichia coli high-affinity branched-chain amino acid transport system permease LivH or B3457 SW:LIVH_ECOLI (P08340) (308 aa) fasta scores: E(): 4.1e-17, 33.88% id in 304 aa, and to Salmonella typhimurium high-affinity branched-chain amino acid transport system permease LivH or LivA SW:LIVH_SALTY (P30295) (308 aa) fasta scores: E(): 3.9e-18, 35.19% id in 304 aa; high-affinity branched-chain amino acid transport system permease 1144729..1145607 Bordetella pertussis Tohama I 2665342 NP_879878.1 CDS livK NC_002929.2 1146512 1147627 D Due to a possible large deletion event immediately upstream, this CDS may be lacking part of its amino terminal region. Similar to Escherichia coli leucine-specific binding protein precursor LivK or B3458 SW:LIVK_ECOLI (P04816) (369 aa) fasta scores: E(): 1.2e-09, 23.1% id in 329 aa, and to Pseudomonas aeruginosa leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein precursor BraC or pa1074 SW:BRAC_PSEAE (P21175) (373 aa) fasta scores: E(): 3.5e-10, 22.74% id in 321 aa; amino acids binding protein 1146512..1147627 Bordetella pertussis Tohama I 2665319 NP_879879.1 CDS livF NC_002929.2 1147635 1148450 D Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivF or B3454 SW:LIVF_ECOLI (P22731) (237 aa) fasta scores: E(): 1.2e-26, 43.75% id in 240 aa, and to Rhizobium loti ABC transporter ATP-binding protein Mlr5224 TR:Q98CB2 (EMBL:AP003006) (268 aa) fasta scores: E(): 2.1e-38, 51.41% id in 247 aa; high-affinity branched-chain amino acid transport ATP-binding protein 1147635..1148450 Bordetella pertussis Tohama I 2665320 NP_879880.1 CDS BP1099 NC_002929.2 1148447 1150312 D Similar to Vibrio cholerae long-chain-fatty-acid--CoA ligase, Vc2484 TR:Q9KP89 (EMBL:AE004318) (601 aa) fasta scores: E(): 2e-51, 31.82% id in 597 aa, and to Aeropyrum pernix 651aa long hypothetical long-chain-fatty-acid--CoA ligase Ape1307 TR:Q9YCF0 (EMBL:AP000061) (651 aa) fasta scores: E(): 5.9e-68, 34.65% id in 629 aa; long-chain fatty-acid--CoA ligase 1148447..1150312 Bordetella pertussis Tohama I 2665321 NP_879881.1 CDS BP1100 NC_002929.2 1150391 1151023 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa2885 TR:Q9HZW2 (EMBL:AE004714) (198 aa) fasta scores: E(): 3.9e-24, 45.45% id in 176 aa, and to Pseudomonas fluorescens transcriptional regulator Pfi2 TR:Q9RFR4 (EMBL:AF173683) (207 aa) fasta scores: E(): 6.4e-23, 43.88% id in 180 aa; TetR family transcriptional regulator 1150391..1151023 Bordetella pertussis Tohama I 2667679 NP_879882.1 CDS BP1101 NC_002929.2 1151020 1151322 R no significant database matches; hypothetical protein complement(1151020..1151322) Bordetella pertussis Tohama I 2667680 NP_879883.1 CDS lysS NC_002929.2 1151365 1152885 R 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; lysyl-tRNA synthetase complement(1151365..1152885) Bordetella pertussis Tohama I 2665344 NP_879884.1 CDS BP1103 NC_002929.2 1152892 1153647 R Similar to Homo sapiens sepiapterin reductase Spr SW:SPRE_HUMAN (P35270) (261 aa) fasta scores: E(): 2.1e-15, 38.4% id in 250 aa, and to Bacillus subtilis YueD protein TR:O32099 (EMBL:Z99120) (243 aa) fasta scores: E(): 1.1e-20, 36.25% id in 251 aa; short chain dehydrogenase complement(1152892..1153647) Bordetella pertussis Tohama I 2665345 NP_879885.1 CDS prfB NC_002929.2 1153677 1154781 R recognizes the termination signals UGA and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF2; in some organisms control of PrfB protein levels is maintained through a +1 ribosomal frameshifting mechanism; this protein is similar to release factor 1; peptide chain release factor 2 complement(join(1153677..1154699,1154701..1154781)) Bordetella pertussis Tohama I 2665346 NP_879886.1 CDS recJ NC_002929.2 1154884 1156584 R Similar to Escherichia coli single-stranded-DNA-specific exonuclease RecJ or B2892 SW:RECJ_ECOLI (P21893) (577 aa) fasta scores: E(): 2.1e-86, 46.6% id in 575 aa, and to Neisseria meningitidis single-stranded-DNA-specific exonuclease RecJ or Nma1052 TR:Q9JV09 (EMBL:AL162755) (566 aa) fasta scores: E(): 3.2e-110, 54.32% id in 567 aa; single-stranded-DNA-specific exonuclease complement(1154884..1156584) Bordetella pertussis Tohama I 2667578 NP_879887.1 CDS BP1106 NC_002929.2 1156566 1157543 R Similar to Xanthomonas campestris regulatory protein RpfE TR:Q9L4D4 (EMBL:AJ245997) (306 aa) fasta scores: E(): 6e-10, 30.59% id in 317 aa, and to Xylella fastidiosa hypothetical protein Xf1109 TR:Q9PEB9 (EMBL:AE003946) (293 aa) fasta scores: E(): 1.2e-06, 29.06% id in 234 aa; hypothetical protein complement(1156566..1157543) Bordetella pertussis Tohama I 2667579 NP_879888.1 CDS lolC NC_002929.2 1157601 1158833 D Similar to Escherichia coli lipoprotein releasing system transmembrane protein LolE or B1118 SW:LOLE_ECOLI (P75958) (413 aa) fasta scores: E(): 1.4e-42, 36.27% id in 408 aa, and to Escherichia coli lipoprotein releasing system transmembrane protein LolC or B1116 or Z1757 or Ecs1494 SW:LOLC_ECOLI (P75956) (399 aa) fasta scores: E(): 2.7e-22, 34.86% id in 413 aa; lipoprotein releasing system transmembrane protein 1157601..1158833 Bordetella pertussis Tohama I 2667580 NP_879889.1 CDS lolD NC_002929.2 1158826 1159521 D Similar to Escherichia coli lipoprotein releasing system ATP-binding protein LolD or B1117 SW:LOLD_ECOLI (P75957) (233 aa) fasta scores: E(): 1e-39, 57.79% id in 218 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa2987 TR:Q9HZL7 (EMBL:AE004724) (227 aa) fasta scores: E(): 1.1e-38, 57.14% id in 224 aa; lipoprotein releasing system ATP-binding protein 1158826..1159521 Bordetella pertussis Tohama I 2667581 NP_879890.1 CDS BP1109 NC_002929.2 1159555 1160382 D Similar to Escherichia coli deoxyribonuclease YjjV or B4378 SW:YJJV_ECOLI (P39408) (259 aa) fasta scores: E(): 7.3e-29, 42.06% id in 252 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3564 TR:Q9HY53 (EMBL:AE004777) (225 aa) fasta scores: E(): 1.2e-25, 40.62% id in 224 aa; deoxyribonuclease 1159555..1160382 Bordetella pertussis Tohama I 2667421 NP_879891.1 CDS sphB3 NC_002929.2 1160664 1163894 D Similar to Pseudomonas tolaasii serine protease EprS TR:O87811 (EMBL:AJ007828) (985 aa) fasta scores: E(): 1.1e-18, 25% id in 1060 aa, and to Serratia marcescens Ssp-h1 TR:Q54483 (EMBL:D78380) (1036 aa) fasta scores: E(): 9.3e-26, 27.08% id in 1067 aa; serine protease 1160664..1163894 Bordetella pertussis Tohama I 2667422 NP_879892.1 CDS BP1111 NC_002929.2 1164163 1164339 D no significant database matches; hypothetical protein 1164163..1164339 Bordetella pertussis Tohama I 2667423 NP_879893.1 CDS bipA NC_002929.2 1164630 1168556 D Similar to Bordetella bronchiseptica outer membrane ligand binding protein BipA TR:Q9APE8 (EMBL:AF304006) (1578 aa) fasta scores: E(): 0, 79.75% id in 1576 aa, and to Escherichia coli O157:H7 EDL933 adhesin EaeH TR:AAG54632 (EMBL:AE005207) (1417 aa) fasta scores: E(): 1.6e-17, 23.88% id in 1390 aa. Also similar to BP3204, 41.856% identity (43.284% ungapped) in 970 aa overlap.; outer membrane ligand binding protein 1164630..1168556 Bordetella pertussis Tohama I 2666188 NP_879894.1 CDS BP1115 NC_002929.2 1172294 1173220 D Similar to Acidovorax spSA1 D-(-)-3-hydroxybutyrate oligomer hydrolase TR:Q9F1T8 (EMBL:AB044565) (291 aa) fasta scores: E(): 2.2e-10, 35.92% id in 309 aa, and to Rickettsia prowazekii hypothetical 33.7 kDa protein Rp444 TR:Q9ZD98 (EMBL:AJ235271) (293 aa) fasta scores: E(): 3.4e-10, 28.42% id in 292 aa; hydrolase 1172294..1173220 Bordetella pertussis Tohama I 2666324 NP_879895.1 CDS BP1116 NC_002929.2 1173290 1174135 D Similar to Salmonella typhimurium protein TrpH SW:TRPH_SALTY (O54453) (289 aa) fasta scores: E(): 1.8e-32, 39.78% id in 274 aa, and to Neisseria meningitidis hypothetical protein Nmb1824 TR:Q9JXZ5 (EMBL:AE002531) (278 aa) fasta scores: E(): 3e-45, 50.18% id in 271 aa; hypothetical protein 1173290..1174135 Bordetella pertussis Tohama I 2666325 NP_879896.1 CDS greB NC_002929.2 1174203 1174757 D 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; transcription elongation factor GreB 1174203..1174757 Bordetella pertussis Tohama I 2665395 NP_879897.1 CDS BP1118 NC_002929.2 1174804 1175754 R transposase for IS481 element; transposase complement(1174804..1175754) Bordetella pertussis Tohama I 2665396 NP_879898.1 CDS fim2 NC_002929.2 1175853 1176485 R Previously sequenced as Bordetella pertussis serotype 2 fimbrial subunit precursor Fim2 SW:FM2_BORPE (P05788) (207 aa) fasta scores: E(): 1.6e-76, 100% id in 207 aa, and highly similar to Bordetella bronchiseptica fimbrial subunit precursor Fim2 TR:Q44885 (EMBL:X74119) (208 aa) fasta scores: E(): 1.9e-55, 71.63% id in 208 aa, and to Bordetella bronchiseptica fimbrial subunit protein FimN TR:Q9F8W4 (EMBL:AF231910) (209 aa) fasta scores: E(): 2e-42, 62.43% id in 205 aa. Also similar to BP2674 (57.619% identity in 210 aa overlap), and to BP1568 (56.338% identity in 213 aa overlap); serotype 2 fimbrial subunit complement(1175853..1176485) Bordetella pertussis Tohama I 2665370 NP_879899.1 CDS maeB NC_002929.2 1176656 1178938 R NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate; malic enzyme complement(1176656..1178938) Bordetella pertussis Tohama I 2665371 NP_879900.1 CDS aceE NC_002929.2 1179093 1181789 R paralogs to the E1 component of pyruvate dehydrogenase subunit E1; 2-oxoacid dehydrogenase subunit E1 complement(1179093..1181789) Bordetella pertussis Tohama I 2665372 NP_879901.1 CDS BP1122 NC_002929.2 1181915 1182403 D Similar to Escherichia coli leucine-responsive regulatory protein Lrp or AlsB or LivR or Ihb or OppI or B0889 SW:LRP_ECOLI (P19494) (163 aa) fasta scores: E(): 1.8e-21, 41.29% id in 155 aa, and to Pseudomonas putida bkd operon transcriptional regulator BkdR SW:BKDR_PSEPU (P42179) (161 aa) fasta scores: E(): 2.6e-32, 61.33% id in 150 aa; transcription regulator AsnC 1181915..1182403 Bordetella pertussis Tohama I 2665326 NP_879902.1 CDS BP1123 NC_002929.2 1182439 1184487 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3934 TR:Q9HX82 (EMBL:AE004811) (678 aa) fasta scores: E(): 1.7e-151, 66.22% id in 678 aa, and to Neisseria meningitidis integral membrane protein Nma0207 TR:Q9JWW6 (EMBL:AL162752) (672 aa) fasta scores: E(): 4e-127, 56.58% id in 668 aa; hypothetical protein 1182439..1184487 Bordetella pertussis Tohama I 2665327 NP_879903.1 CDS sucA NC_002929.2 1184812 1187682 D SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide; 2-oxoglutarate dehydrogenase E1 1184812..1187682 Bordetella pertussis Tohama I 2665328 NP_879904.1 CDS odhB NC_002929.2 1187728 1188942 D component of 2-oxoglutarate dehydrogenase complex; catalyzes the transfer of succinyl coenzyme A to form succinyl CoA as part of the conversion of 2-oxoglutarate to succinyl-CoA; dihydrolipoamide succinyltransferase 1187728..1188942 Bordetella pertussis Tohama I 2666676 NP_879905.1 CDS odhL NC_002929.2 1189172 1190599 D E3 component of 2-oxoglutarate dehydrogenase complex; catalyzes the oxidation of dihydrolipoamide to lipoamide; dihydrolipoamide dehydrogenase 1189172..1190599 Bordetella pertussis Tohama I 2666677 NP_879906.1 CDS BP1127 NC_002929.2 1190655 1191788 D Similar to Alcaligenes eutrophus odhA, odhB, odhL, orf1 and orf5 genes TR:Q44029 (EMBL:X91877) (186 aa) fasta scores: E(): 5e-56, 77.83% id in 185 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4438 pa4438 TR:Q9HVX7 (EMBL:AE004858) (364 aa) fasta scores: E(): 1e-64, 49.31% id in 363 aa; hypothetical protein 1190655..1191788 Bordetella pertussis Tohama I 2666678 NP_879907.1 CDS fabG NC_002929.2 1191801 1192559 R Similar to Escherichia coli 3-oxoacyl-[acyl-carrier protein] reductase FabG or B1093 SW:FABG_ECOLI (P25716) (244 aa) fasta scores: E(): 6e-23, 38.73% id in 253 aa, and to Pseudomonas aeruginosa 3-oxoacyl-[acyl-carrier protein] reductase FabG or Pa2967 SW:FABG_PSEAE (O54438) (247 aa) fasta scores: E(): 5.2e-25, 40.07% id in 252 aa; 3-oxoacyl-ACP reductase complement(1191801..1192559) Bordetella pertussis Tohama I 2665516 NP_879908.1 CDS BP1129 NC_002929.2 1192647 1193549 D Similar to Frateuria spANA-18 regulator of cat2 gene cluster OrfR2 TR:Q9Z9Y2 (EMBL:AB009373) (295 aa) fasta scores: E(): 3.1e-30, 37.96% id in 295 aa, and to Deinococcus radiodurans transcriptional regulator, LysR family dr0615 TR:Q9RWQ1 (EMBL:AE001919) (317 aa) fasta scores: E(): 1.4e-31, 39.35% id in 310 aa; LysR family transcriptional regulator 1192647..1193549 Bordetella pertussis Tohama I 2665517 NP_879909.1 CDS BP1130 NC_002929.2 1193546 1194496 R transposase for IS481 element; transposase complement(1193546..1194496) Bordetella pertussis Tohama I 2665518 NP_879910.1 CDS BP1131 NC_002929.2 1194626 1195609 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.2e-52, 46.95% id in 328 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 1.4e-49, 45.39% id in 315 aa; hypothetical protein complement(1194626..1195609) Bordetella pertussis Tohama I 2667605 NP_879911.1 CDS BP1132 NC_002929.2 1195664 1196386 R Similar to Vibrio harveyi 3-oxoacyl-[acyl-carrier protein] reductase FabG SW:FABG_VIBHA (P55336) (244 aa) fasta scores: E(): 6.5e-16, 40.85% id in 235 aa, and to Pseudomonas aeruginosa probable short-chain dehydrogenase Pa4162 TR:Q9HWL9 (EMBL:AE004832) (238 aa) fasta scores: E(): 4.7e-32, 47.8% id in 228 aa; short-chain dehydrogenase complement(1195664..1196386) Bordetella pertussis Tohama I 2667606 NP_879912.1 CDS BP1134 NC_002929.2 1196854 1197804 D transposase for IS481 element; transposase 1196854..1197804 Bordetella pertussis Tohama I 2665363 NP_879913.1 CDS fecI NC_002929.2 1198526 1199059 D Similar to Escherichia coli probable RNA polymerase sigma factor FecI or B4293 SW:FECI_ECOLI (P23484) (173 aa) fasta scores: E(): 1e-21, 43.82% id in 162 aa, and to Pseudomonas aeruginosa RNA polymerase sigma factor Pa3899 TR:Q9HXB4 (EMBL:AE004807) (169 aa) fasta scores: E(): 1.9e-31, 54.54% id in 165 aa. Also similar to BP0349, 46.875% identity in 160 aa overlap; ECF family RNA polymerase sigma factor 1198526..1199059 Bordetella pertussis Tohama I 2665306 NP_879914.1 CDS fecR NC_002929.2 1199052 1200014 D Similar to Escherichia coli protein FecR or B4292 SW:FECR_ECOLI (P23485) (317 aa) fasta scores: E(): 5.3e-19, 32.17% id in 317 aa, and to Pseudomonas putida pupI and pupR genes PupR TR:Q52209 (EMBL:X77918) (324 aa) fasta scores: E(): 1.3e-28, 37.88% id in 322 aa; signal transduction protein 1199052..1200014 Bordetella pertussis Tohama I 2665307 NP_879915.1 CDS bfrH NC_002929.2 1200108 1202585 D Similar to Escherichia coli ferrichrome-iron receptor precursor FhuA or TonA or B0150 SW:FHUA_ECOLI (P06971) (747 aa) fasta scores: E(): 4.9e-61, 38.21% id in 717 aa, and to Burkholderia cepacia ornibactin receptor precursor OrbA TR:Q9F480 (EMBL:AF013993) (755 aa) fasta scores: E(): 6.7e-72, 36.05% id in 746 aa; ferric siderophore receptor 1200108..1202585 Bordetella pertussis Tohama I 2665308 NP_879916.1 CDS BP1139 NC_002929.2 1202702 1203010 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0800 TR:Q9I5D8 (EMBL:AE004515) (177 aa) fasta scores: E(): 1.4e-08, 44.82% id in 87 aa; iron uptake protein 1202702..1203010 Bordetella pertussis Tohama I 2667408 NP_879917.1 CDS BP1141 NC_002929.2 1204655 1204981 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0802 TR:Q9I5D6 (EMBL:AE004515) (107 aa) fasta scores: E(): 8.5e-05, 37.25% id in 102 aa; iron uptake protein 1204655..1204981 Bordetella pertussis Tohama I 2667410 NP_879918.1 CDS BP1142 NC_002929.2 1205130 1206080 D transposase for IS481 element; transposase 1205130..1206080 Bordetella pertussis Tohama I 2667411 NP_879919.1 CDS trpS NC_002929.2 1206090 1207445 D 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; tryptophanyl-tRNA synthetase 1206090..1207445 Bordetella pertussis Tohama I 2667412 NP_879920.1 CDS tex NC_002929.2 1207526 1209901 R Identical to the previously sequenced Bordetella pertussis Tex protein SW:TEX_BORPE (Q45388) (791 aa) fasta scores: E(): 0, 99.36% id in 791 aa, and to Escherichia coli protein YhgF or B3407 SW:YHGF_ECOLI (P46837) (773 aa) fasta scores: E(): 5.2e-166, 61.35% id in 766 aa; transcription accessory protein complement(1207526..1209901) Bordetella pertussis Tohama I 2667413 NP_879921.1 CDS BP1145 NC_002929.2 1210066 1212141 D Similar to Escherichia coli probable ATP-dependent helicase DinG or RarB or B0799 SW:DING_ECOLI (P27296) (716 aa) fasta scores: E(): 2.1e-27, 30.15% id in 703 aa, and to Escherichia coli probable ATP-dependent helicase YoaA or B1808 SW:YOAA_ECOLI (P76257) (636 aa) fasta scores: E(): 3.1e-41, 40.49% id in 684 aa; ATP-dependent helicase 1210066..1212141 Bordetella pertussis Tohama I 2665390 NP_879922.1 CDS comL NC_002929.2 1212203 1213003 R Similar to Neisseria gonorrhoeae competence lipoprotein ComL precursor SW:COML_NEIGO (Q50985) (267 aa) fasta scores: E(): 2.2e-40, 45.17% id in 259 aa, and to Pseudomonas aeruginosa hypothetical lipoprotein Pa4545 precursor SW:Y9F5_PSEAE (P33641) (341 aa) fasta scores: E(): 1.7e-35, 41.47% id in 258 aa; competence lipoprotein complement(1212203..1213003) Bordetella pertussis Tohama I 2665391 NP_879923.1 CDS rluD NC_002929.2 1213105 1214067 D Similar to Escherichia coli ribosomal large subunit pseudouridine synthase D RluD or Sfhb or B2594 SW:RLUD_ECOLI (P33643) (326 aa) fasta scores: E(): 5.1e-40, 44.26% id in 314 aa, and to Neisseria meningitidis ribosomal large subunit pseudouridine synthase D Nmb0704 TR:Q9K0B0 (EMBL:AE002425) (374 aa) fasta scores: E(): 1.1e-45, 46.84% id in 333 aa; ribosomal large subunit pseudouridine synthase D 1213105..1214067 Bordetella pertussis Tohama I 2665392 NP_879924.1 CDS BP1148 NC_002929.2 1214109 1214810 D Similar to Pseudomonas aeruginosa hypothetical protein Pa4543 SW:Y9E3_PSEAE (P33663) (242 aa) fasta scores: E(): 9.1e-33, 49.78% id in 229 aa, and to Escherichia coli hypothetical protein YfiH or B2593 SW:YFIH_ECOLI (P33644) (243 aa) fasta scores: E(): 1.4e-31, 47.61% id in 231 aa; hypothetical protein 1214109..1214810 Bordetella pertussis Tohama I 2665393 NP_879925.1 CDS phbC NC_002929.2 1214918 1216555 D Similar to Alcaligenes eutrophus poly-beta-hydroxybutyrate polymerase PhbC SW:PHBC_ALCEU (P23608) (589 aa) fasta scores: E(): 8.2e-129, 58.96% id in 541 aa, and to Burkholderia SpDSMZ 9242. phac TR:Q9RB82 (EMBL:AF153086) (625 aa) fasta scores: E(): 1.6e-124, 55.78% id in 545 aa; poly-beta-hydroxybutyrate polymerase 1214918..1216555 Bordetella pertussis Tohama I 2667600 NP_879926.1 CDS fabG NC_002929.2 1216623 1217360 D catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 1216623..1217360 Bordetella pertussis Tohama I 2667601 NP_879927.1 CDS BP1151 NC_002929.2 1217463 1218038 D Similar to Alcaligenes eutrophus hypothetical 21.0 kDa protein TR:O68272 (EMBL:AF026544) (183 aa) fasta scores: E(): 2.8e-48, 73.48% id in 181 aa, and to Burkholderia spDSMZ 9242. hypothetical 21.8 kDa protein TR:Q9RB79 (EMBL:AF153086) (188 aa) fasta scores: E(): 2.1e-47, 71.5% id in 179 aa; hypothetical protein 1217463..1218038 Bordetella pertussis Tohama I 2667566 NP_879928.1 CDS BP1152 NC_002929.2 1218211 1218747 D Similar to Pasteurella multocida hypothetical protein Pm0452 TR:Q9CNH9 (EMBL:AE006081) (173 aa) fasta scores: E(): 3.9e-34, 55.74% id in 174 aa, and to Campylobacter jejuni periplasmic protein P19 or Cj1659 TR:Q9PM18 (EMBL:AL139079) (179 aa) fasta scores: E(): 1.2e-32, 51.09% id in 182 aa; hypothetical protein 1218211..1218747 Bordetella pertussis Tohama I 2667567 NP_879929.1 CDS BP1153 NC_002929.2 1218750 1219094 D Similar to Prochlorothrix hollandica plastocyanin precursor PetE SW:PLAS_PROHO (P50057) (131 aa) fasta scores: E(): 2.7, 27.2% id in 125 aa, and to Rickettsia prowazekii hypothetical protein Rp394 SW:Y394_RICPR (Q9ZDD7) (125 aa) fasta scores: E(): 0.00021, 39.74% id in 78 aa; hypothetical protein 1218750..1219094 Bordetella pertussis Tohama I 2667568 NP_879930.1 CDS BP1154 NC_002929.2 1219110 1219955 D Similar to Neisseria meningitidis hypothetical protein Nmb0034 TR:Q9K1P7 (EMBL:AE002362) (279 aa) fasta scores: E(): 2.1e-20, 31.59% id in 269 aa, and to Streptomyces coelicolor membrane protein Scc75a.23 TR:Q9RKQ1 (EMBL:AL133220) (290 aa) fasta scores: E(): 3.3e-18, 34.4% id in 250 aa; hypothetical protein 1219110..1219955 Bordetella pertussis Tohama I 2667569 NP_879931.1 CDS BP1155 NC_002929.2 1219994 1221373 D Similar to Synechocystis sp nitrogen assimilation regulatory protein Slr1529 TR:P74210 (EMBL:D90913) (835 aa) fasta scores: E(): 1.5e-09, 26.03% id in 434 aa, and to Achromobacter cycloclastes regulatory protein NosR TR:O68476 (EMBL:AF047429) (731 aa) fasta scores: E(): 0.05, 24.9% id in 261 aa, and to Rhizobium meliloti regulatory protein NosR TR:O68483 (EMBL:AF047430) (755 aa) fasta scores: E(): 1.4, 24.9% id in 249 aa; regulatory protein 1219994..1221373 Bordetella pertussis Tohama I 2667570 NP_879932.1 CDS BP1156 NC_002929.2 1221451 1222332 D Similar to Pseudomonas aeruginosa phenazine/pyocyanine biosynthesis protein PhzF SW:PHZF_PSEAE (O69754) (278 aa) fasta scores: E(): 2.7e-08, 31.43% id in 299 aa, and to Erwinia chrysanthemi antibiotic biosynthesis protein Pab TR:CAC59746 (EMBL:AJ310612) (293 aa) fasta scores: E(): 1.5e-17, 36.42% id in 302 aa; hypothetical protein 1221451..1222332 Bordetella pertussis Tohama I 2667571 NP_879933.1 CDS BP1157 NC_002929.2 1222431 1223381 D transposase for IS481 element; transposase 1222431..1223381 Bordetella pertussis Tohama I 2666008 NP_879934.1 CDS BP1158 NC_002929.2 1223378 1223788 R Similar to Agrobacterium tumefaciens Agr_l_1189p TR:AAK89172 (EMBL:AE008257) (134 aa) fasta scores: E(): 1.3e-30, 65.89% id in 129 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3956 TR:Q9HX60 (EMBL:AE004813) (144 aa) fasta scores: E(): 4.3e-15, 45.9% id in 122 aa; dioxygenase complement(1223378..1223788) Bordetella pertussis Tohama I 2666009 NP_879935.1 CDS BP1159 NC_002929.2 1223896 1224750 R Similar to Pseudomonas paucimobilis 2-pyrone-4,6-dicarboxylic acid hydrolase LigI TR:O87170 (EMBL:AB015964) (293 aa) fasta scores: E(): 6.8e-17, 30.76% id in 273 aa, and to Sphingomonas spLB126 FldB protein TR:Q9L399 (EMBL:AJ277295) (295 aa) fasta scores: E(): 4.1e-19, 32.24% id in 276 aa; 2-pyrone-4,6-dicarboxylic acid hydrolase complement(1223896..1224750) Bordetella pertussis Tohama I 2666557 NP_879936.1 CDS BP1160 NC_002929.2 1224743 1225705 R Similar to Burkholderia cepacia hypothetical 35.5 kDa protein TR:AAK81675 (EMBL:AF029344) (337 aa) fasta scores: E(): 3.1e-31, 37.1% id in 318 aa, and to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 3.1e-31, 37.1% id in 318 aa; lipoprotein complement(1224743..1225705) Bordetella pertussis Tohama I 2666558 NP_879937.1 CDS BP1161 NC_002929.2 1225751 1226875 R Similar to Rhizobium loti Mlr3365 protein TR:Q98GE6 (EMBL:AP003001) (389 aa) fasta scores: E(): 5.1e-26, 31.16% id in 385 aa, and to Streptomyces coelicolor isomerase Sce65.11C TR:Q9RKG2 (EMBL:AL133236) (377 aa) fasta scores: E(): 3.7e-24, 32.04% id in 362 aa; racemase complement(1225751..1226875) Bordetella pertussis Tohama I 2666559 NP_879938.1 CDS BP1162 NC_002929.2 1226987 1227859 D Similar to the previously sequenced Bordetella pertussis Brg1 TR:O30441 (EMBL:AF006000) (291 aa) fasta scores: E(): 3.4e-23, 34.02% id in 288 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa0816 TR:Q9I5C3 (EMBL:AE004516) (294 aa) fasta scores: E(): 3e-23, 33.9% id in 289 aa; LysR family transcriptional regulator 1226987..1227859 Bordetella pertussis Tohama I 2666560 NP_879939.1 CDS BP1163 NC_002929.2 1227984 1228763 D Similar to Picea abies short-chain type dehydrogenase/reductase SW:SDR1_PICAB (Q08632) (271 aa) fasta scores: E(): 1.4e-22, 38.37% id in 258 aa, and to Streptomyces coelicolor reductase Stah10.29 TR:Q9RKS8 (EMBL:AL132824) (262 aa) fasta scores: E(): 5e-40, 54.43% id in 248 aa; short-chain dehydrogenase 1227984..1228763 Bordetella pertussis Tohama I 2666247 NP_879940.1 CDS BP1164 NC_002929.2 1228917 1230338 D Similar to Zymomonas mobilis tetracenomycin C resistance and export protein YjcC TR:Q9X3X9 (EMBL:AF088896) (487 aa) fasta scores: E(): 6.8e-48, 45.64% id in 436 aa, and to Escherichia coli hypothetical transport protein YebQ or B1828 SW:YEBQ_ECOLI (P76269) (457 aa) fasta scores: E(): 6.9e-46, 45.59% id in 443 aa; hypothetical protein 1228917..1230338 Bordetella pertussis Tohama I 2666248 NP_879941.1 CDS BP1165 NC_002929.2 1230773 1232470 D Similar to Escherichia coli sodium/pantothenate symporter PanF or B3258 SW:PANF_ECOLI (P16256) (483 aa) fasta scores: E(): 7.4e-16, 25.22% id in 448 aa, and to Haemophilus influenzae sodium/pantothenate symporter PanF or Hi0975 SW:PANF_HAEIN (P44963) (484 aa) fasta scores: E(): 8.4e-14, 22.05% id in 467 aa; sodium/solute symporter 1230773..1232470 Bordetella pertussis Tohama I 2665643 NP_879942.1 CDS BP1165A NC_002929.2 1232499 1232621 D no significant database matches; hypothetical protein 1232499..1232621 Bordetella pertussis Tohama I 2665644 NP_879943.1 CDS ldcA NC_002929.2 1232697 1233638 R Similar to Escherichia coli muramoyltetrapeptide carboxypeptidase LdcA or B1192 SW:LDCA_ECOLI (P76008) (304 aa) fasta scores: E(): 1.3e-16, 32.83% id in 265 aa, and to Streptomyces coelicolor hypothetical protein Sc9c7.25 SW:YC25_STRCO (Q9ZBI5) (310 aa) fasta scores: E(): 7.3e-24, 40.62% id in 320 aa; muramoyltetrapeptide carboxypeptidase complement(1232697..1233638) Bordetella pertussis Tohama I 2665645 NP_879944.1 CDS BP1167 NC_002929.2 1233965 1234711 D Similar to Rhizobium meliloti adolase/adducin sma1976 TR:AAK65743 (EMBL:AE007294) (249 aa) fasta scores: E(): 3.9e-36, 48.01% id in 227 aa, and to Pseudomonas aeruginosa hypothetical aldolase class ii protein Pa3430 SW:YY30_PSEAE (Q9HYH5) (259 aa) fasta scores: E(): 6.5e-19, 34.48% id in 232 aa; hypothetical protein 1233965..1234711 Bordetella pertussis Tohama I 2665646 NP_879945.1 CDS BP1168 NC_002929.2 1234719 1235624 R Similar to Escherichia coli transcriptional activator protein LysR or B2839 SW:LYSR_ECOLI (P03030) (311 aa) fasta scores: E(): 3.4e-21, 32.36% id in 275 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa5085 TR:Q9HU98 (EMBL:AE004921) (318 aa) fasta scores: E(): 7.8e-27, 34% id in 300 aa; LysR family transcriptional regulator complement(1234719..1235624) Bordetella pertussis Tohama I 2665386 NP_879946.1 CDS BP1169 NC_002929.2 1235767 1236684 D Similar to Escherichia coli 2-hydroxy-3-oxopropionate reductase GarR or B3125 SW:GARR_ECOLI (P23523) (294 aa) fasta scores: E(): 6.8e-21, 31.61% id in 291 aa, and to Homo sapiens 3-hydroxyisobutyrate dehydrogenase, mitochondrial precursor HibadH SW:D3HI_HUMAN (P31937) (336 aa) fasta scores: E(): 1.9e-21, 32% id in 300 aa; oxidoreductase 1235767..1236684 Bordetella pertussis Tohama I 2665387 NP_879947.1 CDS BP1170 NC_002929.2 1236724 1237677 D Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 4.1e-36, 37.73% id in 318 aa, and to Burkholderia cepacia hypothetical 35.5 kDa protein TR:AAK81675 (EMBL:AF029344) (337 aa) fasta scores: E(): 1.4e-32, 35.69% id in 311 aa; hypothetical protein 1236724..1237677 Bordetella pertussis Tohama I 2665388 NP_879948.1 CDS BP1171 NC_002929.2 1237702 1238280 D Similar to Rhizobium loti Mll4877 protein TR:Q98D37 (EMBL:AP003005) (194 aa) fasta scores: E(): 1.2e-33, 49.48% id in 194 aa, and to Eubacterium barkeri hypothetical protein in mgm 5' region TR:Q45883 (EMBL:X77484) (123 aa) fasta scores: E(): 5.3e-16, 44.53% id in 119 aa; hypothetical protein 1237702..1238280 Bordetella pertussis Tohama I 2665389 NP_879949.1 CDS BP1174 NC_002929.2 1239954 1240562 D no significant database matches; hypothetical protein 1239954..1240562 Bordetella pertussis Tohama I 2665690 NP_879950.1 CDS BP1175 NC_002929.2 1240640 1240993 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0320 TR:Q9I6H1 (EMBL:AE004470) (116 aa) fasta scores: E(): 3.7e-06, 35.05% id in 97 aa, and to Escherichia coli protein YgiW precursor or B3024 or Z4376 or Ecs3906 SW:YGIW_ECOLI (P52083) (130 aa) fasta scores: E(): 3.8e-05, 36.63% id in 101 aa; hypothetical protein complement(1240640..1240993) Bordetella pertussis Tohama I 2665691 NP_879951.1 CDS astE NC_002929.2 1241077 1242066 R Similar to Pseudomonas aeruginosa succinylglutamate desuccinylase AstE or AruE or Pa0901 SW:ASTE_PSEAE (O50177) (332 aa) fasta scores: E(): 0.23, 25.82% id in 302 aa, and to Agrobacterium tumefaciens Agr_pat_335p TR:AAK90609 (EMBL:AE007893) (335 aa) fasta scores: E(): 0.0023, 26.44% id in 276 aa; succinylglutamate desuccinylase complement(1241077..1242066) Bordetella pertussis Tohama I 2665692 NP_879952.1 CDS BP1177 NC_002929.2 1242269 1243219 D transposase for IS481 element; transposase 1242269..1243219 Bordetella pertussis Tohama I 2666969 NP_879953.1 CDS BP1178 NC_002929.2 1243285 1244148 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2712 TR:Q9I0D0 (EMBL:AE004699) (287 aa) fasta scores: E(): 6.3e-48, 52.77% id in 288 aa, and to Rhizobium loti Mlr3480 protein TR:Q98G57 (EMBL:AP003002) (303 aa) fasta scores: E(): 3.5e-08, 31.67% id in 281 aa; hypothetical protein complement(1243285..1244148) Bordetella pertussis Tohama I 2666970 NP_879954.1 CDS BP1180 NC_002929.2 1244494 1245429 R Similar to the previously sequenced Bordetella pertussis Brg1 TR:O30441 (EMBL:AF006000) (291 aa) fasta scores: E(): 8e-11, 28.74% id in 254 aa, and to Yersinia pestis similar to hypothetical transcriptional regulator TR:Q9ZC44 (EMBL:AL031866) (320 aa) fasta scores: E(): 8.5e-23, 30.36% id in 303 aa; LysR family transcriptional regulator complement(1244494..1245429) Bordetella pertussis Tohama I 2666623 NP_879955.1 CDS glnQ NC_002929.2 1245542 1246279 R Similar to Bacillus stearothermophilus glutamine transport ATP-binding protein GlnQ SW:GLNQ_BACST (P27675) (242 aa) fasta scores: E(): 1.6e-52, 61.15% id in 242 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa4192 TR:Q9HWI9 (EMBL:AE004835) (247 aa) fasta scores: E(): 9.6e-59, 70.29% id in 239 aa; amino acid ABC transporter ATP-binding protein complement(1245542..1246279) Bordetella pertussis Tohama I 2666624 NP_879956.1 CDS BP1182 NC_002929.2 1246299 1246988 R Similar to Pseudomonas aeruginosa probable permease of ABC transporter Pa4193 TR:Q9HWI8 (EMBL:AE004835) (234 aa) fasta scores: E(): 3.1e-45, 57.33% id in 218 aa, and to Agrobacterium tumefaciens Agr_l_1163p TR:AAK89156 (EMBL:AE008256) (252 aa) fasta scores: E(): 4.6e-43, 52.42% id in 227 aa; amino acid ABC transporter permease complement(1246299..1246988) Bordetella pertussis Tohama I 2666625 NP_879957.1 CDS BP1183 NC_002929.2 1246981 1247670 R Similar to Escherichia coli glutamate/aspartate transport system permease gltj gltj or b0654 SW:GLTJ_ECOLI (P41074) (246 aa) fasta scores: E(): 6.4e-22, 32.47% id in 234 aa, and to Pseudomonas aeruginosa probable permease of ABC transporter Pa4194 TR:Q9HWI7 (EMBL:AE004835) (232 aa) fasta scores: E(): 7.6e-36, 47.03% id in 219 aa; amino acid ABC transporter permease complement(1246981..1247670) Bordetella pertussis Tohama I 2667371 NP_879958.1 CDS BP1184 NC_002929.2 1247774 1248490 R Similar to Escherichia coli cystine-binding periplasmic protein precursor FliY or B1920 SW:FLIY_ECOLI (P39174) (266 aa) fasta scores: E(): 4.8e-13, 26% id in 223 aa, and to Pseudomonas aeruginosa probable binding protein component of ABC transporter Pa4195 TR:Q9HWI6 (EMBL:AE004836) (276 aa) fasta scores: E(): 8.1e-24, 36.17% id in 235 aa; cysteine ABC transporter substrate-binding protein complement(1247774..1248490) Bordetella pertussis Tohama I 2666221 NP_879959.1 CDS aspC NC_002929.2 1248653 1249855 R Similar to Rhizobium leguminosarum aspartate aminotransferase AspC or AatA SW:AAT_RHILP (O86459) (400 aa) fasta scores: E(): 3.8e-76, 51.76% id in 396 aa, and to Rhizobium meliloti aspartate aminotransferase A AatA or R02325 or smc01578 SW:AATA_RHIME (Q02635) (400 aa) fasta scores: E(): 4.4e-76, 50.75% id in 396 aa; aspartate aminotransferase complement(1248653..1249855) Bordetella pertussis Tohama I 2666222 NP_879960.1 CDS BP1186 NC_002929.2 1249852 1250532 R Similar to Pseudomonas straminea 4-hydroxy-4-methyl-2-oxoglutarate aldolase ProA TR:Q9AQI0 (EMBL:AB050935) (227 aa) fasta scores: E(): 1.2e-20, 39.37% id in 193 aa, and to Agrobacterium tumefaciens Agr_pat_472p TR:AAK90703 (EMBL:AE007901) (227 aa) fasta scores: E(): 2.8e-31, 46.39% id in 222 aa; hypothetical protein complement(1249852..1250532) Bordetella pertussis Tohama I 2666223 NP_879961.1 CDS BP1188 NC_002929.2 1251169 1252053 D Similar to the internal region of Bordetella bronchiseptica adhesin FhaB TR:Q9JP78 (EMBL:AF111796) (3634 aa) fasta scores: E(): 0.8, 28.31% id in 226 aa; hypothetical protein 1251169..1252053 Bordetella pertussis Tohama I 2666224 NP_879962.1 CDS BP1188A NC_002929.2 1252065 1252283 D Similar to Homo sapiens MHC class III region complement C4A TR:Q30211 (EMBL:S58715) (79 aa) fasta scores: E(): 4.1, 32.87% id in 73 aa; hypothetical protein 1252065..1252283 Bordetella pertussis Tohama I 2666225 NP_879963.1 CDS BP1189 NC_002929.2 1252291 1252719 R Similar to Vibrio cholerae lipoprotein Vc1962 TR:Q9KQN6 (EMBL:AE004271) (163 aa) fasta scores: E(): 5.4e-15, 42.63% id in 129 aa, and to Treponema pallidum 17 kDa lipoprotein precursor Tpp17 or Tp0435 SW:TA17_TREPA (P29722) (156 aa) fasta scores: E(): 0.0073, 30.06% id in 153 aa; lipoprotein complement(1252291..1252719) Bordetella pertussis Tohama I 2667234 NP_879964.1 CDS BP1190 NC_002929.2 1252947 1253393 D Similar to Rhizobium loti Mll1641 protein TR:Q98K47 (EMBL:AP002997) (152 aa) fasta scores: E(): 1e-31, 54.11% id in 146 aa, and to Agrobacterium tumefaciens Agr_c_871p TR:AAK86305 (EMBL:AE007984) (167 aa) fasta scores: E(): 1.3e-30, 52.05% id in 146 aa. Also similar to BP2382, 42.553% identity (42.553% ungapped) in 141 aa overlap.; hypothetical protein 1252947..1253393 Bordetella pertussis Tohama I 2667235 NP_879965.1 CDS BP1191 NC_002929.2 1253386 1254291 D Member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; RNA polymerase sigma factor SigJ 1253386..1254291 Bordetella pertussis Tohama I 2667236 NP_879966.1 CDS BP1192 NC_002929.2 1254436 1254762 D Similar to Burkholderia cepacia phosphate transport protein TR:Q9RMS6 (EMBL:AF190626) (181 aa) fasta scores: E(): 7.3, 31.63% id in 98 aa; hypothetical protein 1254436..1254762 Bordetella pertussis Tohama I 2667237 NP_879967.1 CDS BP1193 NC_002929.2 1254787 1255005 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3612 TR:Q9HY14 (EMBL:AE004781) (73 aa) fasta scores: E(): 1.6e-11, 51.47% id in 68 aa, and to Vibrio cholerae hypothetical protein Vca0163 TR:Q9KN03 (EMBL:AE004357) (70 aa) fasta scores: E(): 4.5e-09, 49.2% id in 63 aa; hypothetical protein 1254787..1255005 Bordetella pertussis Tohama I 2667238 NP_879968.1 CDS BP1194 NC_002929.2 1255055 1255672 D Similar to Thermotoga maritima conserved hypothetical protein Tm1181 TR:Q9X0R3 (EMBL:AE001774) (179 aa) fasta scores: E(): 7.8e-26, 45.18% id in 166 aa, and to Bacillus halodurans Bh1524 protein TR:Q9KCP5 (EMBL:AP001512) (183 aa) fasta scores: E(): 7.4e-24, 41.95% id in 174 aa; hypothetical protein 1255055..1255672 Bordetella pertussis Tohama I 2667239 NP_879969.1 CDS BP1195 NC_002929.2 1255669 1256010 D Similar to Synechococcus sp ferredoxin II SW:FER2_SYNP6 (P08451) (104 aa) fasta scores: E(): 0.00022, 37.5% id in 96 aa, and to Vibrio cholerae ferredoxin Vc0311 TR:Q9KV47 (EMBL:AE004119) (89 aa) fasta scores: E(): 1.3e-06, 40.47% id in 84 aa; ferredoxin 1255669..1256010 Bordetella pertussis Tohama I 2667589 NP_879970.1 CDS BP1196 NC_002929.2 1256044 1257198 R no significant database matches; hypothetical protein complement(1256044..1257198) Bordetella pertussis Tohama I 2667590 NP_879971.1 CDS btr NC_002929.2 1257195 1257923 R Similar to the previously sequenced Bordetella pertussis transcriptional regulatory protein Btr SW:BTR_BORPE (Q08530) (241 aa) fasta scores: E(): 9.9e-65, 78.68% id in 244 aa. The previously sequenced btr may contain a frameshift following codon 26.; transcriptional regulatory protein complement(1257195..1257923) Bordetella pertussis Tohama I 2667591 NP_879972.1 CDS clpB NC_002929.2 1258261 1260858 D Similar to Escherichia coli clpB protein ClpB or HtpM or b2592 SW:CLPB_ECOLI (P03815) (857 aa) fasta scores: E(): 2.6e-183, 65.77% id in 862 aa, and to Neisseria meningitidis ClpB protein ClpB or Nma1683 TR:Q9JTP9 (EMBL:AL162756) (859 aa) fasta scores: E(): 3.1e-197, 69.98% id in 863 aa. Also similar to BP2753, 37.133% identity (46.014% ungapped) in 886 aa overlap.; ATP-dependent protease, ATPase subunit 1258261..1260858 Bordetella pertussis Tohama I 2666478 NP_879973.1 CDS BP1199 NC_002929.2 1261615 1262565 D transposase for IS481 element; transposase 1261615..1262565 Bordetella pertussis Tohama I 2666887 NP_879974.1 CDS tcfA NC_002929.2 1264436 1266379 D Identical to the previously sequenced Bordetella pertussis tracheal colonization factor precursor Tcfa2 TR:O86135 (EMBL:AJ009785) (647 aa) fasta scores: E(): 1.7e-171, 99.84% id in 647 aa; tracheal colonization factor 1264436..1266379 Bordetella pertussis Tohama I 2666888 NP_879975.1 CDS BP1202 NC_002929.2 1266476 1267171 R Similar to Rhizobium loti transcriptional regulator Mll3386 TR:Q98GC7 (EMBL:AP003001) (219 aa) fasta scores: E(): 2.1e-34, 50.73% id in 205 aa, and to Mycobacterium tuberculosis CDC1551 transcriptional regulator, TetR family Mt3262 TR:AAK47601 (EMBL:AE007140) (200 aa) fasta scores: E(): 4.3e-05, 30.23% id in 172 aa; TetR family transcriptional regulator complement(1266476..1267171) Bordetella pertussis Tohama I 2666889 NP_879976.1 CDS BP1203 NC_002929.2 1267329 1268537 D Similar to Rhizobium loti Mll9388 protein Mll9388 TR:Q981G1 (EMBL:AP003016) (408 aa) fasta scores: E(): 5.5e-89, 63.03% id in 395 aa, and to Rhizobium sp hypothetical protein Y4ou precursor Y4ou SW:Y4OU_RHISN (P55606) (402 aa) fasta scores: E(): 7.6e-88, 62.02% id in 395 aa; hypothetical protein 1267329..1268537 Bordetella pertussis Tohama I 2666845 NP_879977.1 CDS BP1204 NC_002929.2 1268547 1269377 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1332 TR:AAK65386 (EMBL:AE007260) (280 aa) fasta scores: E(): 9.4e-70, 69.09% id in 275 aa, and to Rhizobium loti Mll9387 protein Mll9387 TR:Q981G2 (EMBL:AP003016) (285 aa) fasta scores: E(): 1.1e-69, 69.34% id in 274 aa; hypothetical protein 1268547..1269377 Bordetella pertussis Tohama I 2666846 NP_879978.1 CDS BP1205 NC_002929.2 1269445 1269897 D Similar to Rhizobium loti Mlr1698 protein Mlr1698 TR:Q98K03 (EMBL:AP002998) (147 aa) fasta scores: E(): 5.6e-16, 38.29% id in 141 aa, and to Mycobacterium tuberculosis hypothetical 16.8 kDa protein Rv1919c or Mtv050.03C TR:O53961 (EMBL:AL022020) (154 aa) fasta scores: E(): 0.046, 29.41% id in 136 aa; hypothetical protein 1269445..1269897 Bordetella pertussis Tohama I 2666847 NP_879979.1 CDS BP1206 NC_002929.2 1269905 1270867 R Similar to Salmonella typhimurium OsmT protein TR:CAC44465 (EMBL:AJ313506) (308 aa) fasta scores: E(): 3.8e-19, 31.66% id in 300 aa, and to Agrobacterium tumefaciens Agr_l_1195p TR:AAK89175 (EMBL:AE008258) (298 aa) fasta scores: E(): 5.7e-25, 34.25% id in 289 aa; LysR family transcriptional regulator complement(1269905..1270867) Bordetella pertussis Tohama I 2666848 NP_879980.1 CDS BP1207 NC_002929.2 1270972 1272414 D Similar to Alcaligenes xylosoxydans xylosoxydans N-acyl-D-glutamate deacylase SW:NDED_ALCXX (P94211) (488 aa) fasta scores: E(): 1.9e-144, 78.78% id in 476 aa, and to Alcaligenes faecalis D-aminoacylase TR:Q9AGH8 (EMBL:AF332548) (484 aa) fasta scores: E(): 2e-73, 48.13% id in 482 aa; N-acyl-D-glutamate deacylase 1270972..1272414 Bordetella pertussis Tohama I 2665269 NP_879981.1 CDS BP1208 NC_002929.2 1272465 1273421 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 4.6e-47, 44.98% id in 309 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 6.7e-42, 41.45% id in 316 aa; hypothetical protein 1272465..1273421 Bordetella pertussis Tohama I 2665270 NP_879982.1 CDS BP1209 NC_002929.2 1273437 1274816 R Similar to Escherichia coli sulfite reductase [NADPH] flavoprotein alpha-component CysJ or B2764 SW:CYSJ_ECOLI (P38038) (598 aa) fasta scores: E(): 7.2e-14, 27.01% id in 596 aa, and to Caulobacter crescentus sulfite reductase Cc3063 TR:Q9A3Y7 (EMBL:AE005969) (504 aa) fasta scores: E(): 1.3e-40, 51.88% id in 503 aa; oxidoreductase complement(1273437..1274816) Bordetella pertussis Tohama I 2665271 NP_879983.1 CDS apbE NC_002929.2 1274816 1275832 R Similar to Salmonella typhimurium thiamine biosynthesis lipoprotein ApbE precursor ApbE SW:APBE_SALTY (P41780) (350 aa) fasta scores: E(): 3.9e-27, 34.15% id in 325 aa, and to Caulobacter crescentus thiamine biosynthesis protein ApbE, Cc3062 TR:Q9A3Y8 (EMBL:AE005969) (342 aa) fasta scores: E(): 1.4e-49, 47.02% id in 336 aa; thiamine biosynthesis lipoprotein complement(1274816..1275832) Bordetella pertussis Tohama I 2665272 NP_879984.1 CDS BP1211 NC_002929.2 1275837 1276637 R Similar to Xylella fastidiosa hypothetical protein Xf0595 TR:Q9PFR2 (EMBL:AE003905) (267 aa) fasta scores: E(): 4e-46, 50.76% id in 260 aa, and to Caulobacter crescentus hypothetical protein Cc3061 TR:Q9A3Y9 (EMBL:AE005969) (247 aa) fasta scores: E(): 7.2e-34, 49.5% id in 200 aa; hypothetical protein complement(1275837..1276637) Bordetella pertussis Tohama I 2665273 NP_879985.1 CDS BP1212 NC_002929.2 1276667 1277182 R Similar to Caulobacter crescentus hypothetical protein Cc3060 TR:Q9A3Z0 (EMBL:AE005969) (171 aa) fasta scores: E(): 1.3e-34, 55.23% id in 172 aa, and to Xylella fastidiosa hypothetical protein Xf0596 TR:Q9PFR1 (EMBL:AE003905) (174 aa) fasta scores: E(): 1.9e-33, 52.63% id in 171 aa; hypothetical protein complement(1276667..1277182) Bordetella pertussis Tohama I 2666041 NP_879986.1 CDS BP1213 NC_002929.2 1277205 1277834 R Similar to Caulobacter crescentus hypothetical protein Cc3059 TR:Q9A3Z1 (EMBL:AE005969) (209 aa) fasta scores: E(): 2.7e-43, 55.92% id in 211 aa, and to Xylella fastidiosa hypothetical protein Xf0597 TR:Q9PFR0 (EMBL:AE003905) (218 aa) fasta scores: E(): 7.7e-45, 56.73% id in 208 aa; hypothetical protein complement(1277205..1277834) Bordetella pertussis Tohama I 2666042 NP_879987.1 CDS nodI NC_002929.2 1277981 1278928 D Similar to Rhizobium loti nodulation ATP-binding protein I NodI or Mlr6164 SW:NODI_RHILO (P23703) (340 aa) fasta scores: E(): 3.7e-62, 63.14% id in 312 aa, and to Rhizobium tropici NodI TR:AAL02416 (EMBL:AY029295) (304 aa) fasta scores: E(): 6.2e-63, 63.33% id in 300 aa; ABC transporter ATP-binding protein 1277981..1278928 Bordetella pertussis Tohama I 2666043 NP_879988.1 CDS nodJ NC_002929.2 1278925 1279710 D Similar to Rhizobium sp nodulation protein J NodJ or Y4hE SW:NODJ_RHISN (P55475) (262 aa) fasta scores: E(): 2.2e-39, 42.3% id in 260 aa, and to Bradyrhizobium spWM9 probable nodulation ABC transporter permease nodJ TR:Q9AQ19 (EMBL:AF222753) (261 aa) fasta scores: E(): 3.8e-39, 44.7% id in 255 aa; ABC transporter permease 1278925..1279710 Bordetella pertussis Tohama I 2666044 NP_879989.1 CDS BP1216 NC_002929.2 1279799 1280359 D Similar to Pseudomonas aeruginosa hypothetical protein Pa5409 TR:Q9HTF5 (EMBL:AE004953) (186 aa) fasta scores: E(): 1.1e-33, 55.3% id in 179 aa, and to Rhizobium loti Mll6732 protein Mll6732 TR:Q988I2 (EMBL:AP003010) (200 aa) fasta scores: E(): 0.00082, 25.59% id in 168 aa; hypothetical protein 1279799..1280359 Bordetella pertussis Tohama I 2665378 NP_879990.1 CDS ccrB NC_002929.2 1280369 1280755 D may be involved in chromosome condensation; overexpression in Escherichia coli protects against decondensation by camphor; overexpressing the protein results in an increase in supercoiling; camphor resistance protein CrcB 1280369..1280755 Bordetella pertussis Tohama I 2665379 NP_879991.1 CDS BP1218 NC_002929.2 1280778 1282109 R Similar to Zymomonas mobilis shc hpnE TR:Q56996 (EMBL:X80766) (414 aa) fasta scores: E(): 4.8e-06, 25.87% id in 456 aa, and to Neisseria meningitidis oxidoreductase Nma1338 TR:Q9JUF6 (EMBL:AL162755) (437 aa) fasta scores: E(): 5.1e-33, 38.92% id in 447 aa; hypothetical protein complement(1280778..1282109) Bordetella pertussis Tohama I 2665380 NP_879992.1 CDS BP1219 NC_002929.2 1282106 1282969 R Similar to Narcissus pseudonarcissus phytoene synthase precursor Psy SW:PSY_NARPS (P53797) (423 aa) fasta scores: E(): 8.1e-29, 32.72% id in 275 aa, and to Neisseria meningitidis phytoene synthase, Nmb1168 or Nmb1130 TR:Q9JRU9 (EMBL:AE002465) (290 aa) fasta scores: E(): 3.7e-54, 51.43% id in 278 aa; phytoene synthase complement(1282106..1282969) Bordetella pertussis Tohama I 2665381 NP_879993.1 CDS BP1220 NC_002929.2 1282971 1283801 R Similar to Streptomyces griseus phytoene synthase CrtB or CrtI SW:CRTB_STRGR (P54977) (342 aa) fasta scores: E(): 2.4e-14, 34.57% id in 269 aa, and to Neisseria meningitidis transferase Nma1721 TR:Q9JTL7 (EMBL:AL162756) (276 aa) fasta scores: E(): 1.9e-49, 50.54% id in 275 aa; phytoene synthase complement(1282971..1283801) Bordetella pertussis Tohama I 2665335 NP_879994.1 CDS dadX NC_002929.2 1283930 1285057 D Similar to Escherichia coli alanine racemase, catabolic DadX or DadB or AlnB or B1190 SW:ALR2_ECOLI (P29012) (356 aa) fasta scores: E(): 7.2e-61, 51.88% id in 372 aa, and to Salmonella typhimurium alanine racemase, catabolic DadB SW:ALR2_SALTY (P06191) (356 aa) fasta scores: E(): 1.3e-62, 52.81% id in 373 aa. Also similar to BP2228, 41.398% identity (42.659% ungapped) in 372 aa overlap.; alanine racemase 1283930..1285057 Bordetella pertussis Tohama I 2665336 NP_879995.1 CDS BP1222 NC_002929.2 1285209 1285925 D Similar to Streptococcus agalactiae CylG TR:Q9X429 (EMBL:AF093787) (240 aa) fasta scores: E(): 1e-20, 34.16% id in 240 aa, and to Pseudomonas aeruginosa probable short-chain dehydrogenase Pa4162 TR:Q9HWL9 (EMBL:AE004832) (238 aa) fasta scores: E(): 2.6e-52, 61.53% id in 234 aa; short chain dehydrogenase 1285209..1285925 Bordetella pertussis Tohama I 2667416 NP_879996.1 CDS BP1223 NC_002929.2 1285939 1286631 R no significant database matches; hypothetical protein complement(1285939..1286631) Bordetella pertussis Tohama I 2667417 NP_879997.1 CDS BP1224 NC_002929.2 1286737 1287687 D transposase for IS481 element; transposase 1286737..1287687 Bordetella pertussis Tohama I 2667418 NP_879998.1 CDS BP1225 NC_002929.2 1287684 1288262 R Bacteria have multiple sigma factors which are active under specific conditions; the sigma factor binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; RNA polymerase sigma factor complement(1287684..1288262) Bordetella pertussis Tohama I 2667414 YP_008691076.1 CDS BP1226 NC_002929.2 1288340 1290016 R hypothetical protein complement(1288340..1290016) Bordetella pertussis Tohama I 2667415 NP_879999.1 CDS radA NC_002929.2 1290181 1291542 D Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents; DNA repair protein RadA 1290181..1291542 Bordetella pertussis Tohama I 2665330 NP_880000.1 CDS BP1228 NC_002929.2 1291565 1292338 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2847 TR:Q9HZZ6 (EMBL:AE004711) (249 aa) fasta scores: E(): 2.8e-32, 45.45% id in 242 aa, and to Streptomyces coelicolor hypothetical 26.0 kDa protein Sc7a8.24C TR:Q9L2D4 (EMBL:AL137187) (260 aa) fasta scores: E(): 8.7e-10, 29.8% id in 255 aa; hypothetical protein 1291565..1292338 Bordetella pertussis Tohama I 2665331 NP_880001.1 CDS BP1229 NC_002929.2 1292497 1292724 D no significant database matches; hypothetical protein 1292497..1292724 Bordetella pertussis Tohama I 2665332 NP_880002.1 CDS norM NC_002929.2 1292798 1294204 R Similar to Escherichia coli multidrug resistance protein NorM or B1663 SW:NORM_ECOLI (P37340) (457 aa) fasta scores: E(): 1.2e-33, 32% id in 450 aa, and to Neisseria meningitidis probable multidrug resistance protein NorM or Nmb0812 SW:NORM_NEIMB (Q9K015) (459 aa) fasta scores: E(): 3e-46, 35.21% id in 443 aa; multidrug resistance protein complement(1292798..1294204) Bordetella pertussis Tohama I 2665333 NP_880003.1 CDS BP1231 NC_002929.2 1294201 1295937 R Similar to Neisseria meningitidis inner membrane protein Nma0497 TR:Q9JW86 (EMBL:AL162753) (558 aa) fasta scores: E(): 2.5e-18, 26.04% id in 599 aa, and to Xylella fastidiosa hypothetical protein Xf0929 TR:Q9PEU9 (EMBL:AE003932) (583 aa) fasta scores: E(): 2.8e-06, 27.3% id in 498 aa; hypothetical protein complement(1294201..1295937) Bordetella pertussis Tohama I 2665294 NP_880004.1 CDS rpmE2 NC_002929.2 1296053 1296319 R RpmE2; 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 do not 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; 50S ribosomal protein L31 complement(1296053..1296319) Bordetella pertussis Tohama I 2665295 NP_880005.1 CDS BP1233 NC_002929.2 1296488 1297342 R Similar to Anopheles gambiae tryptophan oxygenase To TR:O77457 (EMBL:L76433) (392 aa) fasta scores: E(): 1.3e-09, 31.32% id in 332 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2579 pa2579 TR:Q9I0Q7 (EMBL:AE004686) (288 aa) fasta scores: E(): 3.9e-70, 62.84% id in 288 aa; tryptophan oxygenase complement(1296488..1297342) Bordetella pertussis Tohama I 2665296 NP_880006.1 CDS BP1234 NC_002929.2 1297370 1297999 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2081 TR:Q9I234 (EMBL:AE004635) (213 aa) fasta scores: E(): 3.2e-46, 58.25% id in 206 aa, and to Synechocystis sp hypothetical 23.8 kDa protein Slr2121 TR:P73988 (EMBL:D90911) (215 aa) fasta scores: E(): 9.2e-14, 31.62% id in 215 aa; hypothetical protein complement(1297370..1297999) Bordetella pertussis Tohama I 2665974 NP_880007.1 CDS radC NC_002929.2 1298086 1298763 R Involved in DNA double-strand break repair and recombination. Promotes the annealing of complementary single-stranded DNA and by simulation of RAD51 recombinase; DNA repair protein RadC complement(1298086..1298763) Bordetella pertussis Tohama I 2665975 NP_880008.1 CDS fkpB NC_002929.2 1298837 1299292 D Similar to Escherichia coli, and FkbP-type 16 kDa peptidyl-prolyl cis-trans isomerase FkbP or SlpA or B0028 or Z0033 or Ecs0031 SW:FKBX_ECOLI (P22563) (148 aa) fasta scores: E(): 5.9e-11, 33.56% id in 146 aa, and to Vibrio cholerae peptidyl-prolyl cis-trans isomerase, FkbP-type Vc0684 TR:Q9KU45 (EMBL:AE004154) (144 aa) fasta scores: E(): 5.4e-14, 38.35% id in 146 aa; FKBP-type peptidylprolyl isomerase 1298837..1299292 Bordetella pertussis Tohama I 2665976 NP_880009.1 CDS ispH NC_002929.2 1299292 1300269 D catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway; 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 1299292..1300269 Bordetella pertussis Tohama I 2665977 NP_880010.1 CDS BP1238 NC_002929.2 1300308 1300952 D Similar to Pseudomonas sp glutathione-S-transferase homolog NagL TR:O86043 (EMBL:AF036940) (212 aa) fasta scores: E(): 4.3e-42, 53.52% id in 213 aa, and to Rhizobium loti glutathione S-transferase mlr1135 TR:Q98L85 (EMBL:AP002996) (216 aa) fasta scores: E(): 6.3e-47, 57.27% id in 213 aa; glutathione-S-transferase 1300308..1300952 Bordetella pertussis Tohama I 2665978 NP_880011.1 CDS BP1239 NC_002929.2 1301442 1301777 R Similar to Helicobacter pylori J99 jhp0839 TR:Q9ZKU6 (EMBL:AE001513) (99 aa) fasta scores: E(): 0.0048, 30% id in 80 aa; hypothetical protein complement(1301442..1301777) Bordetella pertussis Tohama I 2665298 NP_880012.1 CDS BP1240 NC_002929.2 1301986 1302990 D Similar to Rhizobium meliloti conserved hypothetical protein SMC00684 TR:CAC47266 (EMBL:AL591791) (381 aa) fasta scores: E(): 1.8e-27, 35.07% id in 345 aa, and to Agrobacterium tumefaciens Agr_l_2389p agr_l_2389 TR:AAK89764 (EMBL:AE008321) (411 aa) fasta scores: E(): 9.5e-27, 33.7% id in 359 aa, and to Escherichia coli hypothetical protein YjiA or b4352 SW:YJIA_ECOLI (P24203) (318 aa) fasta scores: E(): 4.7e-21, 31.15% id in 321 aa; hypothetical protein 1301986..1302990 Bordetella pertussis Tohama I 2665299 NP_880013.1 CDS BP1241 NC_002929.2 1303027 1303632 R Similar to Agrobacterium tumefaciens Agr_c_4536p TR:AAK88228 (EMBL:AE008162) (196 aa) fasta scores: E(): 3.4e-34, 53.96% id in 189 aa, and to Escherichia coli from bases 1061668 to 1073377 b1008 TR:P75894 (EMBL:AE000202) (196 aa) fasta scores: E(): 2.2e-34, 54.05% id in 185 aa; hypothetical protein complement(1303027..1303632) Bordetella pertussis Tohama I 2665300 NP_880014.1 CDS BP1242 NC_002929.2 1303737 1304648 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa0056 TR:Q9I776 (EMBL:AE004445) (306 aa) fasta scores: E(): 1.8e-68, 61.33% id in 300 aa, and to Vibrio cholerae transcriptional regulator, LysR family Vca1055 TR:Q9KKP7 (EMBL:AE004431) (307 aa) fasta scores: E(): 4.1e-38, 43.49% id in 292 aa; LysR family transcriptional regulator 1303737..1304648 Bordetella pertussis Tohama I 2665301 NP_880015.1 CDS BP1243 NC_002929.2 1305600 1306688 D Similar to Xylella fastidiosa hypothetical protein Xf2452 TR:Q9PAP3 (EMBL:AE004054) (327 aa) fasta scores: E(): 8.6e-19, 36.48% id in 296 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3197 TR:Q9HZ43 (EMBL:AE004743) (332 aa) fasta scores: E(): 1.3e-16, 37% id in 300 aa; hypothetical protein 1305600..1306688 Bordetella pertussis Tohama I 2666636 NP_880016.1 CDS BP1244 NC_002929.2 1306706 1308472 D Similar to Rhizobium loti Mlr8253 protein TR:Q983N1 (EMBL:AP003013) (546 aa) fasta scores: E(): 5.6e-20, 31.49% id in 562 aa, and to Escherichia coli hypothetical protein YciL or B1269 SW:YCIL_ECOLI (P37765) (291 aa) fasta scores: E(): 2.1e-31, 50.17% id in 293 aa; hypothetical protein 1306706..1308472 Bordetella pertussis Tohama I 2666637 NP_880017.1 CDS BP1245 NC_002929.2 1308935 1309441 D in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins; hypothetical protein 1308935..1309441 Bordetella pertussis Tohama I 2666802 NP_880018.1 CDS nusA NC_002929.2 1309438 1310916 D modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination; transcription elongation factor NusA 1309438..1310916 Bordetella pertussis Tohama I 2666803 NP_880019.1 CDS infB NC_002929.2 1310993 1313986 D 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; translation initiation factor IF-2 1310993..1313986 Bordetella pertussis Tohama I 2666804 NP_880020.1 CDS rbfA NC_002929.2 1314014 1314415 D associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock; ribosome-binding factor A 1314014..1314415 Bordetella pertussis Tohama I 2667585 NP_880021.1 CDS truB NC_002929.2 1314460 1315194 D catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs; tRNA pseudouridine synthase B 1314460..1315194 Bordetella pertussis Tohama I 2667586 NP_880022.1 CDS typA NC_002929.2 1315211 1317031 D Similar to Escherichia coli GTP-binding protein TypA/BipA TypA or BipA or B3871 SW:TYPA_ECOLI (P32132) (591 aa) fasta scores: E(): 2.4e-140, 63.34% id in 592 aa, and to Neisseria meningitidis GTP-binding protein TypA Nmb1199 TR:Q9JZB7 (EMBL:AE002467) (603 aa) fasta scores: E(): 1.5e-162, 72.91% id in 598 aa; GTP-binding elongation factor 1315211..1317031 Bordetella pertussis Tohama I 2667587 NP_880023.1 CDS BP1251 NC_002929.2 1317102 1317827 R Similar to the previously sequenced Bordetella pertussis pertussis toxin subunit 2 precursor PtxB SW:TOX2_BORPE (P04978) (226 aa) fasta scores: E(): 1.6e-06, 30.43% id in 207 aa, and to Bordetella pertussis pertussis toxin subunit 3 precursor PtxC SW:TOX3_BORPE (P04979) (227 aa) fasta scores: E(): 1.8e-06, 32.67% id in 202 aa; toxin complement(1317102..1317827) Bordetella pertussis Tohama I 2665223 NP_880024.1 CDS BP1252 NC_002929.2 1317824 1318228 R no significant database matches; hypothetical protein complement(1317824..1318228) Bordetella pertussis Tohama I 2665224 NP_880025.1 CDS BP1253 NC_002929.2 1318380 1319009 R Similar to Neisseria meningitidis hypothetical protein Nmb0283 TR:Q9K184 (EMBL:AE002385) (210 aa) fasta scores: E(): 1.1e-35, 55.89% id in 195 aa, and to Neisseria meningitidis hypothetical protein Nma2204 TR:Q9JSP2 (EMBL:AL162758) (210 aa) fasta scores: E(): 1.7e-35, 55.89% id in 195 aa; hypothetical protein complement(1318380..1319009) Bordetella pertussis Tohama I 2665225 NP_880026.1 CDS polA NC_002929.2 1319062 1321776 D has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair; DNA polymerase I 1319062..1321776 Bordetella pertussis Tohama I 2665226 NP_880027.1 CDS BP1255 NC_002929.2 1321887 1322723 D no significant database matches; hypothetical protein 1321887..1322723 Bordetella pertussis Tohama I 2665354 NP_880028.1 CDS BP1256 NC_002929.2 1322778 1323566 D Similar to Escherichia coli carboxymethylenebutenolidase YsgA or B3830 SW:DLHH_ECOLI (P56262) (258 aa) fasta scores: E(): 3.8e-48, 51.58% id in 252 aa, and to Methylobacterium extorquens carboxymethylenebutenolidase SW:DLHH_METEX (P71505) (291 aa) fasta scores: E(): 7.5e-53, 55.93% id in 261 aa. Also similar to BP2713, 55.253% identity (55.469% ungapped) in 257 aa overlap.; carboxymethylenebutenolidase 1322778..1323566 Bordetella pertussis Tohama I 2665355 NP_880029.1 CDS BP1257 NC_002929.2 1323600 1325261 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4822 TR:Q9HUY8 (EMBL:AE004895) (555 aa) fasta scores: E(): 1.1e-66, 44.82% id in 551 aa, and to Rhizobium meliloti hypothetical transmembrane protein Smc00233 TR:CAC46237 (EMBL:AL591788) (548 aa) fasta scores: E(): 1.8e-57, 37.47% id in 555 aa; hypothetical protein complement(1323600..1325261) Bordetella pertussis Tohama I 2665356 NP_880030.1 CDS sdaA NC_002929.2 1325429 1326820 D Similar to Escherichia coli L-serine dehydratase 1 SdaA or B1814 SW:SDHL_ECOLI (P16095) (454 aa) fasta scores: E(): 1e-88, 53.89% id in 462 aa, and to Pseudomonas aeruginosa L-serine dehydratase SdaA or Pa2443 TR:Q9I139 (EMBL:AE004671) (458 aa) fasta scores: E(): 4.7e-121, 68.53% id in 464 aa; L-serine dehydratase 1 1325429..1326820 Bordetella pertussis Tohama I 2665780 NP_880031.1 CDS BP1259 NC_002929.2 1326958 1327617 R Similar to Xylella fastidiosa hypothetical protein Xf2273 TR:Q9PB71 (EMBL:AE004039) (236 aa) fasta scores: E(): 1.1e-72, 79.42% id in 209 aa, and to Pasteurella multocida hypothetical protein Pm0345 TR:Q9CNT0 (EMBL:AE006070) (233 aa) fasta scores: E(): 7.1e-70, 74.17% id in 213 aa; hypothetical protein complement(1326958..1327617) Bordetella pertussis Tohama I 2665781 NP_880032.1 CDS glnE NC_002929.2 1327653 1330535 R catalyzes the ATP-dependent addition of AMP to a subunit of glutamine synthetase; also catalyzes the reverse reaction - deadenylation; adenylation/deadenylation of glutamine synthetase subunits is important for the regulation of this enzyme; bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase complement(1327653..1330535) Bordetella pertussis Tohama I 2665782 NP_880033.1 CDS rho NC_002929.2 1334252 1335508 R An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes; transcription termination factor Rho complement(1334252..1335508) Bordetella pertussis Tohama I 2665784 NP_880034.1 CDS trxA NC_002929.2 1335621 1336046 R Similar to Escherichia coli thioredoxin 1 TrxA or TsnC or FipA or B3781 SW:THIO_ECOLI (P00274) (108 aa) fasta scores: E(): 6.4e-28, 66.35% id in 107 aa, and to Pseudomonas aeruginosa thioredoxin TrxA or Trx or Pa5240 SW:THIO_PSEAE (Q9X2T1) (108 aa) fasta scores: E(): 7.2e-32, 75.92% id in 108 aa. Also similar to BP1713, 39.000% identity in 100 aa overlap.; thioredoxin 1 complement(1335621..1336046) Bordetella pertussis Tohama I 2665351 NP_880035.1 CDS parE NC_002929.2 1336240 1338201 D decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit B 1336240..1338201 Bordetella pertussis Tohama I 2665352 NP_880036.1 CDS BP1265 NC_002929.2 1338201 1338809 D Similar to Streptomyces coelicolor membrane protein Sc10h5.06 TR:O86498 (EMBL:AL031232) (207 aa) fasta scores: E(): 1.8, 32.14% id in 140 aa; hypothetical protein 1338201..1338809 Bordetella pertussis Tohama I 2665313 NP_880037.1 CDS parC NC_002929.2 1338827 1341142 D decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit A 1338827..1341142 Bordetella pertussis Tohama I 2665314 NP_880038.1 CDS BP1267 NC_002929.2 1341145 1342359 D Similar to Bacillus subtilis hypothetical 46.2 kDa protein in asnH-gntR intergenic region YxaH or S14H SW:YXAH_BACSU (P42107) (402 aa) fasta scores: E(): 8.4e-27, 31% id in 400 aa, and to Bacillus halodurans Bh3693 protein Bh3693 TR:Q9K6N5 (EMBL:AP001519) (405 aa) fasta scores: E(): 1.5e-26, 31.42% id in 401 aa; hypothetical protein 1341145..1342359 Bordetella pertussis Tohama I 2665315 NP_880039.1 CDS BP1268 NC_002929.2 1342356 1343306 R transposase for IS481 element; transposase complement(1342356..1343306) Bordetella pertussis Tohama I 2665311 NP_880040.1 CDS BP1270 NC_002929.2 1344075 1344713 R Similar to Pseudomonas spB4 glutathione S-transferase BphK TR:Q9RBS6 (EMBL:AJ245982) (196 aa) fasta scores: E(): 4.4e-08, 29.95% id in 207 aa, and to Escherichia coli O157:H7 transferase Ecs2058 TR:BAB35481 (EMBL:AP002557) (205 aa) fasta scores: E(): 7.2e-21, 38.04% id in 205 aa; glutathione S-transferase complement(1344075..1344713) Bordetella pertussis Tohama I 2665230 NP_880041.1 CDS livF NC_002929.2 1346131 1346832 R Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivF or B3454 SW:LIVF_ECOLI (P22731) (237 aa) fasta scores: E(): 6.7e-53, 67.81% id in 233 aa, and to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport ATP-binding protein BraG or Pa1070 SW:BRAG_PSEAE (P21630) (233 aa) fasta scores: E(): 5.1e-54, 67.38% id in 233 aa; high-affinity branched-chain amino acid transport ATP-binding protein complement(1346131..1346832) Bordetella pertussis Tohama I 2667218 NP_880042.1 CDS livG NC_002929.2 1346833 1347600 R Part of the ABC transporter complexes LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter ATP-binding protein complement(1346833..1347600) Bordetella pertussis Tohama I 2667219 NP_880043.1 CDS livM NC_002929.2 1347597 1348835 R Part of the ABC transporter complex LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter permease subunit complement(1347597..1348835) Bordetella pertussis Tohama I 2667220 NP_880044.1 CDS livH NC_002929.2 1348835 1349761 R Similar to Escherichia coli high-affinity branched-chain amino acid transport system permease LivH or B3457 SW:LIVH_ECOLI (P08340) (308 aa) fasta scores: E(): 3.7e-61, 58.52% id in 311 aa, and to Salmonella typhimurium high-affinity branched-chain amino acid transport system permease LivH or LivA SW:LIVH_SALTY (P30295) (308 aa) fasta scores: E(): 7.7e-62, 59.67% id in 310 aa; high-affinity branched-chain amino acid transport system permease complement(1348835..1349761) Bordetella pertussis Tohama I 2666776 NP_880045.1 CDS livJ NC_002929.2 1349864 1350979 R Similar to Escherichia coli leu/ile/val-binding protein precursor LivJ or B3460 SW:LIVJ_ECOLI (P02917) (367 aa) fasta scores: E(): 7.4e-64, 48.05% id in 360 aa, and to Pseudomonas aeruginosa leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein precursor BraC or Pa1074 SW:BRAC_PSEAE (P21175) (373 aa) fasta scores: E(): 1.6e-72, 52.02% id in 371 aa; leu/Ile/val-binding protein complement(1349864..1350979) Bordetella pertussis Tohama I 2666777 NP_880046.1 CDS BP1278 NC_002929.2 1350995 1351945 R transposase for IS481 element; transposase complement(1350995..1351945) Bordetella pertussis Tohama I 2666336 NP_880047.1 CDS BP1279 NC_002929.2 1352299 1352880 R Similar to Agrobacterium tumefaciens Agr_l_2416p TR:AAK89778 (EMBL:AE008321) (245 aa) fasta scores: E(): 2.4e-23, 46.34% id in 205 aa, and to Rhizobium meliloti hypothetical transmembrane protein Smc00703 TR:CAC47248 (EMBL:AL591791) (212 aa) fasta scores: E(): 1.2e-21, 46.82% id in 205 aa; hypothetical protein complement(1352299..1352880) Bordetella pertussis Tohama I 2666337 NP_880048.1 CDS proC NC_002929.2 1352877 1353710 R Similar to Pseudomonas aeruginosa pyrroline-5-carboxylate reductase ProC or Pa0393 SW:PROC_PSEAE (P22008) (272 aa) fasta scores: E(): 8.7e-36, 45.95% id in 272 aa, and to Xylella fastidiosa pyrroline-5-carboxylate reductase Xf2712 TR:Q9PA08 (EMBL:AE004077) (305 aa) fasta scores: E(): 1.8e-31, 43.49% id in 269 aa; pyrroline-5-carboxylate reductase complement(1352877..1353710) Bordetella pertussis Tohama I 2665212 NP_880049.1 CDS ugpB NC_002929.2 1353921 1355234 D Similar to Escherichia coli glycerol-3-phosphate-binding periplasmic protein precursor UgpB or B3453 SW:UGPB_ECOLI (P10904) (438 aa) fasta scores: E(): 4.6e-91, 54.21% id in 439 aa, and to Agrobacterium tumefaciens Agr_l_3248p TR:AAK90201 (EMBL:AE008365) (439 aa) fasta scores: E(): 1.1e-78, 48.02% id in 431 aa; glycerol-3-phosphate ABC transporter substrate-binding protein 1353921..1355234 Bordetella pertussis Tohama I 2665213 NP_880050.1 CDS ugpA NC_002929.2 1355411 1356292 D Similar to Escherichia coli sn-glycerol-3-phosphate transport system permease UgpA or B3452 SW:UGPA_ECOLI (P10905) (295 aa) fasta scores: E(): 2.1e-66, 59.65% id in 290 aa, and to Rhizobium meliloti probable glycerol-3-phosphate ABC transporter permease TR:CAC48803 (EMBL:AL603643) (293 aa) fasta scores: E(): 2e-74, 63.91% id in 291 aa; sn-glycerol-3-phosphate ABC transporter permease 1355411..1356292 Bordetella pertussis Tohama I 2665214 NP_880051.1 CDS ugpE NC_002929.2 1356312 1357163 D Similar to Escherichia coli sn-glycerol-3-phosphate transport system permease UgpE or B3451 SW:UGPE_ECOLI (P10906) (281 aa) fasta scores: E(): 2.1e-69, 61.48% id in 283 aa, and to Rhizobium meliloti probable glycerol-3-phosphate ABC transporter permease TR:CAC48804 (EMBL:AL603643) (282 aa) fasta scores: E(): 4.1e-70, 61.4% id in 285 aa; sn-glycerol-3-phosphate transport system permease 1356312..1357163 Bordetella pertussis Tohama I 2665136 NP_880052.1 CDS ugpC NC_002929.2 1357216 1358304 D part of the UgpABCE glycerol-3-phosphate uptake system; glycerol-3-phosphate transporter ATP-binding protein 1357216..1358304 Bordetella pertussis Tohama I 2665137 NP_880053.1 CDS livJ NC_002929.2 1358415 1359542 R Similar to Escherichia coli leu/ile/val-binding protein precursor LivJ or B3460 SW:LIVJ_ECOLI (P02917) (367 aa) fasta scores: E(): 3.8e-67, 49.86% id in 361 aa, and to Pseudomonas aeruginosa leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein precursor BraC or Pa1074 SW:BRAC_PSEAE (P21175) (373 aa) fasta scores: E(): 8.8e-78, 58.1% id in 370 aa; leu/Ile/val-binding protein complement(1358415..1359542) Bordetella pertussis Tohama I 2665126 NP_880054.1 CDS BP1286 NC_002929.2 1359777 1360388 D Similar to Caulobacter crescentus hypothetical protein Cc2185 TR:Q9A6A9 (EMBL:AE005890) (207 aa) fasta scores: E(): 9.9e-30, 49.24% id in 199 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0201 TR:Q9I6T7 (EMBL:AE004458) (193 aa) fasta scores: E(): 4.3e-29, 48.04% id in 179 aa; hypothetical protein 1359777..1360388 Bordetella pertussis Tohama I 2665127 NP_880055.1 CDS BP1287 NC_002929.2 1360487 1361437 D transposase for IS481 element; transposase 1360487..1361437 Bordetella pertussis Tohama I 2665128 NP_880056.1 CDS BP1289 NC_002929.2 1361659 1362036 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0379 TR:Q9I6B6 (EMBL:AE004475) (125 aa) fasta scores: E(): 8.1e-17, 52.1% id in 119 aa, and to Bacillus subtilis hypothetical 12.0 kDa protein in ung-rocA intergenic region YwdK or Ipa-61D SW:YWDK_BACSU (P39619) (113 aa) fasta scores: E(): 2e-15, 54.45% id in 101 aa; hypothetical protein complement(1361659..1362036) Bordetella pertussis Tohama I 2664843 NP_880057.1 CDS BP1290 NC_002929.2 1362184 1362681 D Similar to Yersinia enterocolitica hypothetical 16.3 kDa protein TR:Q9F4G7 (EMBL:AY008264) (148 aa) fasta scores: E(): 5.1e-08, 31.75% id in 148 aa, and to Rhizobium meliloti hypothetical protein Smb20696 TR:CAC49803 (EMBL:AL603647) (161 aa) fasta scores: E(): 0.0009, 31.35% id in 118 aa; hypothetical protein 1362184..1362681 Bordetella pertussis Tohama I 2667136 NP_880058.1 CDS BP1291 NC_002929.2 1362678 1363205 D Similar to Yersinia enterocolitica hypothetical 17.2 kDa protein TR:Q9F4G8 (EMBL:AY008264) (152 aa) fasta scores: E(): 0.00042, 31.32% id in 166 aa, and to Rhizobium loti Mlr9079 protein Mlr9079 TR:Q982G8 (EMBL:AP003015) (160 aa) fasta scores: E(): 0.0017, 32.12% id in 165 aa; hypothetical protein 1362678..1363205 Bordetella pertussis Tohama I 2667137 NP_880059.1 CDS BP1292 NC_002929.2 1363339 1364154 D Similar to Escherichia coli lipoprotein YaeC precursor YaeC or B0197 SW:YAEC_ECOLI (P28635) (271 aa) fasta scores: E(): 9.1e-26, 36.53% id in 260 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2349 TR:Q9I1C9 (EMBL:AE004661) (264 aa) fasta scores: E(): 3e-36, 44.09% id in 254 aa; hypothetical protein 1363339..1364154 Bordetella pertussis Tohama I 2667138 NP_880060.1 CDS lldD NC_002929.2 1364167 1365348 R Similar to Escherichia coli L-lactate dehydrogenase LldD or LctD or B3605 SW:LLDD_ECOLI (P33232) (396 aa) fasta scores: E(): 2.2e-37, 38.16% id in 359 aa, and to Streptomyces rishiriensis dehydrogenase CumR TR:Q9F8T4 (EMBL:AF235050) (389 aa) fasta scores: E(): 6.8e-42, 43.01% id in 365 aa; L-lactate dehydrogenase complement(1364167..1365348) Bordetella pertussis Tohama I 2667139 NP_880061.1 CDS psd NC_002929.2 1365396 1366289 R catalyzes the decarboxylation of phosphatidyl-L-serine to phosphatidylethanoleamine; phosphatidylserine decarboxylase complement(1365396..1366289) Bordetella pertussis Tohama I 2667140 NP_880062.1 CDS BP1295 NC_002929.2 1366416 1366886 R no significant database matches; hypothetical protein complement(1366416..1366886) Bordetella pertussis Tohama I 2667141 NP_880063.1 CDS BP1296 NC_002929.2 1367012 1367839 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4972 TR:Q9HUJ3 (EMBL:AE004910) (248 aa) fasta scores: E(): 1.5e-25, 37.61% id in 226 aa, and to Streptomyces coelicolor hypothetical 23.4 kDa protein Sc5c7.29 TR:O86726 (EMBL:AL031515) (226 aa) fasta scores: E(): 3.3, 29% id in 131 aa; lipoprotein complement(1367012..1367839) Bordetella pertussis Tohama I 2665357 NP_880064.1 CDS BP1297 NC_002929.2 1367868 1368644 R Similar to Pyrococcus abyssi lipoate-protein ligase A related Pab1916 TR:Q9V0V8 (EMBL:AJ248285) (249 aa) fasta scores: E(): 2e-24, 37.02% id in 235 aa, and to Pyrococcus horikoshii 249aa long hypothetical lipoate protein ligase Ph1487 TR:O59156 (EMBL:AP000006) (249 aa) fasta scores: E(): 5e-23, 34.89% id in 235 aa; lipoate-protein ligase A complement(1367868..1368644) Bordetella pertussis Tohama I 2665358 NP_880065.1 CDS BP1298 NC_002929.2 1368641 1368934 R Similar to Halobacterium sp Vng6255C TR:Q9HHS3 (EMBL:AE005157) (89 aa) fasta scores: E(): 5.3e-08, 40.21% id in 92 aa; hypothetical protein complement(1368641..1368934) Bordetella pertussis Tohama I 2665359 NP_880066.1 CDS BP1299 NC_002929.2 1368931 1369395 R Similar to Streptomyces griseus regulatory protein for C-P lyase PhnO-like TR:Q54244 (EMBL:D29961) (150 aa) fasta scores: E(): 7.3e-26, 52% id in 150 aa, and to Rhizobium loti probable transcriptional regulator Mll1819 TR:Q98JR4 (EMBL:AP002998) (150 aa) fasta scores: E(): 4.9e-35, 61.74% id in 149 aa; acetyltransferase complement(1368931..1369395) Bordetella pertussis Tohama I 2665360 NP_880067.1 CDS BP1300 NC_002929.2 1369407 1370108 R Similar to Zea mays glutathione transferase III Gst3B TR:Q9SM20 (EMBL:AJ010296) (221 aa) fasta scores: E(): 1.2e-10, 30.28% id in 208 aa, and to Pseudomonas aeruginosa probable glutathione S-transferase Pa1033 TR:Q9I4U1 (EMBL:AE004536) (213 aa) fasta scores: E(): 2.2e-68, 77.61% id in 210 aa; glutathione transferase complement(1369407..1370108) Bordetella pertussis Tohama I 2665361 NP_880068.1 CDS BP1301 NC_002929.2 1370218 1370718 R Similar to Schizosaccharomyces pombe glutathione peroxidase Gpx1 or Spbc32f12.03C SW:GSHJ_SCHPO (O59858) (158 aa) fasta scores: E(): 1.7e-32, 50.96% id in 155 aa, and to Pseudomonas aeruginosa glutathione peroxidase Pa2826 TR:Q9I017 (EMBL:AE004709) (161 aa) fasta scores: E(): 1.3e-39, 61.68% id in 154 aa; glutathione peroxidase complement(1370218..1370718) Bordetella pertussis Tohama I 2665373 NP_880069.1 CDS BP1302 NC_002929.2 1370801 1371979 R Similar to Caulobacter crescentus hypothetical protein Cc1979 TR:Q9A6V4 (EMBL:AE005871) (407 aa) fasta scores: E(): 1.1e-29, 32.41% id in 398 aa, and to Agrobacterium tumefaciens Agr_l_3459p TR:AAK90303 (EMBL:AE008375) (407 aa) fasta scores: E(): 2.1e-27, 32.67% id in 407 aa; hypothetical protein complement(1370801..1371979) Bordetella pertussis Tohama I 2665374 NP_880070.1 CDS BP1304 NC_002929.2 1373607 1373942 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0015 TR:Q9I7B1 (EMBL:AE004441) (105 aa) fasta scores: E(): 2e-17, 55.44% id in 101 aa, and to Agrobacterium tumefaciens Agr_l_275p TR:AAK88708 (EMBL:AE008211) (129 aa) fasta scores: E(): 1.7e-10, 40.4% id in 99 aa; hypothetical protein 1373607..1373942 Bordetella pertussis Tohama I 2665376 NP_880071.1 CDS BP1305 NC_002929.2 1374130 1375578 D Its C-terminal region is similar to hypothetical racemases from a wide range of bacteria. No significant similarity over the entire length of the CDS.; hypothetical protein 1374130..1375578 Bordetella pertussis Tohama I 2666082 NP_880072.1 CDS arsC NC_002929.2 1375615 1375980 D Similar to Escherichia coli arsenate reductase ArsC or ArsG or B3503 SW:ARSC_ECOLI (P37311) (141 aa) fasta scores: E(): 9.4e-21, 57.52% id in 113 aa, and to Rhizobium meliloti hypothetical arsenate reductase TR:CAC45654 (EMBL:AL591786) (140 aa) fasta scores: E(): 1.4e-23, 59.48% id in 116 aa. Also similar to BP1681, 56.140% identity (57.658% ungapped) in 114 aa overlap.; arsenate reductase 1375615..1375980 Bordetella pertussis Tohama I 2666083 NP_880073.1 CDS BP1307 NC_002929.2 1376087 1376626 R Similar to Escherichia coli bacterioferritin comigratory protein Bcp or B2480 or Z3739 or Ecs3342 SW:BCP_ECOLI (P23480) (156 aa) fasta scores: E(): 1e-06, 28.84% id in 156 aa, and to Caulobacter crescentus bacterioferritin comigratory protein, Cc1673 TR:Q9A7P7 (EMBL:AE005842) (177 aa) fasta scores: E(): 2.1e-26, 49.41% id in 170 aa; bacterioferritin comigratory protein complement(1376087..1376626) Bordetella pertussis Tohama I 2666084 NP_880074.1 CDS BP1308 NC_002929.2 1376719 1377669 R transposase for IS481 element; transposase complement(1376719..1377669) Bordetella pertussis Tohama I 2666085 NP_880075.1 CDS BP1311 NC_002929.2 1379021 1379425 R Similar to Bacillus halodurans YfiD or Bh3304 TR:Q9RC47 (EMBL:AB024562) (129 aa) fasta scores: E(): 2.8e-07, 35.04% id in 117 aa, and to Vibrio cholerae hypothetical protein Vca1019 TR:Q9KKT1 (EMBL:AE004428) (148 aa) fasta scores: E(): 2.5e-06, 38.71% id in 124 aa; hypothetical protein complement(1379021..1379425) Bordetella pertussis Tohama I 2665099 NP_880076.1 CDS BP1313 NC_002929.2 1380662 1380985 D Similar to Pseudomonas aeruginosa hypothetical 19.7 kDa protein TR:Q9L885 (EMBL:AF214673) (192 aa) fasta scores: E(): 6.1, 33.64% id in 107 aa; hypothetical protein 1380662..1380985 Bordetella pertussis Tohama I 2665101 NP_880077.1 CDS BP1314 NC_002929.2 1380988 1381875 R Similar to Rhizobium meliloti oxidoreductase Smb20656 TR:CAC49763 (EMBL:AL603646) (289 aa) fasta scores: E(): 5.6e-44, 44.52% id in 274 aa, and to Rhizobium meliloti probable oxidoreductase Sma2157 TR:AAK65830 (EMBL:AE007303) (327 aa) fasta scores: E(): 3.4e-32, 38.21% id in 280 aa; hypothetical protein complement(1380988..1381875) Bordetella pertussis Tohama I 2665102 NP_880078.1 CDS BP1315 NC_002929.2 1381908 1382333 R Similar to Halobacterium sp Vng1536C TR:Q9HPP5 (EMBL:AE005067) (147 aa) fasta scores: E(): 3.5e-10, 36.23% id in 138 aa, and to Methanococcus jannaschii hypothetical protein Mj0531 SW:Y531_METJA (Q57951) (170 aa) fasta scores: E(): 7.4e-09, 32.62% id in 141 aa; universal stress family protein complement(1381908..1382333) Bordetella pertussis Tohama I 2665103 NP_880079.1 CDS BP1318 NC_002929.2 1382998 1383504 R no significant database matches; hypothetical protein complement(1382998..1383504) Bordetella pertussis Tohama I 2667348 NP_880080.1 CDS BP1319 NC_002929.2 1383543 1384874 R Similar to Salmonella typhimurium transcriptional regulatory protein PtsJ SW:PTSJ_SALTY (P40193) (430 aa) fasta scores: E(): 1.7e-73, 54.31% id in 429 aa, and to Streptomyces coelicolor GntR-family transcriptional regulator Sc10a9.02C TR:Q9AKA2 (EMBL:AL583943) (445 aa) fasta scores: E(): 1.9e-46, 43.3% id in 418 aa; GntR family transcriptional regulator complement(1383543..1384874) Bordetella pertussis Tohama I 2665882 NP_880081.1 CDS BP1320 NC_002929.2 1384934 1385749 D Similar to Xylella fastidiosa hypothetical protein Xf1717 TR:Q9PCR1 (EMBL:AE003995) (266 aa) fasta scores: E(): 1e-62, 67.82% id in 258 aa, and to Bacillus halodurans Bh2550 protein TR:Q9K9U5 (EMBL:AP001515) (228 aa) fasta scores: E(): 1.3e-27, 43.04% id in 230 aa. Also similar to BP0560, 57.576% identity (58.333% ungapped) in 231 aa overlap.; hypothetical protein 1384934..1385749 Bordetella pertussis Tohama I 2665883 NP_880082.1 CDS pdxK NC_002929.2 1385746 1386600 D catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal; pyridoxal kinase 1385746..1386600 Bordetella pertussis Tohama I 2665884 NP_880083.1 CDS BP1323 NC_002929.2 1389663 1392206 R Similar to Streptomyces coelicolor alpha amylase Scbac1a6.05C TR:Q9ADI2 (EMBL:AL589708) (805 aa) fasta scores: E(): 8.8e-23, 38.42% id in 864 aa, and to Pseudomonas aeruginosa probable glycosyl hydrolase Pa2162 TR:Q9I1V3 (EMBL:AE004643) (926 aa) fasta scores: E(): 4.1e-28, 45.05% id in 930 aa; alpha amylase complement(1389663..1392206) Bordetella pertussis Tohama I 2665233 NP_880084.1 CDS BP1326 NC_002929.2 1393573 1395327 R Similar to Sulfolobus shibatae maltooligosyl trehalose trehalohydrolase TreZ TR:Q9UWN9 (EMBL:AF201335) (559 aa) fasta scores: E(): 3.4e-50, 34.79% id in 500 aa, and to Pseudomonas aeruginosa probable glycosyl hydrolase Pa2164 TR:Q9I1V1 (EMBL:AE004643) (583 aa) fasta scores: E(): 3.1e-101, 53.79% id in 554 aa; alpha amylase complement(1393573..1395327) Bordetella pertussis Tohama I 2665200 NP_880085.1 CDS glgX NC_002929.2 1395324 1397444 R Similar to Escherichia coli glycogen operon protein GlgX or GlyX or B3431 SW:GLGX_ECOLI (P15067) (657 aa) fasta scores: E(): 5.3e-95, 47.25% id in 656 aa, and to Pseudomonas aeruginosa probable glycosyl hydrolase Pa2160 TR:Q9I1V5 (EMBL:AE004643) (716 aa) fasta scores: E(): 8.2e-151, 55.61% id in 712 aa; glycosyl hydrolase complement(1395324..1397444) Bordetella pertussis Tohama I 2665201 NP_880086.1 CDS glgB NC_002929.2 1397449 1399644 R catalyzes the transfer of a segment of a 1,4-alpha-D-glucan chain to a primary hydroxy group in a similar glucan chain; glycogen branching protein complement(1397449..1399644) Bordetella pertussis Tohama I 2665202 NP_880087.1 CDS BP1329 NC_002929.2 1399641 1402982 R Similar to Pimelobacter sp trehalose synthase treS TR:P72235 (EMBL:D78198) (573 aa) fasta scores: E(): 2.4e-90, 58.22% id in 553 aa, and to Pseudomonas aeruginosa probable trehalose synthase Pa2152 TR:Q9I1W3 (EMBL:AE004642) (1100 aa) fasta scores: E(): 0, 58.35% id in 1107 aa; alpha-glucosidase complement(1399641..1402982) Bordetella pertussis Tohama I 2665203 NP_880088.1 CDS BP1332 NC_002929.2 1405785 1406735 D transposase for IS481 element; transposase 1405785..1406735 Bordetella pertussis Tohama I 2665154 NP_880089.1 CDS BP1333 NC_002929.2 1406801 1406980 R no significant database matches.; hypothetical protein complement(1406801..1406980) Bordetella pertussis Tohama I 2664840 NP_880090.1 CDS BP1334 NC_002929.2 1407097 1407819 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2168 TR:Q9I1U7 (EMBL:AE004644) (258 aa) fasta scores: E(): 8.8e-66, 65% id in 240 aa; hypothetical protein complement(1407097..1407819) Bordetella pertussis Tohama I 2664841 NP_880091.1 CDS BP1335 NC_002929.2 1407839 1408984 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2167 TR:Q9I1U8 (EMBL:AE004644) (365 aa) fasta scores: E(): 2.1e-39, 41.48% id in 364 aa; hypothetical protein complement(1407839..1408984) Bordetella pertussis Tohama I 2665208 NP_880092.1 CDS BP1337 NC_002929.2 1409892 1410842 D transposase for IS481 element; transposase 1409892..1410842 Bordetella pertussis Tohama I 2665210 NP_880093.1 CDS BP1339 NC_002929.2 1411030 1412232 R Similar to Pseudomonas aeruginosa probable phospholipase Pa2155 TR:Q9I1W0 (EMBL:AE004642) (401 aa) fasta scores: E(): 3.6e-84, 58.2% id in 390 aa, and to Escherichia coli hypothetical protein YbhO or B0789 or Z1008 or Ecs0867 SW:YBHO_ECOLI (P75771) (413 aa) fasta scores: E(): 1.4e-81, 52.68% id in 391 aa; cardiolipin synthase 2 complement(1411030..1412232) Bordetella pertussis Tohama I 2665468 NP_880094.1 CDS BP1340 NC_002929.2 1412229 1412987 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2156 TR:Q9I1V9 (EMBL:AE004642) (245 aa) fasta scores: E(): 2.2e-62, 63.93% id in 244 aa, and to Escherichia coli hypothetical protein YbhP or B0790 or Z1009 or Ecs0868 SW:YBHP_ECOLI (P75772) (253 aa) fasta scores: E(): 2.8e-53, 53.72% id in 255 aa. Also similar to BP0710, 37.801% identity (46.610% ungapped) in 291 aa overlap.; hypothetical protein complement(1412229..1412987) Bordetella pertussis Tohama I 2665469 NP_880095.1 CDS BP1342 NC_002929.2 1413381 1414013 D Similar to Rhizobium loti Mll2459 protein Mll2459 TR:Q98ID0 (EMBL:AP002999) (180 aa) fasta scores: E(): 2.1e-16, 41.11% id in 180 aa, and to Escherichia coli hypothetical protein YqjI or B3071 SW:YQJI_ECOLI (Q46872) (207 aa) fasta scores: E(): 7e-11, 41.54% id in 142 aa; hypothetical protein 1413381..1414013 Bordetella pertussis Tohama I 2665471 NP_880096.1 CDS BP1344 NC_002929.2 1414969 1417569 D Similar to Agrobacterium tumefaciens Agr_pat_528p TR:AAK90738 (EMBL:AE007905) (921 aa) fasta scores: E(): 4.8e-42, 33.19% id in 931 aa, and to Bordetella pertussis BapA protein bapA TR:Q9F4B4 (EMBL:AJ277632) (903 aa) fasta scores: E(): 1.3e-18, 29.75% id in 894 aa; autotransporter 1414969..1417569 Bordetella pertussis Tohama I 2665473 NP_880097.1 CDS BP1345 NC_002929.2 1417557 1420976 R Similar to Mycobacterium tuberculosis hypothetical 123.1 kDa protein Rv1251c or Mtv006.23C TR:O50466 (EMBL:AL021006) (1139 aa) fasta scores: E(): 3e-51, 37.83% id in 1171 aa, and to Mycobacterium leprae hypothetical protein Ml1098 TR:Q9CC95 (EMBL:AL583920) (1152 aa) fasta scores: E(): 2.9e-45, 36.9% id in 1176 aa; hypothetical protein complement(1417557..1420976) Bordetella pertussis Tohama I 2665139 NP_880098.1 CDS BP1346 NC_002929.2 1420984 1421889 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa2417 TR:Q9I164 (EMBL:AE004669) (312 aa) fasta scores: E(): 4.1e-55, 52.72% id in 294 aa, and to Rhizobium meliloti transcription regulator protein Smc01570 TR:CAC46900 (EMBL:AL591790) (296 aa) fasta scores: E(): 6.3e-42, 41.69% id in 295 aa; LysR family transcriptional regulator complement(1420984..1421889) Bordetella pertussis Tohama I 2665140 NP_880099.1 CDS BP1347 NC_002929.2 1422028 1422606 D Similar to Rhizobium loti Mll5191 protein Mll5191 TR:Q98CD9 (EMBL:AP003005) (203 aa) fasta scores: E(): 4.2e-35, 52.17% id in 184 aa, and to Streptomyces coelicolor reductase Scah10.16 TR:Q9RKU1 (EMBL:AL132824) (185 aa) fasta scores: E(): 1.8e-21, 40.32% id in 186 aa; reductase 1422028..1422606 Bordetella pertussis Tohama I 2665141 NP_880100.1 CDS citE NC_002929.2 1422603 1423514 D Similar to Leuconostoc mesenteroides citrate lyase beta chain CitE SW:CILB_LEUMC (O53078) (302 aa) fasta scores: E(): 1.8e-26, 35.06% id in 288 aa, and to Caulobacter crescentus citrate lyase beta subunit, Cc3659 TR:Q9A2A7 (EMBL:AE006024) (295 aa) fasta scores: E(): 1.3e-42, 47.22% id in 288 aa; citrate lyase subunit beta 1422603..1423514 Bordetella pertussis Tohama I 2665142 NP_880101.1 CDS BP1349 NC_002929.2 1423528 1424208 R Similar to Rhizobium meliloti transcriptional regulator, GntR family protein Smb20773 TR:CAC49865 (EMBL:AL603647) (228 aa) fasta scores: E(): 4.7e-14, 35.29% id in 204 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa0797 TR:Q9I5E1 (EMBL:AE004515) (240 aa) fasta scores: E(): 1.8e-13, 31.28% id in 211 aa; GntR family transcriptional regulator complement(1423528..1424208) Bordetella pertussis Tohama I 2665143 NP_880102.1 CDS BP1350 NC_002929.2 1424410 1426449 D Similar to Giardia lamblia acetyl-CoA synthetase TR:Q9Y1N2 (EMBL:AF107206) (726 aa) fasta scores: E(): 8.7e-33, 27.75% id in 735 aa, and to Archaeoglobus fulgidus conserved hypothetical protein Af1211 TR:O29057 (EMBL:AE001020) (685 aa) fasta scores: E(): 1.6e-41, 31.98% id in 691 aa; acetyl-CoA synthetase 1424410..1426449 Bordetella pertussis Tohama I 2665204 NP_880103.1 CDS BP1352 NC_002929.2 1427481 1428278 D Catalyzes the first step in the citric acid cycle. Oxaloacetate and acetyl-CoA bind to citrate synthase, which then catalyzes the reaction which joins the two compounds together; citrate synthase 1427481..1428278 Bordetella pertussis Tohama I 2665206 NP_880104.1 CDS BP1353 NC_002929.2 1428275 1429468 D Similar to Rhizobium meliloti conserved membrane-anchored protein Smb21182 TR:CAC49248 (EMBL:AL603645) (394 aa) fasta scores: E(): 8.4e-39, 37.01% id in 389 aa, and to Streptomyces coelicolor racemase Scf41.21 TR:Q9RJU8 (EMBL:AL117387) (403 aa) fasta scores: E(): 3.5e-37, 38.06% id in 402 aa; hypothetical protein 1428275..1429468 Bordetella pertussis Tohama I 2665207 NP_880105.1 CDS BP1354 NC_002929.2 1429465 1430427 D Similar to Pseudomonas putida hypothetical 34.5 kDa protein in clcB-clcD intergenic region precursor SW:YCLC_PSEPU (Q47100) (329 aa) fasta scores: E(): 6.3e-30, 33.11% id in 308 aa, and to Alcaligenes eutrophus hypothetical 35.7 kDa protein MacB TR:Q9RBG2 (EMBL:AF130250) (340 aa) fasta scores: E(): 1.8e-29, 34.61% id in 312 aa; hypothetical protein 1429465..1430427 Bordetella pertussis Tohama I 2665398 NP_880106.1 CDS BP1355 NC_002929.2 1430445 1431485 R Similar to Escherichia coli transcriptional repressor CytR or B3934 or Z5481 or Ecs4861 SW:CYTR_ECOLI (P06964) (341 aa) fasta scores: E(): 8.7e-25, 30% id in 350 aa, and to Streptomyces coelicolor probable LacI-family transcriptional regulator Scc57a.16 TR:Q9RDI2 (EMBL:AL136519) (347 aa) fasta scores: E(): 4e-27, 30.03% id in 323 aa; LacI family transcriptional regulator complement(1430445..1431485) Bordetella pertussis Tohama I 2665399 NP_880107.1 CDS leuD NC_002929.2 1431473 1432081 R catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D; isopropylmalate isomerase small subunit complement(1431473..1432081) Bordetella pertussis Tohama I 2665400 NP_880108.1 CDS BP1358 NC_002929.2 1433670 1434665 D Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.2e-42, 39.37% id in 320 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1.4e-40, 38.87% id in 319 aa; hypothetical protein 1433670..1434665 Bordetella pertussis Tohama I 2665151 NP_880109.1 CDS BP1359 NC_002929.2 1434685 1435863 D Similar to Pseudomonas aeruginosa hypothetical protein Pa4041 TR:Q9HWY6 (EMBL:AE004821) (389 aa) fasta scores: E(): 1.7e-54, 43.97% id in 382 aa, and to Sulfolobus tokodaii 373aa long hypothetical mandelate racemase St1108 TR:BAB66141 (EMBL:AP000985) (373 aa) fasta scores: E(): 1.9e-13, 28.92% id in 325 aa; mandelate racemase 1434685..1435863 Bordetella pertussis Tohama I 2665152 NP_880110.1 CDS BP1360 NC_002929.2 1435874 1436791 D Similar to Streptococcus pyogenes 2-dehydropantoate 2-reductase ApbA or Spy0852 TR:Q9A0B3 (EMBL:AE006535) (307 aa) fasta scores: E(): 7.2e-19, 29.04% id in 303 aa, and to Halobacterium sp Vng0730C TR:Q9HRF0 (EMBL:AE005017) (303 aa) fasta scores: E(): 3.1e-18, 31.04% id in 306 aa; ketopantoate reductase 1435874..1436791 Bordetella pertussis Tohama I 2665155 NP_880111.1 CDS BP1361 NC_002929.2 1436847 1437797 R transposase for IS481 element; transposase complement(1436847..1437797) Bordetella pertussis Tohama I 2665156 NP_880112.1 CDS BP1362 NC_002929.2 1437896 1438666 R Similar to Rhizobium meliloti amino acid ABC transporter ATP-binding protein Smc03894 TR:CAC47856 (EMBL:AL591793) (253 aa) fasta scores: E(): 1.3e-55, 69.91% id in 246 aa, and to Clostridium acetobutylicum amino acid ABC-type transporter ATPase component Cac3327 TR:Q97DZ3 (EMBL:AE007829) (247 aa) fasta scores: E(): 1.3e-39, 49.59% id in 246 aa. Similar to several B. pertussis CDSs: BP1181, P3828, BP1534, BP1855, BP1575, BP0054, P0768, and BP1510.; amino acid ABC transporter ATP-binding protein complement(1437896..1438666) Bordetella pertussis Tohama I 2665276 NP_880113.1 CDS BP1363 NC_002929.2 1438663 1439343 R Similar to Rhizobium meliloti amino acid transport system permease ABC transporter protein Smc03893 TR:CAC47855 (EMBL:AL591793) (226 aa) fasta scores: E(): 1.2e-57, 71.3% id in 223 aa, and to Clostridium acetobutylicum amino acid ABC-type transporter permease component Cac3326 TR:Q97DZ4 (EMBL:AE007829) (227 aa) fasta scores: E(): 3.2e-47, 64.95% id in 214 aa; amino acid ABC transporter permease complement(1438663..1439343) Bordetella pertussis Tohama I 2665277 NP_880114.1 CDS BP1364 NC_002929.2 1439410 1440198 R Similar to Rhizobium loti amino acid ABC transporter periplasmic amino acid-binding protein Mll3861 TR:Q98FA8 (EMBL:AP003002) (267 aa) fasta scores: E(): 1.8e-58, 65.88% id in 255 aa, and to Clostridium acetobutylicum periplasmic amino acid binding protein cac3325 TR:Q97DZ5 (EMBL:AE007829) (269 aa) fasta scores: E(): 1.5e-47, 57.85% id in 242 aa; amino acid ABC transporter substrate-binding protein complement(1439410..1440198) Bordetella pertussis Tohama I 2665278 NP_880115.1 CDS BP1365 NC_002929.2 1440445 1441461 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 complement(1440445..1441461) Bordetella pertussis Tohama I 2665366 NP_880116.1 CDS flhB NC_002929.2 1441767 1442921 D membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export; flagellar biosynthesis protein FlhB 1441767..1442921 Bordetella pertussis Tohama I 2665367 NP_880117.1 CDS BP1370 NC_002929.2 1447427 1447909 R Similar to Pseudomonas aeruginosa FlgN TR:AAK31637 (EMBL:AY029221) (156 aa) fasta scores: E(): 3.5, 28.16% id in 142 aa; hypothetical protein complement(1447427..1447909) Bordetella pertussis Tohama I 2665286 NP_880118.1 CDS flgM NC_002929.2 1447927 1448217 R Similar to Escherichia coli negative regulator of flagellin synthesis FlgM or B1071 SW:FLGM_ECOLI (P43532) (97 aa) fasta scores: E(): 0.0023, 37.36% id in 91 aa, and to Salmonella typhimurium negative regulator of flagellin synthesis FlgM or FlgR or MviS SW:FLGM_SALTY (P26477) (97 aa) fasta scores: E(): 0.00074, 36.55% id in 93 aa; negative regulator of flagellin synthesis complement(1447927..1448217) Bordetella pertussis Tohama I 2665287 NP_880119.1 CDS flgA NC_002929.2 1448344 1449054 R required for the assembly of the flagellar basal body P-ring; flagellar basal body P-ring biosynthesis protein FlgA complement(1448344..1449054) Bordetella pertussis Tohama I 2665288 NP_880120.1 CDS flgB NC_002929.2 1449238 1449645 D with FlgF and C makes up the proximal portion of the flagellar basal body rod; Vibrio parahaemolyticus protein is associated with the polar flagella; flagellar basal-body rod protein FlgB 1449238..1449645 Bordetella pertussis Tohama I 2665289 NP_880121.1 CDS flgC NC_002929.2 1449658 1450077 D with FlgF and B makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgC 1449658..1450077 Bordetella pertussis Tohama I 2665290 NP_880122.1 CDS flgD NC_002929.2 1450125 1450829 D acts as a scaffold for the assembly of hook proteins onto the flagellar basal body rod; flagellar basal body rod modification protein 1450125..1450829 Bordetella pertussis Tohama I 2665291 NP_880123.1 CDS flgE NC_002929.2 1450895 1452316 D the hook connects flagellar basal body to the flagellar filament; flagellar hook protein FlgE 1450895..1452316 Bordetella pertussis Tohama I 2665095 NP_880124.1 CDS flgF NC_002929.2 1452355 1453119 D FlgF, with FlgB and C, makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgF 1452355..1453119 Bordetella pertussis Tohama I 2665096 NP_880125.1 CDS flgG NC_002929.2 1453163 1453948 D makes up the distal portion of the flagellar basal body rod; flagellar basal body rod protein FlgG 1453163..1453948 Bordetella pertussis Tohama I 2665097 NP_880126.1 CDS flgH NC_002929.2 1453948 1454637 D part of the basal body which consists of four rings L, P, S, and M mounted on a central rod; flagellar basal body L-ring protein 1453948..1454637 Bordetella pertussis Tohama I 2665098 NP_880127.1 CDS flgI NC_002929.2 1454640 1455773 D part of the basal body which consists of four rings L, P, S, and M mounted on a central rod; Vibrio parahaemolyticus, Yersinia, Bradyrhizobium and other bacteria have two copies of this and other flagellar genes; the V. parahaemolyticus protein is associated with the polar flagella and the Bradyrhizobium protein is associated with the thick flagellum; flagellar basal body P-ring protein 1454640..1455773 Bordetella pertussis Tohama I 2665179 NP_880128.1 CDS flgJ NC_002929.2 1455791 1456813 D Flagellum-specific muramidase which hydrolyzes the peptidoglycan layer to assemble the rod structure in the periplasmic space; flagellar rod assembly protein FlgJ 1455791..1456813 Bordetella pertussis Tohama I 2665180 NP_880129.1 CDS flgK NC_002929.2 1456883 1458529 D with FlgL acts as a hook filament junction protein to join the flagellar filament to the hook; flagellar hook-associated protein FlgK 1456883..1458529 Bordetella pertussis Tohama I 2665181 NP_880130.1 CDS flgL NC_002929.2 1458563 1460095 D With FlgK acts as a hook filament junction protein to join the flagellar filament to the hook; flagellar hook-associated protein FlgL 1458563..1460095 Bordetella pertussis Tohama I 2665182 NP_880131.1 CDS tsr NC_002929.2 1460174 1461994 D Similar to Escherichia coli methyl-accepting chemotaxis protein I Tsr or Ched or B4355 SW:MCP1_ECOLI (P02942) (551 aa) fasta scores: E(): 1.4e-54, 46.18% id in 550 aa, and to Escherichia coli methyl-accepting chemotaxis protein II Tar or Chem or B1886 SW:MCP2_ECOLI (P07017) (553 aa) fasta scores: E(): 1.3e-53, 45.24% id in 557 aa; methyl-accepting chemotaxis protein I 1460174..1461994 Bordetella pertussis Tohama I 2665057 NP_880132.1 CDS tar NC_002929.2 1462115 1463734 D Similar to Escherichia coli methyl-accepting chemotaxis protein II Tar or CheM or B1886 SW:MCP2_ECOLI (P07017) (553 aa) fasta scores: E(): 1.8e-64, 45.36% id in 529 aa, and to Escherichia coli methyl-accepting chemotaxis protein I Tsr or CheD or B4355 SW:MCP1_ECOLI (P02942) (551 aa) fasta scores: E(): 1.1e-62, 45.59% id in 522 aa; methyl-accepting chemotaxis protein II 1462115..1463734 Bordetella pertussis Tohama I 2665058 NP_880133.1 CDS BP1388 NC_002929.2 1465570 1466586 D Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 1465570..1466586 Bordetella pertussis Tohama I 2667427 NP_880134.1 CDS fliR NC_002929.2 1466633 1467421 R Similar to Escherichia coli flagellar biosynthetic protein FliR or FlaP or B1950 SW:FLIR_ECOLI (P33135) (261 aa) fasta scores: E(): 3.9e-43, 49.8% id in 259 aa, and to Salmonella typhimurium flagellar biosynthetic protein FliR or FlaP SW:FLIR_SALTY (P54702) (264 aa) fasta scores: E(): 2.5e-42, 49.41% id in 257 aa; flagellar biosynthetic protein FliR complement(1466633..1467421) Bordetella pertussis Tohama I 2665338 NP_880135.1 CDS fliQ NC_002929.2 1467444 1467713 R Similar to Escherichia coli flagellar biosynthetic protein FliQ or FlaQ or B1949 or Z3039 or Ecs2688 SW:FLIQ_ECOLI (P33134) (89 aa) fasta scores: E(): 6e-17, 60.22% id in 88 aa, and to Salmonella typhimurium flagellar biosynthetic protein FliQ or FlaQ SW:FLIQ_SALTY (P54701) (89 aa) fasta scores: E(): 5.2e-17, 61.36% id in 88 aa; flagellar biosynthetic protein FliQ complement(1467444..1467713) Bordetella pertussis Tohama I 2665339 NP_880136.1 CDS fliP NC_002929.2 1467730 1468464 R FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliP complement(1467730..1468464) Bordetella pertussis Tohama I 2665340 NP_880137.1 CDS fliO NC_002929.2 1468533 1468874 R Similar to Escherichia coli flagellar protein FliO or FlbD or FlaP or B1947 SW:FLIO_ECOLI (P22586) (121 aa) fasta scores: E(): 2.8e-06, 36.36% id in 110 aa, and to Salmonella typhimurium flagellar protein FliO or FlbD or FlaP SW:FLIO_SALTY (P54699) (124 aa) fasta scores: E(): 2.1e-07, 37.61% id in 109 aa; flagellar protein FliO complement(1468533..1468874) Bordetella pertussis Tohama I 2665383 NP_880138.1 CDS fliN NC_002929.2 1468885 1469385 R Similar to Escherichia coli flagellar motor switch protein FliN or MotD or FlaN or B1946 SW:FLIN_ECOLI (P15070) (137 aa) fasta scores: E(): 1.3e-23, 61.53% id in 130 aa, and to Salmonella typhimurium flagellar motor switch protein FliN or MotD or FlaNf SW:FLIN_SALTY (P26419) (137 aa) fasta scores: E(): 3.7e-24, 63.84% id in 130 aa; flagellar motor switch protein FliN complement(1468885..1469385) Bordetella pertussis Tohama I 2665384 NP_880139.1 CDS fliM NC_002929.2 1469378 1470388 R Similar to Escherichia coli flagellar motor switch protein FliM or Fla AII or Fla QII or CheC2 or B1945 SW:FLIM_ECOLI (P06974) (334 aa) fasta scores: E(): 3.6e-66, 52.32% id in 323 aa, and to Salmonella typhimurium flagellar motor switch protein FliM or Fla AII or Fla QII or CheC2 SW:FLIM_SALTY (P26418) (334 aa) fasta scores: E(): 1.6e-67, 52.96% id in 321 aa; flagellar motor switch protein FliM complement(1469378..1470388) Bordetella pertussis Tohama I 2665385 NP_880140.1 CDS fliL NC_002929.2 1470391 1470939 R Similar to Escherichia coli flagellar protein FliL or Fla AI or Fla QI or CheC1 or b1944 or z3034 or ecs2683 SW:FLIL_ECOLI (P06973) (154 aa) fasta scores: E(): 2.7e-10, 43.92% id in 107 aa, and to Salmonella typhimurium flagellar protein FliL or Fla AI or Fla QI or CheC1 SW:FLIL_SALTY (P26417) (155 aa) fasta scores: E(): 2.4e-11, 39.26% id in 163 aa; flagellar protein FliL complement(1470391..1470939) Bordetella pertussis Tohama I 2665133 NP_880141.1 CDS BP1397 NC_002929.2 1471333 1472283 R transposase for IS481 element; transposase complement(1471333..1472283) Bordetella pertussis Tohama I 2665135 NP_880142.1 CDS fliJ NC_002929.2 1473485 1473931 R Similar to Escherichia coli flagellar protein FliJ or FlaO or FlaS or B1942 SW:FLIJ_ECOLI (P52613) (147 aa) fasta scores: E(): 5.2e-10, 33.1% id in 145 aa, and to Salmonella typhimurium flagellar protein FliJ or FlaO or FlaS SW:FLIJ_SALTY (P26463) (147 aa) fasta scores: E(): 6e-10, 33.79% id in 145 aa; flagellar protein FliJ complement(1473485..1473931) Bordetella pertussis Tohama I 2665502 NP_880143.1 CDS fliI NC_002929.2 1473924 1475357 R Similar to Escherichia coli flagellum-specific ATP synthase FliI or Fla AIII or FlaC or B1941 SW:FLII_ECOLI (P52612) (457 aa) fasta scores: E(): 4.1e-87, 64.95% id in 468 aa, and to Salmonella typhimurium flagellum-specific ATP synthase FliI or Fla AIII or FlaC SW:FLII_SALTY (P26465) (456 aa) fasta scores: E(): 4.1e-87, 65.58% id in 462 aa; flagellum-specific ATP synthase FliI complement(1473924..1475357) Bordetella pertussis Tohama I 2665503 NP_880144.1 CDS fliH NC_002929.2 1475396 1476151 R binds to and inhibits the function of flagella specific ATPase FliI; flagellar assembly protein H complement(1475396..1476151) Bordetella pertussis Tohama I 2665280 NP_880145.1 CDS fliG NC_002929.2 1476144 1477154 R One of three proteins involved in switching the direction of the flagellar rotation; flagellar motor switch protein G complement(1476144..1477154) Bordetella pertussis Tohama I 2665281 NP_880146.1 CDS fliF NC_002929.2 1477144 1478820 R 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; flagellar MS-ring protein complement(1477144..1478820) Bordetella pertussis Tohama I 2665282 NP_880147.1 CDS fliE NC_002929.2 1479133 1479465 D Similar to Escherichia coli flagellar hook-basal body complex protein FliE or FlaN or Fla AI or B1937 or Z3027 or Ecs2676 SW:FLIE_ECOLI (P25797) (103 aa) fasta scores: E(): 3e-12, 47.22% id in 108 aa, and to Salmonella typhimurium flagellar hook-basal body complex protein FliE or FlaN or Fla AI SW:FLIE_SALTY (P26462) (103 aa) fasta scores: E(): 1.9e-11, 45.79% id in 107 aa; flagellar hook-basal body complex protein FliE 1479133..1479465 Bordetella pertussis Tohama I 2665283 NP_880148.1 CDS BP1405 NC_002929.2 1479479 1479874 R no significant database matches; hypothetical protein complement(1479479..1479874) Bordetella pertussis Tohama I 2665284 NP_880149.1 CDS BP1406 NC_002929.2 1479884 1480210 R Similar to Pseudomonas aeruginosa hypothetical protein Pa1473 TR:Q9I3N9 (EMBL:AE004576) (111 aa) fasta scores: E(): 2e-07, 43.18% id in 88 aa, and to Bacillus subtilis YlqH protein TR:O34867 (EMBL:AJ000975) (93 aa) fasta scores: E(): 2.7e-07, 42.68% id in 82 aa; flagellar protein complement(1479884..1480210) Bordetella pertussis Tohama I 2667022 NP_880150.1 CDS fliT NC_002929.2 1481479 1481829 R Similar to Salmonella typhimurium flagellar protein FliT SW:FLIT_SALTY (P26611) (122 aa) fasta scores: E(): 0.0035, 26.78% id in 112 aa, and to Escherichia coli flagellar protein FliT or B1926 or Z3016 or Ecs2665 SW:FLIT_ECOLI (P26610) (121 aa) fasta scores: E(): 0.009, 28.94% id in 114 aa; flagellar protein FliT complement(1481479..1481829) Bordetella pertussis Tohama I 2667024 NP_880151.1 CDS fliS NC_002929.2 1481877 1482305 R Similar to Salmonella typhimurium flagellar protein FliS SW:FLIS_SALTY (P26609) (135 aa) fasta scores: E(): 4.5e-19, 47.86% id in 117 aa, and to Escherichia coli flagellar protein FliS or B1925 SW:FLIS_ECOLI (P26608) (136 aa) fasta scores: E(): 1.8e-11, 33.33% id in 123 aa; flagellar protein FliS complement(1481877..1482305) Bordetella pertussis Tohama I 2667025 NP_880152.1 CDS fliD NC_002929.2 1482313 1483686 R Similar to Escherichia coli flagellar hook-associated protein 2 FliD or FlbC or FlaV or B1924 SW:FLID_ECOLI (P24216) (467 aa) fasta scores: E(): 1.8e-32, 35.24% id in 471 aa, and to Salmonella typhimurium flagellar hook-associated protein 2 FliD or FlbC or FlaV SW:FLID_SALTY (P16328) (466 aa) fasta scores: E(): 6.2e-27, 34.18% id in 471 aa; flagellar hook-associated protein 2 complement(1482313..1483686) Bordetella pertussis Tohama I 2667026 NP_880153.1 CDS flaG NC_002929.2 1483827 1484204 R Similar to Pseudomonas aeruginosa FlaG TR:O33420 (EMBL:L81176) (128 aa) fasta scores: E(): 0.033, 31.35% id in 118 aa, and to Riftia pachyptila endosymbiont FlaG TR:Q9ZFD5 (EMBL:AF105060) (115 aa) fasta scores: E(): 0.049, 28.42% id in 95 aa; flagellar protein complement(1483827..1484204) Bordetella pertussis Tohama I 2667027 NP_880154.1 CDS folC NC_002929.2 1484467 1485774 D Similar to Escherichia coli FolC bifunctional protein [includes: folylpolyglutamate synthase and dihydrofolate synthase] FolC or DedC or B2315 SW:FOLC_ECOLI (P08192) (422 aa) fasta scores: E(): 4.1e-62, 48% id in 427 aa, and to Neisseria gonorrhoeae FolC bifunctional protein [includes: folylpolyglutamate synthase and dihydrofolate synthase] FolC TR:Q50990 (EMBL:Z68205) (424 aa) fasta scores: E(): 1.8e-72, 49.18% id in 429 aa; bifunctional folylpolyglutamate synthase/dihydrofolate synthase FolC 1484467..1485774 Bordetella pertussis Tohama I 2667028 NP_880155.1 CDS BP1413 NC_002929.2 1485967 1486665 D Similar to Pseudomonas aeruginosa hypothetical protein Pa5052 TR:Q9HUC7 (EMBL:AE004918) (231 aa) fasta scores: E(): 0.00036, 35.71% id in 168 aa; hypothetical protein 1485967..1486665 Bordetella pertussis Tohama I 2665130 NP_880156.1 CDS cvpA NC_002929.2 1486662 1487150 D Similar to Escherichia coli colicin V production protein CvpA or DedE or B2313 SW:CVPA_ECOLI (P08550) (162 aa) fasta scores: E(): 1.5e-10, 32.7% id in 159 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3109 TR:Q9HZB0 (EMBL:AE004735) (180 aa) fasta scores: E(): 1.1e-13, 36.25% id in 160 aa; colicin V production protein 1486662..1487150 Bordetella pertussis Tohama I 2665131 NP_880157.1 CDS purF NC_002929.2 1487192 1488712 D Catalyzes first step of the de novo purine nucleotide biosynthetic pathway; amidophosphoribosyltransferase 1487192..1488712 Bordetella pertussis Tohama I 2665132 NP_880158.1 CDS dsbB NC_002929.2 1488756 1489232 R Similar to Escherichia coli disulfide bond formation protein B DsbB or RoxB or B1185 or Z1948 or Ecs1680 SW:DSBB_ECOLI (P30018) (176 aa) fasta scores: E(): 3.1e-05, 28.47% id in 144 aa, and to Pseudomonas aeruginosa disulfide bond formation protein B 1 DsbB1 or Pa5256 SW:DSB1_PSEAE (P21482) (163 aa) fasta scores: E(): 8.3e-08, 30.57% id in 157 aa; disulfide bond formation protein B complement(1488756..1489232) Bordetella pertussis Tohama I 2667681 NP_880159.1 CDS glnD NC_002929.2 1490036 1492633 R catalyzes the uridylylation or deuridylylation of the PII nitrogen regulatory protein; PII uridylyl-transferase complement(1490036..1492633) Bordetella pertussis Tohama I 2667683 NP_880160.1 CDS map NC_002929.2 1492663 1493484 R Similar to Escherichia coli, and methionine aminopeptidase Map or B0168 or Z0178 or Ecs0170 SW:AMPM_ECOLI (P07906) (264 aa) fasta scores: E(): 1.5e-53, 53.99% id in 263 aa, and to Xylella fastidiosa methionine aminopeptidase Xf0111 TR:Q9PH35 (EMBL:AE003865) (259 aa) fasta scores: E(): 5.7e-59, 60.08% id in 248 aa; methionine aminopeptidase complement(1492663..1493484) Bordetella pertussis Tohama I 2666445 NP_880161.1 CDS rpsB NC_002929.2 1494211 1494960 D one of the last subunits in the assembly of the 30S subunit; absence of S2 does not inhibit assembly but results in an inactive subunit; 30S ribosomal protein S2 1494211..1494960 Bordetella pertussis Tohama I 2666446 NP_880162.1 CDS tsf NC_002929.2 1495144 1496022 D EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu; elongation factor Ts 1495144..1496022 Bordetella pertussis Tohama I 2666447 NP_880163.1 CDS pyrH NC_002929.2 1496120 1496836 D Catalyzes the phosphorylation of UMP to UDP; uridylate kinase 1496120..1496836 Bordetella pertussis Tohama I 2665415 NP_880164.1 CDS frr NC_002929.2 1496851 1497411 D 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; ribosome recycling factor 1496851..1497411 Bordetella pertussis Tohama I 2665416 NP_880165.1 CDS uppS NC_002929.2 1497578 1498342 D catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate; undecaprenyl pyrophosphate synthase 1497578..1498342 Bordetella pertussis Tohama I 2665417 NP_880166.1 CDS cdsA NC_002929.2 1498362 1499219 D Similar to Escherichia coli phosphatidate cytidylyltransferase CdsA or Cds or B0175 or Z0186 or Ecs0177 SW:CDSA_ECOLI (P06466) (249 aa) fasta scores: E(): 1.1e-15, 33.72% id in 255 aa, and to Haemophilus influenzae phosphatidate cytidylyltransferase CdsA or Cds or Hi0919 SW:CDSA_HAEIN (P44937) (288 aa) fasta scores: E(): 1.4e-19, 32.51% id in 286 aa; phosphatidate cytidylyltransferase 1498362..1499219 Bordetella pertussis Tohama I 2665418 NP_880167.1 CDS dxr NC_002929.2 1499216 1500415 D catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate; 1-deoxy-D-xylulose 5-phosphate reductoisomerase 1499216..1500415 Bordetella pertussis Tohama I 2665122 NP_880168.1 CDS BP1426 NC_002929.2 1500455 1501789 D Similar to Escherichia coli inner membrane protein EcfE TR:AAL01378 (EMBL:AF407012) (450 aa) fasta scores: E(): 4e-55, 40.17% id in 448 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3649 TR:Q9HXY3 (EMBL:AE004785) (450 aa) fasta scores: E(): 7.8e-55, 43.45% id in 451 aa; hypothetical protein 1500455..1501789 Bordetella pertussis Tohama I 2665123 NP_880169.1 CDS BP1427 NC_002929.2 1501842 1504178 D Similar to Pseudomonas aeruginosa probable outer membrane protein Pa3648 TR:Q9HXY4 (EMBL:AE004784) (797 aa) fasta scores: E(): 7.3e-103, 39.77% id in 802 aa, and to Xylella fastidiosa outer membrane antigen Xf1046 TR:Q9PEI2 (EMBL:AE003941) (784 aa) fasta scores: E(): 1.9e-88, 37.58% id in 785 aa; surface antigen 1501842..1504178 Bordetella pertussis Tohama I 2665124 NP_880170.1 CDS BP1428 NC_002929.2 1504304 1504867 D Similar to Salmonella typhimurium outer membrane protein OmpH precursor OmpH SW:OMPH_SALTY (P16974) (161 aa) fasta scores: E(): 3.6e-06, 28.84% id in 156 aa, and to Neisseria meningitidis outer membrane protein Nma0086 TR:Q9JX30 (EMBL:AL162752) (166 aa) fasta scores: E(): 8.9e-13, 39.63% id in 164 aa; outer membrane protein 1504304..1504867 Bordetella pertussis Tohama I 2665274 NP_880171.1 CDS lpxD NC_002929.2 1504876 1505967 D adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis; UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase 1504876..1505967 Bordetella pertussis Tohama I 2665275 NP_880172.1 CDS fabZ NC_002929.2 1506039 1506494 D 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; (3R)-hydroxymyristoyl-ACP dehydratase 1506039..1506494 Bordetella pertussis Tohama I 2665348 NP_880173.1 CDS lpxA NC_002929.2 1506495 1507289 D catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis; UDP-N-acetylglucosamine acyltransferase 1506495..1507289 Bordetella pertussis Tohama I 2665349 NP_880174.1 CDS lpxB NC_002929.2 1507286 1508467 D 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; lipid-A-disaccharide synthase 1507286..1508467 Bordetella pertussis Tohama I 2665364 NP_880175.1 CDS rnhB NC_002929.2 1508454 1509059 D RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids; ribonuclease HII 1508454..1509059 Bordetella pertussis Tohama I 2665365 NP_880176.1 CDS BP1434 NC_002929.2 1509056 1509829 D Similar to Neisseria meningitidis RNA methyltransferase Nma1351 TR:Q9JUE8 (EMBL:AL162755) (261 aa) fasta scores: E(): 7.7e-33, 42.91% id in 261 aa, and to Synechocystis sp hypothetical tRNA/rRNA methyltransferase Slr1673 SW:YG73_SYNY3 (P74261) (274 aa) fasta scores: E(): 5.4e-18, 32.95% id in 264 aa; RNA methyltransferase 1509056..1509829 Bordetella pertussis Tohama I 2665929 NP_880177.1 CDS BP1435 NC_002929.2 1509841 1510668 R Similar to Pseudomonas aeruginosa hypothetical protein Pa1769 TR:Q9I2X0 (EMBL:AE004602) (274 aa) fasta scores: E(): 1.2e-51, 49.44% id in 269 aa, and to Neisseria meningitidis hypothetical protein Nmb0619 TR:Q9K0I1 (EMBL:AE002417) (273 aa) fasta scores: E(): 1.2e-48, 48.16% id in 272 aa; hypothetical protein complement(1509841..1510668) Bordetella pertussis Tohama I 2665930 NP_880178.1 CDS ppsA NC_002929.2 1510830 1513193 D catalyzes the formation of phosphoenolpyruvate from pyruvate; phosphoenolpyruvate synthase 1510830..1513193 Bordetella pertussis Tohama I 2665931 NP_880179.1 CDS BP1437 NC_002929.2 1513261 1513980 R Catalyzes the transfer of the ammonia group from glutamine to a new carbon-nitrogen group; glutamine amidotransferase complement(1513261..1513980) Bordetella pertussis Tohama I 2665932 NP_880180.1 CDS BP1438 NC_002929.2 1514104 1514529 D Similar to Neisseria meningitidis membrane protein Nma1383 TR:Q9JUC5 (EMBL:AL162755) (135 aa) fasta scores: E(): 4e-06, 29.92% id in 137 aa, and to Mycobacterium tuberculosis hypothetical 15.2 kDa protein Cy277.08 precursor Rv1487 or Mtcy277.08 TR:P71767 (EMBL:Z79701) (144 aa) fasta scores: E(): 0.012, 30.07% id in 143 aa; hypothetical protein 1514104..1514529 Bordetella pertussis Tohama I 2665933 NP_880181.1 CDS BP1439 NC_002929.2 1514564 1515514 R transposase for IS481 element; transposase complement(1514564..1515514) Bordetella pertussis Tohama I 2665934 NP_880182.1 CDS BP1440 NC_002929.2 1515632 1516558 D Similar to Rickettsia conorii hypothetical 34.0 kDa protein Rc0452 TR:AAL02990 (EMBL:AE008609) (312 aa) fasta scores: E(): 2.1e-55, 53.33% id in 300 aa, and to Neisseria meningitidis membrane protein Gna1220 TR:Q9JPN3 (EMBL:AF226519) (315 aa) fasta scores: E(): 3.4e-53, 64.83% id in 310 aa; hypothetical protein 1515632..1516558 Bordetella pertussis Tohama I 2665935 NP_880183.1 CDS BP1441 NC_002929.2 1516624 1517781 D Similar to Rhizobium meliloti hypothetical transmembrane protein Smc01464 TR:CAC46726 (EMBL:AL591789) (426 aa) fasta scores: E(): 4.8e-25, 33.42% id in 377 aa, and to Rhizobium loti Mll4270 protein TR:Q98EF3 (EMBL:AP003003) (403 aa) fasta scores: E(): 1.3e-19, 29.72% id in 397 aa; hypothetical protein 1516624..1517781 Bordetella pertussis Tohama I 2665936 NP_880184.1 CDS smpB NC_002929.2 1517762 1518229 R binds to ssrA RNA (tmRNA) and is required for its successful binding to ribosomes; also appears to function in the trans-translation step by promoting accommodation of tmRNA into the ribosomal A site; SmpB protects the tmRNA from RNase R degradation in Caulobacter crescentus; both the tmRNA and SmpB are regulated in cell cycle-dependent manner; functions in release of stalled ribosomes from damaged mRNAs and targeting proteins for degradation; SsrA-binding protein complement(1517762..1518229) Bordetella pertussis Tohama I 2665937 NP_880185.1 CDS BP1443 NC_002929.2 1518295 1518729 D Similar to Vibrio cholerae hypothetical protein Vc0849 SW:Y849_VIBCH (P52122) (144 aa) fasta scores: E(): 2.9e-24, 46.52% id in 144 aa, and to Escherichia coli hypothetical protein YfjG or B2619 SW:YFJG_ECOLI (P52121) (158 aa) fasta scores: E(): 1.1e-23, 42.25% id in 142 aa; hypothetical protein 1518295..1518729 Bordetella pertussis Tohama I 2665938 NP_880186.1 CDS BP1444 NC_002929.2 1518758 1519069 D Similar to Escherichia coli protein YfjF or B2618 SW:YFJF_ECOLI (P52119) (96 aa) fasta scores: E(): 9.8e-07, 43.52% id in 85 aa, and to Neisseria meningitidis hypothetical protein nma1005 or nmb0796 SW:YA05_NEIMA (Q9JRC2) (92 aa) fasta scores: E(): 6.1e-07, 36.78% id in 87 aa; hypothetical protein 1518758..1519069 Bordetella pertussis Tohama I 2665939 NP_880187.1 CDS BP1445 NC_002929.2 1519266 1520420 D Similar to Pseudomonas aeruginosa probable acyl-CoA dehydrogenase Pa0746 TR:Q9I5I3 (EMBL:AE004509) (387 aa) fasta scores: E(): 2.8e-92, 62.36% id in 380 aa, and to Caulobacter crescentus acyl-CoA dehydrogenase Cc1350 TR:Q9A8K3 (EMBL:AE005810) (379 aa) fasta scores: E(): 5.4e-85, 56.99% id in 379 aa; acyl-CoA dehydrogenase 1519266..1520420 Bordetella pertussis Tohama I 2665940 NP_880188.1 CDS BP1446 NC_002929.2 1520417 1521589 D Similar to Pseudomonas putida enoyl-coenzyme A hydratase TR:Q51969 (EMBL:U24215) (355 aa) fasta scores: E(): 1.9e-29, 38.66% id in 375 aa, and to Pseudomonas aeruginosa probable enoyl-CoA hydratase/isomerase Pa0744 TR:Q9I5I5 (EMBL:AE004509) (367 aa) fasta scores: E(): 1.5e-41, 46.47% id in 383 aa; enoly-CoA hydratase 1520417..1521589 Bordetella pertussis Tohama I 2665941 NP_880189.1 CDS mmsB NC_002929.2 1521637 1522530 D Similar to Pseudomonas aeruginosa 3-hydroxyisobutyrate dehydrogenase MmsB or Pa3569 SW:MMSB_PSEAE (P28811) (298 aa) fasta scores: E(): 4.2e-66, 67% id in 294 aa, and to Rhizobium loti 3-hydroxyisobutyrate dehydrogenase Mlr1203 TR:Q98L30 (EMBL:AP002996) (294 aa) fasta scores: E(): 3.1e-44, 50.69% id in 290 aa; 3-hydroxyisobutyrate dehydrogenase 1521637..1522530 Bordetella pertussis Tohama I 2665942 NP_880190.1 CDS BP1448 NC_002929.2 1522576 1523013 D Similar to Rhizobium loti Mlr6946 protein TR:Q987R7 (EMBL:AP003010) (171 aa) fasta scores: E(): 5.5e-18, 48.85% id in 131 aa, and to Agrobacterium tumefaciens Agr_c_483p TR:AAK86098 (EMBL:AE007967) (149 aa) fasta scores: E(): 7.3e-14, 39.09% id in 133 aa; hypothetical protein 1522576..1523013 Bordetella pertussis Tohama I 2665943 NP_880191.1 CDS BP1449 NC_002929.2 1523073 1523762 D Similar to Caulobacter crescentus nodulin-related protein Cc0717 TR:Q9AA89 (EMBL:AE005747) (233 aa) fasta scores: E(): 8.4e-38, 60.71% id in 224 aa, and to Rhizobium loti Mlr6622 protein TR:Q988S0 (EMBL:AP003009) (231 aa) fasta scores: E(): 3.8e-37, 60.26% id in 224 aa; hypothetical protein 1523073..1523762 Bordetella pertussis Tohama I 2665944 NP_880192.1 CDS BP1450 NC_002929.2 1523772 1524722 R transposase for IS481 element; transposase complement(1523772..1524722) Bordetella pertussis Tohama I 2665945 NP_880193.1 CDS talB NC_002929.2 1524821 1525783 R Maintains the balance of metabolites in the pentose-phosphate pathway; transaldolase B complement(1524821..1525783) Bordetella pertussis Tohama I 2665946 NP_880194.1 CDS carA NC_002929.2 1526067 1527164 D catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers; carbamoyl phosphate synthase small subunit 1526067..1527164 Bordetella pertussis Tohama I 2665947 NP_880195.1 CDS carB NC_002929.2 1527175 1530417 D four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity; carbamoyl phosphate synthase large subunit 1527175..1530417 Bordetella pertussis Tohama I 2665948 NP_880196.1 CDS gpmB NC_002929.2 1531439 1532083 R Similar to Escherichia coli probable phosphoglycerate mutase 2 GpmB or B4395 SW:PMG2_ECOLI (P36942) (215 aa) fasta scores: E(): 6e-15, 31.16% id in 215 aa, and to Arabidopsis thaliana phosphoglyerate mutase TR:AAK59606 (EMBL:AY035101) (230 aa) fasta scores: E(): 2.2e-21, 38.57% id in 210 aa; phosphoglycerate mutase complement(1531439..1532083) Bordetella pertussis Tohama I 2665786 NP_880197.1 CDS BP1456 NC_002929.2 1532094 1532993 R Similar to the previously sequenced Bordetella pertussis Brg1 TR:O30441 (EMBL:AF006000) (291 aa) fasta scores: E(): 9.6e-14, 30.46% id in 302 aa, and to Neisseria meningitidis LysR-family transcriptional regulator Nma1437 or Nmb1049 TR:Q9JRJ3 (EMBL:AL162755) (304 aa) fasta scores: E(): 5e-19, 31.52% id in 295 aa; LysR family transcriptional regulator complement(1532094..1532993) Bordetella pertussis Tohama I 2665787 NP_880198.1 CDS BP1457 NC_002929.2 1533041 1534126 R Similar to Escherichia coli putrescine transport ATP-binding protein PotG or B0855 SW:POTG_ECOLI (P31134) (377 aa) fasta scores: E(): 4.2e-46, 44.1% id in 331 aa, and to Rhizobium meliloti ATP-binding ABC transporter protein smc01608 TR:CAC46799 (EMBL:AL591790) (353 aa) fasta scores: E(): 1.2e-48, 45.74% id in 341 aa; ABC transporter ATP-binding protein complement(1533041..1534126) Bordetella pertussis Tohama I 2665788 NP_880199.1 CDS BP1458 NC_002929.2 1534123 1535817 R Similar to Actinobacillus pleuropneumoniae ferric transport system permease AfuB SW:AFUB_ACTPL (Q44123) (687 aa) fasta scores: E(): 4.3e-38, 28% id in 550 aa, and to Agrobacterium tumefaciens Agr_l_586p agr_l_586 TR:AAK88866 (EMBL:AE008229) (561 aa) fasta scores: E(): 2.3e-50, 34.22% id in 564 aa; ABC transporter permease complement(1534123..1535817) Bordetella pertussis Tohama I 2665789 NP_880200.1 CDS BP1459 NC_002929.2 1535996 1536946 D transposase for IS481 element; transposase 1535996..1536946 Bordetella pertussis Tohama I 2665790 NP_880201.1 CDS aroC NC_002929.2 1538500 1539561 D catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis; chorismate synthase 1538500..1539561 Bordetella pertussis Tohama I 2665792 NP_880202.1 CDS BP1463 NC_002929.2 1539595 1540431 D Similar to Pseudomonas aeruginosa hypothetical protein Pa4632 TR:Q9HVF9 (EMBL:AE004877) (273 aa) fasta scores: E(): 6.6e-50, 53% id in 266 aa, and to Vibrio cholerae hypothetical protein Vca0581 TR:Q9KM08 (EMBL:AE004389) (263 aa) fasta scores: E(): 5.6e-24, 36.53% id in 271 aa; lipoprotein 1539595..1540431 Bordetella pertussis Tohama I 2665793 NP_880203.1 CDS mobB NC_002929.2 1540441 1540983 R Similar to Escherichia coli molybdopterin-guanine dinucleotide biosynthesis protein B MobB or B3856 SW:MOBB_ECOLI (P32125) (174 aa) fasta scores: E(): 1.4e-19, 42.51% id in 167 aa, and to Rhizobium loti molybdopterin-guanine dinucleotide biosynthesis protein B Mlr0548 TR:Q98MK1 (EMBL:AP002995) (167 aa) fasta scores: E(): 4.9e-29, 54.08% id in 159 aa; molybdopterin-guanine dinucleotide biosynthesis protein B complement(1540441..1540983) Bordetella pertussis Tohama I 2665794 NP_880204.1 CDS moeA NC_002929.2 1540997 1542289 R Similar to Escherichia coli molybdopterin biosynthesis protein MoeA or ChlE or BisB or NarE or B0827 SW:MOEA_ECOLI (P12281) (411 aa) fasta scores: E(): 1.5e-63, 47.5% id in 400 aa, and to Vibrio cholerae molybdopterin biosynthesis MoeA protein Vc1527 TR:Q9KRV7 (EMBL:AE004231) (606 aa) fasta scores: E(): 6.6e-59, 43.72% id in 430 aa; molybdopterin biosynthesis protein complement(1540997..1542289) Bordetella pertussis Tohama I 2665618 NP_880205.1 CDS mobA NC_002929.2 1542286 1542879 R in Escherichia coli MobA links a guanosine 5'-phosphate to molydopterin to form molybdopterin guanine dinucleotide during molybdenum cofactor biosynthesis; molybdopterin-guanine dinucleotide biosynthesis protein MobA complement(1542286..1542879) Bordetella pertussis Tohama I 2665619 NP_880206.1 CDS BP1467 NC_002929.2 1543032 1544129 D Similar to Escherichia coli Mrp protein Mrp or B2113 SW:MRP_ECOLI (P21590) (369 aa) fasta scores: E(): 1e-54, 50% id in 334 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3481 TR:Q9HYC8 (EMBL:AE004769) (364 aa) fasta scores: E(): 3.9e-65, 53.61% id in 360 aa.Also similar to BP0182, 60.000% identity (60.167% ungapped) in 360 aa overlap.; iron sulfur binding protein 1543032..1544129 Bordetella pertussis Tohama I 2665620 NP_880207.1 CDS BP1468 NC_002929.2 1544136 1544696 D hypothetical protein 1544136..1544696 Bordetella pertussis Tohama I 2665621 NP_880208.1 CDS BP1469 NC_002929.2 1544693 1545373 D hypothetical protein 1544693..1545373 Bordetella pertussis Tohama I 2665622 NP_880209.1 CDS BP1470 NC_002929.2 1545397 1547487 D Similar to Vibrio cholerae iron-sulfur cluster-binding protein Vc1516 TR:Q9KRW8 (EMBL:AE004230) (553 aa) fasta scores: E(): 7.7e-19, 35.92% id in 451 aa; iron-sulfur binding protein 1545397..1547487 Bordetella pertussis Tohama I 2665623 NP_880210.1 CDS BP1471 NC_002929.2 1547484 1548113 D Similar to Vibrio cholerae chaperone, formate dehydrogenase-specific, Vc1515 TR:Q9KRW9 (EMBL:AE004230) (218 aa) fasta scores: E(): 1.1e-21, 43.54% id in 186 aa, and to Vibrio cholerae TorD protein Vc1720 TR:Q9KRC2 (EMBL:AE004250) (220 aa) fasta scores: E(): 0.0061, 25% id in 204 aa; hypothetical protein 1547484..1548113 Bordetella pertussis Tohama I 2665624 NP_880211.1 CDS fdhA NC_002929.2 1548567 1551458 D Similar to Wolinella succinogenes formate dehydrogenase large subunit precursor FdhA TR:P28179 (EMBL:X54057) (939 aa) fasta scores: E(): 2.4e-89, 43.78% id in 973 aa, and to Campylobacter jejuni formate dehydrogenase large subunit FdhA or Cj1511 TR:Q9PMF2 (EMBL:AL139078) (934 aa) fasta scores: E(): 9.8e-103, 44.84% id in 961 aa; formate dehydrogenase large subunit 1548567..1551458 Bordetella pertussis Tohama I 2665625 NP_880212.1 CDS BP1474 NC_002929.2 1552093 1552326 D no significant database matches; lipoprotein 1552093..1552326 Bordetella pertussis Tohama I 2665627 NP_880213.1 CDS fdhC NC_002929.2 1552339 1553496 D Similar to Wolinella succinogenes formate dehydrogenase subunit C precursor FdhC TR:P28180 (EMBL:X54057) (306 aa) fasta scores: E(): 2.3e-08, 27.75% id in 245 aa, and to Vibrio cholerae formate dehydrogenase, cytochrome B556 subunit Vc1511 TR:Q9KRX2 (EMBL:AE004229) (357 aa) fasta scores: E(): 3e-34, 36.9% id in 336 aa; formate dehydrogenase subunit C 1552339..1553496 Bordetella pertussis Tohama I 2665628 NP_880214.1 CDS BP1476 NC_002929.2 1553519 1553893 D no significant database matches; hypothetical protein 1553519..1553893 Bordetella pertussis Tohama I 2665629 NP_880215.1 CDS BP1477 NC_002929.2 1553927 1555042 R Similar to Alcaligenes eutrophus formate dehydrogenase FdsR TR:Q9RBF7 (EMBL:AJ007718) (299 aa) fasta scores: E(): 5.6e-30, 39.23% id in 288 aa, and to Bacillus subtilis YvgK protein YvgK TR:O32207 (EMBL:Z99121) (308 aa) fasta scores: E(): 7.8e-19, 30.47% id in 315 aa; hypothetical protein complement(1553927..1555042) Bordetella pertussis Tohama I 2665630 NP_880216.1 CDS BP1479 NC_002929.2 1555942 1556646 D Similar to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa3442 TR:Q9HYG4 (EMBL:AE004765) (274 aa) fasta scores: E(): 1.7e-16, 41.12% id in 214 aa, and to Agrobacterium tumefaciens Agr_l_1395p TR:AAK89278 (EMBL:AE008268) (276 aa) fasta scores: E(): 2.6e-17, 37.26% id in 212 aa; ABC transporter ATP-binding protein 1555942..1556646 Bordetella pertussis Tohama I 2665632 NP_880217.1 CDS BP1480 NC_002929.2 1556643 1557461 D Similar to Eubacterium acidaminophilum extracellular tungstate binding protein precursor TupA TR:CAC40782 (EMBL:AJ291988) (286 aa) fasta scores: E(): 1e-40, 51.21% id in 248 aa, and to Vibrio cholerae hypothetical protein Vc1523 TR:Q9KRW1 (EMBL:AE004231) (275 aa) fasta scores: E(): 2.8e-42, 47.14% id in 263 aa; hypothetical protein 1556643..1557461 Bordetella pertussis Tohama I 2666596 NP_880218.1 CDS leuC NC_002929.2 1557745 1559148 D dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; isopropylmalate isomerase large subunit 1557745..1559148 Bordetella pertussis Tohama I 2666597 NP_880219.1 CDS leuD NC_002929.2 1559163 1559813 D catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D; isopropylmalate isomerase small subunit 1559163..1559813 Bordetella pertussis Tohama I 2666598 NP_880220.1 CDS leuB NC_002929.2 1559895 1560971 D catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis; 3-isopropylmalate dehydrogenase 1559895..1560971 Bordetella pertussis Tohama I 2666599 NP_880221.1 CDS asd NC_002929.2 1561158 1562288 D catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde; aspartate-semialdehyde dehydrogenase 1561158..1562288 Bordetella pertussis Tohama I 2666600 NP_880222.1 CDS BP1485 NC_002929.2 1562459 1564042 D Similar to The N-terminal region of Pseudomonas aeruginosa twitching motility protein FimV TR:O87015 (EMBL:U93274) (927 aa) fasta scores: E(): 4.1e-09, 28.87% id in 561 aa; hypothetical protein 1562459..1564042 Bordetella pertussis Tohama I 2665775 NP_880223.1 CDS truA NC_002929.2 1564046 1564858 D mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability; tRNA pseudouridine synthase A 1564046..1564858 Bordetella pertussis Tohama I 2665776 NP_880224.1 CDS smoM NC_002929.2 1565003 1566097 D Similar to Rhodobacter sphaeroides periplasmic mannitol-binding protein SmoM TR:O30835 (EMBL:AF018073) (365 aa) fasta scores: E(): 1.1e-78, 54.9% id in 357 aa, and to Rhizobium loti periplasmic mannitol-binding protein, SmoM Mlr5166 TR:Q98CF9 (EMBL:AP003005) (369 aa) fasta scores: E(): 5.4e-77, 54.62% id in 368 aa; mannitol ABC transporter substrate-binding protein 1565003..1566097 Bordetella pertussis Tohama I 2665777 NP_880225.1 CDS BP1488 NC_002929.2 1566309 1566938 D Similar to Rhizobium meliloti hypothetical transmembrane protein Smc04248 TR:CAC46497 (EMBL:AL591788) (191 aa) fasta scores: E(): 6.9e-34, 53.48% id in 172 aa, and to Rhizobium loti Mll5171 protein TR:Q98CF5 (EMBL:AP003005) (194 aa) fasta scores: E(): 3.9e-34, 50.78% id in 191 aa. Almost identical to BP0596, 99.522% identity in 209 aa overlap.; hypothetical protein 1566309..1566938 Bordetella pertussis Tohama I 2665778 NP_880226.1 CDS BP1489 NC_002929.2 1566941 1568608 D Similar to Rhizobium meliloti hypothetical transmembrane protein Smc04249 TR:CAC46498 (EMBL:AL591788) (597 aa) fasta scores: E(): 8.1e-127, 61.42% id in 560 aa, and to Rhizobium loti Mll5170 protein Mll5170 TR:Q98CF6 (EMBL:AP003005) (589 aa) fasta scores: E(): 2.5e-122, 61.38% id in 549 aa; hypothetical protein 1566941..1568608 Bordetella pertussis Tohama I 2665779 NP_880227.1 CDS trpF NC_002929.2 1568623 1569279 D catalyzes the formation of 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate from N-(5-phospho-beta-D-ribosyl)-anthranilate in tryptophan biosynthesis; N-(5'-phosphoribosyl)anthranilate isomerase 1568623..1569279 Bordetella pertussis Tohama I 2665795 NP_880228.1 CDS BP1491 NC_002929.2 1569759 1570709 D transposase for IS481 element; transposase 1569759..1570709 Bordetella pertussis Tohama I 2665796 NP_880229.1 CDS BP1492 NC_002929.2 1570741 1571838 D Similar to the C-terminal regions of Salmonella typhimurium AdrA protein AdrA TR:Q9L401 (EMBL:AJ271071) (370 aa) fasta scores: E(): 8.8e-15, 34.71% id in 193 aa, and to Escherichia coli hypothetical protein YaiC or B0385 SW:YAIC_ECOLI (P21830) (371 aa) fasta scores: E(): 1e-14, 34.57% id in 188 aa; hypothetical protein 1570741..1571838 Bordetella pertussis Tohama I 2665797 NP_880230.1 CDS BP1493 NC_002929.2 1571835 1572785 R transposase for IS481 element; transposase complement(1571835..1572785) Bordetella pertussis Tohama I 2665798 NP_880231.1 CDS BP1495 NC_002929.2 1573207 1573599 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3688 TR:Q9HXV2 (EMBL:AE004788) (114 aa) fasta scores: E(): 3.7, 27.55% id in 98 aa; hypothetical protein complement(1573207..1573599) Bordetella pertussis Tohama I 2665800 NP_880232.1 CDS BP1496 NC_002929.2 1573605 1574264 R Similar to Escherichia coli capsular synthesis regulator component B RcsB or B2217 or Z3476 or Ecs3106 SW:RCSB_ECOLI (P14374) (216 aa) fasta scores: E(): 1.7e-12, 30.73% id in 205 aa, and to Pseudomonas aeruginosa probable two-component response regulator Pa3714 TR:Q9HXS7 (EMBL:AE004790) (213 aa) fasta scores: E(): 6.9e-16, 32.38% id in 210 aa; two-component response regulator complement(1573605..1574264) Bordetella pertussis Tohama I 2665801 NP_880233.1 CDS thrS NC_002929.2 1574769 1576718 D 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; catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr); threonyl-tRNA synthetase 1574769..1576718 Bordetella pertussis Tohama I 2665802 NP_880234.1 CDS infC NC_002929.2 1576790 1577284 D 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; translation initiation factor IF-3 1576790..1577284 Bordetella pertussis Tohama I 2665803 NP_880235.1 CDS gshB NC_002929.2 1577421 1578377 D catalyzes the second step in the glutathione biosynthesis pathway, where it synthesizes ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione; glutathione synthetase 1577421..1578377 Bordetella pertussis Tohama I 2665804 NP_880236.1 CDS BP1500 NC_002929.2 1578388 1578786 D Similar to Vibrio furnissii PTS permease for mannose subunit IIIman N terminal domain ManW TR:P96165 (EMBL:U65015) (146 aa) fasta scores: E(): 0.00043, 33.33% id in 138 aa, and to Neisseria meningitidis sugar transport PTS system IIa component nma0390 TR:Q9JWF9 (EMBL:AL162753) (145 aa) fasta scores: E(): 9.9e-08, 29.85% id in 134 aa; PTS system sugar transporter subunit IIA 1578388..1578786 Bordetella pertussis Tohama I 2665805 NP_880237.1 CDS ptsH NC_002929.2 1578902 1579171 D Similar to Alcaligenes eutrophus phosphocarrier protein HPr PhbH SW:PTHP_ALCEU (P23537) (89 aa) fasta scores: E(): 1.6e-15, 57.3% id in 89 aa, and to Neisseria meningitidis phosphocarrier protein HPr PtsH or Nma0391 or Nmb2045 SW:PTHP_NEIMA (Q9JQN1) (89 aa) fasta scores: E(): 3e-13, 49.43% id in 89 aa; phosphocarrier protein HPr 1578902..1579171 Bordetella pertussis Tohama I 2665758 NP_880238.1 CDS ptsI NC_002929.2 1579293 1580987 D Similar to Escherichia coli phosphoenolpyruvate-protein phosphotransferase PtsI or B2416 SW:PT1_ECOLI (P08839) (575 aa) fasta scores: E(): 1.9e-68, 39.03% id in 561 aa, and to Neisseria meningitidis phosphoenolpyruvate-protein phosphotransferase PtsI or Nma0392 TR:Q9JWF8 (EMBL:AL162753) (591 aa) fasta scores: E(): 1.8e-85, 44.82% id in 551 aa; phosphoenolpyruvate-protein phosphotransferase 1579293..1580987 Bordetella pertussis Tohama I 2665759 NP_880239.1 CDS BP1503 NC_002929.2 1581152 1581376 R Similar to Homo sapiens proline rich peptide P-B precursor PbII TR:Q9UBN0 (EMBL:D29833) (79 aa) fasta scores: E(): 6.7, 38.59% id in 57 aa; hypothetical protein complement(1581152..1581376) Bordetella pertussis Tohama I 2665760 NP_880240.1 CDS BP1505 NC_002929.2 1581975 1582925 D catalyzes the formation of L-proline from L-ornithine; ornithine cyclodeaminase 1581975..1582925 Bordetella pertussis Tohama I 2666601 NP_880241.1 CDS BP1506 NC_002929.2 1582967 1584127 D Similar to Deinococcus radiodurans branched-chain amino acid ABC transporter periplasmic amino acid- binding protein Dra0263 TR:Q9RYP6 (EMBL:AE001863) (424 aa) fasta scores: E(): 1.3e-66, 50.81% id in 370 aa, and to Agrobacterium tumefaciens Agr_c_2609p TR:AAK87205 (EMBL:AE008067) (387 aa) fasta scores: E(): 1.5e-52, 44.08% id in 372 aa. Similar to BP3568 (52.926% identity in 376 aa overlap); amino acid ABC transporter substrate-binding protein 1582967..1584127 Bordetella pertussis Tohama I 2666602 NP_880242.1 CDS BP1507 NC_002929.2 1584288 1585208 D Similar to Desulfitobacterium dehalogenans ABC transporter binding protein-like protein AabH TR:Q9APF8 (EMBL:AF299117) (269 aa) fasta scores: E(): 7.4e-41, 45.98% id in 274 aa, and to Streptomyces coelicolor probable amino acid ABC transporter protein, solute-binding component Sce20.02 TR:Q9RDC3 (EMBL:AL136058) (309 aa) fasta scores: E(): 1e-39, 43.1% id in 290 aa; extracellular solute-binding protein 1584288..1585208 Bordetella pertussis Tohama I 2666603 NP_880243.1 CDS BP1508 NC_002929.2 1585221 1585862 D Similar to Rhizobium meliloti amino acid ABC transporter permease Smb20429 TR:CAC48815 (EMBL:AL603643) (219 aa) fasta scores: E(): 1.9e-33, 52.91% id in 206 aa, and to Agrobacterium tumefaciens Agr_l_252p TR:AAK88696 (EMBL:AE008210) (221 aa) fasta scores: E(): 1.7e-30, 49.75% id in 207 aa; binding-protein-dependent transport system inner membrane protein 1585221..1585862 Bordetella pertussis Tohama I 2666604 NP_880244.1 CDS BP1509 NC_002929.2 1585859 1586530 D Similar to Rhizobium meliloti amino acid ABC transporter permease Smb20430 TR:CAC48816 (EMBL:AL603643) (220 aa) fasta scores: E(): 3.2e-42, 55.45% id in 211 aa, and to Streptomyces coelicolor probable amino acid ABC transporter protein, integral membrane component Sce20.04 TR:Q9RDC1 (EMBL:AL136058) (216 aa) fasta scores: E(): 2.2e-36, 52.31% id in 216 aa; binding-protein-dependent transport system inner membrane protein 1585859..1586530 Bordetella pertussis Tohama I 2666605 NP_880245.1 CDS BP1510 NC_002929.2 1586527 1587297 D Similar to Rhizobium sp probable amino acid ABC transporter ATP-binding protein Y4th SW:Y4TH_RHISN () (257 aa) fasta scores: E(): 2e-45, 54.29% id in 256 aa, and to Rhizobium meliloti amino acid ABC transporter ATP-binding protein smb20427 TR:CAC48813 (EMBL:AL603643) (261 aa) fasta scores: E(): 7.4e-45, 53.57% id in 252 aa. Similar to several B. pertussis CDSs: BP1181, P3828, BP1534, BP1855, BP1575, BP1362, P0768, and BP0054.; ABC transporter ATP-binding protein 1586527..1587297 Bordetella pertussis Tohama I 2667221 NP_880246.1 CDS BP1511 NC_002929.2 1587396 1588346 D transposase for IS481 element; transposase 1587396..1588346 Bordetella pertussis Tohama I 2667222 NP_880247.1 CDS BP1512 NC_002929.2 1588563 1588967 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2706 TR:Q9I0D6 (EMBL:AE004698) (131 aa) fasta scores: E(): 2.7e-20, 48.06% id in 129 aa, and to Rhizobium loti Mll0824 protein TR:Q98LY2 (EMBL:AP002995) (138 aa) fasta scores: E(): 1.9e-15, 38.76% id in 129 aa; hypothetical protein complement(1588563..1588967) Bordetella pertussis Tohama I 2667223 NP_880248.1 CDS BP1513 NC_002929.2 1589041 1590231 R Catalyzes the reversible two-electron oxidation of formate to carbon dioxide. It allows the assimilation of carbon dioxide and provides energy for growth through oxidative phosphorylation coupled to the reduction of oxygen, nitrate, sulphate or fumarate; formate dehydrogenase complement(1589041..1590231) Bordetella pertussis Tohama I 2667224 NP_880249.1 CDS BP1514 NC_002929.2 1590265 1590591 R Similar to Methylophilus methylotrophus regulatory protein FmdB SW:FMDB_METME () (112 aa) fasta scores: E(): 6.1e-09, 39.82% id in 113 aa, and to Caulobacter crescentus hypothetical protein Cc2510 TR:Q9A5E0 (EMBL:AE005919) (106 aa) fasta scores: E(): 1.2, 34.24% id in 73 aa; hypothetical protein complement(1590265..1590591) Bordetella pertussis Tohama I 2667225 NP_880250.1 CDS BP1515 NC_002929.2 1590614 1591129 R Similar to Streptococcus salivarius UreI TR:Q55052 (EMBL:AF042344) (171 aa) fasta scores: E(): 2e-18, 39.53% id in 172 aa, and to Pseudomonas aeruginosa transporter protein AmiS SW:AMIS_PSEAE () (171 aa) fasta scores: E(): 1.8e-30, 51.47% id in 169 aa; transporter protein complement(1590614..1591129) Bordetella pertussis Tohama I 2667226 NP_880251.1 CDS fmdA NC_002929.2 1591188 1592414 R Similar to Methylophilus methylotrophus formamidase FmdA SW:FMDA_METME (Q50228) (407 aa) fasta scores: E(): 2e-125, 71.53% id in 397 aa, and to Emericella nidulans formamidase FmdS TR:Q9C453 (EMBL:AF274009) (411 aa) fasta scores: E(): 2e-91, 53.56% id in 407 aa; formamidase complement(1591188..1592414) Bordetella pertussis Tohama I 2667227 NP_880252.1 CDS BP1517 NC_002929.2 1592592 1593722 R Similar to Rhizobium loti Mll1934 protein TR:Q98JH9 (EMBL:AP002998) (390 aa) fasta scores: E(): 5.7e-09, 23.54% id in 361 aa, and to Agrobacterium tumefaciens Agr_c_3081p TR:AAK87447 (EMBL:AE008089) (365 aa) fasta scores: E(): 3e-07, 24.28% id in 350 aa; LuxR family transcriptional regulator complement(1592592..1593722) Bordetella pertussis Tohama I 2667228 NP_880253.1 CDS BP1518 NC_002929.2 1593978 1594538 D Similar to Pseudomonas aeruginosa hypothetical protein Pa4875 TR:Q9HUT8 (EMBL:AE004901) (98 aa) fasta scores: E(): 1.9e-18, 61.22% id in 98 aa, and to Deinococcus radiodurans hypothetical 12.2 kDa protein Dr0134 TR:Q9RY18 (EMBL:AE001876) (114 aa) fasta scores: E(): 3.5e-16, 47.32% id in 112 aa; hypothetical protein 1593978..1594538 Bordetella pertussis Tohama I 2667229 NP_880254.1 CDS fba NC_002929.2 1594675 1595739 D class II aldolase; catalyzes the reversible aldol condensation of dihydroxyacetonephosphate and glyceraldehyde 3-phosphate in the Calvin cycle, glycolysis and gluconeogenesis; fructose-1,6-bisphosphate aldolase 1594675..1595739 Bordetella pertussis Tohama I 2667230 NP_880255.1 CDS BP1520 NC_002929.2 1595824 1596270 R Similar to Caulobacter crescentus hypothetical protein Cc3092 TR:Q9A3V9 (EMBL:AE005972) (134 aa) fasta scores: E(): 4.2e-22, 46.97% id in 132 aa, and to Rhizobium loti Mlr0112 protein TR:Q98NJ4 (EMBL:AP002994) (132 aa) fasta scores: E(): 1.4e-12, 34.09% id in 132 aa; hypothetical protein complement(1595824..1596270) Bordetella pertussis Tohama I 2667231 NP_880256.1 CDS hemH NC_002929.2 1596495 1597376 D catalyzes the formation of (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4- carboxamido)succinate from 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate and L-aspartate in purine biosynthesis; SAICAR synthase; phosphoribosylaminoimidazole-succinocarboxamide synthase 1596495..1597376 Bordetella pertussis Tohama I 2667232 NP_880257.1 CDS BP1522 NC_002929.2 1597509 1597682 D Similar to Alcaligenes eutrophus hypothetical 10.9 kDa protein TR:Q9ZAL5 (EMBL:Y10831) (98 aa) fasta scores: E(): 1.1e-16, 71.93% id in 57 aa, and to Xylella fastidiosa hypothetical protein Xf2490 TR:Q9PAL4 (EMBL:AE004057) (100 aa) fasta scores: E(): 6.4e-12, 67.24% id in 58 aa; hypothetical protein 1597509..1597682 Bordetella pertussis Tohama I 2667233 NP_880258.1 CDS BP1523 NC_002929.2 1597685 1598086 D Similar to Alcaligenes eutrophus hypothetical 14.2 kDa protein TR:Q9ZAL4 (EMBL:Y10831) (133 aa) fasta scores: E(): 3.3e-41, 77.27% id in 132 aa, and to Xylella fastidiosa hypothetical protein Xf2491 TR:Q9PAL3 (EMBL:AE004057) (133 aa) fasta scores: E(): 1.9e-34, 65.15% id in 132 aa; DNA-binding protein 1597685..1598086 Bordetella pertussis Tohama I 2666818 NP_880259.1 CDS BP1524 NC_002929.2 1598106 1598342 D no significant database matches; hypothetical protein 1598106..1598342 Bordetella pertussis Tohama I 2666819 NP_880260.1 CDS BP1525 NC_002929.2 1598350 1598829 D Similar to Agrobacterium tumefaciens Agr_l_2587p TR:AAK89860 (EMBL:AE008329) (171 aa) fasta scores: E(): 0.96, 29.03% id in 155 aa; hypothetical protein 1598350..1598829 Bordetella pertussis Tohama I 2666820 NP_880261.1 CDS purE NC_002929.2 1599015 1599494 D Similar to Escherichia coli phosphoribosylaminoimidazole carboxylase catalytic subunit PurE or B0523 or Z0678 or Ecs0585 SW:PUR6_ECOLI (P09028) (168 aa) fasta scores: E(): 2e-25, 56.08% id in 148 aa, and to Neisseria meningitidis phosphoribosylaminoimidazole carboxylase catalytic subunit PurE or nma1651 TR:Q9JTS6 (EMBL:AL162756) (161 aa) fasta scores: E(): 5e-35, 67.09% id in 155 aa; phosphoribosylaminoimidazole carboxylase catalytic subunit 1599015..1599494 Bordetella pertussis Tohama I 2666821 NP_880262.1 CDS purK NC_002929.2 1599497 1600687 D With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway; phosphoribosylaminoimidazole carboxylase ATPase subunit 1599497..1600687 Bordetella pertussis Tohama I 2666822 NP_880263.1 CDS BP1528 NC_002929.2 1600692 1601744 D Similar to Thermomonospora fusca hypothetical 34.2 kDa protein TR:Q9XCD2 (EMBL:AF144563) (335 aa) fasta scores: E(): 4.6e-26, 46.47% id in 340 aa, and to Bacillus halodurans Bh3771 protein TR:Q9K6F8 (EMBL:AP001519) (348 aa) fasta scores: E(): 1e-22, 38.71% id in 341 aa; hypothetical protein 1600692..1601744 Bordetella pertussis Tohama I 2666823 NP_880264.1 CDS BP1529 NC_002929.2 1601881 1602903 D Similar to Escherichia coli amino acid ABC transporter binding protein YhdW precursor YhdW or B3268 SW:YHDW_ECOLI (P45766) (341 aa) fasta scores: E(): 2.5e-70, 54.22% id in 343 aa, and to Rhizobium meliloti probable general L-amino acid-binding periplasmic ABC transporter protein TR:CAC46057 (EMBL:AL591787) (341 aa) fasta scores: E(): 3.4e-70, 53.93% id in 343 aa; amino acid ABC transporter substrate-binding protein 1601881..1602903 Bordetella pertussis Tohama I 2666824 NP_880265.1 CDS BP1530 NC_002929.2 1602995 1603831 D Similar to Pseudomonas putida PcaR protein TR:Q9R9T0 (EMBL:AJ252090) (291 aa) fasta scores: E(): 6.5e-21, 31.66% id in 240 aa, and to Pseudomonas aeruginosa transcriptional regulator PcaR or Pa0155 TR:Q9I6X7 (EMBL:AE004453) (279 aa) fasta scores: E(): 7.9e-22, 32.66% id in 248 aa; transcriptional regulator 1602995..1603831 Bordetella pertussis Tohama I 2666825 NP_880266.1 CDS BP1531 NC_002929.2 1604024 1604929 D Similar to Pseudomonas aeruginosa agmatinase SpeB1 or Pa0288 TR:Q9I6K2 (EMBL:AE004466) (318 aa) fasta scores: E(): 5.2e-33, 39.8% id in 304 aa, and to Streptomyces coelicolor agmatinase SpeB TR:Q9L083 (EMBL:AL163641) (302 aa) fasta scores: E(): 3.7e-32, 40.92% id in 281 aa; arginase 1604024..1604929 Bordetella pertussis Tohama I 2666826 NP_880267.1 CDS BP1532 NC_002929.2 1604956 1605747 D Similar to Escherichia coli cystine-binding periplasmic protein precursor FliY or B1920 SW:FLIY_ECOLI (P39174) (266 aa) fasta scores: E(): 3.8e-16, 30.38% id in 260 aa, and to Salmonella typhimurium FliY TR:Q9ZNM2 (EMBL:AB010947) (266 aa) fasta scores: E(): 1.9e-16, 31.03% id in 261 aa; amino acid ABC transporter substrate-binding protein 1604956..1605747 Bordetella pertussis Tohama I 2666797 NP_880268.1 CDS BP1533 NC_002929.2 1605770 1606462 D Similar to Thermotoga maritima amino acid ABC transporter permease Tm0592 TR:Q9WZ61 (EMBL:AE001734) (216 aa) fasta scores: E(): 1e-28, 42.57% id in 202 aa, and to Clostridium acetobutylicum amino acid ABC transporter permease component Cac3619 TR:Q97D61 (EMBL:AE007858) (217 aa) fasta scores: E(): 1.4e-27, 38.42% id in 216 aa; binding-protein-dependent transport system inner membrane protein 1605770..1606462 Bordetella pertussis Tohama I 2666798 NP_880269.1 CDS BP1534 NC_002929.2 1606484 1607236 D Similar to Escherichia coli hypothetical amino acid ABC transporter ATP-binding protein YhdZ YhdZ or B3271 SW:YHDZ_ECOLI (P45769) (252 aa) fasta scores: E(): 1.5e-58, 66.93% id in 245 aa, and to Pseudomonas marginalis pvalfalfae. hypothetical 28.9 kDa protein TR:O68330 (EMBL:AF033673) (254 aa) fasta scores: E(): 5.2e-59, 67.48% id in 243 aa. Similar to several B. pertussis CDSs: BP1181, P3828, BP0054, BP1855, BP1575, BP1362, P0768, and BP1510.; ABC transporter ATP-binding protein 1606484..1607236 Bordetella pertussis Tohama I 2666799 NP_880270.1 CDS BP1535 NC_002929.2 1607365 1608924 D thiamine-pyrophosphate requiring enzyme; hypothetical protein 1607365..1608924 Bordetella pertussis Tohama I 2666800 NP_880271.1 CDS BP1536 NC_002929.2 1609058 1609501 D Similar to Rhizobium loti Mlr2698 protein TR:Q98HV2 (EMBL:AP003000) (156 aa) fasta scores: E(): 2.3e-18, 42.75% id in 145 aa, and to Agrobacterium tumefaciens Agr_c_4066p TR:AAK87976 (EMBL:AE008139) (169 aa) fasta scores: E(): 3.9e-18, 40.97% id in 144 aa; hypothetical protein 1609058..1609501 Bordetella pertussis Tohama I 2666805 NP_880272.1 CDS gcdH NC_002929.2 1609639 1610832 R Similar to Mus musculus glutaryl-CoA dehydrogenase, mitochondrial precursor GcdH SW:GCDH_MOUSE (Q60759) (438 aa) fasta scores: E(): 3.4e-105, 65.99% id in 397 aa, and to Pseudomonas aeruginosa glutaryl-CoA dehydrogenase GcdH or Pa0447 TR:Q9I671 (EMBL:AE004482) (393 aa) fasta scores: E(): 1.1e-138, 84.38% id in 397 aa; glutaryl-CoA dehydrogenase complement(1609639..1610832) Bordetella pertussis Tohama I 2666806 NP_880273.1 CDS ilvG NC_002929.2 1610912 1612606 R catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; also known as acetolactate synthase large subunit; thiamine pyrophosphate protein complement(1610912..1612606) Bordetella pertussis Tohama I 2666807 NP_880274.1 CDS BP1539 NC_002929.2 1612764 1613651 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa0448 TR:Q9I670 (EMBL:AE004482) (302 aa) fasta scores: E(): 3.2e-45, 44.33% id in 291 aa, and to Rhizobium meliloti probable transcription regulator protein Smc04882 TR:CAC47866 (EMBL:AL591793) (297 aa) fasta scores: E(): 8.5e-39, 37.75% id in 294 aa; LysR family transcriptional regulator 1612764..1613651 Bordetella pertussis Tohama I 2666808 NP_880275.1 CDS xerD NC_002929.2 1613689 1614621 D site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; XerD specifically exchanges the bottom strands; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs; site-specific tyrosine recombinase XerD 1613689..1614621 Bordetella pertussis Tohama I 2666827 NP_880276.1 CDS BP1541 NC_002929.2 1614635 1615123 D Similar to Burkholderia solanacearum conserved hypothetical protein Rsc2545 TR:CAD16252 (EMBL:AL646070) (163 aa) fasta scores: E(): 7.4e-44, 69.75% id in 162 aa, and to Neisseria meningitidis hypothetical protein Nma1462 TR:Q9JU74 (EMBL:AL162756) (159 aa) fasta scores: E(): 2.6e-27, 44.72% id in 161 aa; hypothetical protein 1614635..1615123 Bordetella pertussis Tohama I 2666828 NP_880277.1 CDS BP1542 NC_002929.2 1615241 1615819 D Similar to Burkholderia solanacearum conserved hypothetical protein Rsc0416 TR:CAD13944 (EMBL:AL646059) (192 aa) fasta scores: E(): 1.1e-59, 77.6% id in 192 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4336 TR:Q9HW65 (EMBL:AE004850) (194 aa) fasta scores: E(): 4.2e-58, 78.53% id in 191 aa. Also similar to BP0064, 65.104% identity (65.104% ungapped) in 192 aa overlap.; hypothetical protein 1615241..1615819 Bordetella pertussis Tohama I 2666829 NP_880278.1 CDS BP1543 NC_002929.2 1615925 1616293 D Similar to Burkholderia solanacearum hypothetical protein Rsc0415 TR:CAD13943 (EMBL:AL646059) (134 aa) fasta scores: E(): 1.7e-32, 73.55% id in 121 aa, and to Agrobacterium tumefaciens Agr_l_852p TR:AAK88997 (EMBL:AE008241) (152 aa) fasta scores: E(): 5.8e-19, 49.13% id in 116 aa; hypothetical protein 1615925..1616293 Bordetella pertussis Tohama I 2666830 NP_880279.1 CDS BP1544 NC_002929.2 1616392 1617342 D transposase for IS481 element; transposase 1616392..1617342 Bordetella pertussis Tohama I 2666831 NP_880280.1 CDS pbpG NC_002929.2 1617349 1618128 R Similar to Escherichia coli penicillin-binding protein 7 precursor PbpG or B2134 SW:PBP7_ECOLI (P33364) (313 aa) fasta scores: E(): 3.1e-43, 49.81% id in 263 aa, and to Burkholderia solanacearum D-alanyl-D-alanine-endopeptidase Rsc1609 TR:CAD15311 (EMBL:AL646065) (375 aa) fasta scores: E(): 6.1e-50, 59.83% id in 244 aa; D-alanyl-D-alanine carboxypeptidase complement(1617349..1618128) Bordetella pertussis Tohama I 2666832 NP_880281.1 CDS BP1545A NC_002929.2 1618127 1618387 D no significant database matches; hypothetical protein 1618127..1618387 Bordetella pertussis Tohama I 2666833 NP_880282.1 CDS BP1546 NC_002929.2 1619148 1620350 D Similar to Pseudomonas aeruginosa probable MFS transporter Pa1286 TR:Q9I458 (EMBL:AE004558) (399 aa) fasta scores: E(): 9.9e-65, 49.61% id in 389 aa, and to Agrobacterium tumefaciens Agr_c_1918p TR:AAK86848 (EMBL:AE008034) (414 aa) fasta scores: E(): 4.1e-56, 41.87% id in 406 aa. Also similar to BP1973, 42.965% identity (43.959% ungapped) in 398 aa overlap.; hypothetical protein 1619148..1620350 Bordetella pertussis Tohama I 2666834 NP_880283.1 CDS BP1547 NC_002929.2 1620554 1623214 D Weakly similar to Caulobacter crescentus hypothetical protein Cc3537 TR:Q9A2M0 (EMBL:AE006012) (996 aa) fasta scores: E(): 1.6e-09, 26.54% id in 859 aa; hypothetical protein 1620554..1623214 Bordetella pertussis Tohama I 2666835 NP_880284.1 CDS BP1548 NC_002929.2 1623227 1626631 D Similar to Escherichia coli exodeoxyribonuclease V beta chain RecB or RorA or B2820 SW:EX5B_ECOLI (P08394) (1180 aa) fasta scores: E(): 0.0011, 23.34% id in 1118 aa, and to Rhizobium meliloti ATP-dependent nuclease/helicase Smc02760 TR:CAC41421 (EMBL:AL591782) (1189 aa) fasta scores: E(): 6.7e-17, 27.9% id in 1229 aa; nuclease/helicase 1623227..1626631 Bordetella pertussis Tohama I 2666779 NP_880285.1 CDS dnaX NC_002929.2 1627434 1629524 D catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA; DNA polymerase III subunits gamma and tau 1627434..1629524 Bordetella pertussis Tohama I 2666780 NP_880286.1 CDS BP1550 NC_002929.2 1629571 1629897 D Similar to Pseudomonas aeruginosa hypothetical protein Pa1533 TR:Q9I3I0 (EMBL:AE004581) (108 aa) fasta scores: E(): 4.5e-23, 63.88% id in 108 aa, and to Haemophilus influenzae protein Hi0442 SW:YBAB_HAEIN (P44711) (109 aa) fasta scores: E(): 3.9e-23, 63.2% id in 106 aa; hypothetical protein 1629571..1629897 Bordetella pertussis Tohama I 2666781 NP_880287.1 CDS recR NC_002929.2 1629948 1630556 D involved in a recombinational process of DNA repair, independent of the recBC complex; recombination protein RecR 1629948..1630556 Bordetella pertussis Tohama I 2666782 NP_880288.1 CDS BP1552 NC_002929.2 1630655 1631605 D transposase for IS481 element; transposase 1630655..1631605 Bordetella pertussis Tohama I 2666783 NP_880289.1 CDS BP1553 NC_002929.2 1631675 1632439 R no significant database matches; hypothetical protein complement(1631675..1632439) Bordetella pertussis Tohama I 2666784 NP_880290.1 CDS BP1554 NC_002929.2 1632436 1633035 R no significant database matches; hypothetical protein complement(1632436..1633035) Bordetella pertussis Tohama I 2666785 NP_880291.1 CDS BP1555 NC_002929.2 1633139 1633990 R Similar to Salmonella typhimurium LT2 inner membrane protein Stm2486 TR:AAL21380 (EMBL:AE008812) (287 aa) fasta scores: E(): 1.1e-58, 54.16% id in 288 aa, and to Yersinia pestis membrane protein Ypo3058 TR:CAC92300 (EMBL:AJ414155) (288 aa) fasta scores: E(): 6.4e-58, 52.92% id in 291 aa; hypothetical protein complement(1633139..1633990) Bordetella pertussis Tohama I 2666786 NP_880292.1 CDS BP1556 NC_002929.2 1634050 1634676 D Similar to Neisseria meningitidis hypothetical protein Nmb0436 TR:Q9K0X0 (EMBL:AE002400) (213 aa) fasta scores: E(): 9.9e-40, 54.54% id in 209 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3199 TR:Q9HZ41 (EMBL:AE004744) (209 aa) fasta scores: E(): 4.8e-38, 49.26% id in 203 aa; hypothetical protein 1634050..1634676 Bordetella pertussis Tohama I 2666787 NP_880293.1 CDS BP1557 NC_002929.2 1634673 1635623 R transposase for IS481 element; transposase complement(1634673..1635623) Bordetella pertussis Tohama I 2666788 NP_880294.1 CDS BP1558 NC_002929.2 1635722 1636843 R Similar to Rhizobium loti Mlr5529 protein TR:Q98BK7 (EMBL:AP003006) (367 aa) fasta scores: E(): 8.4e-57, 45.92% id in 368 aa, and to Agrobacterium tumefaciens Agr_c_487p TR:AAK86100 (EMBL:AE007967) (364 aa) fasta scores: E(): 5e-42, 36.92% id in 371 aa; hypothetical protein complement(1635722..1636843) Bordetella pertussis Tohama I 2666789 NP_880295.1 CDS BP1560 NC_002929.2 1637931 1639343 R Similar to Agrobacterium tumefaciens Agr_c_491p TR:AAK86102 (EMBL:AE007967) (513 aa) fasta scores: E(): 7.2e-104, 56.35% id in 472 aa, and to Rhizobium loti Mlr5527 protein TR:Q98BK9 (EMBL:AP003006) (533 aa) fasta scores: E(): 7.4e-104, 56.14% id in 472 aa; hypothetical protein complement(1637931..1639343) Bordetella pertussis Tohama I 2666791 NP_880296.1 CDS BP1561 NC_002929.2 1639439 1640749 R Similar to Rhizobium meliloti hypothetical signal peptide protein Smc00402 TR:CAC41759 (EMBL:AL591783) (426 aa) fasta scores: E(): 3e-56, 63.07% id in 436 aa, and to Agrobacterium tumefaciens Agr_c_493p TR:AAK86103 (EMBL:AE007967) (447 aa) fasta scores: E(): 3.2e-56, 63.69% id in 438 aa; hypothetical protein complement(1639439..1640749) Bordetella pertussis Tohama I 2666792 NP_880297.1 CDS BP1562 NC_002929.2 1640855 1641415 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3436 TR:Q9HYH0 (EMBL:AE004764) (185 aa) fasta scores: E(): 3e-32, 48.86% id in 176 aa, and to Deinococcus radiodurans conserved hypothetical protein Dr2141 TR:Q9RSI3 (EMBL:AE002048) (184 aa) fasta scores: E(): 2.1e-15, 31.79% id in 173 aa; hypothetical protein complement(1640855..1641415) Bordetella pertussis Tohama I 2666793 NP_880298.1 CDS BP1563 NC_002929.2 1641683 1642237 D Similar to Pseudomonas putida chromate reductase ChrR TR:AAK56852 (EMBL:AF375641) (186 aa) fasta scores: E(): 5.4e-24, 42.13% id in 178 aa, and to Rhizobium loti Mlr0414 protein TR:Q98MW2 (EMBL:AP002994) (192 aa) fasta scores: E(): 1.5e-26, 42.3% id in 182 aa; chromate reductase 1641683..1642237 Bordetella pertussis Tohama I 2666794 NP_880299.1 CDS BP1565 NC_002929.2 1642693 1642908 R Similar to Streptomyces coelicolor hypothetical 9.6 kDa protein Scm10.03 TR:Q9RCZ5 (EMBL:AL133469) (85 aa) fasta scores: E(): 9.8e-16, 59.15% id in 71 aa, and to Rhizobium meliloti hypothetical protein Smb20068 TR:CAC48468 (EMBL:AL603642) (69 aa) fasta scores: E(): 1.3e-14, 61.76% id in 68 aa; hypothetical protein complement(1642693..1642908) Bordetella pertussis Tohama I 2666795 NP_880300.1 CDS mutS NC_002929.2 1643109 1645760 D This protein performs the mismatch recognition step during the DNA repair process; DNA mismatch repair protein MutS 1643109..1645760 Bordetella pertussis Tohama I 2665594 NP_880301.1 CDS BP1567 NC_002929.2 1645757 1646944 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2630 TR:Q9I0K8 (EMBL:AE004691) (389 aa) fasta scores: E(): 1.6e-40, 39.85% id in 409 aa, and to Escherichia coli hypothetical protein YcfD ycfd or b1128 SW:YCFD_ECOLI (P27431) (373 aa) fasta scores: E(): 3.3e-31, 35.24% id in 383 aa; hypothetical protein 1645757..1646944 Bordetella pertussis Tohama I 2665595 NP_880302.1 CDS fim3 NC_002929.2 1647602 1648216 D Identical to the previously sequenced Bordetella pertussis serotype 3 fimbrial subunit precursor Fim3 SW:FM3_BORPE (P17835) (204 aa) fasta scores: E(): 1.7e-74, 100% id in 204 aa; serotype 3 fimbrial subunit 1647602..1648216 Bordetella pertussis Tohama I 2665596 NP_880303.1 CDS BP1569 NC_002929.2 1648305 1649432 R Similar to Burkholderia solanacearum probable transmembrane protein Rsc1146 TR:CAD14848 (EMBL:AL646062) (398 aa) fasta scores: E(): 8.6e-37, 41.99% id in 381 aa, and to Neisseria meningitidis hypothetical protein Nmb0928 TR:Q9JZR5 (EMBL:AE002444) (398 aa) fasta scores: E(): 1.7e-32, 32.97% id in 376 aa; lipoprotein complement(1648305..1649432) Bordetella pertussis Tohama I 2665597 NP_880304.1 CDS dapA NC_002929.2 1649444 1650322 R catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate synthase complement(1649444..1650322) Bordetella pertussis Tohama I 2665598 NP_880305.1 CDS BP1572 NC_002929.2 1651242 1652192 D transposase for IS481 element; transposase 1651242..1652192 Bordetella pertussis Tohama I 2667370 NP_880306.1 CDS glnH NC_002929.2 1652374 1653126 D similar to periplasmic-binding component of ABC transporters; glutamine ABC transporter substrate-binding protein 1652374..1653126 Bordetella pertussis Tohama I 2666626 NP_880307.1 CDS glnP NC_002929.2 1653195 1653854 D similar to permease component of ABC transporters; mutations impair ability of Escherichia coli to transport and utilize glutamine; glutamine ABC transporter permease 1653195..1653854 Bordetella pertussis Tohama I 2666627 NP_880308.1 CDS glnQ NC_002929.2 1653851 1654579 D similar to ATP-binding component of ABC transporters; glutamine ABC transporter ATP-binding protein 1653851..1654579 Bordetella pertussis Tohama I 2666628 NP_880309.1 CDS spoT NC_002929.2 1654592 1656871 R Similar to Escherichia coli guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase SpoT or B3650 or Z5076 or Ecs4525 SW:SPOT_ECOLI (P17580) (702 aa) fasta scores: E(): 5.2e-106, 48.09% id in 709 aa, and to Burkholderia solanacearum probable bifunctional enzyme : SpoT TR:CAD15860 (EMBL:AL646068) (735 aa) fasta scores: E(): 8.3e-164, 57.3% id in 726 aa; guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase complement(1654592..1656871) Bordetella pertussis Tohama I 2666629 NP_880310.1 CDS rpoZ NC_002929.2 1656896 1657099 R Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits; DNA-directed RNA polymerase subunit omega complement(1656896..1657099) Bordetella pertussis Tohama I 2666630 NP_880311.1 CDS gmk NC_002929.2 1657141 1657773 R Essential for recycling GMP and indirectly, cGMP; guanylate kinase complement(1657141..1657773) Bordetella pertussis Tohama I 2666631 NP_880312.1 CDS BP1579 NC_002929.2 1657909 1658826 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2481 TR:Q9I101 (EMBL:AE004676) (291 aa) fasta scores: E(): 2.4e-61, 58.8% id in 284 aa, and to Wolinella succinogenes CytA protein precursor cytA TR:CAC50081 (EMBL:AJ318778) (371 aa) fasta scores: E(): 5e-16, 36.14% id in 285 aa; cytochrome C complement(1657909..1658826) Bordetella pertussis Tohama I 2666632 NP_880313.1 CDS BP1580 NC_002929.2 1658823 1659536 R Similar to Thiobacillus ferrooxidans cytochrome C-552 diheme precursor CycA TR:Q9KIW6 (EMBL:AF220499) (260 aa) fasta scores: E(): 1e-14, 34.84% id in 221 aa, and to Pseudomonas aeruginosa probable cytochrome C Pa2482 TR:Q9I100 (EMBL:AE004676) (217 aa) fasta scores: E(): 6.6e-25, 46.11% id in 206 aa; cytochrome C complement(1658823..1659536) Bordetella pertussis Tohama I 2666633 NP_880314.1 CDS BP1581 NC_002929.2 1659774 1660544 D Similar to Streptomyces coelicolor oxidoreductase Scc75a.33 TR:Q9RKP1 (EMBL:AL133220) (263 aa) fasta scores: E(): 3.1e-58, 67.33% id in 248 aa, and to Rhizobium loti oxidoreductase Mll2989 TR:Q98H81 (EMBL:AP003000) (251 aa) fasta scores: E(): 2e-52, 57.49% id in 247 aa; oxidoreductase 1659774..1660544 Bordetella pertussis Tohama I 2666634 NP_880315.1 CDS BP1582 NC_002929.2 1660549 1661148 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3472 TR:Q9HYD4 (EMBL:AE004768) (198 aa) fasta scores: E(): 3.5e-21, 42.22% id in 180 aa, and to Xylella fastidiosa hypothetical protein Xf0653 TR:Q9PFK4 (EMBL:AE003909) (212 aa) fasta scores: E(): 1.9e-18, 40.67% id in 177 aa; hypothetical protein complement(1660549..1661148) Bordetella pertussis Tohama I 2666635 NP_880316.1 CDS amn NC_002929.2 1661393 1662883 D Catalyzes the hydrolysis of AMP to form adenine and ribose 5-phosphate using water as the nucleophile; AMP nucleosidase 1661393..1662883 Bordetella pertussis Tohama I 2666613 NP_880317.1 CDS BP1584 NC_002929.2 1662942 1663226 R Similar to Rickettsia conorii hypothetical protein Rc1223 TR:AAL03761 (EMBL:AE008669) (142 aa) fasta scores: E(): 4.2e-09, 42.35% id in 85 aa, and to Agrobacterium tumefaciens Agr_c_3184p TR:AAK87504 (EMBL:AE008095) (95 aa) fasta scores: E(): 0.0021, 34.92% id in 63 aa; DNA-binding protein complement(1662942..1663226) Bordetella pertussis Tohama I 2666614 NP_880318.1 CDS BP1585 NC_002929.2 1663223 1663351 R Similar to an internal region of EDTA-degrading bacterium BNC1 ribosomal protein L1 TR:Q9EVJ4 (EMBL:AF176664) (232 aa) fasta scores: E(): 1.1, 42.42% id in 33 aa; hypothetical protein complement(1663223..1663351) Bordetella pertussis Tohama I 2666615 NP_880319.1 CDS BP1586 NC_002929.2 1663364 1663519 R Similar to Rickettsia conorii hypothetical protein Rc1222 TR:AAL03760 (EMBL:AE008669) (78 aa) fasta scores: E(): 0.0014, 40.9% id in 44 aa; hypothetical protein complement(1663364..1663519) Bordetella pertussis Tohama I 2666616 NP_880320.1 CDS BP1587 NC_002929.2 1663792 1664718 R Similar to Escherichia coli protein YicC or B3644 SW:YICC_ECOLI (P23839) (287 aa) fasta scores: E(): 7e-13, 37.86% id in 309 aa, and to Pseudomonas aeruginosa hypothetical protein Pa5335 TR:Q9HTM3 (EMBL:AE004946) (287 aa) fasta scores: E(): 2.8e-16, 40.9% id in 308 aa; hypothetical protein complement(1663792..1664718) Bordetella pertussis Tohama I 2666617 NP_880321.1 CDS rph NC_002929.2 1664855 1665595 D RNase PH; tRNA nucleotidyltransferase; forms hexamers in Bacillus subtilis; phosphoroltic 3'-5' exoribonuclease; involved in maturation of tRNA precursors and removes terminal nucleotides near CCA acceptor arms of mature tRNAs; ribonuclease PH 1664855..1665595 Bordetella pertussis Tohama I 2666618 NP_880322.1 CDS BP1589 NC_002929.2 1665762 1667138 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0881 TR:Q9I564 (EMBL:AE004522) (450 aa) fasta scores: E(): 3.3e-104, 63.9% id in 446 aa, and to Methanothermobacter thermautotrophicus conserved protein Mth965 TR:O27046 (EMBL:AE000870) (452 aa) fasta scores: E(): 1.1e-29, 31.32% id in 447 aa; hypothetical protein complement(1665762..1667138) Bordetella pertussis Tohama I 2666619 NP_880323.1 CDS BP1590 NC_002929.2 1667320 1668225 D Similar to Pseudomonas aeruginosa probable transcriptional regulator pa0877 TR:Q9I568 (EMBL:AE004522) (298 aa) fasta scores: E(): 3.2e-53, 47.63% id in 296 aa, and to Acinetobacter lwoffii hypothetical 32.3 kDa protein TR:O86997 (EMBL:U77659) (296 aa) fasta scores: E(): 1.5e-38, 37.71% id in 289 aa; transcriptional regulator 1667320..1668225 Bordetella pertussis Tohama I 2666620 NP_880324.1 CDS BP1591 NC_002929.2 1668308 1669999 D Similar to Escherichia coli methyl-accepting chemotaxis protein I Tsr or CheD or B4355 SW:MCP1_ECOLI (P02942) (551 aa) fasta scores: E(): 2.2e-49, 39.74% id in 556 aa, and to Salmonella typhimurium LT2 methyl-accepting chemotaxis protein I, serine sensor receptor Tsr TR:AAL23351 (EMBL:AE008913) (553 aa) fasta scores: E(): 4.5e-50, 40.9% id in 533 aa; methyl-accepting chemotaxis protein 1668308..1669999 Bordetella pertussis Tohama I 2666610 NP_880325.1 CDS BP1592 NC_002929.2 1669877 1671679 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3258 TR:Q9HYY2 (EMBL:AE004748) (601 aa) fasta scores: E(): 1.4e-72, 37.3% id in 571 aa, and to Agrobacterium tumefaciens Agr_c_1510p TR:AAK86632 (EMBL:AE008015) (603 aa) fasta scores: E(): 3e-46, 30.32% id in 587 aa; hypothetical protein complement(1669877..1671679) Bordetella pertussis Tohama I 2666611 NP_880326.1 CDS BP1593 NC_002929.2 1671806 1672447 D HAM1-like protein; Rec-dependent growth; RgdB; yggV; it is suspected that this protein functions to remove misincorporated bases such as xanthine or hypoxanthine; deoxyribonucleotide triphosphate pyrophosphatase 1671806..1672447 Bordetella pertussis Tohama I 2666612 NP_880327.1 CDS BP1594 NC_002929.2 1672547 1673497 D transposase for IS481 element; transposase 1672547..1673497 Bordetella pertussis Tohama I 2666482 NP_880328.1 CDS BP1595 NC_002929.2 1673519 1674739 D catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase 1673519..1674739 Bordetella pertussis Tohama I 2666483 NP_880329.1 CDS glnA NC_002929.2 1674925 1676337 D Similar to Escherichia coli glutamine synthetase GlnA or B3870 or Z5406 or Ecs4792 SW:GLNA_ECOLI (P06711) (468 aa) fasta scores: E(): 1.9e-129, 64.95% id in 468 aa, and to Herbaspirillum seropedicae glutamine synthetase GlnA TR:O86055 (EMBL:AF082873) (471 aa) fasta scores: E(): 1.6e-160, 81.5% id in 465 aa; glutamine synthetase 1674925..1676337 Bordetella pertussis Tohama I 2666484 NP_880330.1 CDS glnL NC_002929.2 1676392 1677468 D Similar to Escherichia coli nitrogen regulation protein NR(II) GlnL or NtrB or GlnR or B3869 or Z5405 or Ecs4791 SW:NTRB_ECOLI (P06712) (349 aa) fasta scores: E(): 2.4e-37, 41.42% id in 350 aa, and to Herbaspirillum seropedicae histidine kinase NtrB TR:O86056 (EMBL:AF082873) (364 aa) fasta scores: E(): 3e-55, 48.59% id in 356 aa; nitrogen regulation protein NR(II) 1676392..1677468 Bordetella pertussis Tohama I 2666485 NP_880331.1 CDS glnG NC_002929.2 1677468 1678955 D Similar to Escherichia coli nitrogen regulation protein NR(I) GlnG or NtrC or GlnT or B3868 or Z5404 or Ecs4790 SW:NTRC_ECOLI (P06713) (469 aa) fasta scores: E(): 5.3e-85, 58.38% id in 495 aa, and to Herbaspirillum seropedicae transcriptional activator NtrC TR:O86057 (EMBL:AF082873) (500 aa) fasta scores: E(): 1.2e-100, 61.95% id in 502 aa; nitrogen regulation protein NR(I) 1677468..1678955 Bordetella pertussis Tohama I 2666486 NP_880332.1 CDS BP1599 NC_002929.2 1678965 1679909 R Similar to Escherichia coli hypothetical transcriptional regulator YeeY or B2015 SW:YEEY_ECOLI (P76369) (309 aa) fasta scores: E(): 5.6e-33, 39.38% id in 292 aa, and to Vibrio cholerae transcriptional regulator, LysR family Vca0575 TR:Q9KM14 (EMBL:AE004388) (295 aa) fasta scores: E(): 1.7e-32, 37.11% id in 291 aa; LysR family transcriptional regulator complement(1678965..1679909) Bordetella pertussis Tohama I 2666487 NP_880333.1 CDS BP1600 NC_002929.2 1680069 1680767 D Similar to Synechocystis sp hypothetical 25.7 kDa protein Sll1773 SW:YH73_SYNY3 (P73623) (232 aa) fasta scores: E(): 3.3e-52, 55.79% id in 233 aa, and to Escherichia coli protein YhhW or B3439 SW:YHHW_ECOLI (P46852) (231 aa) fasta scores: E(): 1.1e-46, 52.79% id in 233 aa; hypothetical protein 1680069..1680767 Bordetella pertussis Tohama I 2666488 NP_880334.1 CDS BP1601 NC_002929.2 1680845 1681750 D Similar to Rhizobium loti pirin-related protein Mlr7473 TR:Q985Y4 (EMBL:AP003011) (306 aa) fasta scores: E(): 1.1e-56, 51.74% id in 286 aa, and to Agrobacterium tumefaciens Agr_c_1354p TR:AAK86555 (EMBL:AE008008) (307 aa) fasta scores: E(): 2.6e-55, 48.61% id in 288 aa; hypothetical protein 1680845..1681750 Bordetella pertussis Tohama I 2666489 NP_880335.1 CDS BP1602 NC_002929.2 1681770 1682720 R transposase for IS481 element; transposase complement(1681770..1682720) Bordetella pertussis Tohama I 2666480 NP_880336.1 CDS BP1604 NC_002929.2 1683618 1685288 R Similar to Pasteurella haemolytica transmembrane permease FbpB TR:Q9ZHY1 (EMBL:AF047427) (525 aa) fasta scores: E(): 4.3e-63, 37.59% id in 524 aa, and to Agrobacterium tumefaciens Agr_c_717p TR:AAK86223 (EMBL:AE007978) (558 aa) fasta scores: E(): 3.6e-112, 56.78% id in 560 aa; binding-protein-dependent transport system inner membrane protein complement(1683618..1685288) Bordetella pertussis Tohama I 2667392 NP_880337.1 CDS BP1605 NC_002929.2 1685412 1686461 R Similar to Neisseria gonorrhoeae major ferric iron binding protein precursor FbP SW:FBP_NEIGO (P17259) (330 aa) fasta scores: E(): 2.1e-13, 27.55% id in 352 aa, and to Agrobacterium tumefaciens Agr_c_715p TR:AAK86222 (EMBL:AE007978) (351 aa) fasta scores: E(): 1.1e-85, 65.33% id in 349 aa; iron binding protein complement(1685412..1686461) Bordetella pertussis Tohama I 2667393 NP_880338.1 CDS fpr NC_002929.2 1686783 1687559 D Similar to Azotobacter vinelandii ferredoxin--NADP reductase Fpr SW:FENR_AZOVI (Q44532) (257 aa) fasta scores: E(): 1.1e-70, 70.98% id in 255 aa, and to Pseudomonas aeruginosa ferredoxin--NADP+ reductase Fpr or Pa3397 TR:Q9HYK7 (EMBL:AE004761) (258 aa) fasta scores: E(): 6e-73, 71.7% id in 258 aa. Also similar to BP3581, 40.000% identity (42.276% ungapped) in 260 aa overlap.; ferredoxin--NADP reductase 1686783..1687559 Bordetella pertussis Tohama I 2667394 NP_880339.1 CDS BP1607 NC_002929.2 1687624 1688526 R Similar to Yersinia pestis LysR-family regulatory protein Ypo0669 TR:CAC89523 (EMBL:AJ414144) (303 aa) fasta scores: E(): 3.9e-68, 63.14% id in 293 aa, and to Burkholderia solanacearum probable transcription regulator protein Rsc1152 TR:CAD14854 (EMBL:AL646063) (297 aa) fasta scores: E(): 4.2e-72, 66.66% id in 291 aa; LysR family transcriptional regulator complement(1687624..1688526) Bordetella pertussis Tohama I 2667395 NP_880340.1 CDS dkgB NC_002929.2 1689820 1690623 D catalyzes the reduction of 2,5-diketo-D-gluconic acid to 2-keto-L-gulonic acid; 2,5-diketo-D-gluconate reductase B 1689820..1690623 Bordetella pertussis Tohama I 2667390 NP_880341.1 CDS BP1611 NC_002929.2 1693317 1693703 D Similar to Homo sapiens 14.5 kDa translational inhibitor protein Psp SW:UK14_HUMAN (P52758) (137 aa) fasta scores: E(): 2.5e-16, 43.2% id in 125 aa, and to Xylella fastidiosa translation initiation inhibitor Xf0353 TR:Q9PGE9 (EMBL:AE003887) (127 aa) fasta scores: E(): 3.2e-22, 55.46% id in 128 aa; translational inhibitor 1693317..1693703 Bordetella pertussis Tohama I 2666086 NP_880342.1 CDS recG NC_002929.2 1693839 1695809 D catalyzes branch migration in Holliday junction intermediates; ATP-dependent DNA helicase RecG 1693839..1695809 Bordetella pertussis Tohama I 2666087 NP_880343.1 CDS BP1613 NC_002929.2 1695861 1696814 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa5344 TR:Q9HTL4 (EMBL:AE004946) (310 aa) fasta scores: E(): 7.8e-62, 54.15% id in 301 aa, and to Neisseria meningitidis transcriptional regulator, LysR family Nmb0173 TR:Q9K1H8 (EMBL:AE002374) (306 aa) fasta scores: E(): 2.7e-53, 48.86% id in 307 aa; LysR family transcriptional regulator 1695861..1696814 Bordetella pertussis Tohama I 2666088 NP_880344.1 CDS BP1614 NC_002929.2 1696829 1697716 R Similar to Caulobacter crescentus transcriptional regulator, LysR family Cc1474 TR:Q9A889 (EMBL:AE005821) (298 aa) fasta scores: E(): 2.2e-30, 41.4% id in 256 aa, and to Rhizobium loti probable transcriptional regulator Mlr1930 TR:Q98JI3 (EMBL:AP002998) (297 aa) fasta scores: E(): 2.6e-30, 37.54% id in 293 aa; LysR family transcriptional regulator complement(1696829..1697716) Bordetella pertussis Tohama I 2667198 NP_880345.1 CDS BP1615 NC_002929.2 1697854 1699380 D Similar to Burkholderia solanacearum probable transmembrane aldehyde dehydrogenase oxidoreductase Rsp1055 TR:CAD18206 (EMBL:AL646082) (499 aa) fasta scores: E(): 3.7e-110, 61.27% id in 501 aa, and to Pseudomonas aeruginosa probable aldehyde dehydrogenase Pa0130 TR:Q9I702 (EMBL:AE004451) (497 aa) fasta scores: E(): 6.9e-95, 53.8% id in 500 aa; aldehyde dehydrogenase 1697854..1699380 Bordetella pertussis Tohama I 2667199 NP_880346.1 CDS dps NC_002929.2 1699479 1699979 D Similar to Burkholderia solanacearum DNA protection during starvation or oxidative stress transcription regulator protein Dps TR:CAD16394 (EMBL:AL646071) (166 aa) fasta scores: E(): 2.1e-39, 64.24% id in 165 aa, and to Pseudomonas aeruginosa probable DNA-binding stress protein Pa0962 TR:Q9I4Z7 (EMBL:AE004530) (156 aa) fasta scores: E(): 3.8e-37, 69.07% id in 152 aa; DNA-binding protein 1699479..1699979 Bordetella pertussis Tohama I 2667200 NP_880349.1 CDS BP1619 NC_002929.2 1702426 1704510 R no significant database matches; hypothetical protein complement(1702426..1704510) Bordetella pertussis Tohama I 2667205 NP_880351.1 CDS kpsM NC_002929.2 1706178 1706948 D Similar to Escherichia coli polysialic acid transport protein KpsM SW:KPM2_ECOLI (P24584) (258 aa) fasta scores: E(): 1.3e-24, 31.49% id in 254 aa, and to Rhizobium meliloti cell surface polysaccharide export ABC-2 transporter permease, close relative to Wzm1y20833 TR:CAC48962 (EMBL:AL603644) (274 aa) fasta scores: E(): 7.7e-29, 36.21% id in 243 aa; polysialic acid ABC transporter permease 1706178..1706948 Bordetella pertussis Tohama I 2667207 NP_880352.1 CDS kpsT NC_002929.2 1706948 1707694 D Similar to Escherichia coli polysialic acid transport ATP-binding protein KpsT SW:KST5_ECOLI (P24586) (224 aa) fasta scores: E(): 4.7e-25, 39.7% id in 204 aa, and to Pasteurella multocida HexA hexa or pm0781 TR:O85464 (EMBL:AF067175) (219 aa) fasta scores: E(): 2.6e-28, 43.47% id in 207 aa; polysialic acid transport ATP-binding protein 1706948..1707694 Bordetella pertussis Tohama I 2667208 NP_880353.1 CDS kpsE NC_002929.2 1707736 1708905 D Similar to Escherichia coli capsule polysaccharide export inner-membrane protein KpsE SW:KSE5_ECOLI (P42214) (382 aa) fasta scores: E(): 2.8e-21, 26.74% id in 359 aa, and to Neisseria meningitidis capsule polysaccharide export inner-membrane protein CtrB or Nmb0072 SW:CTRB_NEIMB (P32014) (387 aa) fasta scores: E(): 2.7e-22, 29.49% id in 373 aa; capsule polysaccharide export inner-membrane protein 1707736..1708905 Bordetella pertussis Tohama I 2667209 NP_880354.1 CDS wbpT NC_002929.2 1708937 1711021 D Similar to Salmonella typhi Vi polysaccharide biosynthesis protein VipC or TviE or Sty4656 SW:VIPC_SALTI (Q04975) (578 aa) fasta scores: E(): 5.7e-49, 33.15% id in 567 aa, and to Citrobacter freundii Vi biosynthesis protein VipD TR:Q9AP43 (EMBL:AF316551) (578 aa) fasta scores: E(): 5e-47, 32.68% id in 566 aa; capsular polysaccharide biosynthesis protein 1708937..1711021 Bordetella pertussis Tohama I 2667210 NP_880355.1 CDS vipC NC_002929.2 1711018 1711908 D Similar to Citrobacter freundii Vi biosynthesis protein VipC TR:Q9AP44 (EMBL:AF316551) (831 aa) fasta scores: E(): 2.5e-10, 23.73% id in 257 aa; capsular polysaccharide biosynthesis protein 1711018..1711908 Bordetella pertussis Tohama I 2667211 NP_880356.1 CDS wza NC_002929.2 1711905 1713002 D Similar to Escherichia coli polysaccharide export protein Wza precursor Wza or B2062 or Z3227 or Ecs2867 SW:WZA_ECOLI (P76388) (379 aa) fasta scores: E(): 7.9e-23, 32.14% id in 364 aa, and to Salmonella typhimurium outer membrane lipoprotein Wza TR:Q9F7B3 (EMBL:AF285084) (378 aa) fasta scores: E(): 6e-23, 32.15% id in 367 aa; capsular polysaccharide export protein 1711905..1713002 Bordetella pertussis Tohama I 2667212 NP_880357.1 CDS wbpO NC_002929.2 1713025 1714314 D Similar to Pseudomonas aeruginosa WbpO TR:Q9RHD7 (EMBL:AF035937) (422 aa) fasta scores: E(): 3.1e-132, 80.23% id in 420 aa, and to Plesiomonas shigelloides orf1p WbgT TR:Q9S0Y5 (EMBL:AB025970) (437 aa) fasta scores: E(): 2.2e-120, 70.69% id in 430 aa. Almost identical to BP3150, 99.762% identity in 420 aa overlap.; capsular polysaccharide biosynthesis protein 1713025..1714314 Bordetella pertussis Tohama I 2667213 NP_880358.1 CDS wbpP NC_002929.2 1714326 1715351 D Similar to Pseudomonas aeruginosa WbpP TR:Q9RHD6 (EMBL:AF035937) (341 aa) fasta scores: E(): 9.9e-97, 69.79% id in 341 aa, and to Salmonella typhi Vi polysaccharide biosynthesis protein VipB or TviC or Sty4660 SW:VIPB_SALTI (Q04973) (348 aa) fasta scores: E(): 2.8e-85, 63.17% id in 334 aa; capsular polysaccharide biosynthesis protein 1714326..1715351 Bordetella pertussis Tohama I 2667214 NP_880359.1 CDS wcbA NC_002929.2 1715348 1717405 D Similar to Escherichia coli capsule polysaccharide export protein KpsC SW:KSC5_ECOLI (P42217) (675 aa) fasta scores: E(): 1.9e-87, 42.81% id in 689 aa, and to Pasteurella multocida LipA TR:Q9L9L5 (EMBL:AF169324) (682 aa) fasta scores: E(): 1.5e-98, 42.28% id in 629 aa; capsular polysaccharide export protein 1715348..1717405 Bordetella pertussis Tohama I 2666126 NP_880360.1 CDS BP1633 NC_002929.2 1718676 1719626 D transposase for IS481 element; transposase 1718676..1719626 Bordetella pertussis Tohama I 2666128 NP_880361.1 CDS BP1635 NC_002929.2 1720179 1721750 R Similar to Rhizobium meliloti arylsulfatase TR:Q92UC0 (EMBL:AL603646) (537 aa) fasta scores: E(): 1.8e-115, 57.43% id in 498 aa, and to Escherichia coli arylsulfatase AslA or AtsA or B3801 SW:ASLA_ECOLI (P25549) (551 aa) fasta scores: E(): 1.7e-34, 31.31% id in 463 aa; arylsulfatase complement(1720179..1721750) Bordetella pertussis Tohama I 2666130 NP_880362.1 CDS BP1636 NC_002929.2 1721854 1722888 R Similar to Rhizobium meliloti nonspecific acid phosphatase precursor NapE TR:AAK39518 (EMBL:AF354653) (334 aa) fasta scores: E(): 1.7e-72, 56.96% id in 323 aa; nonspecific acid phosphatase complement(1721854..1722888) Bordetella pertussis Tohama I 2667184 NP_880363.1 CDS BP1637 NC_002929.2 1722891 1724237 R no significant database matches; hypothetical protein complement(1722891..1724237) Bordetella pertussis Tohama I 2667185 NP_880364.1 CDS BP1638 NC_002929.2 1724234 1725748 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3074 TR:Q9HZD4 (EMBL:AE004731) (586 aa) fasta scores: E(): 1.1e-15, 33.07% id in 508 aa, and to Vibrio cholerae hypothetical protein Vca0171 TR:Q9KMZ5 (EMBL:AE004357) (646 aa) fasta scores: E(): 4.8e-11, 29.45% id in 499 aa; hypothetical protein complement(1724234..1725748) Bordetella pertussis Tohama I 2667186 NP_880365.1 CDS BP1639 NC_002929.2 1725739 1726749 R Similar to Bacteroides fragilis BatA SWALL:Q9X4N3 (EMBL:AF116251) (327 aa) fasta scores: E(): 1.4e-13, 31.29% id in 262 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3073 SWALL:Q9HZD5 (EMBL:AE004731) (340 aa) fasta scores: E(): 1.8e-31, 41.44% id in 345 aa; hypothetical protein complement(1725739..1726749) Bordetella pertussis Tohama I 2667187 NP_880366.1 CDS BP1640 NC_002929.2 1727223 1728164 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3071 TR:Q9HZD7 (EMBL:AE004731) (312 aa) fasta scores: E(): 8.8e-30, 36.53% id in 312 aa, and to Vibrio cholerae hypothetical protein Vca0174 TR:Q9KMZ2 (EMBL:AE004357) (311 aa) fasta scores: E(): 1.2e-18, 37.39% id in 246 aa; hypothetical protein complement(1727223..1728164) Bordetella pertussis Tohama I 2667189 NP_880367.1 CDS BP1641 NC_002929.2 1728173 1729141 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3070 TR:Q9HZD8 (EMBL:AE004731) (326 aa) fasta scores: E(): 4e-61, 54.85% id in 319 aa, and to Vibrio cholerae MoxR-related protein vca0175 TR:Q9KMZ1 (EMBL:AE004357) (318 aa) fasta scores: E(): 2.4e-58, 53.54% id in 310 aa; regulatory protein complement(1728173..1729141) Bordetella pertussis Tohama I 2667190 NP_880368.1 CDS BP1643 NC_002929.2 1730681 1731649 D Similar to Rhizobium loti Mll5467 protein Mll5467 TR:Q98BQ7 (EMBL:AP003006) (319 aa) fasta scores: E(): 7.8e-27, 32.46% id in 308 aa, and to Comamonas testosteroni OrfX protein TR:Q9RHN7 (EMBL:AB029044) (296 aa) fasta scores: E(): 0.56, 27.71% id in 285 aa; hypothetical protein 1730681..1731649 Bordetella pertussis Tohama I 2667192 NP_880369.1 CDS BP1644 NC_002929.2 1731827 1732816 D Similar to Rhizobium meliloti hypothetical protein Sma1927 TR:Q92Y30 (EMBL:AE007292) (330 aa) fasta scores: E(): 8.7e-47, 41.46% id in 328 aa, and to Agrobacterium tumefaciens Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 2.6e-45, 42.07% id in 328 aa; hypothetical protein 1731827..1732816 Bordetella pertussis Tohama I 2667180 NP_880370.1 CDS BP1645 NC_002929.2 1732863 1733621 D Similar to Mycobacterium tuberculosis dehydrogenase Rv2857c or Mtv003.03C TR:O33339 (EMBL:AL008883) (258 aa) fasta scores: E(): 2.7e-28, 40.47% id in 252 aa, and to Rhizobium sp short-chain type dehydrogenase/reductase Y4lA SW:Y4LA_RHISN (P55541) (278 aa) fasta scores: E(): 5.9e-28, 36.86% id in 255 aa; short-chain dehydrogenase 1732863..1733621 Bordetella pertussis Tohama I 2667181 NP_880371.1 CDS BP1646 NC_002929.2 1733811 1734548 D Similar to Pseudomonas aeruginosa hypothetical protein Pa1170 TR:Q9I4G7 (EMBL:AE004547) (244 aa) fasta scores: E(): 2.6e-42, 54.27% id in 234 aa, and to Bacillus subtilis YjbE protein TR:O31603 (EMBL:Z99110) (218 aa) fasta scores: E(): 2.6e-26, 46.66% id in 180 aa. Also similar to BP2538 (69.456% identity in 239 aa overlap), and to BP2539 (45.982% identity in 224 aa overlap).; hypothetical protein 1733811..1734548 Bordetella pertussis Tohama I 2667182 NP_880372.1 CDS BP1647 NC_002929.2 1734647 1735597 D transposase for IS481 element; transposase 1734647..1735597 Bordetella pertussis Tohama I 2667183 NP_880373.1 CDS livG NC_002929.2 1735782 1736564 D Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivG or B3455 or Z4825 or Ecs4302 SW:LIVG_ECOLI (P22730) (255 aa) fasta scores: E(): 3.2e-33, 46.58% id in 249 aa, and to Deinococcus radiodurans branched-chain amino acid ABC transporter ATP-binding protein Dr0283 TR:Q9RXM7 (EMBL:AE001889) (290 aa) fasta scores: E(): 7.8e-35, 47.65% id in 256 aa; high-affinity branched-chain amino acid transport ATP-binding protein 1735782..1736564 Bordetella pertussis Tohama I 2666387 NP_880374.1 CDS livF NC_002929.2 1736558 1737259 D Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivF or B3454 SW:LIVF_ECOLI (P22731) (237 aa) fasta scores: E(): 1.9e-34, 46.12% id in 232 aa, and to Streptomyces coelicolor branched chain amino acid transport ATP-binding protein Sc7h2.26 TR:Q9S2J1 (EMBL:AL109732) (238 aa) fasta scores: E(): 4.3e-42, 55.55% id in 234 aa; high-affinity branched-chain amino acid transport ATP-binding protein 1736558..1737259 Bordetella pertussis Tohama I 2666388 NP_880375.1 CDS BP1651 NC_002929.2 1737499 1738101 D Similar to Bacillus halodurans transcriptional regulator Bh2958 TR:Q9K8P5 (EMBL:AP001517) (215 aa) fasta scores: E(): 8e-09, 28.1% id in 185 aa, and to Pseudomonas fluorescens transcriptional regulator Pfi2 TR:Q9RFR4 (EMBL:AF173683) (207 aa) fasta scores: E(): 1.2e-07, 24.06% id in 187 aa; TetR family transcriptional regulator 1737499..1738101 Bordetella pertussis Tohama I 2666389 NP_880377.1 CDS BP1653 NC_002929.2 1739428 1740378 D transposase for IS481 element; transposase 1739428..1740378 Bordetella pertussis Tohama I 2666391 NP_880378.1 CDS wcbQ NC_002929.2 1740375 1741931 R Similar to Rhizobium meliloti capsular polysaccharide biosynthesis protein RkpI or R00574 or smc02270 SW:RKPI_RHIME (Q52938) (538 aa) fasta scores: E(): 1.9e-18, 29.24% id in 489 aa, and to Burkholderia mallei WcbQ TR:Q9AI31 (EMBL:AF285636) (511 aa) fasta scores: E(): 6e-45, 39.2% id in 500 aa; capsular polysaccharide biosynthesis protein complement(1740375..1741931) Bordetella pertussis Tohama I 2666392 NP_880379.1 CDS wcbP NC_002929.2 1741924 1742697 R Similar to Myxococcus xanthus hypothetical oxidoreductase in uraA 5'region SW:YURA_MYXXA (P25970) (258 aa) fasta scores: E(): 1.4e-15, 39.35% id in 216 aa, and to Burkholderia mallei WcbP TR:Q9AI32 (EMBL:AF285636) (262 aa) fasta scores: E(): 2.1e-33, 44.26% id in 253 aa; oxidoreductase complement(1741924..1742697) Bordetella pertussis Tohama I 2666393 NP_880380.1 CDS BP1656 NC_002929.2 1742756 1743706 R transposase for IS481 element; transposase complement(1742756..1743706) Bordetella pertussis Tohama I 2666394 NP_880381.1 CDS BP1657 NC_002929.2 1743811 1744758 D hypothetical protein 1743811..1744758 Bordetella pertussis Tohama I 2666395 NP_880382.1 CDS BP1658 NC_002929.2 1744812 1746605 R The C-terminal region of this CDS is Similar to Deinococcus radiodurans sensor histidine kinase Dr0577 TR:Q9RWT8 (EMBL:AE001916) (590 aa) fasta scores: E(): 1.4e-05, 31.27% id in 227 aa, and to Pseudomonas aeruginosa probable two-component sensor pa1979 TR:Q9I2C8 (EMBL:AE004624) (216 aa) fasta scores: E(): 1.6e-06, 32.38% id in 176 aa; two-component sensor histidine kinase complement(1744812..1746605) Bordetella pertussis Tohama I 2666396 NP_880383.1 CDS BP1659 NC_002929.2 1746619 1747293 R Similar to Streptomyces reticuli response regulatory protein SenR TR:Q9RIM0 (EMBL:Y14336) (217 aa) fasta scores: E(): 1.8e-15, 34.52% id in 223 aa, and to Streptomyces coelicolor AbsA2 or Sce8.19 TR:Q53894 (EMBL:U51332) (222 aa) fasta scores: E(): 3.9e-16, 30.88% id in 204 aa; response regulatory protein complement(1746619..1747293) Bordetella pertussis Tohama I 2666397 NP_880384.1 CDS sphB2 NC_002929.2 1747462 1750497 D sequence contains 6 Ns. to be corrected; autotransporter 1747462..1750497 Bordetella pertussis Tohama I 2666398 NP_880385.1 CDS BP1662 NC_002929.2 1750511 1750810 R Similar to Vibrio cholerae hypothetical protein Vca0469 TR:Q9KMA5 (EMBL:AE004379) (104 aa) fasta scores: E(): 7.4e-05, 33.69% id in 92 aa, and to Agrobacterium tumefaciens Agr_c_3184p TR:AAK87504 (EMBL:AE008095) (95 aa) fasta scores: E(): 3.6e-05, 32.94% id in 85 aa; DNA-binding protein complement(1750511..1750810) Bordetella pertussis Tohama I 2666399 NP_880387.1 CDS gst NC_002929.2 1751125 1751748 R Similar to Escherichia coli glutathione S-transferase Gst or B1635 or Z2647 or Ecs2344 SW:GT_ECOLI (P39100) (201 aa) fasta scores: E(): 8.3e-17, 34.15% id in 202 aa, and to Rhizobium meliloti glutathione S-transferase TR:CAC45528 (EMBL:AL591785) (206 aa) fasta scores: E(): 3.8e-45, 57.71% id in 201 aa; glutathione S-transferase complement(1751125..1751748) Bordetella pertussis Tohama I 2666401 NP_880388.1 CDS tfdA NC_002929.2 1751992 1752861 D Similar to Alcaligenes eutrophus alpha-ketoglutarate-dependent 2,4-dichlorophenoxyacetate dioxygenase TfdA SW:TFDA_ALCEU (P10088) (287 aa) fasta scores: E(): 3.2e-37, 43.21% id in 280 aa, and to Alcaligenes denitrificans 2,4-d dioxygenase TfdA TR:Q9KX47 (EMBL:U32188) (287 aa) fasta scores: E(): 2.3e-34, 41.28% id in 281 aa; alpha-ketoglutarate-dependent 2,4-dichlorophenoxyacetate dioxygenase 1751992..1752861 Bordetella pertussis Tohama I 2666402 NP_880389.1 CDS BP1666 NC_002929.2 1752839 1753783 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa2115 TR:Q9I200 (EMBL:AE004639) (317 aa) fasta scores: E(): 2.2e-09, 22.48% id in 298 aa, and to Rhizobium meliloti LysR family transcriptional regulator, probable Sma0557 TR:AAK64948 (EMBL:AE007221) (295 aa) fasta scores: E(): 3.3e-07, 26.15% id in 260 aa; LysR family transcriptional regulator complement(1752839..1753783) Bordetella pertussis Tohama I 2666403 NP_880390.1 CDS BP1667 NC_002929.2 1753869 1754840 R Similar to Rhizobium meliloti hypothetical protein Sma1927 TR:Q92Y30 (EMBL:AE007292) (330 aa) fasta scores: E(): 4.3e-37, 36.66% id in 300 aa, and to Pseudomonas putida hypothetical 34.5 kDa protein in clcB-clcD intergenic region precursor SW:YCLC_PSEPU (Q47100) (329 aa) fasta scores: E(): 8.6e-37, 37.82% id in 312 aa; hypothetical protein complement(1753869..1754840) Bordetella pertussis Tohama I 2666404 NP_880391.1 CDS BP1668 NC_002929.2 1754908 1755681 R Similar to Pseudomonas aeruginosa probable short-chain dehydrogenase Pa5524 TR:Q9HT49 (EMBL:AE004965) (260 aa) fasta scores: E(): 1.6e-22, 38.43% id in 255 aa, and to Streptomyces cinnamonensis monensin polyketide synthase ketoacyl reductase SW:DHKR_STRCM (P41177) (261 aa) fasta scores: E(): 7.4e-21, 36.92% id in 260 aa; short-chain dehydrogenase complement(1754908..1755681) Bordetella pertussis Tohama I 2666405 NP_880392.1 CDS lldA NC_002929.2 1755678 1756874 R Similar to Neisseria meningitidis lactate dehydrogenase LldA or Nmb1377 TR:Q51135 (EMBL:U58911) (390 aa) fasta scores: E(): 3.4e-45, 36.05% id in 380 aa, and to Pseudomonas aeruginosa L-lactate dehydrogenase LldA or Pa2382 TR:Q9I197 (EMBL:AE004664) (383 aa) fasta scores: E(): 4.7e-49, 38.48% id in 382 aa; lactate dehydrogenase complement(1755678..1756874) Bordetella pertussis Tohama I 2666406 NP_880393.1 CDS BP1670 NC_002929.2 1756905 1757855 R Similar to Burkholderia solanacearum conserved hypothetical protein Rsc1824 TR:CAD15526 (EMBL:AL646066) (319 aa) fasta scores: E(): 1.8e-19, 35.39% id in 308 aa; hydrolase complement(1756905..1757855) Bordetella pertussis Tohama I 2666251 NP_880394.1 CDS BP1671 NC_002929.2 1758077 1758766 D Similar to Escherichia coli 3-oxoacyl-[acyl-carrier protein] reductase FabG or B1093 SW:FABG_ECOLI (P25716) (244 aa) fasta scores: E(): 1.2e-07, 27.23% id in 246 aa, and to Streptomyces coelicolor dehydrogenase/reductase Scah10.14C TR:Q9RKU3 (EMBL:AL132824) (258 aa) fasta scores: E(): 9.6e-08, 31.14% id in 244 aa; short chain dehydrogenase 1758077..1758766 Bordetella pertussis Tohama I 2666252 NP_880395.1 CDS fabG NC_002929.2 1758831 1759586 D Similar to Escherichia coli 3-oxoacyl-[acyl-carrier protein] reductase FabG or B1093 SW:FABG_ECOLI (P25716) (244 aa) fasta scores: E(): 7.6e-21, 34.69% id in 245 aa, and to Agrobacterium tumefaciens Agr_l_2601p agr_l_2601 TR:AAK89866 (EMBL:AE008330) (246 aa) fasta scores: E(): 7.2e-29, 44.13% id in 247 aa; 3-oxoacyl-ACP reductase 1758831..1759586 Bordetella pertussis Tohama I 2666253 NP_880396.1 CDS BP1673 NC_002929.2 1759638 1760630 D Similar to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 1.9e-39, 38.8% id in 317 aa, and to Pseudomonas chlororaphis hypothetical 35.8 kDa protein TR:Q9L3W5 (EMBL:AJ271325) (336 aa) fasta scores: E(): 2.9e-39, 37.85% id in 317 aa; hypothetical protein 1759638..1760630 Bordetella pertussis Tohama I 2666254 NP_880397.1 CDS BP1674 NC_002929.2 1760640 1761593 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa2206 TR:Q9I1R1 (EMBL:AE004647) (315 aa) fasta scores: E(): 5.9e-19, 28.85% id in 305 aa, and to Burkholderia solanacearum probable transcriptional regulatory DNA-binding transcription regulator protein PcaQ TR:CAD15142 (EMBL:AL646064) (319 aa) fasta scores: E(): 2.1e-16, 34.82% id in 313 aa; LysR family transcriptional regulator complement(1760640..1761593) Bordetella pertussis Tohama I 2666255 NP_880398.1 CDS BP1675 NC_002929.2 1761709 1762671 D Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 4.8e-32, 34.47% id in 322 aa, and to Alcaligenes eutrophus hypothetical 35.7 kDa protein MacB TR:Q9RBG2 (EMBL:AF130250) (340 aa) fasta scores: E(): 3.3e-30, 35.87% id in 315 aa; hypothetical protein 1761709..1762671 Bordetella pertussis Tohama I 2666256 NP_880399.1 CDS BP1678 NC_002929.2 1764498 1765448 R transposase for IS481 element; transposase complement(1764498..1765448) Bordetella pertussis Tohama I 2666259 NP_880400.1 CDS arsH NC_002929.2 1765742 1766464 R Similar to Thiobacillus ferrooxidans ArsH-like protein TR:Q9L9D0 (EMBL:AF173880) (240 aa) fasta scores: E(): 1.2e-60, 69.29% id in 228 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2280 TR:Q9I1J5 (EMBL:AE004653) (230 aa) fasta scores: E(): 2e-61, 69.56% id in 230 aa; NADPH-dependent FMN reductase complement(1765742..1766464) Bordetella pertussis Tohama I 2666261 NP_880401.1 CDS BP1682 NC_002929.2 1766903 1768090 R Similar to Rhizobium meliloti transport protein Smb21575 TR:CAC49415 (EMBL:AL603645) (401 aa) fasta scores: E(): 1.2e-30, 35.16% id in 401 aa, and to Agrobacterium tumefaciens Agr_pat_464p TR:AAK90697 (EMBL:AE007901) (417 aa) fasta scores: E(): 9.9e-31, 36.17% id in 387 aa; hypothetical protein complement(1766903..1768090) Bordetella pertussis Tohama I 2666263 NP_880402.1 CDS BP1683 NC_002929.2 1768094 1768444 R Similar to Thiobacillus ferrooxidans ArsR-like protein TR:Q9L9D2 (EMBL:AF173880) (118 aa) fasta scores: E(): 1.3e-11, 45.09% id in 102 aa, and to Caulobacter crescentus transcriptional regulator, ArsR family Cc1505 TR:Q9A859 (EMBL:AE005825) (109 aa) fasta scores: E(): 2e-11, 42.2% id in 109 aa; transcriptional regulator complement(1768094..1768444) Bordetella pertussis Tohama I 2666264 NP_880403.1 CDS BP1685 NC_002929.2 1770194 1771165 D Similar to Rhizobium meliloti hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.5e-43, 40.37% id in 322 aa, and to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 5.1e-39, 39.37% id in 320 aa; hypothetical protein 1770194..1771165 Bordetella pertussis Tohama I 2666890 NP_880404.1 CDS BP1686 NC_002929.2 1771179 1771892 D Similar to Pseudomonas abietaniphila DitG TR:Q9X4X1 (EMBL:AF119621) (244 aa) fasta scores: E(): 1.9e-35, 50.22% id in 227 aa, and to Rhizobium loti short-chain dehydrogenase/reductase family mlr5208 TR:Q98CC5 (EMBL:AP003006) (235 aa) fasta scores: E(): 7.2e-19, 37.11% id in 229 aa; short chain dehydrogenase 1771179..1771892 Bordetella pertussis Tohama I 2666891 NP_880405.1 CDS BP1687 NC_002929.2 1771897 1772814 R Similar to Agrobacterium tumefaciens pca operon transcriptional activator PcaQ SW:PCAQ_AGRTU (P52668) (311 aa) fasta scores: E(): 9.2e-13, 27.55% id in 294 aa, and to Rhizobium meliloti transcriptional regulator protein Smb20123 TR:CAC48523 (EMBL:AL603642) (298 aa) fasta scores: E(): 1.4e-14, 29.43% id in 248 aa; LysR family transcriptional regulator complement(1771897..1772814) Bordetella pertussis Tohama I 2666892 NP_880406.1 CDS BP1688 NC_002929.2 1772921 1773217 D Similar to Drosophila melanogaster Cg13065 protein TR:Q9VV13 (EMBL:AE003528) (140 aa) fasta scores: E(): 2.2, 39.53% id in 86 aa, and to Streptomyces coelicolor hypothetical 9.1 kDa protein Sch22a.29 TR:Q9L0V4 (EMBL:AL159178) (89 aa) fasta scores: E(): 8.7, 36.5% id in 63 aa; hypothetical protein 1772921..1773217 Bordetella pertussis Tohama I 2666893 NP_880407.1 CDS BP1689 NC_002929.2 1773316 1774266 D transposase for IS481 element; transposase 1773316..1774266 Bordetella pertussis Tohama I 2666740 NP_880408.1 CDS phaA NC_002929.2 1775425 1778358 D subunit A of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved with K+; monovalent cation/H+ antiporter subunit A 1775425..1778358 Bordetella pertussis Tohama I 2666751 NP_880409.1 CDS phaC NC_002929.2 1778358 1778702 D subunit C of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; monovalent cation/H+ antiporter subunit C 1778358..1778702 Bordetella pertussis Tohama I 2666752 NP_880410.1 CDS phaD NC_002929.2 1778699 1780327 D subunit D of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; contains an oxidoreductase domain; catalyzes the transfer of electrons from NADH to ubiquinone; monovalent cation/H+ antiporter subunit D 1778699..1780327 Bordetella pertussis Tohama I 2666753 NP_880411.1 CDS phaE NC_002929.2 1780324 1780803 D subunit E of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved specifically with K+ transport; monovalent cation/H+ antiporter subunit E 1780324..1780803 Bordetella pertussis Tohama I 2666754 NP_880412.1 CDS phaF NC_002929.2 1780800 1781084 D subunit F of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved specifically with K+ transport; monovalent cation/H+ antiporter subunit F 1780800..1781084 Bordetella pertussis Tohama I 2666755 NP_880413.1 CDS phaG NC_002929.2 1781081 1781407 D subunit G of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; monovalent cation/H+ antiporter subunit G 1781081..1781407 Bordetella pertussis Tohama I 2666756 NP_880414.1 CDS BP1697 NC_002929.2 1781563 1782513 D transposase for IS481 element; transposase 1781563..1782513 Bordetella pertussis Tohama I 2666757 NP_880415.1 CDS BP1698 NC_002929.2 1782590 1783099 D no significant database matches; hypothetical protein 1782590..1783099 Bordetella pertussis Tohama I 2666758 NP_880416.1 CDS BP1699 NC_002929.2 1783197 1784045 D Similar to Borrelia burgdorferi hypothetical protein Bb0007 SW:Y007_BORBU (O51040) (285 aa) fasta scores: E(): 7.4e-16, 26.31% id in 285 aa; hypothetical protein 1783197..1784045 Bordetella pertussis Tohama I 2666759 NP_880417.1 CDS cumB NC_002929.2 1784095 1784544 D Similar to Pseudomonas putida CumB TR:Q9X3V3 (EMBL:AF086638) (145 aa) fasta scores: E(): 5.4e-31, 59.31% id in 145 aa, and to Burkholderia solanacearum hydrolase rsc1451 TR:CAD15153 (EMBL:AL646064) (183 aa) fasta scores: E(): 6.3e-32, 63.69% id in 146 aa; zinc-binding hydrolase 1784095..1784544 Bordetella pertussis Tohama I 2666760 NP_880418.1 CDS ldcA NC_002929.2 1784541 1785542 D Similar to Escherichia coli muramoyltetrapeptide carboxypeptidase LdcA or B1192 SW:LDCA_ECOLI (P76008) (304 aa) fasta scores: E(): 2.6e-36, 40% id in 300 aa, and to Neisseria meningitidis hypothetical protein Nma1819 or MccF TR:Q9JR41 (EMBL:AL162757) (394 aa) fasta scores: E(): 9.9e-35, 41.28% id in 281 aa; muramoyltetrapeptide carboxypeptidase 1784541..1785542 Bordetella pertussis Tohama I 2666761 NP_880419.1 CDS BP1702 NC_002929.2 1785555 1786349 R Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase complement(1785555..1786349) Bordetella pertussis Tohama I 2666762 NP_880420.1 CDS BP1703 NC_002929.2 1786398 1788299 R Similar to Rhizobium meliloti transmembrane protein Smc04283 TR:CAC46625 (EMBL:AL591789) (579 aa) fasta scores: E(): 3.8e-49, 49.83% id in 610 aa; hypothetical protein complement(1786398..1788299) Bordetella pertussis Tohama I 2666763 NP_880421.1 CDS BP1704 NC_002929.2 1788296 1788919 R Similar to Rhizobium meliloti hypothetical transmembrane protein Smc04287 TR:CAC46626 (EMBL:AL591789) (233 aa) fasta scores: E(): 5e-40, 52.63% id in 209 aa, and to Rhizobium loti Mll5171 protein TR:Q98CF5 (EMBL:AP003005) (194 aa) fasta scores: E(): 4.3e-14, 40.24% id in 164 aa; hypothetical protein complement(1788296..1788919) Bordetella pertussis Tohama I 2666764 NP_880422.1 CDS BP1705 NC_002929.2 1789046 1790170 R Similar to Rhizobium meliloti hypothetical protein Smc04289 TR:CAC46627 (EMBL:AL591789) (339 aa) fasta scores: E(): 1.1e-92, 69.27% id in 332 aa, and to Rhizobium loti periplasmic mannitol-binding protein, SmoM Mlr5166 TR:Q98CF9 (EMBL:AP003005) (369 aa) fasta scores: E(): 3.4e-29, 30.98% id in 355 aa; mannitol ABC transporter substrate-binding protein complement(1789046..1790170) Bordetella pertussis Tohama I 2666765 NP_880423.1 CDS BP1706 NC_002929.2 1790551 1792155 D Similar to Ralstonia solanacearum probable ATP-binding ABC transporter protein Rsc1453 TR:CAD15155 (EMBL:AL646064) (540 aa) fasta scores: E(): 1.2e-125, 72.5% id in 542 aa, and to Escherichia coli hypothetical ABC transporter ATP-binding protein YbiT or B0820 or Z1042 or Ecs0897 SW:YBIT_ECOLI (P75790) (530 aa) fasta scores: E(): 5e-116, 67.41% id in 534 aa; ABC transporter ATP-binding protein 1790551..1792155 Bordetella pertussis Tohama I 2666766 NP_880424.1 CDS BP1707 NC_002929.2 1792311 1793087 D Similar to Streptomyces coelicolor ABC transporter ATP-binding protein Sc8g12.21 TR:Q9KYY4 (EMBL:AL355753) (270 aa) fasta scores: E(): 4.4e-32, 49.52% id in 212 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa2294 TR:Q9I1I1 (EMBL:AE004655) (284 aa) fasta scores: E(): 2.7e-30, 45.65% id in 230 aa; ABC transporter ATP-binding protein 1792311..1793087 Bordetella pertussis Tohama I 2667539 NP_880425.1 CDS BP1708 NC_002929.2 1793172 1794170 D Similar to Methanobacterium bryantii copper response extracellular protein TR:Q48929 (EMBL:U40213) (353 aa) fasta scores: E(): 1.3e-14, 29.32% id in 266 aa, and to Deinococcus radiodurans ABC transporter periplasmic substrate-binding protein, dr1277 TR:Q9RUV4 (EMBL:AE001975) (325 aa) fasta scores: E(): 6.4e-14, 29.76% id in 299 aa; ABC transporter substrate-binding protein 1793172..1794170 Bordetella pertussis Tohama I 2667540 NP_880426.1 CDS BP1709 NC_002929.2 1794167 1794940 D Similar to Pseudomonas aeruginosa probable permease of ABC transporter Pa3448 TR:Q9HYF8 (EMBL:AE004765) (274 aa) fasta scores: E(): 2.7e-18, 35.4% id in 257 aa, and to Streptomyces coelicolor ABC transporter membrane component sc8g12.20 TR:Q9KYY5 (EMBL:AL355753) (267 aa) fasta scores: E(): 4e-18, 29.96% id in 257 aa; ABC transporter permease 1794167..1794940 Bordetella pertussis Tohama I 2667541 NP_880427.1 CDS BP1711 NC_002929.2 1795925 1796875 D transposase for IS481 element; transposase 1795925..1796875 Bordetella pertussis Tohama I 2666572 NP_880428.1 CDS BP1712 NC_002929.2 1796913 1797500 D Similar to Rhizobium meliloti hypothetical protein Smc01701 TR:CAC41902 (EMBL:AL591783) (194 aa) fasta scores: E(): 1.3e-36, 54.01% id in 187 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0168 TR:Q9I6W4 (EMBL:AE004454) (196 aa) fasta scores: E(): 4.1e-35, 52.66% id in 188 aa; hypothetical protein 1796913..1797500 Bordetella pertussis Tohama I 2666573 NP_880429.1 CDS trxC NC_002929.2 1797518 1797901 R Similar to Escherichia coli thioredoxin 2 TrxC or B2582 or Z3867 or Ecs3448 SW:THI2_ECOLI (P33636) (139 aa) fasta scores: E(): 2.2e-13, 51.28% id in 78 aa, and to Streptomyces coelicolor thioredoxin TrxA2 TR:Q9RD25 (EMBL:AL133422) (134 aa) fasta scores: E(): 7.1e-23, 49.23% id in 130 aa. Also similar to BP1263, 39.000% identity in 100 aa overlap.; thioredoxin 2 complement(1797518..1797901) Bordetella pertussis Tohama I 2666574 NP_880430.1 CDS BP1715 NC_002929.2 1799261 1800553 R Similar to Pseudomonas fluorescens OrfX protein TR:Q9RHS8 (EMBL:AB023289) (431 aa) fasta scores: E(): 4.7e-101, 64.33% id in 429 aa, and to Rhizobium meliloti integral membrane transporter protein, xanthineuracil permeases family smb21281 TR:CAC49185 (EMBL:AL603644) (457 aa) fasta scores: E(): 1.3e-125, 78.37% id in 430 aa; permease complement(1799261..1800553) Bordetella pertussis Tohama I 2666576 NP_880431.1 CDS gcp NC_002929.2 1800688 1801728 D in most organisms, only the N-terminal domain is present in a single polypeptide; in some archaea this domain is fused to a kinase domain; this gene is essential for growth in Escherichia coli and Bacillus subtilis; the secreted glycoprotease from Pasteurella haemolytica showed specificity for O-sialoglycosylated proteins; the Pyrococcus structure shows DNA-binding properties, iron-binding, ATP-binding, and AP endonuclease activity; DNA-binding/iron metalloprotein/AP endonuclease 1800688..1801728 Bordetella pertussis Tohama I 2666577 NP_880432.1 CDS BP1717 NC_002929.2 1801826 1802842 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 complement(1801826..1802842) Bordetella pertussis Tohama I 2666578 NP_880433.1 CDS BP1718 NC_002929.2 1803110 1803757 R involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsX; glycerol-3-phosphate acyltransferase PlsY complement(1803110..1803757) Bordetella pertussis Tohama I 2666579 NP_880434.1 CDS surE NC_002929.2 1803883 1804641 D catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate; stationary phase survival protein SurE 1803883..1804641 Bordetella pertussis Tohama I 2665822 NP_880435.1 CDS pcm NC_002929.2 1804767 1805405 D Similar to Escherichia coli protein-L-isoaspartate O-methyltransferase Pcm or B2743 or Z4051 or Ecs3597 SW:PIMT_ECOLI (P24206) (207 aa) fasta scores: E(): 2.6e-31, 51.7% id in 205 aa, and to Rhodocyclus gelatinosus Pcm protein TR:Q9JP91 (EMBL:AB034704) (270 aa) fasta scores: E(): 5.7e-33, 52.75% id in 218 aa; protein-L-isoaspartate O-methyltransferase 1804767..1805405 Bordetella pertussis Tohama I 2665823 NP_880436.1 CDS BP1721 NC_002929.2 1805423 1806307 D Similar to Escherichia coli lipoprotein NlpD precursor NlpD or B2742 SW:NLPD_ECOLI (P33648) (379 aa) fasta scores: E(): 2.2e-18, 39.39% id in 264 aa, and to Rhodocyclus gelatinosus NlpD protein nlpD TR:Q9JP90 (EMBL:AB034704) (314 aa) fasta scores: E(): 2.5e-29, 43.77% id in 297 aa; peptidase 1805423..1806307 Bordetella pertussis Tohama I 2665824 NP_880437.1 CDS BP1722 NC_002929.2 1806304 1807083 D Similar to Neisseria meningitidis hypothetical protein Nma1628 TR:Q9JTU6 (EMBL:AL162756) (264 aa) fasta scores: E(): 6.4e-60, 55.89% id in 263 aa, and to Campylobacter jejuni hypothetical protein Cj1132C TR:Q9PNG2 (EMBL:AL139077) (264 aa) fasta scores: E(): 2.1e-26, 35.56% id in 239 aa; hypothetical protein 1806304..1807083 Bordetella pertussis Tohama I 2665825 NP_880438.1 CDS BP1723 NC_002929.2 1807188 1807787 D Weakly similar to Epiphyas postvittana apolipophorin-iii-like protein TR:Q9GPN5 (EMBL:AF314181) (186 aa) fasta scores: E(): 5.3, 22.89% id in 166 aa; hypothetical protein 1807188..1807787 Bordetella pertussis Tohama I 2665826 NP_880439.1 CDS BP1724 NC_002929.2 1808076 1808828 D Similar to Ralstonia solanacearum probable signal peptide protein Rsc0341 TR:CAD13869 (EMBL:AL646058) (268 aa) fasta scores: E(): 3.5e-18, 37.9% id in 277 aa, and to Caulobacter crescentus hypothetical protein Cc2658 TR:Q9A513 (EMBL:AE005933) (230 aa) fasta scores: E(): 2.5e-11, 34.65% id in 202 aa; hypothetical protein 1808076..1808828 Bordetella pertussis Tohama I 2665827 NP_880440.1 CDS rumA NC_002929.2 1808947 1810347 D in Escherichia coli this enzyme catalyzes the SAM-dependent methylation of U1939 in the 23S ribomal RNA; binds an iron-sulfur cluster [4Fe-4S]; 23S rRNA 5-methyluridine methyltransferase 1808947..1810347 Bordetella pertussis Tohama I 2665828 NP_880441.1 CDS BP1726 NC_002929.2 1810371 1810769 R Similar to Rhizobium meliloti heavy metal dependent transcription regulator HmrR SW:HMRR_RHIME (Q9X5X4) (147 aa) fasta scores: E(): 1.2e-35, 71.53% id in 130 aa, and to Agrobacterium tumefaciens strC58 Agr_c_1709p TR:AAK86743 (EMBL:AE008024) (140 aa) fasta scores: E(): 3.7e-29, 60.3% id in 131 aa. Also similar to BP3173, 58.333% identity in 84 aa overlap.; MerR family transcriptional regulator complement(1810371..1810769) Bordetella pertussis Tohama I 2665829 NP_880442.1 CDS BP1727 NC_002929.2 1810945 1811145 D Similar to Pseudomonas syringae OrfH protein TR:Q9KWM7 (EMBL:AB033420) (65 aa) fasta scores: E(): 2.9e-05, 43.54% id in 62 aa, and to Agrobacterium tumefaciens strC58 Agr_c_2220p TR:AAK87005 (EMBL:AE008049) (84 aa) fasta scores: E(): 2.5e-07, 47.61% id in 63 aa; hypothetical protein 1810945..1811145 Bordetella pertussis Tohama I 2665830 NP_880443.1 CDS BP1728 NC_002929.2 1811284 1812012 D Similar to Vibrio cholerae peroxiredoxin family protein/glutaredoxin Vc2637 TR:Q9KNU3 (EMBL:AE004330) (247 aa) fasta scores: E(): 3.4e-61, 65.14% id in 241 aa, and to Neisseria meningitidis redoxin Nma1141 or Nmb0946 TR:Q9JQS4 (EMBL:AL162755) (245 aa) fasta scores: E(): 4e-59, 64.31% id in 241 aa; glutaredoxin 1811284..1812012 Bordetella pertussis Tohama I 2665831 NP_880444.1 CDS BP1729 NC_002929.2 1812146 1813561 D Catalyzes the oxidation of dihydrolipoamide to lipoamide; dihydrolipoamide dehydrogenase 1812146..1813561 Bordetella pertussis Tohama I 2665832 NP_880445.1 CDS BP1730 NC_002929.2 1813565 1814428 R Similar to Neisseria meningitidis hypothetical protein Nmb1061 TR:Q9JZH0 (EMBL:AE002456) (281 aa) fasta scores: E(): 9.7e-50, 45.77% id in 284 aa, and to Escherichia coli O157:H7 hypothetical 32.0 kDa protein Ecs4371 TR:BAB37794 (EMBL:AP002565) (280 aa) fasta scores: E(): 1.4e-45, 42.8% id in 271 aa; hypothetical protein complement(1813565..1814428) Bordetella pertussis Tohama I 2665833 NP_880446.1 CDS ugpQ NC_002929.2 1814441 1815190 R hydrolyzes diesters during transport at the inner face of the cytoplasmic membrane to glycerol-3-phosphate and alcohol; induced when cells are starved for inorganic phosphate; glycerophosphodiester phosphodiesterase complement(1814441..1815190) Bordetella pertussis Tohama I 2665834 NP_880447.1 CDS ppiD NC_002929.2 1815433 1817388 D Similar to Escherichia coli peptidyl-prolyl cis-trans isomerase D PpiD or B0441 SW:PPID_ECOLI (P77241) (623 aa) fasta scores: E(): 2.9e-17, 26.07% id in 652 aa, and to Pseudomonas aeruginosa peptidyl-prolyl cis-trans isomerase D PpiD or Pa1805 TR:Q9I2T8 (EMBL:AE004606) (621 aa) fasta scores: E(): 6.5e-30, 31.49% id in 651 aa; peptidyl-prolyl cis-trans isomerase D 1815433..1817388 Bordetella pertussis Tohama I 2665835 NP_880448.1 CDS tesA NC_002929.2 1817370 1817978 R Similar to Escherichia coli acyl-CoA thioesterase I precursor TesA or ApeA or PldC or B0494 SW:TESA_ECOLI (P29679) (208 aa) fasta scores: E(): 9.7e-24, 42.07% id in 183 aa, and to Pseudomonas aeruginosa acyl-CoA thioesterase I precursor TesA or Pa2856 TR:Q9HZY8 (EMBL:AE004712) (201 aa) fasta scores: E(): 2.1e-36, 56.28% id in 183 aa; acyl-CoA thioesterase complement(1817370..1817978) Bordetella pertussis Tohama I 2665836 NP_880449.1 CDS BP1735 NC_002929.2 1818813 1819763 D transposase for IS481 element; transposase 1818813..1819763 Bordetella pertussis Tohama I 2665838 NP_880450.1 CDS BP1736 NC_002929.2 1819912 1820250 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4739 TR:Q9HV60 (EMBL:AE004887) (114 aa) fasta scores: E(): 2.6e-06, 40.18% id in 107 aa, and to the N-terminal region of Escherichia coli osmotically inducible protein Y precursor OsmY or B4376 SW:OSMY_ECOLI (P27291) (201 aa) fasta scores: E(): 5.6e-06, 33.33% id in 120 aa; hypothetical protein complement(1819912..1820250) Bordetella pertussis Tohama I 2665839 NP_880451.1 CDS BP1737 NC_002929.2 1820308 1820469 R Similar to Rhizobium loti Msr3702 protein TR:Q98FM7 (EMBL:AP003002) (54 aa) fasta scores: E(): 1.3e-08, 60.37% id in 53 aa, and to Pseudomonas aeruginosa hypothetical protein Pa5482 TR:Q9HT88 (EMBL:AE004961) (53 aa) fasta scores: E(): 4.5e-07, 63.46% id in 52 aa; hypothetical protein complement(1820308..1820469) Bordetella pertussis Tohama I 2665840 NP_880452.1 CDS BP1738 NC_002929.2 1820501 1820701 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4738 TR:Q9HV61 (EMBL:AE004887) (65 aa) fasta scores: E(): 1.5e-13, 60.93% id in 64 aa, and to Escherichia coli protein YjbJ or B4045 or Z5644 or ecs5028 SW:YJBJ_ECOLI (P32691) (69 aa) fasta scores: E(): 2.7e-10, 52.3% id in 65 aa; hypothetical protein complement(1820501..1820701) Bordetella pertussis Tohama I 2665841 NP_880453.1 CDS cphA NC_002929.2 1820967 1823540 R catalyze the formation of cyanophycin which may act to store excess nitrogen; cyanophycin synthetase complement(1820967..1823540) Bordetella pertussis Tohama I 2665842 NP_880454.1 CDS cphA NC_002929.2 1823611 1826184 R catalyze the formation of cyanophycin which may act to store excess nitrogen; cyanophycin synthetase complement(1823611..1826184) Bordetella pertussis Tohama I 2665843 NP_880455.1 CDS BP1743 NC_002929.2 1828711 1829199 D no significant database matches; hypothetical protein 1828711..1829199 Bordetella pertussis Tohama I 2665576 NP_880456.1 CDS BP1744 NC_002929.2 1829291 1830421 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3230 TR:Q9HZ10 (EMBL:AE004746) (374 aa) fasta scores: E(): 1e-64, 46.88% id in 369 aa, and to Ralstonia solanacearum conserved hypothetical protein TR:CAD16055 (EMBL:AL646069) (408 aa) fasta scores: E(): 1.8e-74, 51.44% id in 381 aa; hypothetical protein complement(1829291..1830421) Bordetella pertussis Tohama I 2665581 NP_880457.1 CDS BP1745 NC_002929.2 1830496 1831317 D Similar to Neisseria meningitidis hypothetical protein Nmb0621 TR:Q9K0H9 (EMBL:AE002417) (275 aa) fasta scores: E(): 6.4e-40, 53.94% id in 241 aa, and to Pasteurella multocida hypothetical protein Pm0569 TR:Q9CN70 (EMBL:AE006092) (287 aa) fasta scores: E(): 7.4e-37, 52.83% id in 229 aa; hypothetical protein 1830496..1831317 Bordetella pertussis Tohama I 2665582 NP_880458.1 CDS BP1746 NC_002929.2 1831356 1832585 D Similar to Pseudomonas aeruginosa probable transglycolase Pa1171 TR:Q9I4G6 (EMBL:AE004547) (398 aa) fasta scores: E(): 2.8e-92, 62.46% id in 389 aa, and to Caulobacter crescentus peptidoglycan-binding protein, Cc3322 TR:Q9A382 (EMBL:AE005994) (433 aa) fasta scores: E(): 1.6e-49, 41.23% id in 388 aa; peptidoglycan-binding protein 1831356..1832585 Bordetella pertussis Tohama I 2665583 NP_880459.1 CDS BP1747 NC_002929.2 1832714 1833154 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3796 TR:Q9HXK1 (EMBL:AE004798) (195 aa) fasta scores: E(): 9.9e-12, 41.61% id in 149 aa, and to Escherichia coli hypothetical protein YidB or B3698 SW:YIDB_ECOLI (P09996) (132 aa) fasta scores: E(): 5.3e-05, 31.72% id in 145 aa; hypothetical protein 1832714..1833154 Bordetella pertussis Tohama I 2665584 NP_880460.1 CDS BP1748 NC_002929.2 1833265 1834215 D transposase for IS481 element; transposase 1833265..1834215 Bordetella pertussis Tohama I 2665585 NP_880461.1 CDS BP1749 NC_002929.2 1834212 1834685 R Similar to Rhizobium loti transcriptional regulator Mll7935 TR:Q984M5 (EMBL:AP003013) (159 aa) fasta scores: E(): 1.9e-15, 36.42% id in 151 aa, and to Agrobacterium tumefaciens StrC58 Agr_c_1339p TR:AAK86548 (EMBL:AE008008) (150 aa) fasta scores: E(): 8e-23, 45.27% id in 148 aa; AsnC family transcriptional regulator complement(1834212..1834685) Bordetella pertussis Tohama I 2665586 NP_880462.1 CDS BP1750 NC_002929.2 1834826 1835785 D Similar to Agrobacterium tumefaciens strC58 Agr_c_1338p TR:AAK86547 (EMBL:AE008008) (320 aa) fasta scores: E(): 1.6e-32, 33.44% id in 296 aa, and to Bacillus halodurans Bh3588 protein TR:Q9K6Y6 (EMBL:AP001519) (317 aa) fasta scores: E(): 1.1e-14, 26.35% id in 296 aa; hypothetical protein 1834826..1835785 Bordetella pertussis Tohama I 2665587 NP_880463.1 CDS dfp NC_002929.2 1835787 1836995 R catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine; bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase complement(1835787..1836995) Bordetella pertussis Tohama I 2665588 NP_880464.1 CDS lspA NC_002929.2 1837100 1837606 R lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis; lipoprotein signal peptidase complement(1837100..1837606) Bordetella pertussis Tohama I 2665589 NP_880465.1 CDS ileS NC_002929.2 1837609 1840470 R IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase family type 1 subfamily; some organisms carry two different copies of this enzyme; isoleucyl-tRNA synthetase complement(1837609..1840470) Bordetella pertussis Tohama I 2665590 NP_880466.1 CDS ribF NC_002929.2 1840460 1841425 R catalyzes the formation of FMN from riboflavin and the formation of FAD from FMN; in Bacillus the ribC gene has both flavokinase and FAD synthetase activities; bifunctional riboflavin kinase/FMN adenylyltransferase complement(1840460..1841425) Bordetella pertussis Tohama I 2665591 NP_880467.1 CDS BP1756 NC_002929.2 1842178 1843479 D Similar to Ralstonia solanacearum hypothetical protein Rsc2453 or Rs01153 SWALL:Q8XWM1 (EMBL:AL646070) (417 aa) fasta scores: E(): 2.2e-77, 54.41% id in 419 aa, and to Neisseria meningitidis fmu and fmv protein, nmb1351 SWALL:Q9JZ03 (EMBL:AE002483) (418 aa) fasta scores: E(): 1e-67, 48.81% id in 420 aa; hypothetical protein 1842178..1843479 Bordetella pertussis Tohama I 2665593 NP_880468.1 CDS BP1757 NC_002929.2 1843578 1844528 D transposase for IS481 element; transposase 1843578..1844528 Bordetella pertussis Tohama I 2666502 NP_880469.1 CDS BP1757A NC_002929.2 1844525 1844899 R Similar to the N-terminal region of Escherichia coli PilL TR:AAL05516 (EMBL:AF399919) (357 aa) fasta scores: E(): 3.8, 33.01% id in 106 aa; hypothetical protein complement(1844525..1844899) Bordetella pertussis Tohama I 2666503 NP_880470.1 CDS BP1758 NC_002929.2 1845161 1846369 D Similar to Azotobacter vinelandii stearoyl-CoA desaturase TR:Q59162 (EMBL:U37517) (367 aa) fasta scores: E(): 7.8e-68, 47.7% id in 348 aa, and to Pseudomonas aeruginosa probable fatty acid desaturase pa0286 TR:Q9I6K4 (EMBL:AE004466) (392 aa) fasta scores: E(): 2.5e-79, 49.23% id in 392 aa; fatty acid desaturase 1845161..1846369 Bordetella pertussis Tohama I 2666504 NP_880471.1 CDS uvrD NC_002929.2 1846366 1848666 D Similar to Escherichia coli DNA helicase II UvrD or MutU or PdeB or Rad or RecL or B3813 SW:UVRD_ECOLI (P03018) (720 aa) fasta scores: E(): 1.3e-94, 46.5% id in 772 aa, and to Neisseria meningitidis DNA helicase II Nmb0232 TR:Q9K1D0 (EMBL:AE002380) (735 aa) fasta scores: E(): 1.2e-108, 53.78% id in 766 aa; DNA helicase II 1846366..1848666 Bordetella pertussis Tohama I 2666505 NP_880472.1 CDS BP1760 NC_002929.2 1848719 1851331 R Similar to Pseudomonas aeruginosa probable siderophore receptor Pa1365 TR:Q9I3X9 (EMBL:AE004565) (813 aa) fasta scores: E(): 1.1e-08, 23.6% id in 771 aa, and to Escherichia coli hypothetical protein Yddb or B1495 SW:YDDB_ECOLI (P31827) (790 aa) fasta scores: E(): 3.1e-72, 32.65% id in 781 aa; hypothetical protein complement(1848719..1851331) Bordetella pertussis Tohama I 2666506 NP_880473.1 CDS BP1761 NC_002929.2 1851691 1853616 R Similar to Escherichia coli hypothetical ABC transporter ATP-binding protein YheS or B3352 or Z4713 or Ecs4203 SW:YHES_ECOLI (P45535) (637 aa) fasta scores: E(): 2.4e-90, 50.31% id in 632 aa, and to Pasteurella multocida hypothetical protein Pm1582 TR:Q9CKM9 (EMBL:AE006195) (640 aa) fasta scores: E(): 1.6e-89, 49.68% id in 638 aa; ABC transporter ATP-binding protein complement(1851691..1853616) Bordetella pertussis Tohama I 2666507 NP_880474.1 CDS BP1762 NC_002929.2 1853613 1854509 R involved in methylation of ribosomal protein L3; N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase complement(1853613..1854509) Bordetella pertussis Tohama I 2666508 NP_880475.1 CDS dapE NC_002929.2 1854516 1855655 R dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica.; succinyl-diaminopimelate desuccinylase complement(1854516..1855655) Bordetella pertussis Tohama I 2666509 NP_880476.1 CDS dapD NC_002929.2 1855655 1856476 R catalyzes the formation of N-succinyl-2-amino-6-ketopimelate from succinyl-CoA and tetrahydrodipicolinate in the lysine biosynthetic pathway; 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase complement(1855655..1856476) Bordetella pertussis Tohama I 2666510 NP_880477.1 CDS BP1766 NC_002929.2 1858047 1858376 R no significant database matches. Similar to BP0266, BP2719, BP3099, BP3683, and BP3731; hypothetical protein complement(1858047..1858376) Bordetella pertussis Tohama I 2666512 NP_880478.1 CDS phg NC_002929.2 1858759 1860015 D Identical to the previously sequenced Bordetella pertussis Phg protein TR:Q9Z5R3 (EMBL:AJ009835) (418 aa) fasta scores: E(): 1.6e-154, 100% id in 418 aa; autotransporter 1858759..1860015 Bordetella pertussis Tohama I 2666513 NP_880479.1 CDS BP1768 NC_002929.2 1860090 1860371 D no significant database matches; hypothetical protein 1860090..1860371 Bordetella pertussis Tohama I 2666514 NP_880480.1 CDS BP1769 NC_002929.2 1860413 1860733 D no significant database matches; hypothetical protein 1860413..1860733 Bordetella pertussis Tohama I 2666515 NP_880481.1 CDS cspA NC_002929.2 1861040 1861243 D Identical to the previously sequenced Bordetella pertussis cold shock-like protein CspA SW:CSPA_BORPE (Q9Z5R4) (67 aa) fasta scores: E(): 3.4e-26, 100% id in 67 aa, and similar to Ralstonia solanacearum probable cold shock-like CspC transcription regulator protein CspC TR:CAD16944 (EMBL:AL646074) (67 aa) fasta scores: E(): 5.5e-17, 67.69% id in 65 aa; cold shock-like protein 1861040..1861243 Bordetella pertussis Tohama I 2666516 NP_880482.1 CDS BP1771 NC_002929.2 1861327 1861893 D Similar to Caulobacter crescentus hypothetical protein Cc2122 TR:Q9A6H2 (EMBL:AE005885) (187 aa) fasta scores: E(): 1.9e-37, 54.74% id in 179 aa, and to Rhizobium meliloti hypothetical protein Smc00282 TR:CAC46289 (EMBL:AL591788) (221 aa) fasta scores: E(): 5.3e-40, 54.25% id in 188 aa; hypothetical protein 1861327..1861893 Bordetella pertussis Tohama I 2666439 NP_880483.1 CDS cspA NC_002929.2 1862239 1862439 D Similar to Bordetella pertussis cold shock-like protein CspA SW:CSPA_BORPE (Q9Z5R4) (67 aa) fasta scores: E(): 1.2e-15, 71.66% id in 60 aa, and to Escherichia coli cold shock protein CspA or B3556 or Z4981 or Ecs4441 or Sty4153 SW:CSPA_ECOLI (P15277) (69 aa) fasta scores: E(): 6.2e-14, 68.42% id in 57 aa; cold shock-like protein 1862239..1862439 Bordetella pertussis Tohama I 2666440 NP_880484.1 CDS BP1773 NC_002929.2 1862551 1863111 R Similar to Bradyrhizobium japonicum PipA TR:Q9L8L2 (EMBL:AF200320) (193 aa) fasta scores: E(): 1.6e-48, 76.16% id in 172 aa, and to Pasteurella multocida hypothetical protein Pm1258 SW:YC58_PASMU (P57929) (192 aa) fasta scores: E(): 4.5e-36, 56.52% id in 184 aa; hypothetical protein complement(1862551..1863111) Bordetella pertussis Tohama I 2666441 NP_880485.1 CDS tig NC_002929.2 1863308 1864618 D Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer; trigger factor 1863308..1864618 Bordetella pertussis Tohama I 2666442 NP_880486.1 CDS clpP NC_002929.2 1864621 1865274 D hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates; ATP-dependent Clp protease proteolytic subunit 1864621..1865274 Bordetella pertussis Tohama I 2666443 NP_880487.1 CDS clpX NC_002929.2 1865379 1866683 D binds and unfolds substrates as part of the ClpXP protease; ATP-dependent protease ATP-binding protein ClpX 1865379..1866683 Bordetella pertussis Tohama I 2666444 NP_880488.1 CDS lon NC_002929.2 1866872 1869325 D Similar to Escherichia coli ATP-dependent protease La Lon or CapR or Deg or Muc or LopA or B0439 SW:LON_ECOLI (P08177) (784 aa) fasta scores: E(): 5.6e-127, 68.24% id in 781 aa, and to Neisseria meningitidis ATP-dependent protease La Lon or Nma1398 TR:Q9JUC0 (EMBL:AL162755) (820 aa) fasta scores: E(): 4.7e-177, 67.83% id in 799 aa; ATP-dependent protease La 1866872..1869325 Bordetella pertussis Tohama I 2666935 NP_880489.1 CDS BP1778 NC_002929.2 1869449 1870348 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa1826 TR:Q9I2R9 (EMBL:AE004609) (301 aa) fasta scores: E(): 5e-36, 43.19% id in 294 aa, and to Ralstonia solanacearum probable transcription regulator protein Rsp1326 TR:CAD18477 (EMBL:AL646084) (306 aa) fasta scores: E(): 1.2e-27, 38.17% id in 296 aa; LysR family transcriptional regulator complement(1869449..1870348) Bordetella pertussis Tohama I 2666955 NP_880490.1 CDS BP1779 NC_002929.2 1870627 1871850 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0446 TR:Q9I672 (EMBL:AE004482) (407 aa) fasta scores: E(): 7.6e-94, 56.71% id in 402 aa, and to Acinetobacter spNCIMB9871 L-carnitine dehydrogenase-like protein Orf17 TR:BAB61747 (EMBL:AB026669) (405 aa) fasta scores: E(): 4.3e-82, 51.11% id in 405 aa. Also similar to BP0143 (68.059% identity in 407 aa overlap), and BP3309 (57.644% identity in 399 aa overlap).; hypothetical protein 1870627..1871850 Bordetella pertussis Tohama I 2666956 NP_880491.1 CDS BP1780 NC_002929.2 1871916 1872887 D Similar to Comamonas testosteroni Orf4 protein TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 6.8e-40, 39.93% id in 313 aa, and to Variovorax paradoxus, and 2,4-diphenoxyacetic acid gene cluster TR:AAK81675 (EMBL:AB028643) (337 aa) fasta scores: E(): 1.7e-32, 35.57% id in 312 aa; hypothetical protein 1871916..1872887 Bordetella pertussis Tohama I 2666957 NP_880492.1 CDS BP1781 NC_002929.2 1872954 1873355 D Similar to Rhizobium leguminosarum nodulation protein N NodN SW:NODN_RHILV (P08634) (161 aa) fasta scores: E(): 4e-18, 43.84% id in 130 aa, and to Mycobacterium tuberculosis hypothetical 16.0 kDa protein rv0130 or mtci5.04 TR:P96807 (EMBL:Z92770) (151 aa) fasta scores: E(): 6.5e-20, 48.43% id in 128 aa; hypothetical protein 1872954..1873355 Bordetella pertussis Tohama I 2666961 NP_880493.1 CDS BP1782 NC_002929.2 1873375 1874172 D Similar to Escherichia coli probable enoyl-CoA hydratase PaaG or B1394 SW:PAAG_ECOLI (P77467) (262 aa) fasta scores: E(): 4e-24, 38.79% id in 250 aa, and to Caulobacter crescentus enoyl-CoA hydratase/isomerase family protein cc2575 TR:Q9A582 (EMBL:AE005925) (265 aa) fasta scores: E(): 4.2e-25, 35.84% id in 265 aa; enoyl-CoA hydratase/isomerase 1873375..1874172 Bordetella pertussis Tohama I 2666962 NP_880494.1 CDS BP1783 NC_002929.2 1874169 1874600 D Similar to Pyrococcus abyssi AcaC protein or Pab0908 TR:Q9UYY6 (EMBL:AJ248287) (134 aa) fasta scores: E(): 1.3e-05, 29.83% id in 124 aa, and to Archaeoglobus fulgidus conserved hypothetical protein Af1292 TR:O28977 (EMBL:AE001015) (136 aa) fasta scores: E(): 3.8e-05, 29.66% id in 118 aa; hypothetical protein 1874169..1874600 Bordetella pertussis Tohama I 2666963 NP_880495.1 CDS BP1784 NC_002929.2 1874597 1875754 D Similar to Pseudomonas aeruginosa hypothetical protein Pa1016 TR:Q9I4V7 (EMBL:AE004534) (383 aa) fasta scores: E(): 7.5e-88, 60.31% id in 378 aa, and to Methanothermobacter thermautotrophicus lipid-transfer protein Mth793 TR:O26884 (EMBL:AE000857) (383 aa) fasta scores: E(): 8e-31, 32.03% id in 384 aa; thiolase 1874597..1875754 Bordetella pertussis Tohama I 2666964 NP_880496.1 CDS fabG NC_002929.2 1875776 1876552 D Similar to Escherichia coli 3-oxoacyl-[acyl-carrier protein] reductase FabG or B1093 SW:FABG_ECOLI (P25716) (244 aa) fasta scores: E(): 3.3e-24, 36.69% id in 248 aa, and to Thermotoga maritima 3-oxoacyl-[acyl-carrier protein] reductase FabG or Tm1724 SW:FABG_THEMA (Q9X248) (246 aa) fasta scores: E(): 2.2e-27, 41.5% id in 253 aa; 3-oxoacyl-ACP reductase 1875776..1876552 Bordetella pertussis Tohama I 2667240 NP_880497.1 CDS pcaI NC_002929.2 1878765 1879433 D Similar to Pseudomonas putida 3-oxoadipate CoA-transferase subunit A PcaI SW:PCAI_PSEPU (Q01103) (231 aa) fasta scores: E(): 1.9e-43, 52.51% id in 219 aa, and to Ralstonia solanacearum probable 3-oxoadipate CoA-transferase subunit A protein PcaI TR:CAD15961 (EMBL:AL646069) (229 aa) fasta scores: E(): 4.8e-44, 52.51% id in 219 aa. Also similar to BP0221 (50.228% identity in 219 aa overlap), and to BP2401 (46.083% identity in 217 aa overlap).; 3-oxoadipate CoA-transferase subunit A 1878765..1879433 Bordetella pertussis Tohama I 2667243 NP_880498.1 CDS pcaJ NC_002929.2 1879426 1880067 D Similar to Pseudomonas putida 3-oxoadipate CoA-transferase subunit B PcaJ SW:PCAJ_PSEPU (Q01104) (212 aa) fasta scores: E(): 8.3e-38, 52.45% id in 204 aa, and to Caulobacter crescentus 3-oxoadipate CoA-transferase, beta subunit Cc0207 TR:Q9ABM0 (EMBL:AE005695) (213 aa) fasta scores: E(): 8e-36, 50.96% id in 208 aa. Also similar to BP222 (50.472% identity in 212 aa overlap), and to BP2400 (46.667% identity in 210 aa overlap).; 3-oxoadipate CoA-transferase subunit B 1879426..1880067 Bordetella pertussis Tohama I 2667244 NP_880499.1 CDS BP1792 NC_002929.2 1881634 1882584 D transposase for IS481 element; transposase 1881634..1882584 Bordetella pertussis Tohama I 2667247 NP_880500.1 CDS lexA NC_002929.2 1884142 1884792 R Represses a number of genes involved in the response to DNA damage; LexA repressor complement(1884142..1884792) Bordetella pertussis Tohama I 2667248 NP_880501.1 CDS tyrB NC_002929.2 1884921 1886123 R catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase complement(1884921..1886123) Bordetella pertussis Tohama I 2667249 NP_880502.1 CDS uvrB NC_002929.2 1886201 1888237 D The UvrABC repair system catalyzes the recognition and processing of DNA lesions. The beta-hairpin of the Uvr-B subunit is inserted between the strands, where it probes for the presence of a lesion; excinuclease ABC subunit B 1886201..1888237 Bordetella pertussis Tohama I 2667250 NP_880503.1 CDS ptpA NC_002929.2 1888490 1888981 D Similar to Streptomyces coelicolor low molecular weight protein-tyrosine-phosphatase PtpA or Scq11.04C SW:PTPA_STRCO (P53433) (164 aa) fasta scores: E(): 2.9e-20, 45.28% id in 159 aa, and to Pseudomonas aeruginosa phosphotyrosine protein phosphatase Pt or Pa2978 TR:Q9HZM6 (EMBL:AE004723) (154 aa) fasta scores: E(): 6.6e-27, 51.29% id in 154 aa; low molecular weight protein-tyrosine-phosphatase 1888490..1888981 Bordetella pertussis Tohama I 2667251 NP_880504.1 CDS BP1798 NC_002929.2 1889197 1889709 D Similar to Ralstonia solanacearum conserved hypothetical protein Rsc1018 TR:CAD14720 (EMBL:AL646062) (193 aa) fasta scores: E(): 9.9e-42, 70.58% id in 170 aa, and to Neisseria meningitidis hypothetical protein Nma1593/Nmb1378 precursor Nma1593 or Nmb1378 SW:YF93_NEIMA (Q51134) (148 aa) fasta scores: E(): 6.3e-28, 60.87% id in 138 aa; DNA-binding protein 1889197..1889709 Bordetella pertussis Tohama I 2665966 NP_880505.1 CDS iscS NC_002929.2 1889727 1890938 D catalyzes the removal of elemental sulfur from cysteine to produce alanine; involved in NAD biosynthesis; cysteine desulfurase 1889727..1890938 Bordetella pertussis Tohama I 2665967 NP_880506.1 CDS iscU NC_002929.2 1890976 1891386 D Similar to Azotobacter vinelandii IscU TR:O31270 (EMBL:AF010139) (128 aa) fasta scores: E(): 1.3e-40, 81.74% id in 126 aa, and to Escherichia coli, and NifU-like protein NifU or B2529 or Z3796 or ecs3395 SW:NIFU_ECOLI (P77310) (128 aa) fasta scores: E(): 7.7e-42, 82.81% id in 128 aa; scaffold protein 1890976..1891386 Bordetella pertussis Tohama I 2665968 NP_880507.1 CDS iscA NC_002929.2 1891388 1891711 D Similar to Azotobacter vinelandii IscA TR:O31271 (EMBL:AF010139) (107 aa) fasta scores: E(): 1.5e-28, 68.22% id in 107 aa, and to Pseudomonas aeruginosa probable iron-binding protein isca isca or pa3812 TR:Q9HXJ0 (EMBL:AE004799) (107 aa) fasta scores: E(): 1.5e-29, 71.02% id in 107 aa. Also similar to BP2958, 39.623% identity (40.000% ungapped) in 106 aa overlap.; [Fe-S] cluster formation/repair protein 1891388..1891711 Bordetella pertussis Tohama I 2665969 NP_880508.1 CDS hscB NC_002929.2 1891714 1892226 D J-type co-chaperone that regulates the ATPase and peptide-binding activity of Hsc66 chaperone; may function in biogenesis of iron-sulfur proteins; co-chaperone HscB 1891714..1892226 Bordetella pertussis Tohama I 2665970 NP_880509.1 CDS hscA NC_002929.2 1892356 1894218 D involved in the maturation of iron-sulfur cluster-containing proteins; chaperone protein HscA 1892356..1894218 Bordetella pertussis Tohama I 2665971 NP_880510.1 CDS fdx NC_002929.2 1894228 1894569 D Similar to Escherichia coli ferredoxin, 2Fe-2S Fdx or B2525 or Z3792 or Ecs3391 TR:AAG57639 (EMBL:M88654) (111 aa) fasta scores: E(): 1.5e-28, 62.5% id in 112 aa, and to Neisseria meningitidis ferredoxin Fdx or Nma1344 or Nmb1172 TR:Q9JQT7 (EMBL:AL162755) (113 aa) fasta scores: E(): 7.3e-33, 67.25% id in 113 aa. Also similar to BP3174, 63.964% identity (64.545% ungapped) in 111 aa overlap.; ferredoxin, 2Fe-2S 1894228..1894569 Bordetella pertussis Tohama I 2665972 NP_880511.1 CDS BP1805 NC_002929.2 1894569 1894763 D Similar to Azotobacter vinelandii hypothetical 7.9 kDa protein TR:O69223 (EMBL:AF010139) (68 aa) fasta scores: E(): 1.3e-14, 62.5% id in 64 aa, and to Neisseria meningitidis hypothetical protein Nma1347 or Nmb1175 TR:Q9JR02 (EMBL:AL162755) (65 aa) fasta scores: E(): 9.5e-14, 60% id in 65 aa; hypothetical protein 1894569..1894763 Bordetella pertussis Tohama I 2665973 NP_880512.1 CDS BP1806 NC_002929.2 1894888 1895781 D The C-terminal region of this CDS is similar to Brucella abortus methylglyoxal synthase MgsA SW:MGSA_BRUAB (Q44615) (125 aa) fasta scores: E(): 3.6e-10, 41.12% id in 124 aa, and to Rhizobium meliloti probable methylglyoxal synthase TR:CAC41545 (EMBL:AL591782) (126 aa) fasta scores: E(): 1.1e-07, 40.95% id in 105 aa; hypothetical protein 1894888..1895781 Bordetella pertussis Tohama I 2665980 NP_880513.1 CDS BP1807 NC_002929.2 1895778 1896728 R transposase for IS481 element; transposase complement(1895778..1896728) Bordetella pertussis Tohama I 2665981 NP_880514.1 CDS paaG NC_002929.2 1896853 1897662 R Similar to Escherichia coli probable enoyl-CoA hydratase PaaG or B1394 SW:PAAG_ECOLI (P77467) (262 aa) fasta scores: E(): 2.3e-24, 38.79% id in 250 aa, and to Rhizobium meliloti enoyl-CoA hydratase TR:Q92TG7 (EMBL:AL603647) (263 aa) fasta scores: E(): 7.3e-25, 37.73% id in 265 aa; enoyl-CoA hydratase complement(1896853..1897662) Bordetella pertussis Tohama I 2666857 NP_880515.1 CDS BP1809 NC_002929.2 1897863 1898813 D transposase for IS481 element; transposase 1897863..1898813 Bordetella pertussis Tohama I 2666858 NP_880516.1 CDS BP1810 NC_002929.2 1898912 1899862 D transposase for IS481 element; transposase 1898912..1899862 Bordetella pertussis Tohama I 2666859 NP_880517.1 CDS BP1812 NC_002929.2 1901136 1902353 D Similar to Rhizobium meliloti hypothetical protein Smb20670 TR:CAC49777 (EMBL:AL603646) (425 aa) fasta scores: E(): 4.8e-08, 30.02% id in 433 aa, and to Escherichia coli hypothetical protein YgbK or B2737 SW:YGBK_ECOLI (Q46889) (388 aa) fasta scores: E(): 2.1e-07, 28.98% id in 383 aa; hypothetical protein 1901136..1902353 Bordetella pertussis Tohama I 2666861 NP_880518.1 CDS pdxA NC_002929.2 1902350 1903405 D Similar to Escherichia coli pyridoxal phosphate biosynthetic protein PdxA or B0052 SW:PDXA_ECOLI (P19624) (329 aa) fasta scores: E(): 1.2e-18, 31.7% id in 287 aa, and to Caulobacter crescentus pyridoxal phosphate biosynthetic protein PdxA Cc1686 TR:Q9A7N4 (EMBL:AE005843) (333 aa) fasta scores: E(): 1.1e-26, 36.33% id in 333 aa. Also similar to BP2789, 46.233% identity (49.451% ungapped) in 292 aa overlap.; pyridoxal phosphate biosynthetic protein 1902350..1903405 Bordetella pertussis Tohama I 2666862 NP_880519.1 CDS BP1814 NC_002929.2 1903410 1904312 D Similar to Rhizobium meliloti transcription regulator protein Smc02340 TR:CAC47147 (EMBL:AL591791) (244 aa) fasta scores: E(): 3.8e-18, 33.47% id in 239 aa, and to Deinococcus radiodurans transcriptional regulator, GntR family Dra0211 TR:Q9RYU6 (EMBL:AE001863) (279 aa) fasta scores: E(): 3.8e-17, 37.7% id in 244 aa; GntR family transcriptional regulator 1903410..1904312 Bordetella pertussis Tohama I 2666863 NP_880520.1 CDS BP1815 NC_002929.2 1904389 1905261 D Similar to Rhizobium meliloti hypothetical protein Smc02631 TR:CAC45671 (EMBL:AL591786) (283 aa) fasta scores: E(): 1e-13, 36.45% id in 288 aa, and to Streptomyces coelicolor conserved hypothetical protein 2 Scd46.31C TR:Q9FCF3 (EMBL:AL391406) (294 aa) fasta scores: E(): 4.9e-13, 34.89% id in 298 aa; hypothetical protein 1904389..1905261 Bordetella pertussis Tohama I 2666864 NP_880521.1 CDS panD NC_002929.2 1905392 1905760 D 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); aspartate alpha-decarboxylase 1905392..1905760 Bordetella pertussis Tohama I 2666865 NP_880522.1 CDS ascD NC_002929.2 1905818 1906864 D catalyzes the formation of 3,6-dideoxy-D-glycero-D-glycero-4-hexulose; CDP-6-deoxy-delta-3,4-glucoseen reductase 1905818..1906864 Bordetella pertussis Tohama I 2666216 NP_880523.1 CDS dadA NC_002929.2 1907060 1908316 D Similar to Escherichia coli D-amino acid dehydrogenase small subunit DadA or DadR or B1189 or Z1952 or Ecs1684 SW:DADA_ECOLI (P29011) (432 aa) fasta scores: E(): 4.2e-68, 45.14% id in 412 aa, and to Salmonella typhimurium LT2 D-amino acid dehydrogenase subunit DadA TR:AAL20718 (EMBL:AE008780) (432 aa) fasta scores: E(): 3.7e-68, 44.63% id in 410 aa. Also similar to BP2634, 42.079% identity in 404 aa overlap; D-amino acid dehydrogenase small subunit 1907060..1908316 Bordetella pertussis Tohama I 2666217 NP_880524.1 CDS ugpB NC_002929.2 1908336 1909658 D Similar to Escherichia coli glycerol-3-phosphate-binding periplasmic protein precursor UgpB or B3453 or Z4822 or Ecs4299 SW:UGPB_ECOLI (P10904) (438 aa) fasta scores: E(): 5.3e-42, 30.76% id in 429 aa, and to Yersinia pestis glycerol-3-phosphate-binding periplasmic protein UgpB TR:CAC93263 (EMBL:AJ414159) (439 aa) fasta scores: E(): 1.7e-43, 32.54% id in 424 aa; glycerol-3-phosphate ABC transporter substrate-binding protein 1908336..1909658 Bordetella pertussis Tohama I 2666218 NP_880525.1 CDS BP1820 NC_002929.2 1909808 1910764 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa1998 TR:Q9I2B1 (EMBL:AE004626) (306 aa) fasta scores: E(): 4.7e-30, 36.3% id in 314 aa, and to Rhizobium loti transcriptional regulator Mlr6981 TR:Q987N6 (EMBL:AP003010) (299 aa) fasta scores: E(): 1.1e-28, 36.23% id in 287 aa; LysR family transcriptional regulator complement(1909808..1910764) Bordetella pertussis Tohama I 2666231 NP_880526.1 CDS BP1822 NC_002929.2 1912237 1912587 D hypothetical protein 1912237..1912587 Bordetella pertussis Tohama I 2666233 NP_880527.1 CDS BP1823 NC_002929.2 1912635 1914209 D Similar to Rhizobium sp probable peptide ABC transporter periplasmic binding protein Y4tO precursor y4tO SW:Y4TO_RHISN (P55669) (531 aa) fasta scores: E(): 2e-70, 39.92% id in 521 aa, and to Bradyrhizobium japonicum ABC transporter TR:Q9RH65 (EMBL:AF065159) (516 aa) fasta scores: E(): 1.5e-64, 38.35% id in 524 aa; ABC transporter substrate-binding protein 1912635..1914209 Bordetella pertussis Tohama I 2666234 NP_880528.1 CDS BP1824 NC_002929.2 1914262 1915206 D Similar to Rhizobium sp probable peptide ABC transporter permease Y4tP SW:Y4TP_RHISN (Q53191) (313 aa) fasta scores: E(): 7e-57, 48.89% id in 317 aa, and to Rhizobium loti ABC transporter permease Mlr6289 TR:Q989T3 (EMBL:AP003008) (314 aa) fasta scores: E(): 9.3e-54, 45.36% id in 313 aa; binding-protein-dependent transport system inner membrane protein 1914262..1915206 Bordetella pertussis Tohama I 2666235 NP_880529.1 CDS BP1825 NC_002929.2 1915224 1916054 D Similar to Rhizobium sp probable peptide ABC transporter permease Y4tQ SW:Y4TQ_RHISN (Q53192) (291 aa) fasta scores: E(): 1e-49, 52.96% id in 270 aa, and to Rhizobium loti ABC transporter permease Mlr6290 TR:Q989T2 (EMBL:AP003008) (280 aa) fasta scores: E(): 5.1e-46, 49.8% id in 261 aa; binding-protein-dependent transport system inner membrane protein 1915224..1916054 Bordetella pertussis Tohama I 2667602 NP_880530.1 CDS BP1826 NC_002929.2 1916047 1917681 D Similar to Rhizobium meliloti probable ABC transporter ATP-binding protein Sma1434 TR:AAK65441 (EMBL:AE007265) (550 aa) fasta scores: E(): 4.3e-80, 48.08% id in 549 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa2061 TR:Q9I254 (EMBL:AE004632) (536 aa) fasta scores: E(): 1.5e-76, 49.24% id in 526 aa; ABC transporter ATP-binding protein 1916047..1917681 Bordetella pertussis Tohama I 2667603 NP_880531.1 CDS BP1827 NC_002929.2 1917678 1919033 D Similar to Pseudomonas putida amidase SW:AMID_PSEPU (O69768) (466 aa) fasta scores: E(): 2e-26, 32.39% id in 460 aa, and to Rhizobium meliloti amidase Smc02881 TR:CAC41593 (EMBL:AL591782) (453 aa) fasta scores: E(): 2.4e-38, 35.57% id in 447 aa; amidase 1917678..1919033 Bordetella pertussis Tohama I 2667604 NP_880532.1 CDS BP1829 NC_002929.2 1919940 1921517 D Similar to Escherichia coli lipoprotein PilN TR:O07372 (EMBL:AB021078) (560 aa) fasta scores: E(): 2.3e-11, 24.69% id in 567 aa; lipoprotein 1919940..1921517 Bordetella pertussis Tohama I 2667110 NP_880533.1 CDS BP1830 NC_002929.2 1921521 1922795 D no significant database matches; hypothetical protein 1921521..1922795 Bordetella pertussis Tohama I 2667111 NP_880534.1 CDS BP1831 NC_002929.2 1922893 1923267 D The N-terminal region of this CDS is similar to Streptomyces coelicolor hypothetical 7.7 kDa protein Sc7h1.36C TR:O54195 (EMBL:AL021411) (81 aa) fasta scores: E(): 0.24, 45.45% id in 66 aa; hypothetical protein 1922893..1923267 Bordetella pertussis Tohama I 2667112 NP_880535.1 CDS BP1833 NC_002929.2 1924983 1926116 D Similar to Escherichia coli integral membrane protein PilR TR:O07376 (EMBL:AB021078) (365 aa) fasta scores: E(): 3.3e-06, 24.07% id in 353 aa, and to Caulobacter crescentus general secretion pathway protein F Cc0175 TR:Q9ABQ1 (EMBL:AE005692) (403 aa) fasta scores: E(): 0.052, 23.94% id in 355 aa; general secretion pathway protein 1924983..1926116 Bordetella pertussis Tohama I 2667114 NP_880536.1 CDS BP1834 NC_002929.2 1926154 1926759 D Similar to Escherichia coli type IV prepilin PilS TR:O88170 (EMBL:AB007463) (204 aa) fasta scores: E(): 0.62, 24.49% id in 196 aa, and to Salmonella typhi PilS protein TR:Q9ZIU9 (EMBL:AF000001) (206 aa) fasta scores: E(): 0.71, 29.78% id in 188 aa; fimbrial protein 1926154..1926759 Bordetella pertussis Tohama I 2667115 NP_880537.1 CDS BP1835 NC_002929.2 1926756 1927574 D no significant database matches; hypothetical protein 1926756..1927574 Bordetella pertussis Tohama I 2667116 NP_880538.1 CDS alaS NC_002929.2 1927646 1930270 D Catalyzes a two-step reaction, first charging an alanyl molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; alanyl-tRNA synthetase 1927646..1930270 Bordetella pertussis Tohama I 2667117 NP_880539.1 CDS BP1837 NC_002929.2 1930257 1930511 D Similar to Neisseria meningitidis hypothetical protein Nma0882 or Nmb0681 SW:Y882_NEIMA (Q9JR98) (74 aa) fasta scores: E(): 1.1e-10, 61.66% id in 60 aa, and to Pseudomonas aeruginosa hypothetical protein Pa1006 TR:Q9I4W7 (EMBL:AE004533) (83 aa) fasta scores: E(): 1.6e-10, 45.23% id in 84 aa; hypothetical protein 1930257..1930511 Bordetella pertussis Tohama I 2667118 NP_880540.1 CDS BP1838 NC_002929.2 1930578 1931159 R Weakly similar to Bacillus subtilis endoglucanase precursor TR:Q03882 (EMBL:M38634) (148 aa) fasta scores: E(): 4, 26.71% id in 131 aa; hypothetical protein complement(1930578..1931159) Bordetella pertussis Tohama I 2667119 NP_880541.1 CDS rpsP NC_002929.2 1931463 1931723 D binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity; 30S ribosomal protein S16 1931463..1931723 Bordetella pertussis Tohama I 2667120 NP_880542.1 CDS rimM NC_002929.2 1931889 1932512 D Essential for efficient processing of 16S rRNA; 16S rRNA-processing protein RimM 1931889..1932512 Bordetella pertussis Tohama I 2667121 NP_880543.1 CDS trmD NC_002929.2 1932512 1933285 D methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA; tRNA (guanine-N(1)-)-methyltransferase 1932512..1933285 Bordetella pertussis Tohama I 2667122 NP_880544.1 CDS BP1842 NC_002929.2 1933282 1934490 R Similar to Escherichia coli selenocysteine lyase CsdB or SufS or B1680 SW:CSDB_ECOLI (P77444) (406 aa) fasta scores: E(): 1.3e-18, 29.57% id in 355 aa, and to Streptomyces capreolus capreomycin acetyltransferase Cac TR:Q53824 (EMBL:U13077) (359 aa) fasta scores: E(): 8.9e-38, 39.33% id in 361 aa; class-V aminotransferase complement(1933282..1934490) Bordetella pertussis Tohama I 2667123 NP_880545.1 CDS BP1843 NC_002929.2 1934516 1934989 R Similar to Rhizobium meliloti hypothetical protein Smc02103 TR:CAC46072 (EMBL:AL591787) (154 aa) fasta scores: E(): 2.4e-22, 50% id in 156 aa, and to Agrobacterium tumefaciens strC58 Agr_c_2535p TR:AAK87164 (EMBL:AE008063) (156 aa) fasta scores: E(): 8.6e-21, 46.75% id in 154 aa; hypothetical protein complement(1934516..1934989) Bordetella pertussis Tohama I 2667124 NP_880546.1 CDS BP1844 NC_002929.2 1935063 1936013 R transposase for IS481 element; transposase complement(1935063..1936013) Bordetella pertussis Tohama I 2667125 NP_880547.1 CDS BP1845 NC_002929.2 1936112 1937128 R Similar to Escherichia coli unknown protein from 2D-PAGE YgfZ or B2898 SW:UP14_ECOLI (P39179) (325 aa) fasta scores: E(): 7.2e-17, 31.3% id in 345 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0759 TR:Q9I5H0 (EMBL:AE004511) (314 aa) fasta scores: E(): 1.6e-13, 32.91% id in 316 aa; hypothetical protein complement(1936112..1937128) Bordetella pertussis Tohama I 2667126 NP_880548.1 CDS BP1846 NC_002929.2 1937307 1938341 D Similar to Ralstonia solanacearum conserved hypothetical protein Rsc1783 TR:CAD15485 (EMBL:AL646066) (377 aa) fasta scores: E(): 1.8e-60, 50% id in 334 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2963 TR:Q9HZN7 (EMBL:AE004722) (349 aa) fasta scores: E(): 3.3e-46, 44.27% id in 332 aa; hypothetical protein 1937307..1938341 Bordetella pertussis Tohama I 2667127 NP_880549.1 CDS tmk NC_002929.2 1938338 1938964 D catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP); thymidylate kinase 1938338..1938964 Bordetella pertussis Tohama I 2667128 NP_880550.1 CDS holB NC_002929.2 1938961 1940013 D Similar to Escherichia coli DNA polymerase III, delta' subunit HolB or B1099 SW:HOLB_ECOLI (P28631) (334 aa) fasta scores: E(): 8e-10, 29.94% id in 354 aa, and to Neisseria meningitidis DNA polymerase III, delta' subunit HolB or Nma0980 TR:Q9JV62 (EMBL:AL162754) (325 aa) fasta scores: E(): 3.6e-17, 34.4% id in 343 aa; DNA polymerase III subunit delta' 1938961..1940013 Bordetella pertussis Tohama I 2667129 NP_880551.1 CDS BP1849 NC_002929.2 1940063 1940833 D Similar to Neisseria meningitidis hypothetical protein Nmb0771 TR:Q9K050 (EMBL:AE002431) (259 aa) fasta scores: E(): 1.5e-44, 50% id in 252 aa, and to Vibrio cholerae hypothetical protein Vc2014 TR:Q9KQI4 (EMBL:AE004276) (255 aa) fasta scores: E(): 1.7e-43, 49.8% id in 255 aa; hypothetical protein 1940063..1940833 Bordetella pertussis Tohama I 2667130 NP_880552.1 CDS BP1850 NC_002929.2 1940884 1941720 D Similar to Chromatium vinosum ankyrin homolog precursor SW:ANKH_CHRVI (Q06527) (323 aa) fasta scores: E(): 3.1e-09, 32.87% id in 219 aa; hypothetical protein 1940884..1941720 Bordetella pertussis Tohama I 2666875 NP_880553.1 CDS BP1851 NC_002929.2 1941916 1942656 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa3174 TR:Q9HZ60 (EMBL:AE004741) (242 aa) fasta scores: E(): 1e-28, 41.77% id in 237 aa, and to Vibrio cholerae transcriptional regulator, Vca0029 TR:Q9KND6 (EMBL:AE004346) (244 aa) fasta scores: E(): 2.7e-19, 34.02% id in 241 aa; transcriptional regulator 1941916..1942656 Bordetella pertussis Tohama I 2666876 NP_880554.1 CDS BP1852 NC_002929.2 1942731 1943474 D Similar to Escherichia coli glutamine-binding periplasmic protein precursor GlnH or B0811 or Z1033 or Ecs0889 SW:GLNH_ECOLI (P10344) (248 aa) fasta scores: E(): 5.1e-24, 36% id in 250 aa, and to Yersinia pestis glutamine-binding periplasmic protein glnH TR:CAC91317 (EMBL:AJ414152) (247 aa) fasta scores: E(): 9.6e-25, 38.79% id in 250 aa; glutamine ABC transporter substrate-binding protein 1942731..1943474 Bordetella pertussis Tohama I 2666877 NP_880555.1 CDS glnQ NC_002929.2 1944136 1944909 D Similar to Bacillus stearothermophilus glutamine transport ATP-binding protein GlnQ SW:GLNQ_BACST (P27675) (242 aa) fasta scores: E(): 1.3e-40, 52.84% id in 246 aa, and to Archaeoglobus fulgidus glutamine ABC transporter ATP-binding protein af0680 TR:O29577 (EMBL:AE001058) (242 aa) fasta scores: E(): 5.3e-44, 59.83% id in 244 aa. Similar to several B. pertussis CDSs: BP1181, P3828, BP1534, BP0054, BP1575, BP1362, P0768, and BP1510.; glutamine transport ATP-binding protein 1944136..1944909 Bordetella pertussis Tohama I 2666879 NP_880556.1 CDS gdhA NC_002929.2 1946047 1947336 D Similar to Thermotoga maritima glutamate dehydrogenase GdhA or Gdh or Tm1015 SW:DHE3_THEMA (P96110) (415 aa) fasta scores: E(): 2.3e-86, 55.17% id in 406 aa, and to Deinococcus radiodurans glutamate dehydrogenase, Dr0980 TR:Q9RVP5 (EMBL:AE001950) (392 aa) fasta scores: E(): 3.4e-85, 67.08% id in 322 aa; glutamate dehydrogenase 1946047..1947336 Bordetella pertussis Tohama I 2666881 NP_880557.1 CDS amaB NC_002929.2 1948947 1950194 R allantoate amidohydrolase and N-carbamoyl-L-amino acid amidohydrolase are very similar; the allantoate amidohydrolase from Escherichia coli forms a dimer and binds zinc ions for catalytic activity and catalyzes the conversion of allantoate to (S)-ureidoglycolate and ammonia; carbamoyl amidohydrolase from Bacillus sp. converts N-carbamoyl amino acids to amino acids, ammonia, and carbon dioxide; allantoate amidohydrolase complement(1948947..1950194) Bordetella pertussis Tohama I 2666883 NP_880558.1 CDS ilvG NC_002929.2 1950204 1951913 R catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; also known as acetolactate synthase large subunit; thiamine pyrophosphate protein complement(1950204..1951913) Bordetella pertussis Tohama I 2667636 NP_880559.1 CDS citE NC_002929.2 1951910 1952848 R Similar to Escherichia coli citrate lyase beta chain CitE or B0616 SW:CILB_ECOLI (P77770) (302 aa) fasta scores: E(): 4.8e-19, 31.48% id in 289 aa, and to Salmonella enteritidis CitE TR:AAK97548 (EMBL:AF376036) (280 aa) fasta scores: E(): 3.7e-18, 30.96% id in 281 aa; citrate lyase subunit beta complement(1951910..1952848) Bordetella pertussis Tohama I 2667637 NP_880560.1 CDS BP1862 NC_002929.2 1952845 1954128 R Similar to Rhizobium meliloti C4-dicarboxylate transport system, permease large protein transmembrane Smb21436 TR:CAC49665 (EMBL:AL603646) (426 aa) fasta scores: E(): 1.5e-80, 54.97% id in 422 aa, and to Caulobacter crescentus DedA family protein Cc1448 TR:Q9A8A6 (EMBL:AE005819) (426 aa) fasta scores: E(): 8.7e-55, 39.37% id in 419 aa; hypothetical protein complement(1952845..1954128) Bordetella pertussis Tohama I 2667638 NP_880561.1 CDS BP1863 NC_002929.2 1954132 1954614 R Similar to Rhizobium meliloti C4-dicarboxylate transport system, permease small protein transmembrane Smb21437 TR:CAC49666 (EMBL:AL603646) (186 aa) fasta scores: E(): 1.7e-15, 40.13% id in 147 aa, and to Agrobacterium tumefaciens strC58 Agr_l_3346p TR:AAK90250 (EMBL:AE008369) (183 aa) fasta scores: E(): 1.8e-05, 27.04% id in 159 aa; hypothetical protein complement(1954132..1954614) Bordetella pertussis Tohama I 2667639 NP_880562.1 CDS BP1864 NC_002929.2 1954615 1955601 R Similar to Rhizobium meliloti C4-dicarboxylate transport system, C4-dicarboxylate-binding protein precursor signal peptide Smb21438 TR:Q926B4 (EMBL:AL603646) (332 aa) fasta scores: E(): 1.1e-71, 56.44% id in 326 aa, and to Pasteurella multocida hypothetical protein Pm1252 TR:Q9CLH9 (EMBL:AE006164) (328 aa) fasta scores: E(): 6.7e-35, 33.75% id in 320 aa; hypothetical protein complement(1954615..1955601) Bordetella pertussis Tohama I 2667640 NP_880563.1 CDS BP1865 NC_002929.2 1955774 1956493 R Similar to Erwinia chrysanthemi exu regulon transcriptional regulator ExuR SW:EXUR_ERWCH (Q9X9E0) (259 aa) fasta scores: E(): 1.5e-19, 34.57% id in 214 aa, and to Rhizobium meliloti transcriptional regulator protein Smb20441 TR:CAC48823 (EMBL:AL603643) (246 aa) fasta scores: E(): 3.4e-23, 40% id in 235 aa; GntR family transcriptional regulator complement(1955774..1956493) Bordetella pertussis Tohama I 2667641 NP_880564.1 CDS BP1866 NC_002929.2 1956610 1957560 R transposase for IS481 element; transposase complement(1956610..1957560) Bordetella pertussis Tohama I 2667642 NP_880566.1 CDS BP1874 NC_002929.2 1960746 1962095 D catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia; amidase 1960746..1962095 Bordetella pertussis Tohama I 2667648 NP_880567.1 CDS BP1875 NC_002929.2 1962153 1962947 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2116 TR:Q9I1Z9 (EMBL:AE004639) (265 aa) fasta scores: E(): 3e-59, 63.11% id in 244 aa, and to Bacillus subtilis hypothetical 28.1 kDa protein in sipU-kipI intergenic region YcsI SW:YCSI_BACSU (P42966) (257 aa) fasta scores: E(): 1.7e-57, 56.8% id in 257 aa; hypothetical protein 1962153..1962947 Bordetella pertussis Tohama I 2667649 NP_880568.1 CDS bvgR NC_002929.2 1963081 1963956 D Previously sequenced as Bordetella pertussis BvgR TR:O85677 (EMBL:AF071567) (291 aa) fasta scores: E(): 5.1e-121, 100% id in 291 aa; regulatory protein BvgR 1963081..1963956 Bordetella pertussis Tohama I 2667056 NP_880569.1 CDS bvgS NC_002929.2 1964000 1967716 R Previously sequenced as Bordetella pertussis virulence sensor protein BvgS precursor bvgS SW:BVGS_BORPE (P16575) (1238 aa) fasta scores: E(): 0, 99.83% id in 1238 aa; virulence sensor protein complement(1964000..1967716) Bordetella pertussis Tohama I 2667057 NP_880570.1 CDS bvgA NC_002929.2 1967725 1968354 R Previously sequenced as Bordetella pertussis virulence factors positive transcription regulator BvgA bvgA SW:BVGA_BORPE (P16574) (209 aa) fasta scores: E(): 3e-77, 100% id in 209 aa; virulence factors transcription regulator complement(1967725..1968354) Bordetella pertussis Tohama I 2667058 NP_880571.1 CDS fhaB NC_002929.2 1968781 1979553 D Previously sequenced as Bordetella pertussis filamentous hemagglutinin FhaB or BP1879 SW:FHAB_BORPE (P12255) (3591 aa) fasta scores: E(): 0, 99.91% id in 3573 aa. Also similar to Bordetella bronchiseptica adhesin FhaB TR:Q9JP78 (EMBL:AF111796) (3634 aa) fasta scores: E(): 0, 92.38% id in 3639 aa. The product of this CDS is also similar to B. pertussis BP2667 E(): 9.8e-120 37.940% identity in 2670 aa and BP2907 fasta scores: E(): 9e-125, 33.52% id in 2750 aa.; filamentous hemagglutinin/adhesin 1968781..1979553 Bordetella pertussis Tohama I 2667059 NP_880572.1 CDS fimB NC_002929.2 1980316 1981050 D Previously sequenced as Bordetella pertussis chaperone protein fimb/fhad precursor fimb or fhaD SW:FIMB_BORPE (P33409) (244 aa) fasta scores: E(): 2.6e-99, 99.59% id in 244 aa; chaperone protein 1980316..1981050 Bordetella pertussis Tohama I 2667064 NP_880573.1 CDS fimC NC_002929.2 1981113 1983734 D Previously sequenced as Bordetella pertussis outer membrane usher protein FimC precursor FimC or fhaA SW:FIMC_BORPE (P33410) (873 aa) fasta scores: E(): 0, 100% id in 873 aa; outer membrane usher protein 1981113..1983734 Bordetella pertussis Tohama I 2667065 NP_880574.1 CDS fimD NC_002929.2 1983748 1984845 D Previously sequenced as Bordetella pertussis protein FhaE precursor FhaE or FimD SW:FHAE_BORPE (Q00879) (376 aa) fasta scores: E(): 1.9e-143, 100% id in 365 aa; fimbrial adhesin 1983748..1984845 Bordetella pertussis Tohama I 2667435 NP_880575.1 CDS fhaC NC_002929.2 1984838 1986592 D Previously sequenced as Bordetella pertussis hemolysin activator-like protein FhaC precursor fhaC SW:FHAC_BORPE (P35077) (584 aa) fasta scores: E(): 0, 100% id in 584 aa, and to Bordetella bronchiseptica FhaC TR:Q9RGR3 (EMBL:AF111795) (583 aa) fasta scores: E(): 0, 97.43% id in 584 aa; hemolysin activator-like protein 1984838..1986592 Bordetella pertussis Tohama I 2667436 NP_880576.1 CDS BP1886 NC_002929.2 1987910 1988410 R Similar to Pseudomonas spDJ-1. transmembrane protein FcbT2 TR:Q9RBR0 (EMBL:AF051771) (181 aa) fasta scores: E(): 0.011, 26.89% id in 145 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3780 TR:Q9HXL5 (EMBL:AE004797) (164 aa) fasta scores: E(): 0.31, 27.21% id in 147 aa; hypothetical protein complement(1987910..1988410) Bordetella pertussis Tohama I 2667438 NP_880577.1 CDS BP1887 NC_002929.2 1988417 1989391 R Similar to Ralstonia solanacearum signal peptide protein Rsc2166 TR:CAD15873 (EMBL:AL646068) (339 aa) fasta scores: E(): 4.6e-38, 34.37% id in 320 aa, and to Pasteurella multocida hypothetical protein Pm1252 TR:Q9CLH9 (EMBL:AE006164) (328 aa) fasta scores: E(): 1.3e-11, 26.23% id in 324 aa; hypothetical protein complement(1988417..1989391) Bordetella pertussis Tohama I 2667439 NP_880578.1 CDS BP1890 NC_002929.2 1990948 1991439 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3780 TR:Q9HXL5 (EMBL:AE004797) (164 aa) fasta scores: E(): 1e-05, 32.05% id in 156 aa, and to Pseudomonas spDJ-12 transmembrane protein FcbT2 TR:Q9RBR0 (EMBL:AF051771) (181 aa) fasta scores: E(): 1.2e-06, 31.12% id in 151 aa; hypothetical protein complement(1990948..1991439) Bordetella pertussis Tohama I 2667441 NP_880579.1 CDS BP1891 NC_002929.2 1991453 1992418 R Similar to Ralstonia solanacearum signal peptide protein Rsc2510 TR:CAD16217 (EMBL:AL646070) (338 aa) fasta scores: E(): 3.2e-27, 30.15% id in 325 aa, and to Salmonella typhimurium LT2 dicarboxylate-binding periplasmic protein Stm3169 TR:AAL22043 (EMBL:AE008845) (327 aa) fasta scores: E(): 3.1e-11, 25.62% id in 281 aa; hypothetical protein complement(1991453..1992418) Bordetella pertussis Tohama I 2667442 NP_880580.1 CDS BP1892 NC_002929.2 1992439 1993116 R Similar to Agrobacterium tumefaciens strC58 Agr_l_563p TR:AAK88851 (EMBL:AE008228) (228 aa) fasta scores: E(): 1.7e-09, 29.25% id in 188 aa; hypothetical protein complement(1992439..1993116) Bordetella pertussis Tohama I 2667443 NP_880581.1 CDS BP1894 NC_002929.2 1994315 1994827 D Similar to Agrobacterium tumefaciens StrC58 Agr_c_1544p TR:AAK86653 (EMBL:AE008017) (152 aa) fasta scores: E(): 0.22, 28.47% id in 144 aa, and to Agrobacterium tumefaciens StrC58 Agr_pat_395p TR:AAK90650 (EMBL:AE007897) (147 aa) fasta scores: E(): 1.6, 26.81% id in 138 aa; hypothetical protein 1994315..1994827 Bordetella pertussis Tohama I 2667445 NP_880582.1 CDS oplaH NC_002929.2 1994906 1998529 D Similar to Rattus norvegicus 5-oxoprolinase OplaH SW:OPLA_RAT (P97608) (1288 aa) fasta scores: E(): 3.5e-94, 45.17% id in 1264 aa, and to Rhizobium loti 5-oxoprolinase Mlr1573 TR:Q98K99 (EMBL:AP002997) (1210 aa) fasta scores: E(): 0, 59.37% id in 1216 aa; 5-oxoprolinase 1994906..1998529 Bordetella pertussis Tohama I 2667446 NP_880583.1 CDS BP1896 NC_002929.2 1998543 1999574 R Similar to Ralstonia solanacearum conserved hypothetical protein Rsc1742 TR:CAD15444 (EMBL:AL646066) (350 aa) fasta scores: E(): 2.1e-57, 46.84% id in 333 aa, and to Emericella nidulans acyl-coenzyme acyl coenzyme A:6-aminopenicillanic-acid-acyltransferase precursor PendE or Aat SW:AAAA_EMENI (P21133) (357 aa) fasta scores: E(): 4.9e-06, 24.31% id in 329 aa; hypothetical protein complement(1998543..1999574) Bordetella pertussis Tohama I 2667447 NP_880584.1 CDS BP1898 NC_002929.2 2000734 2001567 D Similar to Agrobacterium tumefaciens StrC58 Agr_c_1937p TR:AAK86858 (EMBL:AE008035) (273 aa) fasta scores: E(): 3.7e-33, 44.39% id in 232 aa, and to Rhizobium loti Mlr4006 protein TR:Q98EZ8 (EMBL:AP003003) (283 aa) fasta scores: E(): 1.4e-30, 39.23% id in 260 aa; hypothetical protein 2000734..2001567 Bordetella pertussis Tohama I 2665419 NP_880585.1 CDS BP1899 NC_002929.2 2001581 2002339 R Similar to Rhizobium meliloti transcription regulator protein Smc00263 TR:Q92PP5 (EMBL:AL591788) (282 aa) fasta scores: E(): 6.2e-22, 36.03% id in 247 aa, and to Rhizobium loti transcription regulator Mll9009 TR:Q982L6 (EMBL:AP003015) (269 aa) fasta scores: E(): 1.6e-15, 32.89% id in 228 aa; transcriptional regulator complement(2001581..2002339) Bordetella pertussis Tohama I 2665420 NP_880586.1 CDS BP1900 NC_002929.2 2002501 2003493 D Similar to Rhizobium meliloti hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.1e-55, 48.32% id in 329 aa, and to Agrobacterium tumefaciens StrC58 Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 2.7e-52, 46.6% id in 324 aa; hypothetical protein 2002501..2003493 Bordetella pertussis Tohama I 2665421 NP_880587.1 CDS BP1901 NC_002929.2 2003711 2004487 R Similar to Pseudomonas aeruginosa probable methyltransferase Pa3817 TR:Q9HXI5 (EMBL:AE004799) (257 aa) fasta scores: E(): 2.5e-30, 41.93% id in 248 aa, and to Azotobacter vinelandii hypothetical 28.2 kDa protein TR:O69217 (EMBL:AF010139) (257 aa) fasta scores: E(): 1e-28, 41.15% id in 243 aa; methyltransferase complement(2003711..2004487) Bordetella pertussis Tohama I 2665422 NP_880588.1 CDS suhB NC_002929.2 2004595 2005377 D Similar to Escherichia coli extragenic suppressor protein SuhB or SsyA or b2533 SW:SUHB_ECOLI (P22783) (267 aa) fasta scores: E(): 3.2e-41, 46.33% id in 259 aa, and to Ralstonia solanacearum probable inositol monophosphatase suhB TR:CAD14862 (EMBL:AL646063) (270 aa) fasta scores: E(): 7.4e-54, 55.34% id in 262 aa. Also similar to BP2813, 40.000% identity (43.200% ungapped) in 270 aa overlap; inositol monophosphatase 2004595..2005377 Bordetella pertussis Tohama I 2665423 NP_880589.1 CDS BP1903 NC_002929.2 2005504 2007090 D Similar to Salmonella enterica subspenterica serovar Typhi membrane protein Sty1958 TR:CAD05511 (EMBL:AL627272) (519 aa) fasta scores: E(): 1e-110, 59.22% id in 515 aa, and to Escherichia coli hypothetical protein YoaE or B1816 or Z2859 or Ecs2525 SW:YOAE_ECOLI (P76262) (518 aa) fasta scores: E(): 6.4e-109, 57.87% id in 527 aa; hypothetical protein 2005504..2007090 Bordetella pertussis Tohama I 2665424 NP_880590.1 CDS uppP NC_002929.2 2007115 2007978 D BacA; phosphatase activity in Escherichia coli not kinase; involved in bacitracin resistance as bacitracin supposedly sequesters undecaprenyl disphosphate which reduces the pool of lipid carrier available to the cell; undecaprenyl pyrophosphate phosphatase 2007115..2007978 Bordetella pertussis Tohama I 2665425 NP_880591.1 CDS lpxH NC_002929.2 2008186 2008935 R catalyzes the formation of 2,3=diacylglucosamine 1-phosphate from UDP-2,3=diacylglucosamine; UDP-2,3-diacylglucosamine hydrolase complement(2008186..2008935) Bordetella pertussis Tohama I 2665426 NP_880592.1 CDS ppiB NC_002929.2 2008955 2009464 R Similar to Escherichia coli peptidyl-prolyl cis-trans isomerase B ppiB or B0525 SW:PPIB_ECOLI (P23869) (164 aa) fasta scores: E(): 2.3e-41, 66.87% id in 163 aa, and to Ralstonia solanacearum probable peptidyl-prolyl cis-trans isomerase B PpiB TR:CAD14866 (EMBL:AL646063) (179 aa) fasta scores: E(): 1.8e-49, 75.73% id in 169 aa; peptidyl-prolyl cis-trans isomerase B complement(2008955..2009464) Bordetella pertussis Tohama I 2665427 NP_880593.1 CDS BP1907 NC_002929.2 2009593 2010276 R Similar to Rhodobacter sphaeroides hypothetical 21.1 kDa protein Orf TR:Q53172 (EMBL:Z50182) (197 aa) fasta scores: E(): 0.41, 29.33% id in 150 aa, and to Desulfotomaculum thermocisternum hypothetical 25.2 kDa protein TR:Q9ZH15 (EMBL:AF074396) (224 aa) fasta scores: E(): 0.098, 25.98% id in 127 aa; hypothetical protein complement(2009593..2010276) Bordetella pertussis Tohama I 2665428 NP_880594.1 CDS cysS NC_002929.2 2010516 2011976 D catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA; cysteinyl-tRNA synthetase 2010516..2011976 Bordetella pertussis Tohama I 2665429 NP_880595.1 CDS BP1909 NC_002929.2 2011996 2012640 D Similar to Schizosaccharomyces pombe DNA-3-methyladenine glycosylase Mag1 or Spapb24d3.04C SW:MAG1_SCHPO (Q92383) (228 aa) fasta scores: E(): 2e-16, 34.84% id in 198 aa, and to Halobacterium sp 3-methyladenine DNA glycosylase AlkA or Vng1311G TR:Q9HQ62 (EMBL:AE005053) (191 aa) fasta scores: E(): 5.2e-20, 38.74% id in 191 aa; DNA-3-methyladenine glycosylase 2011996..2012640 Bordetella pertussis Tohama I 2666722 NP_880596.1 CDS accA NC_002929.2 2012677 2013642 D catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein; acetyl-CoA carboxylase carboxyltransferase subunit alpha 2012677..2013642 Bordetella pertussis Tohama I 2666723 NP_880597.1 CDS BP1911 NC_002929.2 2013741 2014691 D transposase for IS481 element; transposase 2013741..2014691 Bordetella pertussis Tohama I 2666724 NP_880598.1 CDS BP1912 NC_002929.2 2014821 2015786 D Similar to Escherichia coli cell cycle protein MesJ or B0188 SW:MESJ_ECOLI (P52097) (432 aa) fasta scores: E(): 8e-17, 34.89% id in 278 aa, and to Ralstonia solanacearum cell cycle protein MesJ TR:CAD14872 (EMBL:AL646063) (462 aa) fasta scores: E(): 8.5e-28, 43.55% id in 326 aa; hypothetical protein 2014821..2015786 Bordetella pertussis Tohama I 2666725 NP_880599.1 CDS ask NC_002929.2 2015886 2017151 D catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation.; aspartate kinase 2015886..2017151 Bordetella pertussis Tohama I 2666726 NP_880600.1 CDS BP1914 NC_002929.2 2017545 2018561 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 complement(2017545..2018561) Bordetella pertussis Tohama I 2666727 NP_880601.1 CDS BP1915 NC_002929.2 2018905 2019405 D Similar to Streptomyces glaucescens tetracenomycin polyketide synthesis protein TcmJ SW:TCMJ_STRGA (P16558) (149 aa) fasta scores: E(): 0.00089, 26.84% id in 149 aa, and to Streptomyces coelicolor 16.7 kDa protein in whie locus Sc6g9.14 SW:WH16_STRCO (P23157) (157 aa) fasta scores: E(): 1.1e-05, 34.4% id in 93 aa; hypothetical protein 2018905..2019405 Bordetella pertussis Tohama I 2666728 NP_880602.1 CDS BP1916 NC_002929.2 2019447 2019761 D Similar to Rhizobium meliloti hypothetical protein Sma0797 TR:AAK65090 (EMBL:AE007233) (108 aa) fasta scores: E(): 8.5e-16, 42.15% id in 102 aa, and to Agrobacterium tumefaciens StrC58 Agr_l_1239p TR:AAK89197 (EMBL:AE008260) (104 aa) fasta scores: E(): 2.3e-17, 42.71% id in 103 aa; hypothetical protein 2019447..2019761 Bordetella pertussis Tohama I 2666729 NP_880603.1 CDS BP1917 NC_002929.2 2019771 2020712 D Converts (S)-3-hydroxyactk-CoA to 3-oxoayl-CoA; 3-hydroxyacyl-CoA dehydrogenase 2019771..2020712 Bordetella pertussis Tohama I 2666730 NP_880604.1 CDS BP1918 NC_002929.2 2020709 2021233 D Similar to Bacillus halodurans C4-dicarboxylate transport system Bh2672 TR:Q9K9H5 (EMBL:AP001516) (183 aa) fasta scores: E(): 1.4e-07, 29.6% id in 152 aa, and to Agrobacterium tumefaciens StrC58 Agr_l_3346p TR:AAK90250 (EMBL:AE008369) (183 aa) fasta scores: E(): 2.4e-06, 30.3% id in 165 aa; hypothetical protein 2020709..2021233 Bordetella pertussis Tohama I 2666731 NP_880605.1 CDS BP1919 NC_002929.2 2021236 2022504 D Similar to Pasteurella multocida hypothetical protein Pm0273 TR:Q9CNZ7 (EMBL:AE006062) (427 aa) fasta scores: E(): 1.8e-62, 43.91% id in 419 aa, and to Bacillus halodurans C4-dicarboxylate transport system bh2671 TR:Q9K9H6 (EMBL:AP001516) (426 aa) fasta scores: E(): 4.3e-65, 46.77% id in 419 aa; hypothetical protein 2021236..2022504 Bordetella pertussis Tohama I 2666732 NP_880606.1 CDS BP1920 NC_002929.2 2022533 2023516 D Similar to Rhizobium meliloti ABC transporter periplasmic solute-binding protein Smb20036 TR:CAC48439 (EMBL:AL603642) (338 aa) fasta scores: E(): 4.7e-25, 32.12% id in 330 aa, and to Bacillus halodurans C4-dicarboxylate transport system bh0701 TR:Q9KEZ8 (EMBL:AP001509) (341 aa) fasta scores: E(): 2.1e-23, 31.2% id in 282 aa; C4-dicarboxylate ABC transporter substrate-binding protein 2022533..2023516 Bordetella pertussis Tohama I 2665478 NP_880607.1 CDS bioH NC_002929.2 2023513 2024322 D Similar to Kurthia sp538-KA26 BioH TR:Q9AJM9 (EMBL:AB045874) (267 aa) fasta scores: E(): 1.4e-15, 30.36% id in 247 aa, and to Caulobacter crescentus hydrolase, alpha/beta hydrolase fold family Cc2797 TR:Q9A4N3 (EMBL:AE005945) (269 aa) fasta scores: E(): 6.7e-19, 36.54% id in 249 aa; hydrolase 2023513..2024322 Bordetella pertussis Tohama I 2665479 NP_880608.1 CDS BP1922 NC_002929.2 2024319 2025122 D catalyzes the formation of L-aspartate to iminoaspartate in NAD(+) biosynthesis; L-aspartate dehydrogenase 2024319..2025122 Bordetella pertussis Tohama I 2665480 NP_880609.1 CDS BP1923 NC_002929.2 2025137 2025904 D Similar to Brevibacterium spHCU cyclohexanol dehydrogenase ChnA TR:AAK73164 (EMBL:AF257214) (256 aa) fasta scores: E(): 8.4e-30, 42.29% id in 253 aa, and to Streptomyces coelicolor probable oxidoreductase Scf41.15 TR:Q9RJV4 (EMBL:AL117387) (263 aa) fasta scores: E(): 2.4e-31, 45.23% id in 252 aa; short chain dehydrogenase 2025137..2025904 Bordetella pertussis Tohama I 2665481 NP_880610.1 CDS BP1924 NC_002929.2 2025992 2026630 D Similar to Burkholderia pseudomallei regulator AmrR TR:O87934 (EMBL:AF072887) (187 aa) fasta scores: E(): 0.18, 26.11% id in 180 aa, and to Agrobacterium tumefaciens StrC58 Agr_c_1821p TR:AAK86802 (EMBL:AE008030) (208 aa) fasta scores: E(): 0.092, 24.36% id in 197 aa; TetR family transcriptional regulator 2025992..2026630 Bordetella pertussis Tohama I 2665915 NP_880611.1 CDS BP1925 NC_002929.2 2026635 2027588 R Similar to Escherichia coli transcriptional activator protein LysR or B2839 SW:LYSR_ECOLI (P03030) (311 aa) fasta scores: E(): 1.7e-20, 30.63% id in 284 aa, and to Rhizobium loti transcriptional regulator Mlr7023 TR:Q987J8 (EMBL:AP003010) (301 aa) fasta scores: E(): 1.9e-20, 31.72% id in 290 aa; LysR family transcriptional regulator complement(2026635..2027588) Bordetella pertussis Tohama I 2665916 NP_880612.1 CDS BP1926 NC_002929.2 2027700 2028824 D Similar to Rhizobium loti ABC transporter binding protein Mlr7676 TR:Q985H2 (EMBL:AP003012) (370 aa) fasta scores: E(): 5.6e-54, 41.92% id in 353 aa, and to Agrobacterium tumefaciens StrC58 Agr_l_1237p TR:AAK89196 (EMBL:AE008260) (336 aa) fasta scores: E(): 7.3e-34, 34.81% id in 316 aa; extracellular solute-binding protein 2027700..2028824 Bordetella pertussis Tohama I 2665917 NP_880613.1 CDS BP1928 NC_002929.2 2030462 2031289 D Similar to Rhizobium loti ABC transporter permease Mlr7677 TR:Q985H1 (EMBL:AP003012) (277 aa) fasta scores: E(): 3.1e-35, 39.62% id in 265 aa, and to Rhizobium loti Mll2950 protein TR:Q98HA9 (EMBL:AP003000) (294 aa) fasta scores: E(): 3.3e-35, 41.98% id in 262 aa; ABC transporter permease 2030462..2031289 Bordetella pertussis Tohama I 2665919 NP_880614.1 CDS BP1929 NC_002929.2 2031286 2032089 D Similar to Rhizobium loti ABC transporter permease Mll2949 TR:Q98HB0 (EMBL:AP003000) (265 aa) fasta scores: E(): 3.9e-31, 40.4% id in 250 aa, and to Pseudomonas aeruginosa probable permease of ABC transporter Pa0606 TR:Q9I5T2 (EMBL:AE004497) (276 aa) fasta scores: E(): 3.3e-30, 38.4% id in 263 aa; ABC transporter permease 2031286..2032089 Bordetella pertussis Tohama I 2666663 NP_880615.1 CDS BP1930 NC_002929.2 2032086 2033177 D Similar to Rhizobium loti ABC transporter ATP-binding protein Mll2948 TR:Q98HB1 (EMBL:AP003000) (371 aa) fasta scores: E(): 3.5e-46, 43.86% id in 367 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa0603 TR:Q9I5T5 (EMBL:AE004496) (369 aa) fasta scores: E(): 8.6e-46, 43.37% id in 362 aa; ABC transporter ATP-binding protein 2032086..2033177 Bordetella pertussis Tohama I 2666664 NP_880616.1 CDS BP1931 NC_002929.2 2033584 2034612 R Similar to Vibrio cholerae NADH-dependent flavin oxidoreductase, Oye family Vca0998 TR:Q9KKV2 (EMBL:AE004426) (347 aa) fasta scores: E(): 1.1e-27, 35.46% id in 344 aa, and to Xylella fastidiosa NAD Xf1732 TR:Q9PCP6 (EMBL:AE003996) (368 aa) fasta scores: E(): 5.4e-26, 35.92% id in 348 aa; NADH-dependent flavin oxidoreductase complement(2033584..2034612) Bordetella pertussis Tohama I 2666665 NP_880617.1 CDS BP1933 NC_002929.2 2035484 2037604 R Similar to Pseudomonas mendocina pimeloyl-CoA synthetase TR:Q9ZER2 (EMBL:AJ012480) (711 aa) fasta scores: E(): 1.5e-62, 35.15% id in 694 aa, and to Pseudomonas aeruginosa pimeloyl-CoA synthetase pa1017 TR:Q9I4V6 (EMBL:AE004534) (715 aa) fasta scores: E(): 1.1e-62, 34.97% id in 712 aa; pimeloyl-CoA synthetase complement(2035484..2037604) Bordetella pertussis Tohama I 2666667 NP_880618.1 CDS BP1934 NC_002929.2 2037605 2038561 R Similar to Rhizobium meliloti hypothetical protein Sma1927 TR:Q92Y30 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.1e-48, 47.26% id in 311 aa, and to Agrobacterium tumefaciens StrC58 Agr_l_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 3.6e-43, 41.08% id in 314 aa; hypothetical protein complement(2037605..2038561) Bordetella pertussis Tohama I 2666668 NP_880619.1 CDS BP1935 NC_002929.2 2038630 2039022 R Similar to Rhizobium meliloti hypothetical protein Sma2289 TR:AAK65890 (EMBL:AE007308) (130 aa) fasta scores: E(): 2.1e-10, 34.4% id in 125 aa, and to Streptomyces coelicolor conserved hypothetical protein Sc9c7.14C TR:Q9ZBJ6 (EMBL:AL035161) (132 aa) fasta scores: E(): 2e-09, 37.81% id in 119 aa; hypothetical protein complement(2038630..2039022) Bordetella pertussis Tohama I 2666669 NP_880620.1 CDS BP1936 NC_002929.2 2039026 2039502 R Similar to Streptomyces coelicolor hypothetical 15.2 kDa protein Scd82.08 TR:Q9L0M3 (EMBL:AL160431) (142 aa) fasta scores: E(): 0.0063, 26.38% id in 144 aa; hypothetical protein complement(2039026..2039502) Bordetella pertussis Tohama I 2666670 NP_880621.1 CDS BP1937 NC_002929.2 2039516 2039851 R no significant database matches; hypothetical protein complement(2039516..2039851) Bordetella pertussis Tohama I 2666671 NP_880622.1 CDS BP1938 NC_002929.2 2039858 2040307 R no significant database matches; hypothetical protein complement(2039858..2040307) Bordetella pertussis Tohama I 2666672 NP_880623.1 CDS BP1939 NC_002929.2 2040515 2040814 D Similar to Rhizobium meliloti transcription regulator protein Smc01226 TR:CAC46144 (EMBL:AL591787) (96 aa) fasta scores: E(): 1.5e-27, 72.04% id in 93 aa, and to Pseudomonas aeruginosa hypothetical protein Pa4354 R:Q9HW47 (EMBL:AE004851) (100 aa) fasta scores: E(): 1.6e-23, 60% id in 100 aa; ArsR family transcriptional regulator 2040515..2040814 Bordetella pertussis Tohama I 2666673 NP_880624.1 CDS nemA NC_002929.2 2040867 2041979 D Similar to Escherichia coli N-ethylmaleimide reductase NemA or B1650 SW:NEMA_ECOLI (P77258) (365 aa) fasta scores: E(): 7.3e-64, 51.74% id in 373 aa, and to Rhizobium loti morphinone reductase Mll2211 TR:Q98IX0 (EMBL:AP002999) (371 aa) fasta scores: E(): 5.3e-102, 71.96% id in 371 aa; N-ethylmaleimide reductase 2040867..2041979 Bordetella pertussis Tohama I 2666674 NP_880625.1 CDS BP1941 NC_002929.2 2041984 2042574 R no significant database matches; hypothetical protein complement(2041984..2042574) Bordetella pertussis Tohama I 2666675 NP_880626.1 CDS hmsR NC_002929.2 2042603 2043862 R predicted polysaccharide polymerase involved in biofilm formation; required for the synthesis of the beta-1,6-N-acetylglucosamine polysaccharide; PgaC; in Yersinia the HmsR protein is an inner membrane protein; N-glycosyltransferase complement(2042603..2043862) Bordetella pertussis Tohama I 2665639 NP_880627.1 CDS hmsF NC_002929.2 2043866 2045971 R Similar to Yersinia pestis HmsF protein TR:Q9R7V4 (EMBL:AL031866) (673 aa) fasta scores: E(): 1.3e-94, 40.2% id in 679 aa, and to Escherichia coli hypothetical lipoprotein YcdR precursor YcdR or B1023 SW:YCDR_ECOLI (P75906) (672 aa) fasta scores: E(): 3.3e-89, 39.38% id in 655 aa; hemin storage protein complement(2043866..2045971) Bordetella pertussis Tohama I 2665640 NP_880628.1 CDS hmsH NC_002929.2 2045977 2047962 R Similar to Yersinia pestis HmsH TR:Q56939 (EMBL:U22837) (822 aa) fasta scores: E(): 1.5e-25, 24.39% id in 701 aa; hemin storage protein complement(2045977..2047962) Bordetella pertussis Tohama I 2665641 NP_880629.1 CDS BP1945 NC_002929.2 2048171 2048407 D no significant database matches; hypothetical protein 2048171..2048407 Bordetella pertussis Tohama I 2665642 NP_880630.1 CDS BP1946 NC_002929.2 2048752 2049237 D Similar to Rhizobium loti transcriptional regulator Mll4876 TR:Q98D38 (EMBL:AP003005) (153 aa) fasta scores: E(): 1.3e-15, 44.44% id in 135 aa, and to Pseudomonas aeruginosa probable transcriptional regulator Pa1603 TR:Q9I3B8 (EMBL:AE004588) (140 aa) fasta scores: E(): 3.1e-12, 37.03% id in 135 aa; MarR family transcriptional regulator 2048752..2049237 Bordetella pertussis Tohama I 2665647 NP_880631.1 CDS BP1947 NC_002929.2 2049605 2050555 D transposase for IS481 element; transposase 2049605..2050555 Bordetella pertussis Tohama I 2665648 NP_880632.1 CDS BP1948 NC_002929.2 2050602 2051810 D Similar to Pseudomonas aeruginosa leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein precursor BraC or Pa1074 SW:BRAC_PSEAE (P21175) (373 aa) fasta scores: E(): 3.9e-12, 24.37% id in 357 aa, and to Streptococcus pneumoniae branched-chain amino acid ABC transporter amino acid-binding protein Sp0749 TR:Q97RQ0 (EMBL:AE007382) (386 aa) fasta scores: E(): 9.5e-12, 24.3% id in 362 aa; branched-chain amino acid ABC transporter substrate-binding protein 2050602..2051810 Bordetella pertussis Tohama I 2665649 NP_880633.1 CDS BP1949 NC_002929.2 2051902 2053851 D Similar to Pseudomonas aeruginosa membrane spanning protein OhbE TR:O87621 (EMBL:AF087482) (614 aa) fasta scores: E(): 1e-31, 31.4% id in 449 aa; permease of branched-chain amino acid transport system 2051902..2053851 Bordetella pertussis Tohama I 2665650 NP_880634.1 CDS BP1950 NC_002929.2 2053848 2054624 D Similar to Streptococcus pneumoniae branched-chain amino acid ABC transporter ATP-binding protein sp0752 TR:Q97RP7 (EMBL:AE007382) (254 aa) fasta scores: E(): 1.2e-30, 42.23% id in 251 aa, and to Rhizobium meliloti high-affinity branched-chain amino acid transport ATP-binding ABC transporter protein smc02357 TR:CAC47163 (EMBL:AL591791) (244 aa) fasta scores: E(): 3e-27, 40.98% id in 244 aa; branched-chain amino acid ABC transporter ATP-binding protein 2053848..2054624 Bordetella pertussis Tohama I 2665651 NP_880635.1 CDS BP1951 NC_002929.2 2054621 2055391 D Similar to Pseudomonas aeruginosa substrate binding protein OhbG TR:O87623 (EMBL:AF087482) (239 aa) fasta scores: E(): 5.2e-31, 46.44% id in 239 aa, and to Rhizobium meliloti ATP-binding ABC transporter protein Smc03119 TR:CAC47553 (EMBL:AL591792) (233 aa) fasta scores: E(): 9.8e-31, 43.69% id in 238 aa; ABC transporter ATP-binding protein 2054621..2055391 Bordetella pertussis Tohama I 2665652 NP_880636.1 CDS BP1953 NC_002929.2 2057835 2058356 R Similar to Brevundimonas diminuta isoquinoline 1-oxidoreductase alpha subunit IorA SW:IORA_BREDI (Q51697) (152 aa) fasta scores: E(): 1.7e-22, 49.27% id in 138 aa, and to Pseudomonas aeruginosa probable oxidoreductase Pa1602 TR:Q9I3B9 (EMBL:AE004588) (163 aa) fasta scores: E(): 3e-38, 65.98% id in 147 aa; oxidoreductase complement(2057835..2058356) Bordetella pertussis Tohama I 2665706 NP_880637.1 CDS BP1954 NC_002929.2 2058433 2059584 R Similar to Streptomyces coelicolor salicylate hydroxylase Sce29.14C TR:Q9Z4Y6 (EMBL:AL035707) (420 aa) fasta scores: E(): 2.3e-46, 40.42% id in 329 aa, and to Acinetobacter SpADP1. hypothetical 42.4 kDa protein TR:O24844 (EMBL:AF009672) (381 aa) fasta scores: E(): 1.2e-50, 38.19% id in 377 aa; monooxygenase complement(2058433..2059584) Bordetella pertussis Tohama I 2665712 NP_880638.1 CDS maiA NC_002929.2 2059885 2060637 D Similar to Serratia marcescens maleate cis-trans isomerase MaiA TR:Q9KWI0 (EMBL:AB035810) (250 aa) fasta scores: E(): 8.2e-69, 79.67% id in 246 aa, and to Bacillus stearothermophilus maleate cis-trans isomerase MaiA TR:Q9WX57 (EMBL:AB015134) (251 aa) fasta scores: E(): 1.1e-56, 65.46% id in 249 aa. Identical to BP0579, 99.600% identity (99.600% ungapped) in 250 aa overlap.; maleate cis-trans isomerase 2059885..2060637 Bordetella pertussis Tohama I 2665713 NP_880639.1 CDS BP1957 NC_002929.2 2061504 2062535 D Similar to Pyrococcus horikoshii hypothetical 38.8 kDa protein Ph1046 TR:O58751 (EMBL:AP000004) (350 aa) fasta scores: E(): 3.5e-09, 27% id in 274 aa, and to Pyrococcus horikoshii hypothetical 34.8 kDa protein Ph1048 TR:O58749 (EMBL:AP000004) (320 aa) fasta scores: E(): 1.5e-06, 25.42% id in 350 aa. Identical to BP0581, 100.000% identity (100.000% ungapped) in 343 aa overlap.; hypothetical protein 2061504..2062535 Bordetella pertussis Tohama I 2666013 NP_880640.1 CDS BP1958 NC_002929.2 2062551 2063168 D Similar to Arthrobacter sp N-carbamoylsarcosine amidase SW:CSH_ARTSP (P32400) (264 aa) fasta scores: E(): 2e-14, 32.67% id in 202 aa, and to Arthrobacter keyseri phthalate ester hydrolase pehA TR:Q9AGK9 (EMBL:AF331043) (218 aa) fasta scores: E(): 3.4e-19, 37.3% id in 193 aa. Identical to BP1958, 100.000% identity (100.000% ungapped) in 205 aa overlap.; isochorismatase 2062551..2063168 Bordetella pertussis Tohama I 2666014 NP_880641.1 CDS BP1959 NC_002929.2 2063360 2064376 D Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 2063360..2064376 Bordetella pertussis Tohama I 2666015 NP_880642.1 CDS BP1961 NC_002929.2 2066515 2067855 D Similar to Vibrio cholerae oxidoreductase, Vca0151 TR:Q9KN15 (EMBL:AE004356) (450 aa) fasta scores: E(): 6.2e-50, 35.92% id in 451 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0545 TR:Q9I5Z1 (EMBL:AE004491) (434 aa) fasta scores: E(): 8e-43, 44.02% id in 452 aa; flavocytochrome 2066515..2067855 Bordetella pertussis Tohama I 2666017 NP_880643.1 CDS bfrI NC_002929.2 2067866 2069974 R Similar to Pseudomonas aeruginosa hydroxamate-type ferrisiderophore receptor FiuA TR:O68595 (EMBL:AF051691) (802 aa) fasta scores: E(): 1.7e-71, 36.83% id in 714 aa, and to Salmonella typhimurium ferrichrome iron receptor FhuA TR:O86925 (EMBL:Y14025) (729 aa) fasta scores: E(): 2e-65, 35.72% id in 725 aa; ferrisiderophore receptor complement(2067866..2069974) Bordetella pertussis Tohama I 2666638 NP_880644.1 CDS BP1965 NC_002929.2 2070729 2071694 D Similar to Ralstonia spU2 NagM TR:Q9Z3X3 (EMBL:AF036940) (341 aa) fasta scores: E(): 1.1e-27, 32.39% id in 321 aa, and to Rhizobium meliloti hypothetical protein Sma1927 TR:Q92Y30 (EMBL:AE007292) (330 aa) fasta scores: E(): 7.3e-25, 30.06% id in 306 aa; hypothetical protein 2070729..2071694 Bordetella pertussis Tohama I 2666640 NP_880645.1 CDS BP1969 NC_002929.2 2074972 2075634 D Similar to Pseudomonas aeruginosa probable two-component response regulator Pa1980 TR:Q9I2C7 (EMBL:AE004624) (225 aa) fasta scores: E(): 2.7e-08, 31.19% id in 218 aa, and to Streptomyces coelicolor two component response regulator sci5.09C TR:Q9X9Z1 (EMBL:AL079332) (210 aa) fasta scores: E(): 1.9e-07, 29.85% id in 211 aa; LuxR family transcriptional regulator 2074972..2075634 Bordetella pertussis Tohama I 2666643 NP_880646.1 CDS pgm NC_002929.2 2075736 2077163 D Similar to Bordetella bronchiseptica phosphoglucomutase Pgm TR:Q9S3V9 (EMBL:AF171632) (392 aa) fasta scores: E(): 4.2e-74, 50.89% id in 393 aa, and to Pseudomonas aeruginosa phosphomannomutase AlgC or Pa5322 SW:ALGC_PSEAE (P26276) (462 aa) fasta scores: E(): 5.6e-67, 43.57% id in 459 aa; phosphoglucomutase 2075736..2077163 Bordetella pertussis Tohama I 2666644 NP_880647.1 CDS pgi NC_002929.2 2077173 2078744 D Similar to Zymomonas mobilis glucose-6-phosphate isomerase Pgi SW:G6PI_ZYMMO (P28718) (507 aa) fasta scores: E(): 6.4e-34, 31.46% id in 464 aa, and to Xanthomonas campestris glucose-6-phosphate isomerase Pgi TR:O68824 (EMBL:AF054807) (562 aa) fasta scores: E(): 1.4e-32, 31.1% id in 524 aa. Also similar to BP3142, 40.891% identity (43.238% ungapped) in 516 aa overlap.; glucose-6-phosphate isomerase 2077173..2078744 Bordetella pertussis Tohama I 2666645 NP_880648.1 CDS srpH NC_002929.2 2078927 2079880 D Similar to Synechococcus sp serine acetyltransferase, plasmid SrpH SW:SRPH_SYNP7 (Q59967) (319 aa) fasta scores: E(): 8.6e-57, 53.07% id in 309 aa, and to Trypanosoma cruzi serine acetyltransferase Sat TR:Q9BKB1 (EMBL:AF296848) (348 aa) fasta scores: E(): 1.1e-28, 48.93% id in 188 aa; serine acetyltransferase 2078927..2079880 Bordetella pertussis Tohama I 2666646 NP_880649.1 CDS BP1973 NC_002929.2 2079942 2081168 D Similar to Pseudomonas aeruginosa probable Mfs transporter Pa1286 TR:Q9I458 (EMBL:AE004558) (399 aa) fasta scores: E(): 2.4e-63, 49.5% id in 400 aa, and to Agrobacterium tumefaciens StrC58 Agr_c_1918p TR:AAK86848 (EMBL:AE008034) (414 aa) fasta scores: E(): 1.2e-55, 43.07% id in 390 aa. Also similar to BP1546, 42.569% identity (43.333% ungapped) in 397 aa overlap.; hypothetical protein 2079942..2081168 Bordetella pertussis Tohama I 2666647 NP_880650.1 CDS BP1974 NC_002929.2 2081181 2082005 D Modulates the activities of several enzymes which are inactive in their acetylated form; NAD-dependent deacetylase 2081181..2082005 Bordetella pertussis Tohama I 2666648 NP_880651.1 CDS BP1975 NC_002929.2 2082074 2082925 R Similar to Escherichia coli extragenic suppressor protein SuhB or SsyA or B2533 SW:SUHB_ECOLI (P22783) (267 aa) fasta scores: E(): 3.5e-13, 32.43% id in 222 aa, and to Rhizobium loti monophosphatase-like protein Mlr0048 TR:Q98NP3 (EMBL:AP002994) (275 aa) fasta scores: E(): 1.1e-49, 48.7% id in 271 aa; inositol monophosphatase complement(2082074..2082925) Bordetella pertussis Tohama I 2666649 NP_880652.1 CDS gabD NC_002929.2 2083103 2084572 R Similar to Escherichia coli succinate-semialdehyde dehydrogenase [NADP+] GabD or B2661 SW:GABD_ECOLI (P25526) (482 aa) fasta scores: E(): 7e-125, 66.66% id in 480 aa, and to Alcaligenes eutrophus succinate semialdehyde dehydrogenase GabD TR:Q9RBF6 (EMBL:AF175740) (483 aa) fasta scores: E(): 2.8e-127, 66.87% id in 480 aa; succinate-semialdehyde dehydrogenase complement(2083103..2084572) Bordetella pertussis Tohama I 2666650 NP_880653.1 CDS goaG NC_002929.2 2084652 2085917 R Similar to Escherichia coli 4-aminobutyrate aminotransferase GoaG or B1302 SW:GOAG_ECOLI (P50457) (421 aa) fasta scores: E(): 2.8e-108, 68.09% id in 420 aa, and to Yersinia pestis aminobutyrate aminotransferase GoaG TR:CAC92096 (EMBL:AJ414154) (429 aa) fasta scores: E(): 4.7e-105, 64.33% id in 429 aa; 4-aminobutyrate aminotransferase complement(2084652..2085917) Bordetella pertussis Tohama I 2666651 NP_880654.1 CDS BP1979 NC_002929.2 2087552 2088451 R Similar to Streptomyces coelicolor hypothetical 32.4 kDa protein Sc9b5.25 TR:Q9ZBF5 (EMBL:AL035206) (292 aa) fasta scores: E(): 6.1e-30, 39.04% id in 292 aa, and to Bacillus halodurans Bh3455 protein Bh3455 TR:Q9K7B1 (EMBL:AP001518) (282 aa) fasta scores: E(): 1.3e-15, 32.41% id in 290 aa; hypothetical protein complement(2087552..2088451) Bordetella pertussis Tohama I 2665716 NP_880655.1 CDS BP1980 NC_002929.2 2088531 2090624 D Similar to Escherichia coli DNA helicase II UvrD or MutU or PdeB or Rad or RecL or B3813 SW:UVRD_ECOLI (P03018) (720 aa) fasta scores: E(): 2.1e-28, 32.46% id in 687 aa, and to Ralstonia solanacearum probable ATP-dependent DNA helicase II protein rsp1276 TR:CAD18427 (EMBL:AL646083) (710 aa) fasta scores: E(): 1.2e-168, 63.84% id in 697 aa; ATP-dependent DNA helicase 2088531..2090624 Bordetella pertussis Tohama I 2665717 NP_880656.1 CDS BP1982 NC_002929.2 2091546 2092184 D Similar to Escherichia coli YeaA protein YeaA TR:Q9F541 (EMBL:AP002527) (171 aa) fasta scores: E(): 3.3e-12, 35.58% id in 163 aa, and to Escherichia coli protein ParB SW:PAB4_ECOLI (P22997) (281 aa) fasta scores: E(): 1.2e-09, 31.22% id in 221 aa; nuclease 2091546..2092184 Bordetella pertussis Tohama I 2665719 NP_880657.1 CDS BP1983 NC_002929.2 2092281 2094530 D no significant database matches; extracellular solute-binding protein 2092281..2094530 Bordetella pertussis Tohama I 2665720 NP_880658.1 CDS BP1984 NC_002929.2 2094527 2095504 D Similar to Bacillus subtilis oligopeptide transport system permease AppB SW:APPB_BACSU (P42062) (317 aa) fasta scores: E(): 6.3e-22, 28.52% id in 333 aa, and to Streptococcus pneumoniae R6 ABC transporter membrane-spanning permease-oligopeptide transport AppB TR:AAK99996 (EMBL:AE008491) (331 aa) fasta scores: E(): 1.5e-21, 28.31% id in 332 aa; oligopeptide transport system permease 2094527..2095504 Bordetella pertussis Tohama I 2665721 NP_880659.1 CDS BP1985 NC_002929.2 2095510 2096961 D Similar to Streptomyces coelicolor oligopeptide transport integral membrane protein Sc2a11.10 TR:O86571 (EMBL:AL031184) (335 aa) fasta scores: E(): 5.7e-22, 32.79% id in 247 aa, and to Deinococcus radiodurans peptide ABC transporter permease Dr0958 TR:Q9RVR4 (EMBL:AE001948) (332 aa) fasta scores: E(): 3.3e-18, 31.68% id in 243 aa; oligopeptide transport integral membrane protein 2095510..2096961 Bordetella pertussis Tohama I 2665722 NP_880660.1 CDS BP1986 NC_002929.2 2096958 2098634 D Similar to Agrobacterium tumefaciens MoaD TR:O50270 (EMBL:AF242881) (588 aa) fasta scores: E(): 2.2e-81, 48.35% id in 548 aa, and to Rhizobium meliloti peptide transport ATP-binding ABC transporter protein smc04288 TR:CAC46528 (EMBL:AL591789) (593 aa) fasta scores: E(): 3.3e-86, 48.91% id in 554 aa; ABC transporter ATP-binding protein 2096958..2098634 Bordetella pertussis Tohama I 2665723 NP_880661.1 CDS BP1987 NC_002929.2 2098683 2099234 R Similar to Streptomyces coelicolor hypothetical 19.0 kDa protein Sc10b7.04 TR:Q9X957 (EMBL:Y13833) (174 aa) fasta scores: E(): 1.5e-07, 37.24% id in 145 aa, and to Bacillus subtilis YcgE protein YcgE TR:O31472 (EMBL:Z99105) (155 aa) fasta scores: E(): 1.8e-07, 32.85% id in 140 aa; MarR family transcriptional regulator complement(2098683..2099234) Bordetella pertussis Tohama I 2665724 NP_880662.1 CDS BP1989 NC_002929.2 2101094 2102806 R Similar to Serratia marcescens hemolysin activator protein precursor ShlB SW:HLYB_SERMA (P15321) (557 aa) fasta scores: E(): 0.016, 23.73% id in 535 aa, and to Pseudomonas aeruginosa hypothetical protein PA4624 TR:Q9HVG7 (EMBL:AE004876) (568 aa) fasta scores: E(): 7.2e-25, 25.75% id in 567 aa; hypothetical protein complement(2101094..2102806) Bordetella pertussis Tohama I 2665726 NP_880663.1 CDS BP1990 NC_002929.2 2103263 2104081 D N-terminus is similar to the N-terminal region of similar to Pseudomonas aeruginosa hypothetical protein PaA1727 TR:Q9I310 (EMBL:AE004599) (685 aa) fasta scores: E(): 1.5e-17, 38.62% id in 189 aa. Similar to N-terminal region of Pseudomonas carboxydovorans hypothetical protein CoxC TR:Q9KX27 (EMBL:X82447) (402 aa) fasta scores: E(): 6.7e-16, 33.33% id in 264 aa; hypothetical protein 2103263..2104081 Bordetella pertussis Tohama I 2665727 NP_880664.1 CDS BP1991 NC_002929.2 2104179 2104355 D Similar to Caulobacter crescentus pilus subunit protein CC2948 TR:Q9L720 (EMBL:AF229646) (59 aa) fasta scores: E(): 4.6e-05, 54% id in 50 aa, and to Rhizobium meliloti probable pSymA plasmid PilA2 pilus assembly protein TR:AAK65511 (EMBL:AE007272) (56 aa) fasta scores: E(): 0.00024, 50% id in 54 aa; hypothetical protein 2104179..2104355 Bordetella pertussis Tohama I 2666116 NP_880665.1 CDS BP1992 NC_002929.2 2104425 2104949 D Similar to Bacillus halodurans late competence protein required for processing and translocation BH3035 TR:Q9K8H1 (EMBL:AP001517) (162 aa) fasta scores: E(): 0.0035, 26.41% id in 159 aa, and to the C-terminal region of Aeromonas hydrophila type 4 prepilin-like proteins leader peptide processing enzyme [includes: leader peptidase; N-methyltransferase] TapD SW:LEP4_AERHY (P45794) (290 aa) fasta scores: E(): 0.45, 27.84% id in 176 aa; hypothetical protein 2104425..2104949 Bordetella pertussis Tohama I 2666117 NP_880666.1 CDS BP1993 NC_002929.2 2104910 2105353 D Poor database matches. Similar to the C-terminal region of Pseudomonas aeruginosa hypothetical protein PA4294 TR:Q9HWA6 (EMBL:AE004845) (168 aa) fasta scores: E(): 0.0027, 32.16% id in 143 aa; hypothetical protein 2104910..2105353 Bordetella pertussis Tohama I 2666118 NP_880667.1 CDS BP1994 NC_002929.2 2105355 2105831 D Similar to Pseudomonas aeruginosa hypothetical protein PA5409 TR:Q9HTF5 (EMBL:AE004953) (186 aa) fasta scores: E(): 2.5, 29.8% id in 151 aa. N-terminus is similar to N-terminal region of Rhizobium meliloti hypothetical protein SMA1572 TR:AAK65512 (EMBL:AE007272) (141 aa) fasta scores: E(): 0.029, 38.82% id in 85 aa; hypothetical protein 2105355..2105831 Bordetella pertussis Tohama I 2666119 NP_880668.1 CDS BP1995 NC_002929.2 2105828 2106769 D N-terminus is similar to the N-terminal region of Pseudomonas aeruginosa hypothetical protein PA4305 TR:Q9HW95 (EMBL:AE004846) (303 aa) fasta scores: E(): 3.9e-14, 36.36% id in 242 aa, and Rhizobium meliloti pilus assembly signal peptide protein TR:CAC41527 (EMBL:AL591782) (269 aa) fasta scores: E(): 0.0098, 33.2% id in 250 aa; hypothetical protein 2105828..2106769 Bordetella pertussis Tohama I 2666517 NP_880669.1 CDS BP1996 NC_002929.2 2106825 2108174 D Similar to Pseudomonas aeruginosa probable type II secretion system protein PA4304 TR:Q9HW96 (EMBL:AE004846) (416 aa) fasta scores: E(): 1e-32, 39.73% id in 453 aa. C-terminus is similar to the C-terminal region of Aeromonas salmonicida general secretion pathway protein D precursor ExeD SW:GSPD_AERSA (P45778) (678 aa) fasta scores: E(): 6.1e-12, 26.47% id in 374 aa; type II secretion system protein 2106825..2108174 Bordetella pertussis Tohama I 2666518 NP_880670.1 CDS BP1997 NC_002929.2 2108171 2109520 D Similar to Ralstonia solanacearum probable pilus assembly protein Cpae2 or Rsp1086 or Rs02593 SWALL:Q8XQY2 (EMBL:AL646082) (439 aa) fasta scores: E(): 9.8e-23, 34.31% id in 440 aa; hypothetical protein 2108171..2109520 Bordetella pertussis Tohama I 2666519 NP_880671.1 CDS BP1999 NC_002929.2 2110879 2111799 D Similar to Pseudomonas aeruginosa hypothetical protein PA4301 TR:Q9HW99 (EMBL:AE004846) (294 aa) fasta scores: E(): 4e-19, 33.01% id in 309 aa, and to Rhizobium loti hypothetical protein MLR6484 TR:Q989C6 (EMBL:AP003009) (323 aa) fasta scores: E(): 1.8e-08, 26.79% id in 306 aa; hypothetical protein 2110879..2111799 Bordetella pertussis Tohama I 2666092 NP_880672.1 CDS BP2001 NC_002929.2 2112793 2113635 D Similar to N-terminal approx. 250 aa of Pseudomonas aeruginosa hypothetical protein PA4299 TR:Q9HWA1 (EMBL:AE004846) (245 aa) fasta scores: E(): 9.8e-12, 34.363% id in 259 aa; lipoprotein 2112793..2113635 Bordetella pertussis Tohama I 2666094 NP_880673.1 CDS BP2003 NC_002929.2 2114059 2116302 D Similar, except at C-terminus, to Pseudomonas aeruginosa hypothetical protein PA4297 TR:Q9HWA3 (EMBL:AE004846) (556 aa) fasta scores: E(): 2.8e-12, 28.798% id in 441 aa, Rhizobium meliloti hypothetical protein SMC00158 TR:CAC46429 (EMBL:AL591788) (577 aa) fasta scores: E(): 1e-07, 25.175% id in 572 aa and to Agrobacterium tumefaciens hypothetical protein AGR_C_2962 TR:AAK87388 (EMBL:AE008083) (546 aa) fasta scores: E(): 4.1e-06, 23.833% id in 407 aa; hypothetical protein 2114059..2116302 Bordetella pertussis Tohama I 2666096 NP_880674.1 CDS BP2004 NC_002929.2 2116324 2117715 D Similar, except at N-terminus, to Pseudomonas aeruginosa type 4 fimbriae expression regulatory protein PilR, pilR or PA4547 SW:PILR_PSEAE (Q00934) (445 aa) fasta scores: E(): 2e-35, 40.123% id in 324 aa. Similar to many other bacterial response regulators; response regulator 2116324..2117715 Bordetella pertussis Tohama I 2666097 NP_880675.1 CDS BP2005 NC_002929.2 2117795 2118490 D Unknown function; lipoprotein 2117795..2118490 Bordetella pertussis Tohama I 2666098 NP_880676.1 CDS BP2006 NC_002929.2 2118590 2119057 D Similar to Rhizobium loti hypothetical protein MLL3449 TR:Q98G81 (EMBL:AP003002) (99 aa) fasta scores: E(): 4.7e-06, 42.268% id in 97 aa, Caulobacter crescentus hypothetical protein CC0827 TR:Q9A9Y4 (EMBL:AE005759) (145 aa) fasta scores: E(): 1.2e-05, 41.549% id in 142 aa and to Agrobacterium tumefaciens hypothetical protein AGR_l_2637 TR:AAK89886 (EMBL:AE008331) (142 aa) fasta scores: E(): 4.5e-05, 42.466% id in 146 aa; hypothetical protein 2118590..2119057 Bordetella pertussis Tohama I 2666099 NP_880677.1 CDS BP2007 NC_002929.2 2119115 2119819 D member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; RNA polymerase sigma factor 2119115..2119819 Bordetella pertussis Tohama I 2666100 NP_880678.1 CDS BP2008 NC_002929.2 2119966 2120535 D Contains a region with similarity to bacterial hypothetical proteins e.g. Deinococcus radiodurans hypothetical protein DRA0258 TR:Q9RYQ1 (EMBL:AE001863) (288 aa) fasta scores: E(): 0.0007, 30.726% id in 179 aa; hypothetical protein 2119966..2120535 Bordetella pertussis Tohama I 2666101 NP_880679.1 CDS BP2009 NC_002929.2 2120532 2120942 D Similar to many cytochromes C e.g. Rhodopseudomonas viridis cytochrome c2 precursor CycA, cycA SW:CY2_RHOVI (P00083) (127 aa) fasta scores: E(): 1.8e-14, 45.045% id in 111 aa; cytochrome c 2120532..2120942 Bordetella pertussis Tohama I 2666102 NP_880680.1 CDS efp NC_002929.2 2121062 2121619 R Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA; elongation factor P complement(2121062..2121619) Bordetella pertussis Tohama I 2666103 NP_880681.1 CDS BP2011 NC_002929.2 2121762 2122874 R Similar to Pseudomonas aeruginosa hypothetical protein PA2852 TR:Q9HZZ1 (EMBL:AE004711) (376 aa) fasta scores: E(): 1.6e-53, 47.013% id in 385 aa and to Neisseria meningitidis hypothetical protein NMA1132 TR:Q9JUU3 (EMBL:AL162755) (382 aa) fasta scores: E(): 3e-37, 37.105% id in 380 aa; hypothetical protein complement(2121762..2122874) Bordetella pertussis Tohama I 2666104 NP_880682.1 CDS BP2012 NC_002929.2 2122890 2124092 R Similar to Leishmania major hypothetical protein LM12.86 TR:Q9N746 (EMBL:AL390114) (163 aa) fasta scores: E(): 9.1e-20, 43.949% id in 157 aa and to Leishmania major hypothetical protein LM12.84 TR:Q9GY60 (EMBL:AL390114) (153 aa) fasta scores: E(): 5.2e-10, 48.718% id in 78 aa; hypothetical protein complement(2122890..2124092) Bordetella pertussis Tohama I 2666105 NP_880683.1 CDS BP2013 NC_002929.2 2124262 2125038 D Similar to bacterial hypothetical proteins e.g. Pseudomonas aeruginosa hypothetical protein PA2839 TR:Q9I004 (EMBL:AE004710) (256 aa) fasta scores: E(): 2.2e-43, 49.612% id in 258 aa. Also similar to parts of some eukaryotic proteins e.g. Arabidopsis thaliana hypothetical protein AT4G15090 TR:O23363 (EMBL:Z97337) (1705 aa) fasta scores: E(): 2.5e-32, 40.417% id in 240 aa and Neurospora crassa conserved hypothetical protein B2J23.80 TR:Q9HFJ4 (EMBL:AL442164) (379 aa) fasta scores: E(): 7.7e-21, 37.607% id in 234 aa; hypothetical protein 2124262..2125038 Bordetella pertussis Tohama I 2666106 NP_880684.1 CDS acnA NC_002929.2 2125147 2127852 R catalyzes the conversion of citrate to isocitrate; aconitate hydratase complement(2125147..2127852) Bordetella pertussis Tohama I 2666107 NP_880685.1 CDS BP2015 NC_002929.2 2128090 2128692 R Similar to Pseudomonas aeruginosa hypothetical protein PA2230 TR:Q9I1N9 (EMBL:AE004649) (223 aa) fasta scores: E(): 2e-68, 78.351% id in 194 aa and to Rhizobium meliloti transmembrane protein SMC01561 TR:CAC46891 (EMBL:AL591790) (189 aa) fasta scores: E(): 2e-28, 41.053% id in 190 aa; lipoprotein complement(2128090..2128692) Bordetella pertussis Tohama I 2666108 NP_880686.1 CDS brfB NC_002929.2 2128969 2131173 D Similar to Yersinia enterocolitica ferrichrome receptor FcuA, fcuA SW:FCUA_YEREN (Q05202) (758 aa) fasta scores: E(): 5.1e-99, 40.909% id in 726 aa and to Bordetella bronchiseptica ferric siderophore receptor BrfB, bfrB TR:P94265 (EMBL:U77671) (734 aa) fasta scores: E(): 0, 98.638% id in 734 aa. Show to be iron-regulated in Bordetella bronchiseptica; ferric siderophore receptor 2128969..2131173 Bordetella pertussis Tohama I 2666422 NP_880687.1 CDS BP2017 NC_002929.2 2131336 2132070 D Show weak similarity to Pseudomonas sp. 2-haloalkanoic acid dehalogenase I SW:HAD1_PSESP (P24069) (227 aa) fasta scores: E(): 2.4e-09, 28.821% id in 229 aa. Also similar to many haloacid-type hydrolases e.g. Pseudomonas aeruginosa probable haloacid dehalogenase PA0810 TR:Q9I5C9 (EMBL:AE004516) (233 aa) fasta scores: E(): 1.7e-35, 42.797% id in 236 aa; haloacid-type dehydrogenase 2131336..2132070 Bordetella pertussis Tohama I 2666423 NP_880688.1 CDS BP2018 NC_002929.2 2132147 2133097 R transposase for IS481 element; transposase complement(2132147..2133097) Bordetella pertussis Tohama I 2666424 NP_880689.1 CDS BP2019 NC_002929.2 2133179 2133727 R Similar in part to Rhizobium meliloti hypothetical transmembrane protein SMC00354 TR:CAC41711 (EMBL:AL591783) (221 aa) fasta scores: E(): 2.1e-09, 33.908% id in 174 aa and to other outer membrane proteins. Also similar to part of Escherichia coli outer membrane protein A OmpA, ompA SW:OMPA_ECOLI (P02934) (346 aa) fasta scores: E(): 2.4e-07, 40.860% id in 93 aa. May be truncated by the downstream insertion element; lipoprotein complement(2133179..2133727) Bordetella pertussis Tohama I 2666425 NP_880690.1 CDS BP2020 NC_002929.2 2133730 2134068 R no significant database hits; hypothetical protein complement(2133730..2134068) Bordetella pertussis Tohama I 2666426 NP_880691.1 CDS acnB NC_002929.2 2134463 2137054 R catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase complement(2134463..2137054) Bordetella pertussis Tohama I 2666427 NP_880692.1 CDS BP2022 NC_002929.2 2137190 2137864 D Similar to the N-terminal half of Bacillus subtilis DNA polymerase III PolC-type polC or dnaF or mutI SW:DPO3_BACSU (P13267) (1437 aa) fasta scores: E(): 3.7e-07, 33.918% id in 171 aa and to many other exonucleases e.g. Deinococcus radiodurans DNA polymerase III, epsilon subunit DR0856 TR:Q9RW13 (EMBL:AE001939) (197 aa) fasta scores: E(): 4.2e-14, 37.949% id in 195 aa; exonuclease 2137190..2137864 Bordetella pertussis Tohama I 2666428 NP_880693.1 CDS BP2023 NC_002929.2 2137877 2138263 D Similar to Mus musculus RS21-C6 TDRG-Tl1 TR:Q9QY93 (EMBL:AF110764) (170 aa) fasta scores: E(): 1.6e-15, 51.456% id in 103 aa and to other bacterial hypothetical proteins e.g. Pseudomonas aeruginosa hypothetical protein PA4789 TR:Q9HV19 (EMBL:AE004892) (101 aa) fasta scores: E(): 1.9e-09, 45.055% id in 91 aa; hypothetical protein 2137877..2138263 Bordetella pertussis Tohama I 2666429 NP_880694.1 CDS BP2024 NC_002929.2 2138270 2138560 R Similar to bacterial hypothetical proteins e.g. Bacillus subtilis hypothetical protein YczJ yczJ SW:YCZJ_BACSU (O31484) (95 aa) fasta scores: E(): 2.5e-09, 33.684% id in 95 aa and Deinococcus radiodurans conserved hypothetical protein DR1636 TR:Q9RTW6 (EMBL:AE002007) (122 aa) fasta scores: E(): 1e-08, 38.889% id in 90 aa; hypothetical protein complement(2138270..2138560) Bordetella pertussis Tohama I 2666430 NP_880695.1 CDS BP2025 NC_002929.2 2138696 2138995 D unknown function; YciI from Haemophilus influenzae presents crystal structure similarity to a muconolactone isomerase, but does not seem to catalyze any of the predicted reactions based on sequence and structure similarity; hypothetical protein 2138696..2138995 Bordetella pertussis Tohama I 2666431 NP_880696.1 CDS BP2026 NC_002929.2 2139064 2139966 D Similar to bacterial integral membrane proteins e.g. Caulobacter crescentus integral membrane protein CC3090 TR:Q9A3W1 (EMBL:AE005972) (300 aa) fasta scores: E(): 1.3e-58, 57.388% id in 291 aa and Pseudomonas aeruginosa hypothetical protein PA4779 TR:Q9HV29 (EMBL:AE004891) (297 aa) fasta scores: E(): 1.6e-36, 45.890% id in 292 aa; hypothetical protein 2139064..2139966 Bordetella pertussis Tohama I 2666432 NP_880697.1 CDS BP2027 NC_002929.2 2139970 2140740 D Shows weak similarity to many bacterial integral membrane proteins e.g. Escherichia coli O157:H7 hypothetical membrane protein ECS4801 TR:BAB38224 (EMBL:AP002567) (291 aa) fasta scores: E(): 4.4e-09, 28.235% id in 255 aa; hypothetical protein 2139970..2140740 Bordetella pertussis Tohama I 2666433 NP_880698.1 CDS BP2028 NC_002929.2 2141126 2141575 D Unknown function; hypothetical protein 2141126..2141575 Bordetella pertussis Tohama I 2666434 NP_880699.1 CDS BP2029 NC_002929.2 2141643 2142593 R transposase for IS481 element; transposase complement(2141643..2142593) Bordetella pertussis Tohama I 2666435 NP_880700.1 CDS BP2030 NC_002929.2 2142955 2143866 R Similar to e.g. Escherichia coli cyn operon transcriptional activator CynR, cynR SW:CYNR_ECOLI (P27111) (311 aa) fasta scores: E(): 5.7e-19, 29.085% id in 306 aa and to Vibrio cholerae transcriptional regulator, lysR family VC2103 TR:Q9KQ97 (EMBL:AE004284) (292 aa) fasta scores: E(): 1.7e-38, 39.161% id in 286 aa; LysR family transcriptional regulator complement(2142955..2143866) Bordetella pertussis Tohama I 2666437 NP_880701.1 CDS BP2031 NC_002929.2 2144077 2145609 D Similar to many e.g. Pseudomonas aeruginosa coenzyme A transferase PsecoA, psecoA TR:O84911 (EMBL:AF010184) (497 aa) fasta scores: E(): 1.9e-121, 66.397% id in 494 aa; acyl-CoA transferase 2144077..2145609 Bordetella pertussis Tohama I 2666438 NP_880702.1 CDS BP2034 NC_002929.2 2146841 2147803 R Similar to many e.g. Citrobacter diversus transcriptional activator protein AmpR ampR SW:AMPR_CITDI (P52658) (285 aa) fasta scores: E(): 1.3e-21, 33.904% id in 292 aa; LysR family transcriptional regulator complement(2146841..2147803) Bordetella pertussis Tohama I 2665765 NP_880704.1 CDS BP2037 NC_002929.2 2155206 2155478 R Similar to many e.g. Rhizobium meliloti conserved hypothetical protein SMC00656 TR:CAC47295 (EMBL:AL591791) (93 aa) fasta scores: E(): 2.9e-08, 34.831% id in 89 aa, Pseudomonas aeruginosa hypothetical protein PA1749 TR:Q9I2Y8 (EMBL:AE004601) (161 aa) fasta scores: E(): 2.7e-07, 43.529% id in 85 aa and Streptomyces coelicolor conserved hypothetical protein SC8D11.19 TR:Q9AK00 (EMBL:AL512944) (102 aa) fasta scores: E(): 2e-06, 38.750% id in 80 aa; hypothetical protein complement(2155206..2155478) Bordetella pertussis Tohama I 2665767 NP_880705.1 CDS BP2038 NC_002929.2 2155475 2156422 R Similar to Streptomyces coelicolor probable hydroxyacyl-CoA dehydrogenase SCBAC20F6.15 TR:Q53926 (EMBL:X62373) (307 aa) fasta scores: E(): 1.3e-37, 41.613% id in 310 aa and to many other hydroxyacyl-CoA dehydrogenases e.g. Pseudomonas aeruginosa probable 3-hydroxyacyl-CoA dehydrogenase PA5386 TR:Q9HTH8 (EMBL:AE004951) (321 aa) fasta scores: E(): 9e-48, 47.097% id in 310 aa; hydroxlacyl-CoA dehydrogenase complement(2155475..2156422) Bordetella pertussis Tohama I 2665768 NP_880706.1 CDS BP2039 NC_002929.2 2156604 2157998 D catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia; amidase 2156604..2157998 Bordetella pertussis Tohama I 2665769 NP_880707.1 CDS BP2040 NC_002929.2 2158021 2158416 R Unknown function; hypothetical protein complement(2158021..2158416) Bordetella pertussis Tohama I 2665770 NP_880708.1 CDS proA NC_002929.2 2158413 2159672 R Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway; gamma-glutamyl phosphate reductase complement(2158413..2159672) Bordetella pertussis Tohama I 2665771 NP_880709.1 CDS holA NC_002929.2 2159794 2160849 R required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA; DNA polymerase III subunit delta complement(2159794..2160849) Bordetella pertussis Tohama I 2665772 NP_880710.1 CDS BP2043 NC_002929.2 2160852 2161511 R Unknown function; lipoprotein complement(2160852..2161511) Bordetella pertussis Tohama I 2665773 NP_880711.1 CDS leuS NC_002929.2 2161527 2164184 R leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase; leucyl-tRNA synthetase complement(2161527..2164184) Bordetella pertussis Tohama I 2665774 NP_880712.1 CDS BP2045 NC_002929.2 2164262 2165464 R Similar to many transport proteins e.g. Escherichia coli O157:H7 transport protein ECS3543 TR:BAB36966 (EMBL:AP002562) (394 aa) fasta scores: E(): 2.3e-76, 58.115% id in 382 aa; transmembrane transport protein complement(2164262..2165464) Bordetella pertussis Tohama I 2667543 NP_880713.1 CDS BP2046 NC_002929.2 2165461 2165973 R Similar to e.g. Erwinia chrysanthemi regulatory protein PecS, pecS SW:PECS_ERWCH (P42195) (166 aa) fasta scores: E(): 3e-17, 38.816% id in 152 aa and Streptomyces coelicolor MarR-family regulatory protein SC8E4A.17 TR:Q9L1Y8 (EMBL:AL138662) (172 aa) fasta scores: E(): 2.6e-25, 49.045% id in 157 aa; MarR family transcriptional regulator complement(2165461..2165973) Bordetella pertussis Tohama I 2667544 NP_880714.2 CDS bph2 NC_002929.2 2166096 2166533 R Histone H1 homologue, DNA-binding protein Bph2, bph2 TR:P94344 (EMBL:U82555) (145 aa) fasta scores: E(): 2.2e-44, 100.000% id in 145 aa; DNA-binding protein Bph2 complement(2166096..2166533) Bordetella pertussis Tohama I 2667545 NP_880715.1 CDS BP2048 NC_002929.2 2166810 2167760 D transposase for IS481 element; transposase 2166810..2167760 Bordetella pertussis Tohama I 2667546 NP_880716.1 CDS BP2049 NC_002929.2 2168014 2169819 D Similar to e.g. Pseudomonas aeruginosa probable sulfate transporter PA0029 TR:Q9I7A1 (EMBL:AE004442) (517 aa) fasta scores: E(): 4e-48, 38.815% id in 523 aa and Stylosanthes hamata high affinity sulphate transporter 2 st2 SW:SUT2_STYHA (P53392) (662 aa) fasta scores: E(): 1.3e-33, 26.165% id in 558 aa; sulfate transporter 2168014..2169819 Bordetella pertussis Tohama I 2667547 NP_880717.1 CDS rpmG NC_002929.2 2169933 2170100 R in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif; 50S ribosomal protein L33 complement(2169933..2170100) Bordetella pertussis Tohama I 2667548 NP_880718.1 CDS rpmB NC_002929.2 2170164 2170400 R required for 70S ribosome assembly; 50S ribosomal protein L28 complement(2170164..2170400) Bordetella pertussis Tohama I 2667549 NP_880719.1 CDS BP2052 NC_002929.2 2170769 2171968 R Similar to many e.g. Pseudomonas aeruginosa probable MFS transporter PA3573 TR:Q9HY47 (EMBL:AE004778) (392 aa) fasta scores: E(): 2.1e-54, 45.455% id in 396 aa; and Escherichia coli bicyclomycin resistance protein, bcr or b2182 SW:BCR_ECOLI (P28246) (396 aa) fasta scores: E():2.3e-39, 35.476% id in 389 aa; transmembrane transport protein complement(2170769..2171968) Bordetella pertussis Tohama I 2667550 NP_880720.1 CDS BP2054 NC_002929.2 2173484 2174434 D transposase for IS481 element; transposase 2173484..2174434 Bordetella pertussis Tohama I 2666580 NP_880721.1 CDS BP2055 NC_002929.2 2174886 2175887 D Similar to many e.g. Escherichia coli glycine betaine-binding periplasmic protein, proX or proU or b2679 SW:PROX_ECOLI (P14177) (330 aa) fasta scores: E(): 4e-08, 24.096% id in 332 aa. Also similar to BP3572, 53.012% identity (53.659% ungapped) in 332 aa overlap.; glycine/betaine ABC transporter substrate-binding protein 2174886..2175887 Bordetella pertussis Tohama I 2666581 NP_880722.1 CDS BP2056 NC_002929.2 2176060 2176917 D Similar to many e.g. Escherichia coli glycine betaine/L-proline transport system permease, proW or b2678 SW:PROW_ECOLI (P14176) (354 aa) fasta scores: E(): 1.4e-42, 47.566% id in 267 aa; binding-protein-dependent transport protein 2176060..2176917 Bordetella pertussis Tohama I 2666582 NP_880723.1 CDS BP2057 NC_002929.2 2176914 2178176 D Similar to many e.g. Lactococcus lactis BusaA busaA TR:Q9RQ06 (EMBL:AF139575) (407 aa) fasta scores: E(): 1.8e-58, 47.783% id in 406 aa and to Salmonella typhimurium glycine betaine/L-proline transport ATP-binding protein ProV proV SW:PROV_SALTY (P17328) (400 aa) fasta scores: E(): 6.2e-58, 46.770% id in 387 aa; ABC transporter ATP-binding protein 2176914..2178176 Bordetella pertussis Tohama I 2666583 NP_880724.1 CDS BP2058 NC_002929.2 2178277 2178651 D Shows weak similarity over the N-terminal 60 residues to tautomerases e.g. Pseudomonas putida 4-oxalocrotonate tautomerase xylH SW:XYLH_PSEPU (Q01468) (62 aa) fasta scores: E(): 0.017, 33.333% id in 60 aa. Shows full-length similarity to tautomerases e.g. Pseudomonas pavonaceae tautomerase TR:Q9EV83 (EMBL:AJ290446) (130 aa) fasta scores: E(): 0.0049, 35.484% id in 124 aa and to hypothetical proteins; tautomerase 2178277..2178651 Bordetella pertussis Tohama I 2666584 NP_880725.1 CDS BP2059 NC_002929.2 2178724 2179911 D catalyzes the formation of beta-ketovaleryl-CoA from acetyl-CoA and propionyl-CoA; beta-ketothiolase 2178724..2179911 Bordetella pertussis Tohama I 2666585 NP_880726.1 CDS BP2060 NC_002929.2 2179996 2180766 D Similar to many hypothetical proteins e.g. Neisseria meningitidis transferase NMA1087 or NMB0869 TR:Q9JQL8 (EMBL:AL162755) (263 aa) fasta scores: E(): 1.5e-19, 32.432% id in 259 aa and Pseudomonas aeruginosa hypothetical protein PA2842 TR:Q9I001 (EMBL:AE004711) (249 aa) fasta scores: E(): 1.3e-06, 25.909% id in 220 aa; hypothetical protein 2179996..2180766 Bordetella pertussis Tohama I 2666586 NP_880727.1 CDS BP2061 NC_002929.2 2180880 2181644 D Similar to many transcriptional regulators e.g. Rhizobium meliloti transcriptional regulator SMB20773 TR:CAC49865 (EMBL:AL603647) (228 aa) fasta scores: E(): 6.7e-17, 38.350% id in 206 aa and Acinetobacter calcoaceticus transcriptional repressor MdcY mdcY TR:Q9F0Q8 (EMBL:AF209728) (224 aa) fasta scores: E(): 3.9e-15, 33.498% id in 203 aa; GntR family transcriptional regulator 2180880..2181644 Bordetella pertussis Tohama I 2666587 NP_880728.1 CDS BP2062 NC_002929.2 2181595 2182896 D Similar to e.g. Rhizobium leguminosarum malonyl-CoA decarboxylase matA TR:Q9ZIP6 (EMBL:AF117694) (462 aa) fasta scores: E(): 4.7e-36, 46.012% id in 326 aa and Homo sapiens malonyl-CoA decarboxylase, mitochondrial precursor mlycD SW:DCMC_HUMAN (O95822) (493 aa) fasta scores: E(): 2.3e-28, 35.714% id in 434 aa; malonyl-CoA decarboxylase 2181595..2182896 Bordetella pertussis Tohama I 2666588 NP_880729.1 CDS BP2063 NC_002929.2 2182893 2183699 D Similar to many enoyl-CoA hydratase family proteins e.g. Streptomyces coelicolor enoyl CoA hydratase SC5f2A.31C TR:Q9X7Q4 (EMBL:AL049587) (257 aa) fasta scores: E(): 6.3e-22, 37.121% id in 264 aa. Not similar enough to experimentally characterised proteins to suggest function; hypothetical protein 2182893..2183699 Bordetella pertussis Tohama I 2666589 NP_880730.1 CDS BP2066 NC_002929.2 2185444 2186415 D Similar to many bacterial hypothetical proteins e.g Rhizobium meliloti conserved hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 9.6e-47, 43.396% id in 318 aa; hypothetical protein 2185444..2186415 Bordetella pertussis Tohama I 2666591 NP_880731.1 CDS BP2067 NC_002929.2 2186572 2187084 D Similar to many e.g. Salmonella typhimurium superoxide dismutase [Cu-Zn] precursor sodC SW:SODC_SALTY (P53636) (177 aa) fasta scores: E(): 2.2e-31, 55.294% id in 170 aa; superoxide dismutase 2186572..2187084 Bordetella pertussis Tohama I 2666592 NP_880732.1 CDS BP2068 NC_002929.2 2187243 2188217 D Similar to many hypothetical proteins e.g. Pseudomonas aeruginosa hypothetical protein PA3836 TR:Q9HXG8 (EMBL:AE004801) (325 aa) fasta scores: E(): 1.9e-83, 76.543% id in 324 aa; hypothetical protein 2187243..2188217 Bordetella pertussis Tohama I 2666593 NP_880733.1 CDS BP2070 NC_002929.2 2189218 2190012 D Similar to many ABC-transporter ATP-binding components e.g. Pseudomonas aeruginosa probable ATP-binding component of ABC transporter pa3838 TR:Q9HXG6 (EMBL:AE004801) (264 aa) fasta scores: E(): 2.1e-76, 88.258% id in 264 aa; ABC transporter ATP-binding protein 2189218..2190012 Bordetella pertussis Tohama I 2667079 NP_880734.1 CDS BP2071 NC_002929.2 2190038 2190844 R Similar to Azotobacter vinelandii molybdenum transport protein ModA SW:MODA_AZOVI (P37733) (270 aa) fasta scores: E(): 3e-33, 46.341% id in 246 aa and Rhodobacter capsulatus molybdenum-pterin binding protein MopA SW:MOPA_RHOCA (Q08385) (265 aa) fasta scores: E(): 7.6e-27, 42.308% id in 260 aa; molybdenum-binding protein complement(2190038..2190844) Bordetella pertussis Tohama I 2667080 NP_880735.1 CDS BP2072 NC_002929.2 2190955 2191545 D Similar to Pseudomonas aeruginosa hypothetical protein PA4793 TR:Q9HV15 (EMBL:AE004892) (187 aa) fasta scores: E(): 4.2e-06, 27.374% id in 179 aa; lipoprotein 2190955..2191545 Bordetella pertussis Tohama I 2667081 NP_880736.1 CDS BP2073 NC_002929.2 2191556 2192734 D Similar to hypothetical proteins e.g. Rhizobium loti hypothetical protein MLR2398 TR:Q98IH7 (EMBL:AP002999) (390 aa) fasta scores: E(): 7.7e-67, 52.660% id in 376 aa; hypothetical protein 2191556..2192734 Bordetella pertussis Tohama I 2667082 NP_880737.1 CDS BP2074 NC_002929.2 2192837 2193211 D Similar to the C-termini of two-component response regulators e.g. Rhodobacter sphaeroides DmsR dmsR TR:O32479 (EMBL:D89075) (232 aa) fasta scores: E(): 1.9e-05, 36.842% id in 114 aa. Possibly a pseudogene; DNA-binding protein 2192837..2193211 Bordetella pertussis Tohama I 2667083 NP_880738.1 CDS BP2075 NC_002929.2 2193464 2194810 D Similar to e.g. Escherichia coli acriflavine resistance protein E precursor acrE or envC or b3265 SW:ACRE_ECOLI (P24180) (385 aa) fasta scores: E(): 1.4e-43, 47.684% id in 367 aa and Neisseria gonorrhoeae membrane fusion protein MtrC precursor mtrC SW:MTRC_NEIGO (P43505) (412 aa) fasta scores: E(): 2.5e-37, 41.304% id in 414 aa. Probably attached to inner membrane; efflux system inner membrane protein 2193464..2194810 Bordetella pertussis Tohama I 2667084 NP_880739.1 CDS BP2076 NC_002929.2 2194877 2198107 D Similar to e.g. Escherichia coli acriflavine resistance protein B acrB or acrE or b0462 SW:ACRB_ECOLI (P31224) (1049 aa) fasta scores: E(): 3.1e-201, 52.073% id in 1037 aa and Neisseria gonorrhoeae rnd protein MtrD mtrD TR:Q51073 (EMBL:U60099) (1067 aa) fasta scores: E(): 3e-174, 51.873% id in 1068 aa; efflux system transmembrane protein 2194877..2198107 Bordetella pertussis Tohama I 2667085 NP_880740.1 CDS pdxJ NC_002929.2 2199598 2200344 D involved in the de novo synthesis of pyridoxine (Vitamin B6); pyridoxine 5'-phosphate synthase 2199598..2200344 Bordetella pertussis Tohama I 2667087 NP_880741.1 CDS acpS NC_002929.2 2200429 2200890 D Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids; 4'-phosphopantetheinyl transferase 2200429..2200890 Bordetella pertussis Tohama I 2667088 NP_880742.1 CDS nagZ NC_002929.2 2200928 2201986 D hydrolyzes the terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides; beta-hexosaminidase 2200928..2201986 Bordetella pertussis Tohama I 2667089 NP_880743.1 CDS uvrC NC_002929.2 2201949 2203778 D The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision; excinuclease ABC subunit C 2201949..2203778 Bordetella pertussis Tohama I 2667193 NP_880744.1 CDS pgsA NC_002929.2 2203818 2204390 D Similar to many e.g. Escherichia coli CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase pgsA or b1912 SW:PGSA_ECOLI (P06978) (181 aa) fasta scores: E(): 7.1e-27, 50.276% id in 181 aa; CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase 2203818..2204390 Bordetella pertussis Tohama I 2667194 NP_880745.1 CDS queF NC_002929.2 2205815 2206636 R catalyzes the NADPH-dependent reduction of 7-cyano-7-deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) in queuosine biosynthesis; 7-cyano-7-deazaguanine reductase complement(2205815..2206636) Bordetella pertussis Tohama I 2667196 NP_880746.1 CDS aceA NC_002929.2 2206955 2208277 D Catalyzes the first step in the glyoxalate cycle, which converts lipids to carbohydrates; isocitrate lyase 2206955..2208277 Bordetella pertussis Tohama I 2667197 NP_880747.1 CDS BP2086 NC_002929.2 2208637 2209272 D Unknown function. C-terminus has been interrupted by an insertion element; hypothetical protein 2208637..2209272 Bordetella pertussis Tohama I 2665445 NP_880748.1 CDS BP2087 NC_002929.2 2209232 2210182 R transposase for IS481 element; transposase complement(2209232..2210182) Bordetella pertussis Tohama I 2665446 NP_880749.1 CDS BP2089 NC_002929.2 2211053 2211925 R Similar to many ABC transporter permeases e.g. Streptomyces coelicolor branched amino acid transport system permease SC8A11.11 TR:Q9FBZ9 (EMBL:AL391041) (290 aa) fasta scores: E(): 2.5e-39, 46.735% id in 291 aa. Also similar to Salmonella typhimurium high-affinity branched-chain amino acid transport system permease LivH livH or livA SW:LIVH_SALTY (P30295) (308 aa) fasta scores: E(): 3.2e-17, 32.566% id in 304 aa; ABC transporter permease complement(2211053..2211925) Bordetella pertussis Tohama I 2666653 NP_880750.1 CDS BP2090 NC_002929.2 2212003 2213142 R Similar to many ABC-transporter substrate-binding proteins e.g. Pseudomonas aeruginosa leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein precursor braC or PA1074 SW:BRAC_PSEAE (P21175) (373 aa) fasta scores: E(): 2.2e-09, 25.360% id in 347 aa; ABC transporter substrate-binding protein complement(2212003..2213142) Bordetella pertussis Tohama I 2666621 NP_880751.1 CDS BP2091 NC_002929.2 2213501 2214757 D Similar to many dioxygenase components e.g. Pseudomonas putida large subunit of terminal dioxygenase tdnA1 TR:P95531 (EMBL:D85415) (448 aa) fasta scores: E(): 9.9e-42, 34.954% id in 432 aa, and Pseudomonas putida toluate 1,2-dioxygenase alpha subunit xylX SW:XYLX_PSEPU (P23099) (454 aa) fasta scores: E(): 1.1e-32, 31.720% id in 372 aa; dioxygenase hydroxylase component 2213501..2214757 Bordetella pertussis Tohama I 2666622 NP_880752.1 CDS BP2092 NC_002929.2 2214763 2215290 D Similar to many e.g. Pseudomonas putida p-cumate dioxygenase small subunit cmtAc TR:Q51975 (EMBL:U24215) (180 aa) fasta scores: E(): 3.1e-10, 27.647% id in 170 aa and Pseudomonas putida toluate 1,2-dioxygenase beta subunit xylY SW:XYLY_PSEPU (P23100) (162 aa) fasta scores: E(): 1.7e-05, 33.696% id in 92 aa; dioxygenase component 2214763..2215290 Bordetella pertussis Tohama I 2666994 NP_880753.1 CDS BP2093 NC_002929.2 2215301 2216113 D Similar to many e.g. Streptomyces collinus 2-cyclohexenylcarbonyl CoA isomerase chcB TR:Q9L4S8 (EMBL:AF268489) (269 aa) fasta scores: E(): 9e-18, 34.100% id in 261 aa and Rhodopseudomonas palustris cyclohex-1-ene-1-carboxyl-CoA hydratase badK TR:O07453 (EMBL:U75363) (258 aa) fasta scores: E(): 1.5e-17, 34.340% id in 265 aa; enoyl-CoA hydratase/isomerase-like protein 2215301..2216113 Bordetella pertussis Tohama I 2666995 NP_880754.1 CDS BP2094 NC_002929.2 2216113 2216835 D Similar to many e.g. Zoogloea ramigera acetoacetyl-CoA reductase phbB SW:PHBB_ZOORA (P23238) (241 aa) fasta scores: E(): 1.7e-24, 41.494% id in 241 aa and to Vibrio cholerae 3-oxoacyl-[acyl-carrier protein] reductase fabG or VC2021 SW:FABG_VIBCH (Q9KQH7) (244 aa) fasta scores: E(): 2.4e-23, 41.176% id in 238 aa; 3-oxoacyl-ACP reductase 2216113..2216835 Bordetella pertussis Tohama I 2666996 NP_880755.1 CDS BP2095 NC_002929.2 2216857 2217171 D Similar to many e.g. Caulobacter crescentus ferredoxin, 2fe-2s fdxB or fdxP or CC3524 SW:FER2_CAUCR (P37098) (106 aa) fasta scores: E(): 1.6e-17, 50.495% id in 101 aa; ferredoxin 2216857..2217171 Bordetella pertussis Tohama I 2666997 NP_880756.1 CDS BP2096 NC_002929.2 2217189 2218337 D Similar to many e.g. Rattus norvegicus alpha-methylacyl-CoA racemase AMACR SW:AMAC_RAT (P70473) (381 aa) fasta scores: E(): 8.3e-53, 44.416% id in 385 aa and Streptomyces coelicolor racemase SC5F2A.13 TR:Q9X7N6 (EMBL:AL049587) (398 aa) fasta scores: E(): 9.4e-68, 51.697% id in 383 aa; fatty-acyl-CoA racemase 2217189..2218337 Bordetella pertussis Tohama I 2666998 NP_880757.1 CDS BP2097 NC_002929.2 2218368 2219243 R Similar to e.g. Streptomyces hygroscopicus acetyl-hydrolase bah SW:BAH_STRHY (Q01109) (299 aa) fasta scores: E(): 1.2e-24, 39.912% id in 228 aa and to Bordetella pertussis hypothetical protein TR:O30449 (EMBL:AF006000) (324 aa) fasta scores: E(): 4.6e-27, 39.502% id in 281 aa; esterase complement(2218368..2219243) Bordetella pertussis Tohama I 2666999 NP_880758.1 CDS BP2098 NC_002929.2 2219240 2220559 R Similar to Azoarcus evansii aerobic phenylacetate-CoA ligase paaK or pacD TR:Q9L9C1 (EMBL:AF176259) (440 aa) fasta scores: E(): 2.1e-39, 33.710% id in 442 aa and Escherichia coli phenylacetate-CoA ligase paaK or b1398 SW:PAAK_ECOLI (P76085) (437 aa) fasta scores: E(): 1.3e-35, 31.735% id in 438 aa; acyl-CoA ligase complement(2219240..2220559) Bordetella pertussis Tohama I 2667000 NP_880759.1 CDS BP2099 NC_002929.2 2220632 2221828 R Similar to many thiolases e.g. Caulobacter crescentus thiolase family protein CC1432 TR:Q9A8C2 (EMBL:AE005818) (400 aa) fasta scores: E(): 1.5e-111, 67.929% id in 396 aa; acetyl-CoA acetyltransferase complement(2220632..2221828) Bordetella pertussis Tohama I 2667001 NP_880760.1 CDS BP2100 NC_002929.2 2221839 2223326 R Similar to Caulobacter crescentus hypothetical protein CC1431 TR:Q9A8C3 (EMBL:AE005818) (488 aa) fasta scores: E(): 3e-65, 44.136% id in 469 aa; hypothetical protein complement(2221839..2223326) Bordetella pertussis Tohama I 2667002 NP_880761.1 CDS BP2102 NC_002929.2 2225921 2226820 D Similar to many e.g. Salmonella typhimurium OsmT protein osmT TR:CAC44465 (EMBL:AJ313506) (308 aa) fasta scores: E(): 1.1e-13, 28.777% id in 278 aa; lysR family transcriptional regulator 2225921..2226820 Bordetella pertussis Tohama I 2667004 NP_880762.1 CDS BP2103 NC_002929.2 2226901 2227923 D Similar to many hypothetical proteins e.g. Rhizobium meliloti conserved hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 2.4e-41, 40.694% id in 317 aa; hypothetical protein 2226901..2227923 Bordetella pertussis Tohama I 2666202 NP_880763.1 CDS BP2104 NC_002929.2 2228022 2228972 D transposase for IS481 element; transposase 2228022..2228972 Bordetella pertussis Tohama I 2666203 NP_880764.1 CDS BP2105 NC_002929.2 2229194 2230144 D transposase for IS481 element; transposase 2229194..2230144 Bordetella pertussis Tohama I 2666204 NP_880765.1 CDS BP2106 NC_002929.2 2230141 2230443 R Similar to hypothetical proteins e.g. Pseudomonas aeruginosa hypothetical protein PA3338 TR:Q9HYQ7 (EMBL:AE004756) (96 aa) fasta scores: E(): 3.1e-25, 70.213% id in 94 aa and Rhizobium loti hypothetical protein Mll3944 TR:Q98F45 (EMBL:AP003003) (115 aa) fasta scores: E(): 3.6e-23, 72.414% id in 87 aa; hypothetical protein complement(2230141..2230443) Bordetella pertussis Tohama I 2666205 NP_880766.1 CDS BP2107 NC_002929.2 2230603 2231007 D Similar to hypothetical proteins e.g. Caulobacter crescentus hypothetical protein CC3056 TR:Q9A3Z4 (EMBL:AE005969) (137 aa) fasta scores: E(): 6.6e-14, 43.590% id in 117 aa; hypothetical protein 2230603..2231007 Bordetella pertussis Tohama I 2666206 NP_880767.1 CDS BP2108 NC_002929.2 2231000 2232226 D Similar to hypothetical proteins e.g. Pseudomonas aeruginosa hypothetical protein PA2662 TR:Q9I0H6 (EMBL:AE004695) (397 aa) fasta scores: E(): 7.8e-34, 39.747% id in 395 aa; hypothetical protein 2231000..2232226 Bordetella pertussis Tohama I 2666207 NP_880768.1 CDS BP2109 NC_002929.2 2232223 2232669 D Similar to hypothetical proteins e.g. Neisseria meningitidis hypothetical protein NMB0013 TR:Q9K1Q7 (EMBL:AE002359) (149 aa) fasta scores: E(): 2.4e-16, 44.444% id in 144 aa and Helicobacter pylori J99 hypothetical protein JHP1395 TR:Q9ZJB8 (EMBL:AE001561) (145 aa) fasta scores: E(): 9.7e-09, 33.333% id in 144 aa; hypothetical protein 2232223..2232669 Bordetella pertussis Tohama I 2666208 NP_880769.1 CDS BP2110 NC_002929.2 2232739 2233521 D Similar to many e.g. Escherichia coli exodeoxyribonuclease III xthA or b1749 SW:EX3_ECOLI (P09030) (268 aa) fasta scores: E(): 1.2e-18, 36.842% id in 266 aa and Neisseria meningitidis exodeoxyribonuclease III NMA2086 TR:Q9JSY0 (EMBL:AL162758) (256 aa) fasta scores: E(): 2.4e-47, 50.382% id in 262 aa. It should be noted that at least one protein in this family, Pseudomonas aeruginosa crc or PA5332, TR:Q51380 (EMBL:U38241), appears to have no exonuclease activity and is unable to complement DNA-repair deficient E. coli; exodeoxyribonuclease III 2232739..2233521 Bordetella pertussis Tohama I 2666209 NP_880770.1 CDS BP2111 NC_002929.2 2233563 2235068 D Similar to many hypothetical proteins from Rhizobium spp. e.g. Rhizobium loti hypothetical protein MLR6294 TR:Q989S9 (EMBL:AP003008) (525 aa) fasta scores: E(): 2.4e-71, 44.177% id in 498 aa; hypothetical protein 2233563..2235068 Bordetella pertussis Tohama I 2666210 NP_880772.1 CDS BP2114 NC_002929.2 2237625 2238446 R Similar to many hydrolases e.g. Rhodococcus opacus 3-oxoadipate enol-lactone hydrolase/4-carboxymuconolactone decarboxylase pcaL TR:O67982 (EMBL:AF003947) (400 aa) fasta scores: E(): 1.3e-10, 29.04% id in 272 aa; hydrolase complement(2237625..2238446) Bordetella pertussis Tohama I 2666320 NP_880773.1 CDS BP2115 NC_002929.2 2238465 2239319 R Similar to hypothetical proteins e.g. Helicobacter pylori J99 hypothetical protein JHP0295 TR:Q9ZMC6 (EMBL:AE001466) (293 aa) fasta scores: E(): 2.6e-24, 36.8% id in 288 aa and Yersinia pseudotuberculosis hypothetical protein TR:Q9X9F8 (EMBL:AJ236887) (293 aa) fasta scores: E(): 8.9e-20, 37.5% id in 288 aa; hypothetical protein complement(2238465..2239319) Bordetella pertussis Tohama I 2666321 NP_880774.1 CDS BP2116 NC_002929.2 2239323 2240294 R Similar to hypothetical proteins e.g. Rhizobium meliloti conserved hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.1e-40, 38.26% id in 311 aa and Bordetella pertussis hypothetical kDa protein SW:YBR5_BORPE (O30446) (323 aa) fasta scores: E(): 2e-28, 32.82% id in 326 aa; hypothetical protein complement(2239323..2240294) Bordetella pertussis Tohama I 2666322 NP_880775.1 CDS BP2119 NC_002929.2 2242680 2242976 R Similar to Pseudomonas aeruginosa hypothetical protein PA0490 TR:Q9I628 (EMBL:AE004486) (97 aa) fasta scores: E(): 1.6e-12, 50.53% id in 93 aa; hypothetical protein complement(2242680..2242976) Bordetella pertussis Tohama I 2667624 NP_880776.1 CDS gor NC_002929.2 2243151 2244503 D catalyzes the reduction of 2 glutathione to glutathione disulfide; maintains high levels of reduced glutathione in the cytosol; involved in redox regulation and oxidative defense; glutathione reductase 2243151..2244503 Bordetella pertussis Tohama I 2667625 NP_880777.1 CDS BP2121 NC_002929.2 2244646 2245662 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 complement(2244646..2245662) Bordetella pertussis Tohama I 2667626 NP_880778.1 CDS BP2124 NC_002929.2 2247642 2248655 R Similar to hypothetical proteins e.g. Rhizobium meliloti hypothetical protein SMB20006 TR:CAC48409 (EMBL:AL603642) (317 aa) fasta scores: E(): 5.3e-55, 52.34% id in 298 aa; hypothetical protein complement(2247642..2248655) Bordetella pertussis Tohama I 2667629 NP_880779.1 CDS BP2125 NC_002929.2 2248742 2249647 R Similar to many transcriptional regulators e.g. Rhizobium meliloti gstR-like transcriptional regulator protein TR:CAC48407 (EMBL:AL603642) (301 aa) fasta scores: E(): 4e-44, 43.47% id in 299 aa; lysR family transcriptional regulator complement(2248742..2249647) Bordetella pertussis Tohama I 2667630 NP_880780.1 CDS BP2125A NC_002929.2 2249804 2250148 D Similar to Pseudomonas aeruginosa hypothetical protein Pa1969 TR:Q9I2D5 (EMBL:AE004623) (130 aa) fasta scores: E()=4.5e-06, 38.18% id in 110 aa.; hypothetical protein 2249804..2250148 Bordetella pertussis Tohama I 2667631 NP_880781.1 CDS BP2126 NC_002929.2 2250306 2250764 D Similar to e.g. Brevundimonas diminuta isoquinoline 1-oxidoreductase alpha subunit iorA SW:IORA_BREDI (Q51697) (152 aa) fasta scores: E(): 1.3e-27, 50.98% id in 153 aa and Pseudomonas aeruginosa probable oxidoreductase PA1881 TR:Q9I2L6 (EMBL:AE004614) (153 aa) fasta scores: E(): 6.1e-37, 65.13% id in 152 aa; oxidoreductase subunit 2250306..2250764 Bordetella pertussis Tohama I 2667632 NP_880782.1 CDS BP2127 NC_002929.2 2250778 2252994 D Similar to e.g. Brevundimonas diminuta isoquinoline 1-oxidoreductase beta subunit iorB SW:IORB_BREDI (Q51698) (781 aa) fasta scores: E(): 4e-16, 34.58% id in 775 aa and Rhizobium meliloti aldehyde dehydrogenase SMB20342 TR:CAC48728 (EMBL:AL603643) (737 aa) fasta scores: E(): 1.4e-92, 50% id in 746 aa; exported oxidoreductase subunit 2250778..2252994 Bordetella pertussis Tohama I 2667633 NP_880783.1 CDS BP2128 NC_002929.2 2252991 2254052 D Similar to many e.g. Pseudomonas aeruginosa hypothetical protein PA4618 TR:Q9HVH3 (EMBL:AE004876) (323 aa) fasta scores: E(): 2.4e-34, 37.72% id in 326 aa. Also similar to BP0576, 50.893% identity (53.271% ungapped) in 336 aa overlap.; hypothetical protein 2252991..2254052 Bordetella pertussis Tohama I 2667634 NP_880784.1 CDS BP2129 NC_002929.2 2254081 2255055 D Similar to many transcriptional regulators e.g. Pseudomonas aeruginosa probable transcriptional regulator PA2047 TR:Q9I268 (EMBL:AE004631) (329 aa) fasta scores: E(): 7.8e-55, 55.47% id in 292 aa; AraC family transcriptional regulator 2254081..2255055 Bordetella pertussis Tohama I 2667635 NP_880785.1 CDS BP2130 NC_002929.2 2255007 2255825 R Similar to Xanthomonas axonopodis hypothetical protein Xac2490 SWALL:AAM37341 (EMBL:AE011886) (294 aa) fasta scores: E(): 1.3e-28, 54.26% id in 293 aa, and to Xanthomonas campestris hypothetical protein Xcc2358 SWALL:AAM41636 (EMBL:AE012344) (364 aa) fasta scores: E(): 7.3e-28, 52.74% id in 292 aa; hypothetical protein complement(2255007..2255825) Bordetella pertussis Tohama I 2667615 NP_880786.1 CDS BP2131 NC_002929.2 2255838 2256446 R Similar to hypothetical proteins e.g. Pseudomonas aeruginosa hypothetical protein PA4012 TR:Q9HX15 (EMBL:AE004818) (197 aa) fasta scores: E(): 5.1e-10, 32.97% id in 188 aa; hypothetical protein complement(2255838..2256446) Bordetella pertussis Tohama I 2667616 NP_880787.1 CDS BP2132 NC_002929.2 2256621 2257016 D Similar to hypothetical proteins e.g. Pseudomonas aeruginosa hypothetical protein PA1353 TR:Q9I3Z1 (EMBL:AE004565) (137 aa) fasta scores: E(): 6.3e-21, 47.69% id in 130 aa; hypothetical protein 2256621..2257016 Bordetella pertussis Tohama I 2667617 NP_880788.1 CDS BP2133 NC_002929.2 2257035 2258474 D Similar to many e.g. Streptomyces lavendulae mitomycin C translocase mct TR:Q9WVV3 (EMBL:AF127374) (484 aa) fasta scores: E(): 8.6e-53, 41.7% id in 470 aa and Streptomyces lipmanii puromycin resistance protein Pur8 SW:PUR8_STRLP (P42670) (503 aa) fasta scores: E(): 7.2e-49, 40.51% id in 464 aa; transmembrane efflux protein 2257035..2258474 Bordetella pertussis Tohama I 2667618 NP_880789.1 CDS BP2134 NC_002929.2 2258503 2258850 D Similar to hypothetical proteins e.g. Agrobacterium tumefaciens hypothetical protein TR:AAK88141 (EMBL:AE008154) (118 aa) fasta scores: E(): 2.1e-19, 42.98% id in 114 aa and Arabidopsis thaliana hypothetical protein F2K13_90 TR:Q9LFK7 (EMBL:AL391141) (135 aa) fasta scores: E(): 8.5e-11, 33.04% id in 115 aa; hypothetical protein 2258503..2258850 Bordetella pertussis Tohama I 2667619 NP_880790.1 CDS BP2135 NC_002929.2 2258869 2259819 R transposase for IS481 element; transposase complement(2258869..2259819) Bordetella pertussis Tohama I 2665875 NP_880791.1 CDS BP2137 NC_002929.2 2260472 2261422 D transposase for IS481 element; transposase 2260472..2261422 Bordetella pertussis Tohama I 2665879 NP_880792.1 CDS BP2138 NC_002929.2 2261461 2263323 D Similar to ABC-transporter ATP-binding components e.g. Vibrio cholerae toxin secretion transporter VC1446 TR:Q9KS15 (EMBL:AE004223) (721 aa) fasta scores: E(): 3.2e-44, 32.58% id in 577 aa; ABC transporter ATP-binding protein 2261461..2263323 Bordetella pertussis Tohama I 2665880 NP_880793.1 CDS BP2139 NC_002929.2 2263451 2264044 D Unknown function; lipoprotein 2263451..2264044 Bordetella pertussis Tohama I 2666976 NP_880794.1 CDS BP2140 NC_002929.2 2264057 2264986 R Similar to e.g. Pseudomonas aeruginosa hypothetical protein PA4467 TR:Q9HVV1 (EMBL:AE004860) (310 aa) fasta scores: E(): 6.6e-31, 48.42% id in 254 aa and Myxococcus xanthus GufA protein gufA SW:GUFA_MYXXA (Q06916) (254 aa) fasta scores: E(): 9.6e-28, 43.65% id in 252 aa. Also similar to BP0194, 47.458% identity (47.782% ungapped) in 295 aa overlap.; hypothetical protein complement(2264057..2264986) Bordetella pertussis Tohama I 2666977 NP_880795.1 CDS BP2141 NC_002929.2 2265156 2265614 D Unknown function; hypothetical protein 2265156..2265614 Bordetella pertussis Tohama I 2666978 NP_880796.1 CDS BP2142 NC_002929.2 2265862 2266542 D Similar to many e.g. Rhizobium meliloti transcription regulator protein SMC02425 TR:CAC47179 (EMBL:AL591791) (225 aa) fasta scores: E(): 9.6e-26, 36.6% id in 224 aa; GntR family transcriptional regulator 2265862..2266542 Bordetella pertussis Tohama I 2666979 NP_880797.1 CDS BP2143 NC_002929.2 2266591 2268282 D Similar to many e.g. Vibrio cholerae sulfate permease family protein VCA0077 TR:Q9KN88 (EMBL:AE004350) (553 aa) fasta scores: E(): 1.8e-139, 68.14% id in 540 aa; sulfate transporter 2266591..2268282 Bordetella pertussis Tohama I 2666980 NP_880798.1 CDS BP2144 NC_002929.2 2268298 2268849 R Similar to Agrobacterium tumefaciens hypothetical protein AGR_C_3685P TR:AAK87787 (EMBL:AE008120) (182 aa) fasta scores: E(): 2e-21, 37.83% id in 185 aa and Rhizobium meliloti hypothetical protein SMA0191 TR:AAK64759 (EMBL:AE007204) (176 aa) fasta scores: E(): 1.3e-19, 42.19% id in 173 aa; hypothetical protein complement(2268298..2268849) Bordetella pertussis Tohama I 2666981 NP_880799.1 CDS BP2145 NC_002929.2 2268846 2269217 R Similar to many e.g. Agrobacterium tumefaciens hypothetical protein AGR_C_3686P TR:AAK87788 (EMBL:AE008120) (142 aa) fasta scores: E(): 1.1e-21, 51.66% id in 120 aa. Also similar to BP3466, 43.137% identity (43.137% ungapped) in 102 aa overlap.; ArsR family transcriptional regulator complement(2268846..2269217) Bordetella pertussis Tohama I 2666982 NP_880800.1 CDS BP2146 NC_002929.2 2269330 2270166 D Similar, except at the N-terminus, to Deinococcus radiodurans hydrolase-related protein DR1403 TR:Q9RUI3 (EMBL:AE001985) (277 aa) fasta scores: E(): 3.7e-37, 45.57% id in 237 aa; hypothetical protein 2269330..2270166 Bordetella pertussis Tohama I 2666983 NP_880801.1 CDS BP2147 NC_002929.2 2270177 2270656 R Similar to e.g. Neisseria meningitidis hypothetical protein NMB0783 TR:Q9K039 (EMBL:AE002432) (159 aa) fasta scores: E(): 5.5e-15, 44.65% id in 159 aa and Haemophilus ducreyi hypothetical protein TR:Q9L7U8 (EMBL:AF219260) (149 aa) fasta scores: E(): 4.2e-11, 39.66% id in 121 aa; hypothetical protein complement(2270177..2270656) Bordetella pertussis Tohama I 2666984 NP_880802.1 CDS BP2148 NC_002929.2 2270799 2270978 D Similar to Rhizobium loti hypothetical protein MSR0042 TR:Q98NP7 (EMBL:AP002994) (62 aa) fasta scores: E(): 1.2e-11, 67.79% id in 59 aa; hypothetical protein 2270799..2270978 Bordetella pertussis Tohama I 2666985 NP_880803.1 CDS BP2149 NC_002929.2 2271108 2272082 R Similar to many e.g. Agrobacterium tumefaciens AGR_PAT_562P TR:AAK90764 (EMBL:AE007908) (340 aa) fasta scores: E(): 7e-25, 32.45% id in 265 aa; AraC family transcriptional regulator complement(2271108..2272082) Bordetella pertussis Tohama I 2666986 NP_880804.1 CDS BP2150 NC_002929.2 2272213 2272569 D Similar to e.g. Rhizobium meliloti conserved hypothetical protein SMC01560 TR:CAC46890 (EMBL:AL591790) (117 aa) fasta scores: E(): 8.1e-22, 52.17% id in 115 aa and Escherichia coli hypothetical protein ybaA or b0456 SW:YBAA_ECOLI (P09161) (117 aa) fasta scores: E(): 4.3e-18, 46.95% id in 115 aa; hypothetical protein 2272213..2272569 Bordetella pertussis Tohama I 2666987 NP_880805.1 CDS BP2151 NC_002929.2 2272559 2273434 R Similar to e.g. Streptomyces coelicolor oxidoreductase SCF55.14 TR:Q9RJQ0 (EMBL:AL132991) (289 aa) fasta scores: E(): 1.4e-35, 46.12% id in 284 aa and Pseudomonas chlororaphis phenazine biosynthesis protein PhzF phzF or phzC SW:PHZF_PSECL (Q51520) (278 aa) fasta scores: E(): 1.4e-12, 31.78% id in 280 aa; oxidoreductase complement(2272559..2273434) Bordetella pertussis Tohama I 2666988 NP_880806.1 CDS BP2152 NC_002929.2 2273533 2274417 D Similar to many e.g. Burkholderia cepacia 2,2-dialkylglycine decarboxylase repressor protein dgdR SW:DGDR_BURCE (P16931) (293 aa) fasta scores: E(): 4e-24, 32.62% id in 282 aa; lysR family transcriptional regulator 2273533..2274417 Bordetella pertussis Tohama I 2666989 NP_880807.1 CDS BP2153 NC_002929.2 2274439 2275734 R Similar to e.g. Xylella fastidiosa hypothetical protein Xf1278 TR:Q9PDV1 (EMBL:AE003961) (451 aa) fasta scores: E(): 9.3e-87, 56.77% id in 421 aa and Escherichia coli hypothetical protein YjiN yjiN or b4336 SW:YJIN_ECOLI (P39385) (426 aa) fasta scores: E(): 1.1e-42, 36.69% id in 417 aa; hypothetical protein complement(2274439..2275734) Bordetella pertussis Tohama I 2667017 NP_880808.1 CDS BP2156 NC_002929.2 2276683 2277333 D Similar to Bacillus subtilis hypothetical 20.5 kDa protein ywqN TR:P96726 (EMBL:Z92952) (181 aa) fasta scores: E(): 5e-08, 27.07% id in 181 aa, and to Clostridium acetobutylicum multimeric flavodoxin wrba family protein cac3334 TR:Q97DY6 (EMBL:AE007830) (178 aa) fasta scores: E(): 6.8e-07, 29.78% id in 188 aa; hypothetical protein 2276683..2277333 Bordetella pertussis Tohama I 2667019 NP_880809.1 CDS acoD NC_002929.2 2277421 2278941 R Similar to Alcaligenes eutrophus acetaldehyde dehydrogenase II AcoD SW:DHA2_ALCEU (P46368) (506 aa) fasta scores: E(): 1.1e-155, 74.65% id in 509 aa; aldehyde dehydrogenase complement(2277421..2278941) Bordetella pertussis Tohama I 2667020 NP_880810.1 CDS BP2158 NC_002929.2 2279199 2281064 D Similar to Yersinia pseudotuberculosis transcriptional regulator TR:Q9AGD7 (EMBL:AF335466) (614 aa) fasta scores: E(): 1.1e-60, 39.49% id in 628 aa, and to Alcaligenes eutrophus acetoin catabolism regulatory protein acoR SW:ACOR_ALCEU (P28614) (668 aa) fasta scores: E(): 1e-36, 37.26% id in 628 aa; sigma-54-dependent transcriptional regulator 2279199..2281064 Bordetella pertussis Tohama I 2667021 NP_880811.1 CDS BP2161 NC_002929.2 2282984 2283343 R Similar to Clostridium acetobutylicum predicted membrane protein yohj family cac0612 TR:Q97LE9 (EMBL:AE007576) (117 aa) fasta scores: E(): 3.4e-06, 32.99% id in 97 aa; hypothetical protein complement(2282984..2283343) Bordetella pertussis Tohama I 2666656 NP_880812.1 CDS BP2162 NC_002929.2 2283331 2284767 R N-terminal region similar to many eg.Escherichia coli biotin synthesis protein BioC or b0777 SW:BIOC_ECOLI (P12999) (251 aa) fasta scores: E(): 3.4e-13, 33.98% id in 256 aa. C-terminal region similar to many eg. Bacillus subtilis dethiobiotin synthetase bioD SW:BIOD_BACSU (P53558) (231 aa) fasta scores: E(): 1.4e-09, 34.59% id in 211 aa; biotin synthesis protein complement(2283331..2284767) Bordetella pertussis Tohama I 2666657 NP_880813.1 CDS BP2163 NC_002929.2 2284764 2285417 R Weakly similar to predicted hydrolases eg. Streptomyces coelicolor hydrolase SCE87.22C TR:Q9RKB6 (EMBL:AL132674) (314 aa) fasta scores: E(): 0.017, 30.62% id in 258 aa, and to Streptomyces peucetius 10-carbomethoxy-13-deoxycarminomycin esterase DnrP TR:Q54809 (EMBL:L40425) (298 aa) fasta scores: E(): 2.8, 31.25% id in 112 aa; hypothetical protein complement(2284764..2285417) Bordetella pertussis Tohama I 2666658 NP_880814.1 CDS BP2164 NC_002929.2 2285414 2286607 R Similar to biotin synthesis enzymes eg. Kurthia sp538-KA26. KapA synthase-II BioFII TR:Q9AJM7 (EMBL:AB045875) (398 aa) fasta scores: E(): 2.6e-49, 41.73% id in 381 aa, and to Bacillus subtilis 8-amino-7-oxononanoate synthase BioF SW:BIOF_BACSU (P53556) (389 aa) fasta scores: E(): 7.3e-44, 38.24% id in 387 aa; 8-amino-7-oxononanoate synthase complement(2285414..2286607) Bordetella pertussis Tohama I 2666659 NP_880815.1 CDS bioA NC_002929.2 2286711 2287985 D catalyzes the formation of S-adenosyl-4-methylthionine-2-oxobutanoate and 7,8-diaminononanoate from S-adenosyl-L-methionine and 8-amino-7-oxononanoate; adenosylmethionine-8-amino-7-oxononanoate aminotransferase 2286711..2287985 Bordetella pertussis Tohama I 2666660 NP_880816.1 CDS BP2166 NC_002929.2 2287982 2288932 R transposase for IS481 element; transposase complement(2287982..2288932) Bordetella pertussis Tohama I 2666661 NP_880817.1 CDS BP2167 NC_002929.2 2289099 2290073 D Similar to Vibrio cholerae cation transport ATPase, E1-E2 family VC1437 TR:Q9KS24 (EMBL:AE004222) (790 aa) fasta scores: E(): 5.4e-11, 29.43% id in 316 aa, and to Pseudomonas aeruginosa probable cation-transporting p-type ATPase PA1549 TR:Q9I3G8 (EMBL:AE004583) (811 aa) fasta scores: E(): 9.6e-11, 39.24% id in 158 aa; hypothetical protein 2289099..2290073 Bordetella pertussis Tohama I 2666662 NP_880818.1 CDS BP2168 NC_002929.2 2290070 2290213 D Similar to Neisseria meningitidis (serogroup A), and inner membrane protein NMA1716 or NMB1516 TR:Q9JR08 (EMBL:AL162756) (62 aa) fasta scores: E(): 0.0012, 36.17% id in 47 aa, and to Caulobacter crescentus cytochrome oxidase maturation protein, cbb3-type cc1408 TR:Q9A8E6 (EMBL:AE005815) (55 aa) fasta scores: E(): 0.68, 36.95% id in 46 aa; outer membrane protein 2290070..2290213 Bordetella pertussis Tohama I 2665991 NP_880819.1 CDS BP2170 NC_002929.2 2291835 2292497 D CcoO; FixO; cbb3-type cytochrome c oxidase subunit II 2291835..2292497 Bordetella pertussis Tohama I 2665993 NP_880820.1 CDS BP2171 NC_002929.2 2292500 2292676 D Similar to Vibrio cholerae cytochrome C oxidase, subunit CcoQ VC1440 TR:Q9KS21 (EMBL:AE004222) (54 aa) fasta scores: E(): 0.25, 34.78% id in 46 aa; cytochrome C oxidase subunit CcoQ 2292500..2292676 Bordetella pertussis Tohama I 2665994 NP_880821.1 CDS BP2172 NC_002929.2 2292673 2293611 D Similar to Neisseria meningitidis cytochrome C oxidase, subunit III NMB1723 TR:Q9JY60 (EMBL:AE002522) (365 aa) fasta scores: E(): 1.3e-51, 44.82% id in 319 aa; cytochrome C oxidase subunit III 2292673..2293611 Bordetella pertussis Tohama I 2665995 NP_880822.1 CDS BP2173 NC_002929.2 2293703 2295193 D Similar to many predicted ferredoxins eg. Neisseria meningitidis ferredoxin NMA1668 TR:Q9JTR2 (EMBL:AL162756) (498 aa) fasta scores: E(): 2.7e-76, 44.93% id in 494 aa; ferredoxin 2293703..2295193 Bordetella pertussis Tohama I 2665996 NP_880823.1 CDS BP2174 NC_002929.2 2295279 2295431 D similar to Ralstonia solanacearum probable lipoprotein SWALL:Q8XZW4 (EMBL:AL646063) Rsc1281 or Rs02794; length 76 aa; id=54.34%; ungapped id=56.81%; E()=3.4e-05; 46 aa overlap; query 1-45 aa; subject 24-68 aa; lipoprotein 2295279..2295431 Bordetella pertussis Tohama I 2665997 NP_880824.1 CDS BP2175 NC_002929.2 2295445 2295684 D hypothetical protein 2295445..2295684 Bordetella pertussis Tohama I 2665998 NP_880825.1 CDS BP2176 NC_002929.2 2295780 2296523 D hypothetical protein 2295780..2296523 Bordetella pertussis Tohama I 2665999 NP_880826.1 CDS BP2177 NC_002929.2 2296556 2297056 D Similar to Rhizobium meliloti conserved hypothetical protein SMC00230 TR:CAC46234 (EMBL:AL591788) (165 aa) fasta scores: E(): 3.6e-31, 56.09% id in 164 aa, and to Pseudomonas aeruginosa hypothetical protein PA0711 TR:Q9I5L7 (EMBL:AE004506) (168 aa) fasta scores: E(): 7.7e-27, 52.46% id in 162 aa; hypothetical protein 2296556..2297056 Bordetella pertussis Tohama I 2666000 NP_880827.1 CDS BP2178 NC_002929.2 2297155 2298078 D Similar to many eg. Caulobacter crescentus ABC transporter ATP-binding protein CC3373 TR:Q9A333 (EMBL:AE005998) (314 aa) fasta scores: E(): 4.8e-77, 77.12% id in 306 aa; ABC transporter ATP-binding protein 2297155..2298078 Bordetella pertussis Tohama I 2666001 NP_880828.1 CDS BP2179 NC_002929.2 2298075 2298836 D Similar to Caulobacter crescentus ABC-2 type transporter cc3372 TR:Q9A334 (EMBL:AE005998) (253 aa) fasta scores: E(): 1.6e-69, 75.79% id in 252 aa; ABC transporter permease 2298075..2298836 Bordetella pertussis Tohama I 2666002 NP_880829.1 CDS BP2180 NC_002929.2 2298852 2299937 R Similar to many eg. Rhizobium meliloti conserved hypothetical protein sma0665 TR:AAK65009 (EMBL:AE007226) (413 aa) fasta scores: E(): 9.9e-38, 38.28% id in 350 aa, and to Escherichia coli hypothetical protein ydik or b1688 SW:YDIK_ECOLI (P77175) (370 aa) fasta scores: E(): 9.4e-27, 28.85% id in 350 aa; hypothetical protein complement(2298852..2299937) Bordetella pertussis Tohama I 2666003 NP_880830.1 CDS BP2181 NC_002929.2 2300137 2301087 D transposase for IS481 element; transposase 2300137..2301087 Bordetella pertussis Tohama I 2666533 NP_880831.1 CDS BP2183 NC_002929.2 2301745 2302044 D Lies in region of unusual DNA content. Weakly similar to Xylella fastidiosa hypothetical protein Xf2507 TR:Q9PAK8 (EMBL:AE004058) (110 aa) fasta scores: E(): 1.3e-05, 31.57% id in 95 aa; hypothetical protein 2301745..2302044 Bordetella pertussis Tohama I 2666908 NP_880832.1 CDS rpoD NC_002929.2 2302454 2304736 R sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this is the primary sigma factor of bacteria; RNA polymerase sigma factor RpoD complement(2302454..2304736) Bordetella pertussis Tohama I 2666909 NP_880833.1 CDS dnaG NC_002929.2 2305422 2307452 R Similar to Escherichia coli DNA primase DnaG or DnaP or ParB or b3066 or z4419 or ecs3949 SW:PRIM_ECOLI (P02923) (581 aa) fasta scores: E(): 2.7e-63, 46.18% id in 446 aa, and to Neisseria meningitidis DNA primase dnag or nma1736 SW:PRIM_NEIMA (P57028) (590 aa) fasta scores: E(): 7.4e-76, 46.45% id in 508 aa; DNA primase complement(2305422..2307452) Bordetella pertussis Tohama I 2666910 NP_880834.1 CDS rpsU NC_002929.2 2307472 2307684 R 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; 30S ribosomal protein S21 complement(2307472..2307684) Bordetella pertussis Tohama I 2666911 NP_880835.1 CDS BP2187 NC_002929.2 2307962 2308501 R Similar to Archaeoglobus fulgidus xanthine-guanine phosphoribosyltransferase AF0239 TR:O30000 (EMBL:AE001089) (194 aa) fasta scores: E(): 1e-09, 31.81% id in 154 aa; transferase complement(2307962..2308501) Bordetella pertussis Tohama I 2666912 NP_880836.1 CDS purA NC_002929.2 2308615 2309922 R catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis; adenylosuccinate synthetase complement(2308615..2309922) Bordetella pertussis Tohama I 2666913 NP_880837.1 CDS hisZ NC_002929.2 2309987 2311144 R May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine; ATP phosphoribosyltransferase complement(2309987..2311144) Bordetella pertussis Tohama I 2667289 NP_880838.1 CDS hflC NC_002929.2 2311328 2312227 R Similar to predicted proteases eg. Pseudomonas aeruginosa protease subunit HflC or PA4941 TR:Q9HUM3 (EMBL:AE004907) (289 aa) fasta scores: E(): 7.3e-37, 40.13% id in 289 aa; inner membrane-anchored protein complement(2311328..2312227) Bordetella pertussis Tohama I 2667290 NP_880839.1 CDS hflK NC_002929.2 2312246 2313550 R Similar to Pseudomonas aeruginosa protease subunit HflK or PA4942 TR:Q9HUM2 (EMBL:AE004907) (400 aa) fasta scores: E(): 3.1e-34, 42.5% id in 400 aa, and to Escherichia coli and HflK protein or HflA or b4174 or z5781 or ecs5150 SW:HFLK_ECOLI (P25662) (419 aa) fasta scores: E(): 3e-31, 39.04% id in 420 aa; hypothetical protein complement(2312246..2313550) Bordetella pertussis Tohama I 2667291 NP_880840.1 CDS hflX NC_002929.2 2313516 2314622 R Similar to Escherichia coli GTP-binding protein HflX or b4173 SW:HFLX_ECOLI (P25519) (426 aa) fasta scores: E(): 1e-60, 56.62% id in 332 aa; GTP-binding protein complement(2313516..2314622) Bordetella pertussis Tohama I 2667292 NP_880841.1 CDS hfq NC_002929.2 2314710 2314946 R Stimulates the elongation of poly(A) tails; RNA-binding protein Hfq complement(2314710..2314946) Bordetella pertussis Tohama I 2667293 NP_880842.1 CDS his1 NC_002929.2 2315085 2316155 R catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis; histidinol-phosphate aminotransferase complement(2315085..2316155) Bordetella pertussis Tohama I 2667294 NP_880843.1 CDS engA NC_002929.2 2316159 2317514 R 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; GTP-binding protein EngA complement(2316159..2317514) Bordetella pertussis Tohama I 2667295 NP_880844.1 CDS BP2196 NC_002929.2 2317541 2318701 R Similar to Pseudomonas aeruginosa hypothetical protein PA3800 TR:Q9HXJ7 (EMBL:AE004798) (380 aa) fasta scores: E(): 5e-36, 33.33% id in 375 aa, and to Vibrio cholerae hypothetical protein VC0762 TR:Q9KTW8 (EMBL:AE004161) (386 aa) fasta scores: E(): 3.8e-33, 30.31% id in 376 aa. Contains six PQQ enzyme repeats.; quinoprotein complement(2317541..2318701) Bordetella pertussis Tohama I 2667296 NP_880845.1 CDS BP2197 NC_002929.2 2318704 2319342 R Similar to Neisseria meningitidis membrane protein NMA1064 TR:Q9JV00 (EMBL:AL162755) (209 aa) fasta scores: E(): 4.8e-16, 35.07% id in 211 aa; hypothetical protein complement(2318704..2319342) Bordetella pertussis Tohama I 2667297 NP_880846.1 CDS hisS NC_002929.2 2319344 2320648 R catalyzes a two-step reaction, first charging a histidine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class II aminoacyl-tRNA synthetase; forms homodimers; some organisms have a paralogous gene, hisZ, that is similar to hisS and produces a protein that performs the first step in histidine biosynthesis along with HisG; histidyl-tRNA synthetase complement(2319344..2320648) Bordetella pertussis Tohama I 2667298 NP_880847.1 CDS ispG NC_002929.2 2320689 2321984 R catalyzes the conversion of 2C-methyl-D-erythritol 2,4-cyclodiphosphate into 4-hydroxy-3-methyl-2-en-1-yl diphosphate; involved in isoprenoid synthesis; 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase complement(2320689..2321984) Bordetella pertussis Tohama I 2667299 NP_880848.1 CDS BP2200 NC_002929.2 2321991 2322497 R hypothetical protein complement(2321991..2322497) Bordetella pertussis Tohama I 2667300 NP_880849.1 CDS BP2201 NC_002929.2 2322494 2323642 R Similar to Rhizobium loti Mlr4359 protein TR:Q98E86 (EMBL:AP003004) (410 aa) fasta scores: E(): 2.2e-56, 44.96% id in 387 aa, and to Neisseria meningitidis hypothetical protein NMB1308 TR:Q9JZ42 (EMBL:AE002479) (364 aa) fasta scores: E(): 1.5e-54, 63.88% id in 360 aa; hypothetical protein complement(2322494..2323642) Bordetella pertussis Tohama I 2667301 NP_880850.1 CDS ndk NC_002929.2 2323670 2324095 R catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate; nucleoside diphosphate kinase complement(2323670..2324095) Bordetella pertussis Tohama I 2667302 NP_880851.1 CDS valS NC_002929.2 2324418 2327300 D valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain; valyl-tRNA synthetase 2324418..2327300 Bordetella pertussis Tohama I 2667303 NP_880852.1 CDS BP2204 NC_002929.2 2327393 2328154 R Similar to Caulobacter crescentus outer membrane protein Cc0351 precursor SW:Y351_CAUCR (Q9AB80) (254 aa) fasta scores: E(): 5.8e-12, 29.38% id in 245 aa, and to Escherichia coli mlta-interacting protein precursor MipA or b1782 SW:MIPA_ECOLI (P77486) (248 aa) fasta scores: E(): 3e-07, 27.64% id in 246 aa; outer membrane (scaffolding) protein complement(2327393..2328154) Bordetella pertussis Tohama I 2667304 NP_880853.1 CDS BP2206 NC_002929.2 2328914 2330263 D Similar to Escherichia coli probable sensor protein YgiY or b3026 SW:YGIY_ECOLI (P40719) (449 aa) fasta scores: E(): 4.2e-34, 32.82% id in 460 aa; two component sensor kinase 2328914..2330263 Bordetella pertussis Tohama I 2667306 NP_880854.1 CDS BP2207 NC_002929.2 2330362 2331312 D transposase for IS481 element; transposase 2330362..2331312 Bordetella pertussis Tohama I 2666004 NP_880855.1 CDS BP2210 NC_002929.2 2334053 2335342 R catalyzes the oxidative deamination of D-amino acids; D-amino acid dehydrogenase small subunit complement(2334053..2335342) Bordetella pertussis Tohama I 2666006 NP_880856.1 CDS BP2211 NC_002929.2 2335461 2335898 R Similar to Escherichia coli, hypothetical protein YjeB or b4178 or z5785 or ecs5154 SW:YJEB_ECOLI (P21498) (141 aa) fasta scores: E(): 3.1e-18, 44.61% id in 130 aa; DNA-binding protein complement(2335461..2335898) Bordetella pertussis Tohama I 2666007 NP_880857.1 CDS fhp NC_002929.2 2335942 2337150 R flavohemoprotein; catalyzes the formation of nitrate from nitric oxide; can also catalyze the reduction of dihydropteridine; nitric oxide dioxygenase complement(2335942..2337150) Bordetella pertussis Tohama I 2666010 NP_880858.1 CDS BP2213 NC_002929.2 2337297 2337761 D Similar to Vibrio cholerae hypothetical protein Vc0519 TR:Q9KUK0 (EMBL:AE004138) (147 aa) fasta scores: E(): 2.4e-18, 51.04% id in 143 aa, and to Neisseria meningitidis hypothetical protein NMB1951 TR:Q9JXP0 (EMBL:AE002543) (180 aa) fasta scores: E(): 9.2e-18, 47.02% id in 168 aa; hypothetical protein 2337297..2337761 Bordetella pertussis Tohama I 2666011 NP_880859.1 CDS BP2214 NC_002929.2 2337785 2338735 R transposase for IS481 element; transposase complement(2337785..2338735) Bordetella pertussis Tohama I 2666012 NP_880860.1 CDS ectA NC_002929.2 2338834 2339394 R Similar to Halomonas elongata L-2,4-diaminobutyric acid acetyltransferase ectA SW:ECA2_HALEL (O52249) (192 aa) fasta scores: E(): 2.7e-25, 43.82% id in 178 aa, and to Bacillus pasteurii EctA TR:Q9AP35 (EMBL:AF316874) (180 aa) fasta scores: E(): 1.1e-11, 34.17% id in 158 aa; L-2,4-diaminobutyric acid acetyltransferase complement(2338834..2339394) Bordetella pertussis Tohama I 2666348 NP_880861.1 CDS BP2216 NC_002929.2 2339391 2339936 R Similar to Vibrio cholerae transcriptional regulator, MarR family vc1278 TR:Q9KSH8 (EMBL:AE004207) (159 aa) fasta scores: E(): 3.1e-11, 36.02% id in 136 aa; MarR family transcriptional regulator complement(2339391..2339936) Bordetella pertussis Tohama I 2666349 NP_880862.1 CDS BP2217 NC_002929.2 2340132 2341160 D Similar to Rhizobium meliloti transcriptional regulator protein smb20276 TR:CAC48666 (EMBL:AL603642) (296 aa) fasta scores: E(): 6.8e-19, 34.53% id in 304 aa; SIS family regulator 2340132..2341160 Bordetella pertussis Tohama I 2666353 NP_880863.1 CDS BP2218 NC_002929.2 2341201 2342541 D Similar to Rhizobium meliloti probable aminotransferase smb20277 TR:CAC48667 (EMBL:AL603642) (447 aa) fasta scores: E(): 2.6e-118, 69.14% id in 444 aa, and to Bacillus sphaericus adenosylmethionine-8-amino-7-oxononanoate aminotransferase BioA SW:BIOA_BACSH (P22805) (455 aa) fasta scores: E(): 5.2e-46, 34% id in 447 aa; hypothetical protein 2341201..2342541 Bordetella pertussis Tohama I 2666354 NP_880864.1 CDS BP2219 NC_002929.2 2342650 2343654 D Similar to Rhizobium meliloti hypothetical immunogenic protein smb20292 TR:CAC48682 (EMBL:AL603642) (327 aa) fasta scores: E(): 8e-93, 73.62% id in 326 aa, and to Brucella abortus 31 kDa immunogenic protein precursor BcsP31 SW:BCSP_BRUAB (P12920) (329 aa) fasta scores: E(): 3e-35, 36.69% id in 327 aa; cell surface protein 2342650..2343654 Bordetella pertussis Tohama I 2666355 NP_880865.1 CDS BP2220 NC_002929.2 2343761 2346361 D Similar to Rhizobium meliloti hypothetical 88.3 kDa protein smb20291 TR:CAC48681 (EMBL:AL603642) (827 aa) fasta scores: E(): 1.1e-160, 54.67% id in 834 aa; hypothetical protein 2343761..2346361 Bordetella pertussis Tohama I 2666356 NP_880866.1 CDS BP2221 NC_002929.2 2346460 2347410 D transposase for IS481 element; transposase 2346460..2347410 Bordetella pertussis Tohama I 2666357 NP_880867.1 CDS BP2222 NC_002929.2 2347407 2347679 R No significant database matches. May be disrupted by downsteam IS481; hypothetical protein complement(2347407..2347679) Bordetella pertussis Tohama I 2666213 NP_880868.1 CDS bapA NC_002929.2 2347938 2350649 R Previously sequenced as Bordetella pertussis BapA protein BapA TR:Q9F4B4 (EMBL:AJ277632) (903 aa) fasta scores: E(): 0, 100% id in 903 aa; autotransporter complement(2347938..2350649) Bordetella pertussis Tohama I 2666214 NP_880869.1 CDS BP2225 NC_002929.2 2351304 2352761 D Similar to Rhizobium meliloti cardiolipin synthetase transmembrane protein TR:CAC46099 (EMBL:AL591787) (487 aa) fasta scores: E(): 6.5e-100, 54% id in 487 aa, and to Bacillus firmus cardiolipin synthetase Cls SW:CLS_BACFI (O66043) (503 aa) fasta scores: E(): 2e-36, 28.21% id in 475 aa; phospholipase 2351304..2352761 Bordetella pertussis Tohama I 2666215 NP_880870.1 CDS BP2226 NC_002929.2 2352758 2353108 R Similar to Bacillus subtilis anti-sigma F factor antagonist spoIIAa SW:SP21_BACSU (P10727) (116 aa) fasta scores: E(): 1.1e-06, 30.84% id in 107 aa; anti-sigma factor antagonist complement(2352758..2353108) Bordetella pertussis Tohama I 2667458 NP_880871.1 CDS BP2227 NC_002929.2 2353252 2353680 D Similar to Chlamydia muridarum RsbW protein, tc0837 TR:Q9PJJ2 (EMBL:AE002350) (152 aa) fasta scores: E(): 6.3e-05, 28.57% id in 126 aa, and to Bacillus subtilis anti-sigma b factor RsbW SW:RSBW_BACSU (P17904) (160 aa) fasta scores: E(): 0.16, 23.88% id in 134 aa; anti-sigma factor 2353252..2353680 Bordetella pertussis Tohama I 2667459 NP_880872.1 CDS alr NC_002929.2 2353764 2354927 D Similar to Klebsiella aerogenes alanine racemase, catabolic DadB SW:ALR2_KLEAE (O30746) (356 aa) fasta scores: E(): 4.1e-40, 39.45% id in 365 aa, and to Escherichia coli alanine racemase, biosynthetic Alr or b4053 SW:ALR1_ECOLI (P29743) (359 aa) fasta scores: E(): 1.5e-34, 36.01% id in 361 aa. Also similar to BP1221, 41.398% identity (42.659% ungapped) in 372 aa overlap.; alanine racemase 2353764..2354927 Bordetella pertussis Tohama I 2667460 NP_880873.1 CDS BP2229 NC_002929.2 2354924 2357410 R Similar to Pseudomonas aeruginosa probable MFS transporter pa4096 TR:Q9HWT2 (EMBL:AE004826) (419 aa) fasta scores: E(): 1.1e-10, 28.57% id in 406 aa, and to Streptomyces coelicolor integral membrane transport protein SCI30a.30c TR:Q9S243 (EMBL:AL096811) (463 aa) fasta scores: E(): 1.6e-09, 27.27% id in 396 aa; inner membrane transport protein complement(2354924..2357410) Bordetella pertussis Tohama I 2667461 NP_880874.1 CDS BP2230 NC_002929.2 2357450 2359471 D Similar to Chlamydia trachomatis sigma regulatory family protein-pp2c phosphatase rbsu or ct588 TR:O84592 (EMBL:AE001329) (650 aa) fasta scores: E(): 5e-19, 27.88% id in 373 aa, and to Bacillus subtilis sigma factor sigb regulation protein RsbU rsbU SW:RSBU_BACSU (P40399) (335 aa) fasta scores: E(): 1.1e-13, 26.51% id in 264 aa; regulator 2357450..2359471 Bordetella pertussis Tohama I 2667462 NP_880875.1 CDS BP2231 NC_002929.2 2359468 2360655 D hypothetical protein 2359468..2360655 Bordetella pertussis Tohama I 2667454 NP_880876.1 CDS BP2232 NC_002929.2 2360697 2362004 R hypothetical protein complement(2360697..2362004) Bordetella pertussis Tohama I 2667455 NP_880877.1 CDS BP2233 NC_002929.2 2362220 2362918 D hypothetical protein 2362220..2362918 Bordetella pertussis Tohama I 2667456 NP_880878.1 CDS brpL NC_002929.2 2363093 2363695 D Similar to Erwinia amylovora RNA polymerase sigma factor HrpL SWALL:Q46616 (EMBL:U36244) (182 aa) fasta scores: E(): 5.7e-14, 37.41% id in 155 aa, and to Escherichia coli RNA polymerase sigma-E factor RpoE or SigE or B2573 or Z3855 or Ecs3439 SWALL:RPOE_ECOLI (SWALL:P34086) (191 aa) fasta scores: E(): 7.9e-14, 36.09% id in 169 aa; RNA polymerase sigma factor 2363093..2363695 Bordetella pertussis Tohama I 2667457 NP_880879.1 CDS bscC NC_002929.2 2363716 2365518 R Similar to Pseudomonas aeruginosa type II secretion protein PscC or Pa1716 SWALL:Q9I319 (EMBL:AE004598) (600 aa) fasta scores: E(): 1.6e-28, 36.15% id in 531 aa, and to Yersinia enterocolitica YscC SWALL:AAK69235 (EMBL:AF336309) (607 aa) fasta scores: E(): 4e-19, 36.21% id in 533 aa; type III secretion protein complement(2363716..2365518) Bordetella pertussis Tohama I 2667061 NP_880880.1 CDS bscW NC_002929.2 2365509 2365907 R hypothetical protein complement(2365509..2365907) Bordetella pertussis Tohama I 2667062 NP_880881.1 CDS bscU NC_002929.2 2365904 2366953 R Similar to many eg. Pseudomonas aeruginosa translocation protein in type III secretion PscU or Pa1690 TR:Q9I337 (EMBL:AE004596) (349 aa) fasta scores: E(): 1.3e-46, 41.88% id in 339 aa, and to Yersinia enterocolitica YscU TR:Q56844 (EMBL:AF102990) (354 aa) fasta scores: E(): 4.7e-45, 38.96% id in 349 aa; type III secretion protein complement(2365904..2366953) Bordetella pertussis Tohama I 2667063 NP_880882.1 CDS bscT NC_002929.2 2366950 2367750 R Similar to Pseudomonas aeruginosa translocation protein in type III secretion PscT or pa1691 TR:Q9I336 (EMBL:AE004596) (262 aa) fasta scores: E(): 3.1e-29, 38.84% id in 242 aa, and to Yersinia pestis Yop proteins translocation protein TR:AAC62558 (EMBL:AF074612) (261 aa) fasta scores: E(): 4.8e-29, 35.45% id in 251 aa; type III secretion protein complement(2366950..2367750) Bordetella pertussis Tohama I 2667215 NP_880883.1 CDS bscS NC_002929.2 2367762 2368028 R Similar to Bordetella bronchiseptica BscS TR:Q9L9D8 (EMBL:AF172245) (88 aa) fasta scores: E(): 3.9e-30, 97.72% id in 88 aa, and to Yersinia pestis Yop translocation protein S SW:YSCS_YERPE (P40298) (79 aa) fasta scores: E(): 3e-13, 56.57% id in 76 aa; type III secretion protein complement(2367762..2368028) Bordetella pertussis Tohama I 2667216 NP_880884.1 CDS bscR NC_002929.2 2368034 2368705 R part of a set of proteins involved in the infection of eukaryotic cells; in plant pathogens involved in the hypersensitivity response; type III secretion system protein complement(2368034..2368705) Bordetella pertussis Tohama I 2667217 NP_880885.1 CDS bscQ NC_002929.2 2368702 2369781 R Similar to Bordetella bronchiseptica BscQ TR:Q9L9E0 (EMBL:AF172245) (123 aa) fasta scores: E(): 3.4e-34, 98.9% id in 91 aa, and to Yersinia pestis Yop translocation protein Q SW:YSCQ_YERPE (P42713) (307 aa) fasta scores: E(): 7e-07, 46.37% id in 69 aa; type III secretion protein complement(2368702..2369781) Bordetella pertussis Tohama I 2667203 NP_880886.1 CDS bscP NC_002929.2 2369778 2370326 R hypothetical protein complement(2369778..2370326) Bordetella pertussis Tohama I 2667204 NP_880887.1 CDS bscO NC_002929.2 2370323 2370832 R Similar to many eg. Bordetella bronchiseptica BscO TR:O68540 (EMBL:AF049488) (143 aa) fasta scores: E(): 3.3e-46, 97.88% id in 142 aa, and to Pseudomonas aeruginosa translocation protein in type III secretion PscO or pa1696 TR:Q9I331 (EMBL:AE004596) (158 aa) fasta scores: E(): 4.5e-05, 30.61% id in 147 aa; type III secretion protein complement(2370323..2370832) Bordetella pertussis Tohama I 2667131 NP_880888.1 CDS bscN NC_002929.2 2370832 2372166 R Similar to many eg. Bordetella bronchiseptica BscN TR:O68539 (EMBL:AF049488) (444 aa) fasta scores: E(): 2.6e-162, 99.32% id in 444 aa, and to Pseudomonas aeruginosa ATP synthase in type III secretion system pa1697 TR:Q9I330 (EMBL:AE004596) (440 aa) fasta scores: E(): 1.8e-103, 68.19% id in 415 aa; type III secretion system ATPase complement(2370832..2372166) Bordetella pertussis Tohama I 2667132 NP_880889.1 CDS bscL NC_002929.2 2372171 2372809 R Similar to many eg. Bordetella bronchiseptica BscL TR:O68538 (EMBL:AF049488) (212 aa) fasta scores: E(): 8e-72, 98.58% id in 212 aa, and to Pseudomonas aeruginosa type III export protein PscL or pa1725 TR:Q9I312 (EMBL:AE004598) (214 aa) fasta scores: E(): 2.6e-23, 42.56% id in 195 aa; type III secretion system protein complement(2372171..2372809) Bordetella pertussis Tohama I 2667133 NP_880890.1 CDS bscK NC_002929.2 2372779 2373441 R Similar to Bordetella bronchiseptica BscK TR:O68537 (EMBL:AF049488) (220 aa) fasta scores: E(): 9.4e-87, 98.18% id in 220 aa; hypothetical protein complement(2372779..2373441) Bordetella pertussis Tohama I 2667134 NP_880891.1 CDS bscJ NC_002929.2 2373434 2374258 R Similar to many eg. Bordetella bronchiseptica BscJ TR:O68536 (EMBL:AF049488) (274 aa) fasta scores: E(): 4.5e-97, 98.17% id in 274 aa, and to Erwinia amylovora harpin secretion HrcJ precursor TR:Q46620 (EMBL:U56662) (260 aa) fasta scores: E(): 2.7e-29, 44.89% id in 245 aa; type III secretion protein complement(2373434..2374258) Bordetella pertussis Tohama I 2667135 NP_880892.1 CDS bscI NC_002929.2 2374255 2374662 R Similar to Bordetella bronchiseptica BscI TR:O68535 (EMBL:AF049488) (115 aa) fasta scores: E(): 8.1e-32, 90.43% id in 115 aa, and to Pseudomonas aeruginosa type III export protein PscI or pa1722 TR:Q9I315 (EMBL:AE004598) (112 aa) fasta scores: E(): 2.1, 28.07% id in 114 aa; type III secretion protein complement(2374255..2374662) Bordetella pertussis Tohama I 2667090 NP_880893.1 CDS bcr4 NC_002929.2 2374659 2375180 R hypothetical protein complement(2374659..2375180) Bordetella pertussis Tohama I 2667091 NP_880894.1 CDS bcrH2 NC_002929.2 2375185 2375646 R Weakly similar to many Pseudomonas aeruginosa regulatory protein PcrH or pa1707 TR:Q9I325 (EMBL:AE004597) (167 aa) fasta scores: E(): 0.0042, 25.34% id in 146 aa, and to Yersinia pestis low calcium response locus protein H Lcrh or ypcd1.30c or y0051 SW:LCRH_YERPE (P21207) (168 aa) fasta scores: E(): 0.063, 23.81% id in 126 aa; regulatory protein complement(2375185..2375646) Bordetella pertussis Tohama I 2667092 NP_880895.1 CDS bopB NC_002929.2 2375670 2376878 R Similar to Bordetella bronchiseptica outer protein B BopB TR:Q9REZ5 (EMBL:AF207789) (400 aa) fasta scores: E(): 2e-118, 96.75% id in 400 aa; outer protein B complement(2375670..2376878) Bordetella pertussis Tohama I 2667093 NP_880896.1 CDS bopD NC_002929.2 2376902 2377843 R Similar to Bordetella bronchiseptica outer protein D BopD TR:Q9REZ6 (EMBL:AF207788) (313 aa) fasta scores: E(): 3.5e-86, 98.4% id in 313 aa; outer protein D complement(2376902..2377843) Bordetella pertussis Tohama I 2667094 NP_880897.1 CDS bcrH1 NC_002929.2 2377891 2378376 R Similar to Pseudomonas aeruginosa regulatory protein PcrH or pa1707 TR:Q9I325 (EMBL:AE004597) (167 aa) fasta scores: E(): 1.4e-12, 37.41% id in 155 aa, and to Yersinia pestis low calcium response locus protein H LcrH or ypcd1.30c or y0051 SW:LCRH_YERPE (P21207) (168 aa) fasta scores: E(): 4.7e-08, 31.66% id in 120 aa; regulatory protein complement(2377891..2378376) Bordetella pertussis Tohama I 2665949 NP_880898.1 CDS BP2255 NC_002929.2 2378392 2378667 R hypothetical protein complement(2378392..2378667) Bordetella pertussis Tohama I 2665950 NP_880899.1 CDS bsp22 NC_002929.2 2378689 2379306 R Strongly similar to Bordetella bronchiseptica secreted protein 22 Bsp22 TR:Q9REZ7 (EMBL:AF207787) (205 aa) fasta scores: E(): 4.1e-68, 96.58% id in 205 aa; secreted protein complement(2378689..2379306) Bordetella pertussis Tohama I 2665951 NP_880900.1 CDS bopN NC_002929.2 2379470 2380567 D Similar to many eg. Bordetella bronchiseptica outer protein N BopN TR:Q9REZ4 (EMBL:AF207790) (365 aa) fasta scores: E(): 4.3e-132, 99.17% id in 365 aa, and to Pseudomonas syringae hypersensitivity response secretion protein HrpJ SW:HRPJ_PSESY (Q05395) (346 aa) fasta scores: E(): 5e-08, 26.94% id in 308 aa; outer protein N 2379470..2380567 Bordetella pertussis Tohama I 2665952 NP_880901.1 CDS BP2258 NC_002929.2 2380564 2380941 D hypothetical protein 2380564..2380941 Bordetella pertussis Tohama I 2665953 NP_880902.1 CDS BP2259 NC_002929.2 2380946 2381356 D Similar to Pseudomonas aeruginosa pcr3 pcr3 or pa1701 TR:O30534 (EMBL:AF010150) (121 aa) fasta scores: E(): 0.52, 31.49% id in 127 aa; hypothetical protein 2380946..2381356 Bordetella pertussis Tohama I 2665954 NP_880903.1 CDS BP2260 NC_002929.2 2381353 2381721 D Similar to Bradyrhizobium japonicum Id192 TR:Q9ANI6 (EMBL:AF322012) (142 aa) fasta scores: E(): 0.99, 29.2% id in 113 aa, and to Chlamydia muridarum type III secretion chaperone, tc0546 TR:Q9PKC0 (EMBL:AE002323) (139 aa) fasta scores: E(): 5.1, 31.13% id in 106 aa; hypothetical protein 2381353..2381721 Bordetella pertussis Tohama I 2665955 NP_880904.1 CDS bcrD NC_002929.2 2381718 2383817 D Similar to many eg. Chlamydophila caviae Cds2 protein TR:O34019 (EMBL:U88070) (709 aa) fasta scores: E(): 6e-116, 47.14% id in 700 aa, and to Salmonella typhimurium Invasion protein InvA SW:INVA_SALTY (P35657) (665 aa) fasta scores: E(): 1.4e-90, 43.96% id in 671 aa. Also similar to BP1367, 36.510% identity (38.426% ungapped) in 682 aa overlap.; type III secretion pore protein 2381718..2383817 Bordetella pertussis Tohama I 2665956 NP_880905.1 CDS bscD NC_002929.2 2383814 2385094 D Weak but full length similarity to Pseudomonas aeruginosa type III secretion protein PscD TR:P95432 (EMBL:U56077) (432 aa) fasta scores: E(): 0.00018, 25.57% id in 438 aa; type III secretion protein 2383814..2385094 Bordetella pertussis Tohama I 2665957 NP_880906.1 CDS bscE NC_002929.2 2385135 2385434 D hypothetical protein 2385135..2385434 Bordetella pertussis Tohama I 2665958 NP_880907.1 CDS bscF NC_002929.2 2385424 2385690 D Similar to Pseudomonas aeruginosa type III secretion protein PscF or pa1719 TR:P95434 (EMBL:U56077) (85 aa) fasta scores: E(): 0.013, 27.9% id in 86 aa; type III secretion protein 2385424..2385690 Bordetella pertussis Tohama I 2665959 NP_880908.1 CDS BP2265 NC_002929.2 2385726 2386181 R hypothetical protein complement(2385726..2386181) Bordetella pertussis Tohama I 2665960 NP_880909.1 CDS BP2266 NC_002929.2 2386525 2387475 D transposase for IS481 element; transposase 2386525..2387475 Bordetella pertussis Tohama I 2665961 NP_880910.1 CDS greA NC_002929.2 2387777 2388253 R Similar to Escherichia coli transcription elongation factor GreA or b3181 SW:GREA_ECOLI (P21346) (158 aa) fasta scores: E(): 4.5e-32, 62.02% id in 158 aa. Also similar to BPBP1117, 40.789% identity (41.060% ungapped) in 152 aa overlap.; transcription elongation factor complement(2387777..2388253) Bordetella pertussis Tohama I 2665962 NP_880911.1 CDS BP2268 NC_002929.2 2388877 2390418 D Similar to Escherichia coli methyl-accepting chemotaxis protein ii tar or chem or b1886 SW:MCP2_ECOLI (P07017) (553 aa) fasta scores: E(): 2.1e-60, 46.69% id in 484 aa; methyl-accepting chemotaxis protein 2388877..2390418 Bordetella pertussis Tohama I 2665963 NP_880912.1 CDS BP2269 NC_002929.2 2390449 2391762 R Similar to Escherichia coli purine permease YcdG or b1006 SW:YCDG_ECOLI (P75892) (442 aa) fasta scores: E(): 4.5e-99, 66.58% id in 431 aa, and to Streptomyces coelicolor uracyl permease SCl6.07 TR:Q9L109 (EMBL:AL159139) (478 aa) fasta scores: E(): 6.5e-52, 45.9% id in 440 aa; xanthine/uracil family permease complement(2390449..2391762) Bordetella pertussis Tohama I 2665964 NP_880913.1 CDS BP2271 NC_002929.2 2392314 2393636 D Similar to Salmonella typhimurium phosphoglycerate transport regulatory protein PgtC precursor pgtC SW:PGTC_SALTY (P37591) (397 aa) fasta scores: E(): 2.7e-23, 28.57% id in 392 aa; regulatory lipoprotein 2392314..2393636 Bordetella pertussis Tohama I 2665965 NP_880914.1 CDS BP2272 NC_002929.2 2393633 2394583 R transposase for IS481 element; transposase complement(2393633..2394583) Bordetella pertussis Tohama I 2666133 NP_880915.1 CDS BP2274 NC_002929.2 2395113 2396135 R Similar to many eg. Rhizobium meliloti iron uptake ABC transporter periplasmic solute-binding protein smb21540 TR:CAC49381 (EMBL:AL603645) (340 aa) fasta scores: E(): 6.1e-81, 61.28% id in 328 aa, and to Vibrio cholerae ABC transporter periplasmic substrate-binding protein vca0603 TR:Q9KLY8 (EMBL:AE004390) (339 aa) fasta scores: E(): 1.1e-62, 48.96% id in 337 aa; iron ABC transporter substrate-binding protein complement(2395113..2396135) Bordetella pertussis Tohama I 2666135 NP_880916.1 CDS BP2275 NC_002929.2 2396164 2396994 R catalyzes the degradation of phosphonoacetaldehyde to acetaldehyde and phosphate; phosphonoacetaldehyde hydrolase complement(2396164..2396994) Bordetella pertussis Tohama I 2666136 NP_880917.1 CDS BP2276 NC_002929.2 2397011 2398708 R Similar to many eg. Rhizobium meliloti iron uptake ABC transporter permease smb21542 TR:CAC49383 (EMBL:AL603645) (680 aa) fasta scores: E(): 2.1e-99, 56.09% id in 492 aa; ABC transporter permease complement(2397011..2398708) Bordetella pertussis Tohama I 2666137 NP_880918.1 CDS BP2277 NC_002929.2 2398773 2399849 R Similar to Pseudomonas putida ABC transporter TR:Q9KHS9 (EMBL:AF249736) (282 aa) fasta scores: E(): 2.6e-60, 67.98% id in 278 aa, and to Vibrio cholerae ABC transporter ATP-binding protein vca0602 TR:Q9KLY9 (EMBL:AE004390) (403 aa) fasta scores: E(): 1.1e-46, 47.32% id in 355 aa; ABC transporter ATP-binding protein complement(2398773..2399849) Bordetella pertussis Tohama I 2666080 NP_880919.1 CDS BP2278 NC_002929.2 2400009 2400872 D Similar to Pseudomonas putida response regulator TR:Q9KHT0 (EMBL:AF249736) (289 aa) fasta scores: E(): 6.2e-53, 51.91% id in 287 aa, and to Rhodospirillum rubrum rubisco operon transcriptional regulator cbbR SW:CBBR_RHORU (P52595) (298 aa) fasta scores: E(): 3e-20, 28.92% id in 287 aa; transcriptional regulator 2400009..2400872 Bordetella pertussis Tohama I 2666081 NP_880920.1 CDS BP2279 NC_002929.2 2400903 2401472 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2804 TR:Q9I039 (EMBL:AE004707) (193 aa) fasta scores: E(): 8.3e-24, 45.66% id in 173 aa, and to Rhizobium loti Mll1439 protein TR:Q98KK1 (EMBL:AP002997) (194 aa) fasta scores: E(): 6.6e-20, 40.46% id in 173 aa; hypothetical protein 2400903..2401472 Bordetella pertussis Tohama I 2666089 NP_880921.1 CDS BP2280 NC_002929.2 2401489 2402340 R Similar to Pseudomonas aeruginosa probable 3-mercaptopyruvate sulfurtransferase SseA or pa1292 TR:Q9I452 (EMBL:AE004558) (284 aa) fasta scores: E(): 5.6e-46, 49.82% id in 281 aa, and to Rattus norvegicus 3-mercaptopyruvate sulfurtransferase MpsT SW:THTM_RAT (P97532) (296 aa) fasta scores: E(): 1.2e-22, 36.73% id in 245 aa; sulfurtransferase complement(2401489..2402340) Bordetella pertussis Tohama I 2666090 NP_880922.1 CDS BP2282 NC_002929.2 2403398 2404279 D metalloprotease; heat shock protein HtpX 2403398..2404279 Bordetella pertussis Tohama I 2667396 NP_880923.1 CDS qor NC_002929.2 2404354 2405343 R Similar to Escherichia coli quinone oxidoreductase Qor or Hcz or b4051 SW:QOR_ECOLI (P28304) (327 aa) fasta scores: E(): 3.7e-67, 58.64% id in 324 aa, and to Pseudomonas aeruginosa quinone oxidoreductase Qor or pa0023 SW:QOR_PSEAE (P43903) (325 aa) fasta scores: E(): 8e-80, 66.25% id in 323 aa; quinone oxidoreductase complement(2404354..2405343) Bordetella pertussis Tohama I 2667397 NP_880924.1 CDS BP2284 NC_002929.2 2405406 2406356 R Similar to Bacillus subtilis hypothetical 34.0 kDa protein in gltP-pcp intergenic region YcbK SW:YCBK_BACSU (P42243) (312 aa) fasta scores: E(): 7.1e-20, 28.84% id in 312 aa, and to Pseudomonas aeruginosa hypothetical protein Pa3358 TR:Q9HYN8 (EMBL:AE004758) (292 aa) fasta scores: E(): 9.6e-10, 29.13% id in 302 aa; hypothetical protein complement(2405406..2406356) Bordetella pertussis Tohama I 2667398 NP_880925.1 CDS BP2285 NC_002929.2 2406419 2407276 D Similar to Pseudomonas aeruginosa hypothetical protein Pa3222 TR:Q9HZ18 (EMBL:AE004745) (299 aa) fasta scores: E(): 2e-56, 60.07% id in 278 aa, and to Pasteurella multocida hypothetical protein Pm0461 TR:Q9CNH0 (EMBL:AE006082) (286 aa) fasta scores: E(): 4e-44, 45.68% id in 278 aa; hypothetical protein 2406419..2407276 Bordetella pertussis Tohama I 2667399 NP_880926.1 CDS BP2286 NC_002929.2 2407336 2407824 D Similar to Burkholderia pseudomallei hypothetical 18.0 kDa protein TR:Q9ZF73 (EMBL:AF110185) (163 aa) fasta scores: E(): 3.6e-17, 46.26% id in 134 aa, and to Salmonella typhimurium multiple antibiotic resistance protein MarR or stm1520 SW:MARR_SALTY (Q56069) (144 aa) fasta scores: E(): 2.9e-10, 33.33% id in 129 aa; MarR family transcriptional regulator 2407336..2407824 Bordetella pertussis Tohama I 2667400 NP_880927.1 CDS BP2289 NC_002929.2 2409397 2410587 D Similar to Pseudomonas aeruginosa multidrug resistance protein Pa5159 TR:Q9HU25 (EMBL:AE004928) (394 aa) fasta scores: E(): 5.6e-47, 52.03% id in 394 aa, and to Escherichia coli multidrug resistance protein A EmrA or b2685 SW:EMRA_ECOLI (P27303) (390 aa) fasta scores: E(): 9.6e-37, 46.21% id in 383 aa. May form pores for efflux of toxins.; multidrug resistance protein 2409397..2410587 Bordetella pertussis Tohama I 2667402 NP_880928.1 CDS BP2290 NC_002929.2 2410584 2412170 D Similar to Escherichia coli, and multidrug resistance protein A EmrB or b2686 or z3987 or ecs3548 SW:EMRB_ECOLI (P27304) (512 aa) fasta scores: E(): 9.4e-102, 54.72% id in 508 aa, and to Haemophilus influenzae multidrug resistance protein B homolog EmrB or hi0897 SW:EMRB_HAEIN (P44927) (510 aa) fasta scores: E(): 2.7e-98, 52.89% id in 501 aa; multidrug resistance protein 2410584..2412170 Bordetella pertussis Tohama I 2667403 NP_880929.1 CDS BP2291 NC_002929.2 2412189 2413256 R Similar to Pseudomonas putida tartrate dehydrogenase SW:TTUC_PSEPU (Q51945) (364 aa) fasta scores: E(): 2.7e-99, 67.77% id in 360 aa, and to Escherichia coli probable tartrate dehydrogenase YeaU or b1800 SW:TTUC_ECOLI (P76251) (361 aa) fasta scores: E(): 7.8e-104, 69.49% id in 354 aa; tartrate dehydrogenase complement(2412189..2413256) Bordetella pertussis Tohama I 2667404 NP_880930.1 CDS BP2292 NC_002929.2 2413361 2414905 R Similar to many eg. Rhizobium meliloti probable rhizopine catabolism regulatory protein MocR SW:MOCR_RHIME (P49309) (493 aa) fasta scores: E(): 1.4e-63, 41.43% id in 473 aa; transcriptional regulator complement(2413361..2414905) Bordetella pertussis Tohama I 2667405 NP_880931.1 CDS BP2293 NC_002929.2 2415325 2416899 D Similar to Agrobacterium tumefaciens Agr_l_2786p TR:AAK89959 (EMBL:AE008339) (585 aa) fasta scores: E(): 8.4e-66, 37.86% id in 515 aa, and to Rhizobium loti ABC transporter oligopeptide-binding protein Mlr3395 TR:Q98GC1 (EMBL:AP003001) (536 aa) fasta scores: E(): 5.6e-55, 35.48% id in 527 aa. Also similar to BP0284, 59.693% identity (60.155% ungapped) in 521 aa overlap.; peptide ABC transporter substrate-binding protein 2415325..2416899 Bordetella pertussis Tohama I 2667406 NP_880932.1 CDS BP2294 NC_002929.2 2417007 2418023 D Similar to many eg. Rhizobium loti ABC transporter permease Mlr3397 TR:Q98GC0 (EMBL:AP003001) (328 aa) fasta scores: E(): 4.1e-47, 47.07% id in 325 aa; integral membrane transport protein 2417007..2418023 Bordetella pertussis Tohama I 2666150 NP_880933.1 CDS BP2295 NC_002929.2 2418020 2418859 D Similar to Rhizobium meliloti probable ABC transporter permease Sma2083 TR:AAK65795 (EMBL:AE007299) (332 aa) fasta scores: E(): 1.4e-52, 52.2% id in 272 aa; integral membrane transport protein 2418020..2418859 Bordetella pertussis Tohama I 2666151 NP_880934.1 CDS BP2296 NC_002929.2 2418864 2420501 D Similar to many eg. Agrobacterium tumefaciens Agr_l_3504p TR:AAK90329 (EMBL:AE008378) (575 aa) fasta scores: E(): 2.8e-114, 60.74% id in 535 aa, and to Rhizobium meliloti oligopeptide ABC transporter ATP-binding protein Smb20111 TR:CAC48511 (EMBL:AL603642) (546 aa) fasta scores: E(): 1e-84, 48.53% id in 546 aa; ABC transporter ATP-binding protein 2418864..2420501 Bordetella pertussis Tohama I 2666152 NP_880935.1 CDS BP2297 NC_002929.2 2420498 2421448 R transposase for IS481 element; transposase complement(2420498..2421448) Bordetella pertussis Tohama I 2666153 NP_880936.1 CDS BP2298 NC_002929.2 2421591 2422865 D Similar to many eg. Escherichia coli 4-aminobutyrate aminotransferase GabT or b2662 SW:GABT_ECOLI (P22256) (426 aa) fasta scores: E(): 1.3e-88, 56.97% id in 416 aa, and to Rhizobium meliloti 4-aminobutyrate aminotransferase TR:CAC49252 (EMBL:AL603645) (422 aa) fasta scores: E(): 2e-102, 66.18% id in 414 aa; aminobutyrate aminotransferase 2421591..2422865 Bordetella pertussis Tohama I 2666154 NP_880937.1 CDS BP2299 NC_002929.2 2422895 2423185 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0131 TR:Q9I701 (EMBL:AE004451) (95 aa) fasta scores: E(): 1.3e-20, 66.3% id in 92 aa, and to Rhizobium loti Mll5080 protein TR:Q98CN0 (EMBL:AP003005) (93 aa) fasta scores: E(): 2.1e-16, 55.05% id in 89 aa; hypothetical protein 2422895..2423185 Bordetella pertussis Tohama I 2666155 NP_880938.1 CDS BP2300 NC_002929.2 2423237 2424271 D Similar to Rhizobium loti acetylpolyamine aminohydrolase Mll0103 TR:Q98NK3 (EMBL:AP002994) (342 aa) fasta scores: E(): 5.8e-47, 46.88% id in 337 aa, and to Mycoplana ramosa acetylpolyamine aminohydrolase AphA or Aph SW:APHA_MYCRA (Q48935) (341 aa) fasta scores: E(): 1.1e-35, 37.65% id in 332 aa; acetylpolyamine aminohydrolase 2423237..2424271 Bordetella pertussis Tohama I 2666156 NP_880939.1 CDS BP2301 NC_002929.2 2424291 2425553 D allantoate amidohydrolase and N-carbamoyl-L-amino acid amidohydrolase are very similar; the allantoate amidohydrolase from Escherichia coli forms a dimer and binds zinc ions for catalytic activity and catalyzes the conversion of allantoate to (S)-ureidoglycolate and ammonia; carbamoyl amidohydrolase from Bacillus sp. converts N-carbamoyl amino acids to amino acids, ammonia, and carbon dioxide; allantoate amidohydrolase 2424291..2425553 Bordetella pertussis Tohama I 2666157 NP_880940.1 CDS BP2302 NC_002929.2 2425556 2426479 D Similar to many eg. Pseudomonas aeruginosa hypothetical protein Pa0239 TR:Q9I6P9 (EMBL:AE004462) (292 aa) fasta scores: E(): 1.1e-23, 36.17% id in 293 aa; hypothetical protein 2425556..2426479 Bordetella pertussis Tohama I 2666158 NP_880941.1 CDS BP2303 NC_002929.2 2426476 2427969 D Similar to many eg. Pseudomonas aeruginosa probable aldehyde dehydrogenase Pa0219 TR:Q9I6R9 (EMBL:AE004460) (496 aa) fasta scores: E(): 1e-116, 60.97% id in 492 aa, and to Homo sapiens aldehyde dehydrogenase 1a2 AldH1a2 or raldh2 SW:DHA2_HUMAN (O94788) (499 aa) fasta scores: E(): 1.4e-78, 43.51% id in 478 aa; aldehyde dehydrogenase 2426476..2427969 Bordetella pertussis Tohama I 2666159 NP_880942.1 CDS BP2304 NC_002929.2 2427980 2428912 R Similar to many eg. Escherichia coli 2-hydroxyacid dehydrogenase YcdW or b1033 SW:YCDW_ECOLI (P75913) (325 aa) fasta scores: E(): 2.5e-48, 45.72% id in 304 aa; 2-hydroxyacid dehydrogenase complement(2427980..2428912) Bordetella pertussis Tohama I 2666490 NP_880943.1 CDS BP2305 NC_002929.2 2429130 2430419 D Similar to many eg. Pseudomonas fluorescens family II aminotransferase TR:Q9FDI7 (EMBL:AF247644) (458 aa) fasta scores: E(): 1.5e-99, 58.64% id in 428 aa; aminotransferase 2429130..2430419 Bordetella pertussis Tohama I 2666491 NP_880944.1 CDS BP2306 NC_002929.2 2430454 2431809 R Similar to many eg. Pseudomonas aeruginosa probable sodium:alanine symporter Pa2533 TR:Q9I0V1 (EMBL:AE004681) (449 aa) fasta scores: E(): 2.1e-125, 75.78% id in 446 aa; sodium:alanine symporter complement(2430454..2431809) Bordetella pertussis Tohama I 2666492 NP_880945.1 CDS BP2307 NC_002929.2 2431870 2433468 R Similar to Escherichia coli hypothetical protein yjgr yjgr or b4263 SW:YJGR_ECOLI (P39342) (500 aa) fasta scores: E(): 9.7e-112, 63.24% id in 506 aa; ATP-binding protein complement(2431870..2433468) Bordetella pertussis Tohama I 2666493 NP_880946.1 CDS BP2308 NC_002929.2 2433545 2434276 D Similar to many eg. Neisseria meningitidis hypothetical protein Nmb1648 TR:Q9JYC7 (EMBL:AE002515) (242 aa) fasta scores: E(): 6.6e-60, 67.22% id in 241 aa; hypothetical protein 2433545..2434276 Bordetella pertussis Tohama I 2666494 NP_880947.1 CDS purD NC_002929.2 2434344 2435684 D catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis; phosphoribosylamine--glycine ligase 2434344..2435684 Bordetella pertussis Tohama I 2666495 NP_880948.1 CDS hemF NC_002929.2 2435700 2436611 D catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis; coproporphyrinogen III oxidase 2435700..2436611 Bordetella pertussis Tohama I 2666496 NP_880949.1 CDS nadD NC_002929.2 2436602 2437195 D Similar to Neisseria meningitidis probable nicotinate-nucleotide adenylyltransferase NadD or nmb2024 SW:NADD_NEIMB (P57090) (201 aa) fasta scores: E(): 6.3e-22, 39.69% id in 199 aa, and to Escherichia coli nicotinate-nucleotide adenylyltransferase NadD or b0639 SW:NADD_ECOLI (P52085) (213 aa) fasta scores: E(): 4.9e-12, 35.4% id in 209 aa; nicotinate-nucleotide adenylyltransferase 2436602..2437195 Bordetella pertussis Tohama I 2666497 NP_880950.1 CDS BP2312 NC_002929.2 2437257 2437643 D Similar to many eg. Neisseria meningitidis (serogroup A), and hypothetical protein Nma0417 TR:Q9JQR0 (EMBL:AL162753) (128 aa) fasta scores: E(): 6.8e-16, 48.14% id in 108 aa; hypothetical protein 2437257..2437643 Bordetella pertussis Tohama I 2666498 NP_880951.1 CDS BP2313 NC_002929.2 2437655 2438125 D SPOUT methyltransferase family protein; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA; rRNA large subunit methyltransferase 2437655..2438125 Bordetella pertussis Tohama I 2666499 NP_880952.1 CDS maf NC_002929.2 2438137 2438760 D Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 2438137..2438760 Bordetella pertussis Tohama I 2666500 NP_880953.1 CDS vag8 NC_002929.2 2438781 2441528 R Previously sequenced as Bordetella pertussis Vag8 protein Vag8-2 SWALL:Q8VV95 (EMBL:AJ420993) (915 aa) fasta scores: E(): 0, 100% id in 915 aa; autotransporter complement(2438781..2441528) Bordetella pertussis Tohama I 2666501 NP_880954.1 CDS BP2316 NC_002929.2 2448007 2448957 D transposase for IS481 element; transposase 2448007..2448957 Bordetella pertussis Tohama I 2666138 NP_880955.1 CDS BP2317 NC_002929.2 2449001 2450464 D Similar to a family of proteins involved in processing of the 5'end of 16S rRNA and implicated in the formation of cytoplasmic axial filaments during chromosome segregation and cell division, eg. Neisseria meningitidis cytoplasmic axial filament protein nmb1791 TR:Q9JY14 (EMBL:AE002529) (509 aa) fasta scores: E(): 5.2e-111, 60.41% id in 485 aa, and to Escherichia coli, and ribonuclease G CafA or Rng or b3247 or z4605 or ecs4119 SW:RNG_ECOLI (P25537) (488 aa) fasta scores: E(): 6.6e-98, 52.24% id in 490 aa; ribonuclease 2449001..2450464 Bordetella pertussis Tohama I 2666139 NP_880956.1 CDS BP2318 NC_002929.2 2450498 2451400 R Similar to Amycolatopsis methanolica prephenate dehydratase PheA or Pdt SW:PHEA_AMYME (Q44104) (304 aa) fasta scores: E(): 3.1e-19, 35.76% id in 274 aa, and to Neisseria gonorrhoeae P-protein PheA SW:PHEA_NEIGO (Q9ZHY3) (362 aa) fasta scores: E(): 3.8e-17, 30.07% id in 266 aa; dehydratase complement(2450498..2451400) Bordetella pertussis Tohama I 2666140 NP_880957.1 CDS BP2319 NC_002929.2 2451397 2451942 R Similar to Pseudomonas aeruginosa probable transcriptional regulator pa1283 TR:Q9I461 (EMBL:AE004558) (186 aa) fasta scores: E(): 2.1e-41, 60.94% id in 169 aa; transcriptional regulator complement(2451397..2451942) Bordetella pertussis Tohama I 2666141 NP_880958.1 CDS BP2320 NC_002929.2 2452026 2453525 D Similar to many major facilitator family proteins eg. Pseudomonas aeruginosa probable MFS transporter pa1282 TR:Q9I462 (EMBL:AE004557) (501 aa) fasta scores: E(): 1.2e-90, 58.07% id in 489 aa, and to Salmonella typhimurium methyl viologen resistance protein SmvA SW:SMVA_SALTY (P37594) (496 aa) fasta scores: E(): 2.2e-53, 38.91% id in 496 aa; inner membrane efflux protein 2452026..2453525 Bordetella pertussis Tohama I 2666142 NP_880959.1 CDS BP2321 NC_002929.2 2453498 2455369 R Similar to many ABC transporters eg. Neisseria meningitidis ABC transporter ATP-binding protein nma0535 TR:Q9JW59 (EMBL:AL162753) (621 aa) fasta scores: E(): 2.3e-75, 40.39% id in 604 aa, and to Escherichia coli, and probable transport ATP-binding protein MsbA or b0914 or z1260 or ecs0997 SW:MSBA_ECOLI (P27299) (582 aa) fasta scores: E(): 1.3e-71, 37.87% id in 573 aa. Includes both ATP-binding and integral membrane subunits.; ABC transporter complement(2453498..2455369) Bordetella pertussis Tohama I 2666143 NP_880960.1 CDS waaF NC_002929.2 2455385 2456350 D Previously sequenced as Bordetella pertussis heptosyltransferase II WaaF TR:O07076 (EMBL:Y13475) (321 aa) fasta scores: E(): 2.3e-125, 100% id in 321 aa, and to Escherichia coli ADP-heptose--LPS heptosyltransferase II RfaF or WaaF or b3620 SW:RFAF_ECOLI (P37692) (348 aa) fasta scores: E(): 3.2e-08, 29.58% id in 311 aa; heptosyltransferase II 2455385..2456350 Bordetella pertussis Tohama I 2666144 NP_880961.1 CDS BP2323 NC_002929.2 2456363 2457127 D Previously sequenced as Bordetella pertussis hypothetical 19.1 kDa protein TR:O07077 (EMBL:Y13475) (179 aa) fasta scores: E(): 2.6e-63, 100% id in 179 aa, and similar to many eg. Myxococcus xanthus hypothetical 28.3 kDa protein TR:AAK83000 (EMBL:AF285783) (258 aa) fasta scores: E(): 2e-14, 32.95% id in 264 aa; hypothetical protein 2456363..2457127 Bordetella pertussis Tohama I 2666145 NP_880962.1 CDS BP2324 NC_002929.2 2457132 2457404 D Similar to others Escherichia coli hypothetical protein yeiw yeiw or b2170.1 SW:YEIW_ECOLI (P58039) (84 aa) fasta scores: E(): 2.8e-21, 65.47% id in 84 aa, and to Pseudomonas aeruginosa hypothetical protein Pa1578.1 pa1578.1 SW:YF7A_PSEAE (P58040) (84 aa) fasta scores: E(): 4.2e-17, 56.09% id in 82 aa; hypothetical protein 2457132..2457404 Bordetella pertussis Tohama I 2666146 NP_880963.1 CDS BP2325 NC_002929.2 2457529 2458650 R May be involved in LPS biosynthesis. Similar to many eg. Pseudomonas aeruginosa glucosyltransferase I WaaG TR:Q9S648 (EMBL:AF090724) (373 aa) fasta scores: E(): 3e-13, 29.21% id in 356 aa, and to Serratia marcescens glycosyltransferase TR:Q9X977 (EMBL:U52844) (375 aa) fasta scores: E(): 3.6e-10, 28.98% id in 376 aa; transferase complement(2457529..2458650) Bordetella pertussis Tohama I 2666147 NP_880964.1 CDS BP2326 NC_002929.2 2458658 2459383 R Similar to Xylella fastidiosa hypothetical protein Xf0878 TR:Q9PF00 (EMBL:AE003927) (257 aa) fasta scores: E(): 2.5e-36, 47.89% id in 238 aa, and to Streptomyces coelicolor polysaccharide deacetylase SCC61a.31 TR:Q9KYG2 (EMBL:AL356595) (229 aa) fasta scores: E(): 1.9e-20, 38.29% id in 235 aa; polysaccharide deacetylase complement(2458658..2459383) Bordetella pertussis Tohama I 2666148 NP_880965.2 CDS BP2327 NC_002929.2 2459746 2461362 D Similar to many eg. Escherichia coli outer-membrane protein YhbX precursor or b3173 SW:YHBX_ECOLI (P42640) (541 aa) fasta scores: E(): 4.4e-53, 36.45% id in 480 aa; outer membrane protein 2459746..2461362 Bordetella pertussis Tohama I 2666149 NP_880966.1 CDS BP2328 NC_002929.2 2461341 2462453 R May be involved in LPS biosynthesis. Similar to Deinococcus radiodurans conserved hypothetical protein dr1555 TR:Q9RU40 (EMBL:AE001999) (411 aa) fasta scores: E(): 1.8e-12, 27.9% id in 301 aa, and to Rhizobium meliloti lipopolysaccharide core biosynthesis mannosyltransferase lpsb lpsb or r01572 or smc01219 SW:LPSB_RHIME (Q9R9N2) (351 aa) fasta scores: E(): 7.6e-08, 25.58% id in 383 aa; transferase complement(2461341..2462453) Bordetella pertussis Tohama I 2666698 NP_880967.1 CDS BP2329 NC_002929.2 2462450 2463202 R May be involved in LPS biosynthesis. Similar to many eg. Haemophilus ducreyi beta 1-4 glucosyltransferase LgtF TR:Q9L875 (EMBL:AF215936) (252 aa) fasta scores: E(): 5.2e-38, 44.49% id in 245 aa; transferase complement(2462450..2463202) Bordetella pertussis Tohama I 2666699 NP_880968.1 CDS BP2330 NC_002929.2 2463199 2464050 R Similar to many eg. Xylella fastidiosa hypothetical protein Xf1469 xf1469 TR:Q9PDB0 (EMBL:AE003977) (284 aa) fasta scores: E(): 1.4e-61, 56.02% id in 282 aa; hypothetical protein complement(2463199..2464050) Bordetella pertussis Tohama I 2666700 NP_880969.1 CDS BP2331 NC_002929.2 2464043 2465146 R May be involved in LPS biosynthesis. Similar to Xylella fastidiosa hypothetical protein Xf1470 TR:Q9PDA9 (EMBL:AE003977) (376 aa) fasta scores: E(): 7e-29, 44.41% id in 376 aa, and to Rhizobium meliloti lipopolysaccharide core biosynthesis mannosyltransferase LpsB or r01572 or smc01219 SW:LPSB_RHIME (Q9R9N2) (351 aa) fasta scores: E(): 3.2e-13, 29.64% id in 280 aa; transferase complement(2464043..2465146) Bordetella pertussis Tohama I 2666701 NP_880970.1 CDS dnaE NC_002929.2 2465146 2468637 R catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase; DNA polymerase III subunit alpha complement(2465146..2468637) Bordetella pertussis Tohama I 2666707 NP_880971.1 CDS BP2333 NC_002929.2 2468748 2469674 D Similar to Xylella fastidiosa aspartyl/asparaginyl beta-hydroxylase xf2100 TR:Q9PBP0 (EMBL:AE004025) (301 aa) fasta scores: E(): 2.1e-76, 57.33% id in 300 aa, and to Salmonella typhimurium, and dioxygenase LpxO or PagQ TR:Q9KGX6 (EMBL:AF279438) (302 aa) fasta scores: E(): 2.4e-69, 55.67% id in 291 aa; dioxygenase 2468748..2469674 Bordetella pertussis Tohama I 2666708 NP_880972.1 CDS BP2334 NC_002929.2 2469806 2473690 R Similar to Pseudomonas aeruginosa probable ATP-dependent helicase pa3297 TR:Q9HYU6 (EMBL:AE004752) (1326 aa) fasta scores: E(): 1.4e-181, 47.69% id in 1325 aa, and to Escherichia coli ATP-dependent helicase HrpA or b1413 SW:HRPA_ECOLI (P43329) (1300 aa) fasta scores: E(): 2.5e-85, 46.11% id in 1275 aa; ATP-dependent helicase complement(2469806..2473690) Bordetella pertussis Tohama I 2666709 NP_880973.1 CDS argA NC_002929.2 2473823 2475226 D catalyzes the formation of N-acetyl-L-glutamate from L-glutamate and acetyl-CoA in arginine biosynthesis; N-acetylglutamate synthase 2473823..2475226 Bordetella pertussis Tohama I 2666702 NP_880974.1 CDS BP2336 NC_002929.2 2475300 2475572 D Similar to Neisseria meningitidis (serogroup A), and hypothetical protein nma0419 or nmb2021 TR:Q9JQP5 (EMBL:AL162753) (88 aa) fasta scores: E(): 2.2e-19, 60.92% id in 87 aa, and to Escherichia coli, and protein YggX or b2962 or z4307 or ecs3838 SW:YGGX_ECOLI (P52065) (90 aa) fasta scores: E(): 1.2e-15, 54.65% id in 86 aa; hypothetical protein 2475300..2475572 Bordetella pertussis Tohama I 2666703 NP_880975.1 CDS BP2337 NC_002929.2 2475626 2477506 D Similar to Pseudomonas aeruginosa non-hemolytic phospholipase C precursor PlcN or pa3319 SW:PHLN_PSEAE (P15713) (692 aa) fasta scores: E(): 1.9e-64, 45.1% id in 674 aa; phospholipase 2475626..2477506 Bordetella pertussis Tohama I 2666704 NP_880976.1 CDS BP2338 NC_002929.2 2477520 2478326 R Similar to proteins thought to be involved in phosphate transport eg. Pseudomonas putida phosphate transport system protein PhoU SW:PHOU_PSEPU (Q9Z410) (256 aa) fasta scores: E(): 6.3e-38, 46.98% id in 249 aa, and to Escherichia coli phosphate transport system protein PhoU or nmpa or b3724 SW:PHOU_ECOLI (P07656) (241 aa) fasta scores: E(): 2.3e-29, 40.92% id in 237 aa; transporter complement(2477520..2478326) Bordetella pertussis Tohama I 2666705 NP_880977.1 CDS rpiA NC_002929.2 2478454 2479134 R Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway; ribose-5-phosphate isomerase A complement(2478454..2479134) Bordetella pertussis Tohama I 2666706 NP_880978.1 CDS BP2340 NC_002929.2 2479188 2480846 R Similar to Escherichia coli AidB protein or b4187 SW:AIDB_ECOLI (P33224) (541 aa) fasta scores: E(): 2.3e-87, 48% id in 550 aa; acyl-CoA dehydrogenase complement(2479188..2480846) Bordetella pertussis Tohama I 2665569 NP_880979.1 CDS BP2341 NC_002929.2 2480926 2482287 R Similar to Xylella fastidiosa hypothetical protein Xf0413 TR:Q9PG89 (EMBL:AE003892) (456 aa) fasta scores: E(): 1.9e-67, 50.8% id in 437 aa, and to Streptococcus pyogenes hypothetical protein Spy0266 TR:Q9A1H6 (EMBL:AE006493) (423 aa) fasta scores: E(): 1.6e-44, 41.83% id in 392 aa; lipoprotein complement(2480926..2482287) Bordetella pertussis Tohama I 2665570 NP_880980.1 CDS BP2342 NC_002929.2 2482467 2483126 D Weakly similar to Escherichia coli O157:H7 EDL933 hypothetical protein YrbL TR:AAG58341 (EMBL:AE005548) (210 aa) fasta scores: E(): 0.023, 26.57% id in 207 aa. Also similar to BP3672, 45.673% identity (47.500% ungapped) in 208 aa overlap.; hypothetical protein 2482467..2483126 Bordetella pertussis Tohama I 2665571 NP_880981.1 CDS BP2343 NC_002929.2 2483134 2483850 R responsible for recognizing base lesions in the genome and initiating base excision DNA repair; 3-methyladenine DNA glycosylase complement(2483134..2483850) Bordetella pertussis Tohama I 2665572 NP_880982.1 CDS BP2344 NC_002929.2 2483855 2484211 R Similar to many eg. Xylella fastidiosa hypothetical protein Xf0115 TR:Q9PH31 (EMBL:AE003865) (124 aa) fasta scores: E(): 1.9e-19, 49.12% id in 114 aa, and to Rhizobium meliloti hypothetical protein Smc00386 TR:CAC41743 (EMBL:AL591783) (116 aa) fasta scores: E(): 8.8e-13, 37.71% id in 114 aa; hypothetical protein complement(2483855..2484211) Bordetella pertussis Tohama I 2665573 NP_880983.1 CDS BP2345 NC_002929.2 2484208 2485017 R Similar to Escherichia coli putrescine transport system permease PotI or b0857 SW:POTI_ECOLI (P31136) (281 aa) fasta scores: E(): 3.6e-58, 59.14% id in 257 aa, and to Neisseria meningitidis polyamine permease inner membrane protein NMA0818 TR:Q9JVJ1 (EMBL:AL162754) (295 aa) fasta scores: E(): 2.7e-55, 54.78% id in 261 aa; inner membrane permease polyamine transport protein complement(2484208..2485017) Bordetella pertussis Tohama I 2665574 NP_880984.1 CDS BP2346 NC_002929.2 2485014 2485928 R Similar to Pseudomonas aeruginosa polyamine transport protein PotH or pa0303 TR:Q9I6I8 (EMBL:AE004468) (293 aa) fasta scores: E(): 1.8e-66, 58.88% id in 287 aa, and to Escherichia coli putrescine transport system permease or b0856 SW:POTH_ECOLI (P31135) (317 aa) fasta scores: E(): 2.9e-65, 56.53% id in 283 aa; inner membrane permease polyamine transport protein complement(2485014..2485928) Bordetella pertussis Tohama I 2666037 NP_880985.1 CDS BP2347 NC_002929.2 2485925 2487052 R Similar to Neisseria meningitidis polyamine permease ATP-binding protein NMA0816 TR:Q9JVJ3 (EMBL:AL162754) (374 aa) fasta scores: E(): 1.1e-73, 55.28% id in 369 aa, and to Escherichia coli putrescine transport ATP-binding protein PotG or b0855 SW:POTG_ECOLI (P31134) (377 aa) fasta scores: E(): 2.5e-67, 52.79% id in 358 aa; polyamine transport ATP-binding protein complement(2485925..2487052) Bordetella pertussis Tohama I 2666038 NP_880986.1 CDS BP2348 NC_002929.2 2487059 2488162 R Similar to Escherichia coli O157:H7 periplasmic putrescine-binding permease ecs0934 TR:BAB34357 (EMBL:AP002553) (370 aa) fasta scores: E(): 2.2e-71, 49.17% id in 362 aa, and to Escherichia coli putrescine-binding periplasmic protein precursor PotF or b0854 SW:POTF_ECOLI (P31133) (370 aa) fasta scores: E(): 5.3e-71, 48.89% id in 362 aa; putrescine ABC transporter complement(2487059..2488162) Bordetella pertussis Tohama I 2665430 NP_880987.1 CDS BP2349 NC_002929.2 2488294 2489028 R catalyzes the phosphorylation of 3-deoxy-D-manno-octulosonic acid at the 4-OH position; 3-deoxy-D-manno-octulosonic-acid kinase complement(2488294..2489028) Bordetella pertussis Tohama I 2665431 NP_880988.1 CDS BP2350 NC_002929.2 2489018 2489443 R Similar to Burkholderia pseudomallei globin TR:AAK38159 (EMBL:AY030274) (170 aa) fasta scores: E(): 7.6e-35, 60% id in 140 aa, and to Mycobacterium tuberculosis, and hemoglobin-like protein Hbo GlbO or Rv2470 or Mt2546 or Mtv008.26 TR:AAK46846 (EMBL:AL021246) (134 aa) fasta scores: E(): 3.3e-09, 41.34% id in 104 aa; globin-like protein complement(2489018..2489443) Bordetella pertussis Tohama I 2665432 NP_880989.1 CDS BP2351 NC_002929.2 2489443 2491986 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2858 TR:Q9HZY6 (EMBL:AE004712) (830 aa) fasta scores: E(): 7.8e-109, 42.34% id in 836 aa; inner membrane transport permease complement(2489443..2491986) Bordetella pertussis Tohama I 2665433 NP_880990.1 CDS BP2352 NC_002929.2 2492101 2493075 D Similar to Rhizobium meliloti C4-dicarboxylate transport system, C4-dicarboxylate-binding protein precursor signal peptide Smb21438 TR:CAC49667 (EMBL:AL603646) (332 aa) fasta scores: E(): 9.2e-37, 36.19% id in 315 aa, and to Escherichia coli ABC transporter periplasmic binding protein YiaO precursor or b3579 SW:YIAO_ECOLI (P37676) (328 aa) fasta scores: E(): 5.1e-33, 35.43% id in 302 aa; C4-dicarboxylate ABC transporter substrate-binding protein 2492101..2493075 Bordetella pertussis Tohama I 2665434 NP_880991.1 CDS BP2353 NC_002929.2 2493161 2493661 D Similar to Bacillus halodurans c4-dicarboxylate transport system Bh0702 TR:Q9KEZ7 (EMBL:AP001509) (177 aa) fasta scores: E(): 1.8e-08, 29.16% id in 144 aa, and to Rhizobium meliloti permease Bmb20296 TR:CAC48686 (EMBL:AL603642) (172 aa) fasta scores: E(): 4.4e-07, 27.77% id in 144 aa; inner membrane transport protein 2493161..2493661 Bordetella pertussis Tohama I 2665435 NP_880992.1 CDS BP2354 NC_002929.2 2493702 2494979 D Similar to Bacillus halodurans C4-dicarboxylate transport system Bh2671 TR:Q9K9H6 (EMBL:AP001516) (426 aa) fasta scores: E(): 2.1e-63, 43.26% id in 416 aa, and to Pseudomonas aeruginosa probable C4-dicarboxylate transporter Pa5169 TR:Q9HU16 (EMBL:AE004929) (427 aa) fasta scores: E(): 2.8e-59, 42.92% id in 417 aa; hypothetical protein 2493702..2494979 Bordetella pertussis Tohama I 2665436 NP_880993.1 CDS BP2355 NC_002929.2 2495078 2496028 D transposase for IS481 element; transposase 2495078..2496028 Bordetella pertussis Tohama I 2665437 NP_880994.1 CDS gltA NC_002929.2 2497246 2498556 R type II enzyme; in Escherichia coli this enzyme forms a trimer of dimers which is allosterically inhibited by NADH and competitively inhibited by alpha-ketoglutarate; allosteric inhibition is lost when Cys206 is chemically modified which also affects hexamer formation; forms oxaloacetate and acetyl-CoA and water from citrate and coenzyme A; functions in TCA cycle, glyoxylate cycle and respiration; enzyme from Helicobacter pylori is not inhibited by NADH; type II citrate synthase complement(2497246..2498556) Bordetella pertussis Tohama I 2665439 NP_880995.1 CDS BP2359 NC_002929.2 2498577 2498837 R Similar to many eg. Pseudomonas aeruginosa hypothetical protein Pa0760 TR:Q9I5G9 (EMBL:AE004511) (84 aa) fasta scores: E(): 5.6e-05, 36.47% id in 85 aa, and to Vibrio cholerae hypothetical protein Vc2471 TR:Q9KPA2 (EMBL:AE004316) (86 aa) fasta scores: E(): 0.00038, 31.64% id in 79 aa; hypothetical protein complement(2498577..2498837) Bordetella pertussis Tohama I 2665440 NP_880996.1 CDS sdhB NC_002929.2 2498863 2499579 R part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase; succinate dehydrogenase iron-sulfur subunit complement(2498863..2499579) Bordetella pertussis Tohama I 2665441 NP_880997.1 CDS sdhA NC_002929.2 2499592 2501370 R part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; succinate dehydrogenase flavoprotein subunit complement(2499592..2501370) Bordetella pertussis Tohama I 2665442 NP_880998.1 CDS sdhD NC_002929.2 2501374 2501757 R Similar to Escherichia coli succinate dehydrogenase hydrophobic membrane anchor protein SdhD or b0722 SW:DHSD_ECOLI (P10445) (115 aa) fasta scores: E(): 1.2e-08, 35.45% id in 110 aa, and to Rhodoferax fermentans fumarate reductase cytochrome b small subunit TR:O83000 (EMBL:AB015757) (121 aa) fasta scores: E(): 4.3e-17, 43.9% id in 123 aa; succinate dehydrogenase hydrophobic membrane anchor protein complement(2501374..2501757) Bordetella pertussis Tohama I 2665443 NP_880999.1 CDS sdhC NC_002929.2 2501757 2502170 R Similar to Escherichia coli, and succinate dehydrogenase cytochrome B-556 subunit SdhC or CybA or b0721 or z0875 or ecs0746 SW:DHSC_ECOLI (P10446) (129 aa) fasta scores: E(): 1.7e-06, 27.27% id in 132 aa, and to Rhodoferax fermentans fumarate reductase cytochrome B large subunit TR:O82999 (EMBL:AB015757) (147 aa) fasta scores: E(): 4e-17, 44.89% id in 147 aa; succinate dehydrogenase cytochrome B subunit complement(2501757..2502170) Bordetella pertussis Tohama I 2665444 NP_881000.1 CDS BP2364 NC_002929.2 2502295 2503113 R Similar to Deinococcus radiodurans transcriptional regulator, GntR family Dra0211 TR:Q9RYU6 (EMBL:AE001863) (279 aa) fasta scores: E(): 2.9e-18, 35.71% id in 238 aa, and to Streptomyces coelicolor GntR-family transcriptional regulator sc7e4.28C TR:Q9K492 (EMBL:AL359214) (254 aa) fasta scores: E(): 2.5e-14, 31.44% id in 229 aa; GntR family transcriptional regulator complement(2502295..2503113) Bordetella pertussis Tohama I 2665657 NP_881001.1 CDS mdH NC_002929.2 2503363 2504352 D catalyzes the oxidation of malate to oxaloacetate; malate dehydrogenase 2503363..2504352 Bordetella pertussis Tohama I 2665658 NP_881002.1 CDS prpC NC_002929.2 2505583 2506785 D catalyzes the synthesis of 2-methylcitrate from propionyl-CoA and oxaloacetate; also catalyzes the condensation of oxaloacetate with acetyl-CoA but with a lower specificity; methylcitrate synthase 2505583..2506785 Bordetella pertussis Tohama I 2665660 NP_881003.2 CDS acnA NC_002929.2 2506904 2509498 D Catalyzes the conversion of citrate to isocitrate; aconitate hydratase 2506904..2509498 Bordetella pertussis Tohama I 2665661 NP_881004.1 CDS BP2370 NC_002929.2 2509555 2510745 D Similar to Alcaligenes eutrophus hypothetical 41.5 kDa protein TR:AAL03991 (EMBL:AF325554) (396 aa) fasta scores: E(): 3.3e-118, 78.28% id in 396 aa, and to Pseudomonas aeruginosa hypothetical protein Pa0793 TR:Q9I5E5 (EMBL:AE004514) (395 aa) fasta scores: E(): 1.8e-110, 71.97% id in 396 aa. Also similar to BP0922, 35.459% identity (36.968% ungapped) in 392 aa overlap.; hypothetical protein 2509555..2510745 Bordetella pertussis Tohama I 2665662 NP_881005.1 CDS prpD NC_002929.2 2510763 2512220 D functions in propionate metabolism; involved in isomerization of (2S,3S)-methylcitrate to (2R,3S)-methylisocitrate; also encodes minor aconitase or dehydratase activity; aconitase C; 2-methylcitrate dehydratase 2510763..2512220 Bordetella pertussis Tohama I 2665663 NP_881006.1 CDS BP2372 NC_002929.2 2512290 2512712 D Similar to Pseudomonas aeruginosa hypothetical protein Pa0661 TR:Q9I5R0 (EMBL:AE004501) (140 aa) fasta scores: E(): 1.2e-26, 49.28% id in 140 aa, and to Neisseria meningitidis conserved hypothetical inner membrane protein NMA2177 TR:Q9JSR1 (EMBL:AL162758) (145 aa) fasta scores: E(): 6.3e-22, 45.2% id in 146 aa; hypothetical protein 2512290..2512712 Bordetella pertussis Tohama I 2665664 NP_881007.1 CDS BP2373 NC_002929.2 2512742 2514133 D Similar to Neisseria meningitidis Tou5 TR:Q9RMM0 (EMBL:AF194079) (380 aa) fasta scores: E(): 1.2e-58, 43.53% id in 379 aa. Also similar to the N-terminal portion of others eg. Escherichia coli hypothetical protein YcbY or b0948 SW:YCBY_ECOLI (P75864) (702 aa) fasta scores: E(): 2.6e-39, 34.36% id in 387 aa. Note possible alternative downstream translational start sites.; hypothetical protein 2512742..2514133 Bordetella pertussis Tohama I 2665665 NP_881008.1 CDS BP2374 NC_002929.2 2514332 2514529 D hypothetical protein 2514332..2514529 Bordetella pertussis Tohama I 2665666 NP_881009.1 CDS BP2376 NC_002929.2 2515257 2516129 D Similar to Caulobacter crescentus hypothetical protein Cc3344 TR:Q9A362 (EMBL:AE005996) (281 aa) fasta scores: E(): 3.3e-64, 58.98% id in 256 aa, and to Rhizobium loti Mll0806 protein Mll0806 TR:Q98LZ6 (EMBL:AP002995) (260 aa) fasta scores: E(): 1.6e-56, 52.84% id in 246 aa; hypothetical protein 2515257..2516129 Bordetella pertussis Tohama I 2665729 NP_881010.1 CDS BP2377 NC_002929.2 2516240 2517931 D Similar to many predicted fatty-acid-CoA ligases eg. Rhizobium meliloti fatty-acid-CoA ligase Smc00741 TR:CAC47210 (EMBL:AL591791) (548 aa) fasta scores: E(): 2.7e-92, 45.38% id in 553 aa; AMP-binding protein 2516240..2517931 Bordetella pertussis Tohama I 2665730 NP_881011.1 CDS BP2378 NC_002929.2 2517943 2518464 D Similar to Caulobacter crescentus bacterial transferase family protein cc2643 TR:Q9A526 (EMBL:AE005932) (176 aa) fasta scores: E(): 2.7e-29, 49.71% id in 173 aa, and to Escherichia coli phenylacetic acid degradation protein PaaY or b1400 SW:PAAY_ECOLI (P77181) (196 aa) fasta scores: E(): 3.6e-19, 41.35% id in 162 aa; transferase 2517943..2518464 Bordetella pertussis Tohama I 2665731 NP_881012.1 CDS BP2379 NC_002929.2 2518514 2519428 D Similar to Escherichia coli, and 33 kDa chaperonin HslO or b3401 or z4755 or ecs4243 SW:HSLO_ECOLI (P45803) (292 aa) fasta scores: E(): 1.1e-18, 36.66% id in 300 aa, and to Pseudomonas aeruginosa 33 kDa chaperonin HslO or pa5193 SW:HSLO_PSEAE (Q9HTZ6) (297 aa) fasta scores: E(): 1.3e-38, 42.61% id in 291 aa; chaperonin 2518514..2519428 Bordetella pertussis Tohama I 2665732 NP_881013.1 CDS BP2380 NC_002929.2 2519505 2520257 D hypothetical protein 2519505..2520257 Bordetella pertussis Tohama I 2665733 NP_881014.1 CDS BP2381 NC_002929.2 2520235 2520636 R Similar to Rhizobium loti Mlr0979 protein TR:Q98LL3 (EMBL:AP002996) (138 aa) fasta scores: E(): 1.7e-09, 36.15% id in 130 aa, and to Agrobacterium tumefaciens strC58 Agr_l_1124p TR:AAK89137 (EMBL:AE008254) (137 aa) fasta scores: E(): 2.2e-09, 39.23% id in 130 aa; hypothetical protein complement(2520235..2520636) Bordetella pertussis Tohama I 2665734 NP_881015.1 CDS BP2382 NC_002929.2 2520661 2521140 R Similar to many eg. Rhizobium loti Mll1641 protein TR:Q98K47 (EMBL:AP002997) (152 aa) fasta scores: E(): 4.1e-24, 46.89% id in 145 aa, and to Streptomyces coelicolor hypothetical 17.3 kDa protein SCC57A.14 TR:Q9RDI4 (EMBL:AL136519) (161 aa) fasta scores: E(): 3.5e-19, 46.66% id in 135 aa. Streptomyces coelicolor appears to contain many paralogues of this protein. Also similar to BP1190, 42.553% identity (42.553% ungapped) in 141 aa overlap.; hypothetical protein complement(2520661..2521140) Bordetella pertussis Tohama I 2665735 NP_881016.1 CDS BP2383 NC_002929.2 2521190 2521945 R Similar to many eg. Rhizobium meliloti hypothetical protein Smb20701 TR:CAC49808 (EMBL:AL603647) (250 aa) fasta scores: E(): 1e-59, 68.67% id in 249 aa, and to Streptomyces coelicolor conserved hypothetical protein SC4B10.09C TR:Q9FC78 (EMBL:AL391515) (248 aa) fasta scores: E(): 6.5e-54, 63% id in 246 aa. Streptomyces coelicolor appears to contain many paralogues of this protein.; hypothetical protein complement(2521190..2521945) Bordetella pertussis Tohama I 2665736 NP_881017.1 CDS BP2384 NC_002929.2 2522144 2523709 D Similar to many from Rhizobium spp., one of which (SW:CYA3_RHIME) lies alongside an adenylate cyclase. It seems possible that many of the Rhizobium spp. proteins have mistakenly been predicted to be adenylate cyclases rather than transcriptional regulators. Similar to Rhizobium meliloti regulatory protein, possibly two-component response regulator smb20702 TR:CAC49809 (EMBL:AL603647) (554 aa) fasta scores: E(): 4.9e-103, 62.43% id in 567 aa and to Rhizobium meliloti adenylate cyclase 3 Cya3 or sma1583 SW:CYA3_RHIME (Q9Z3Q0) (586 aa) fasta scores: E(): 5.1e-38, 35.52% id in 442 aa.; transcriptional regulator 2522144..2523709 Bordetella pertussis Tohama I 2665737 NP_881018.1 CDS ftsB NC_002929.2 2523777 2524133 R forms a complex with FtsL and FtsQ; colocalizes to the septal region of the dividing cell; membrane protein; cell division protein FtsB complement(2523777..2524133) Bordetella pertussis Tohama I 2665738 NP_881019.1 CDS eno NC_002929.2 2524215 2525501 R enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis; phosphopyruvate hydratase complement(2524215..2525501) Bordetella pertussis Tohama I 2665739 NP_881020.1 CDS BP2387 NC_002929.2 2525507 2525791 R Similar to Rhizobium meliloti hypothetical protein Smc00411 TR:CAC41768 (EMBL:AL591783) (95 aa) fasta scores: E(): 8.3e-08, 38.46% id in 91 aa, and to Agrobacterium tumefaciens strC58 Agr_c_513p TR:AAK86112 (EMBL:AE007968) (95 aa) fasta scores: E(): 2.2e-07, 38.46% id in 91 aa; hypothetical protein complement(2525507..2525791) Bordetella pertussis Tohama I 2665740 NP_881021.1 CDS kdsA NC_002929.2 2525801 2526658 R catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis; 2-dehydro-3-deoxyphosphooctonate aldolase complement(2525801..2526658) Bordetella pertussis Tohama I 2665741 NP_881022.1 CDS pyrG NC_002929.2 2526655 2528307 R CTP synthase; 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; CTP synthetase complement(2526655..2528307) Bordetella pertussis Tohama I 2665742 NP_881023.1 CDS BP2390 NC_002929.2 2528389 2529339 R transposase for IS481 element; transposase complement(2528389..2529339) Bordetella pertussis Tohama I 2665482 NP_881024.1 CDS BP2391 NC_002929.2 2529572 2531371 R Similar to many (pro- and eukaryotic) eg. Neisseria meningitidis aminopeptidase, nmb1428 TR:Q9JYU4 (EMBL:AE002492) (598 aa) fasta scores: E(): 4.4e-121, 53.83% id in 600 aa, and to Homo sapiens cytosolic aminopeptidase P TR:Q9NQW7 (EMBL:AF272981) (623 aa) fasta scores: E(): 1.6e-37, 38.71% id in 620 aa, and to Mus musculus cytosolic aminopeptidase P TR:AAK48945 (EMBL:AF363970) (623 aa) fasta scores: E(): 4.7e-37, 38.54% id in 620 aa; aminopeptidase complement(2529572..2531371) Bordetella pertussis Tohama I 2665483 NP_881025.1 CDS BP2393 NC_002929.2 2532211 2533359 R Similar to predicted (no evidence) aminopeptidases eg. Rhizobium meliloti D-aminopeptidase sma0095 TR:AAK64706 (EMBL:AE007199) (345 aa) fasta scores: E(): 4.3e-51, 48.29% id in 352 aa, and to Ochrobactrum anthropi D-aminopeptidase DmpA TR:Q59632 (EMBL:X97669) (375 aa) fasta scores: E(): 9.9e-34, 37.7% id in 358 aa; D-aminopeptidase complement(2532211..2533359) Bordetella pertussis Tohama I 2665485 NP_881026.1 CDS BP2394 NC_002929.2 2533377 2534276 R Similar to Escherichia coli hypothetical ABC transporter permease YliD or b0832 SW:YLID_ECOLI (P75799) (303 aa) fasta scores: E(): 1.4e-80, 71.88% id in 281 aa, and to Bacillus firmus dipeptide transport system permease DppC SW:DPPC_BACFI (P94312) (304 aa) fasta scores: E(): 1.6e-45, 45.12% id in 277 aa; binding-protein-dependent transport permease complement(2533377..2534276) Bordetella pertussis Tohama I 2665486 NP_881027.1 CDS BP2395 NC_002929.2 2534284 2535204 R Similar to Escherichia coli hypothetical ABC transporter permease YliC or b0831 SW:YLIC_ECOLI (P75798) (306 aa) fasta scores: E(): 9.4e-92, 76.47% id in 306 aa, and to Bacillus subtilis dipeptide transport system permease DppB or dciaB SW:DPPB_BACSU (P26903) (308 aa) fasta scores: E(): 9.5e-39, 37.25% id in 306 aa; binding-protein-dependent transport permease complement(2534284..2535204) Bordetella pertussis Tohama I 2665487 NP_881028.1 CDS BP2396 NC_002929.2 2535266 2536819 R Similar to Escherichia coli binding protein YliB precursor or b0830 SW:YLIB_ECOLI (P75797) (512 aa) fasta scores: E(): 1.3e-117, 57.17% id in 516 aa, and to Escherichia coli periplasmic dipeptide transport protein precursor DppA or b3544 SW:DPPA_ECOLI (P23847) (535 aa) fasta scores: E(): 2e-32, 30.54% id in 537 aa; peptide ABC transporter substrate-binding protein complement(2535266..2536819) Bordetella pertussis Tohama I 2665488 NP_881029.1 CDS BP2397 NC_002929.2 2536890 2538791 R Similar to Agrobacterium tumefaciens strC58 Agr_l_685p TR:AAK88917 (EMBL:AE008234) (606 aa) fasta scores: E(): 3.4e-108, 55.39% id in 621 aa, and to Escherichia coli hypothetical ABC transporter ATP-binding protein YliA or b0829 SW:YLIA_ECOLI (P75796) (629 aa) fasta scores: E(): 5.9e-70, 66.98% id in 621 aa; ABC transporter ATP-binding protein complement(2536890..2538791) Bordetella pertussis Tohama I 2665489 NP_881030.1 CDS BP2398 NC_002929.2 2538836 2539816 R Similar to Vibrio cholerae asparaginase, vc2603 TR:Q9KNX7 (EMBL:AE004327) (326 aa) fasta scores: E(): 4.2e-47, 48.75% id in 320 aa, and to Lupinus luteus L-asparaginase SW:ASPG_LUPLU (Q9ZSD6) (325 aa) fasta scores: E(): 9.7e-40, 42.99% id in 307 aa; L-asparaginase complement(2538836..2539816) Bordetella pertussis Tohama I 2665490 NP_881031.1 CDS BP2399 NC_002929.2 2539813 2540697 R Similar to Clostridium acetobutylicum transcriptional regulators, RpiR family cac1850 TR:Q97I06 (EMBL:AE007693) (293 aa) fasta scores: E(): 1.3e-17, 33.46% id in 263 aa; transcriptional regulator complement(2539813..2540697) Bordetella pertussis Tohama I 2665491 NP_881032.1 CDS BP2400 NC_002929.2 2540921 2541574 R Similar to Deinococcus radiodurans CoA transferase, subunit B dra0067 TR:Q9RZ87 (EMBL:AE001862) (209 aa) fasta scores: E(): 6.4e-61, 80.09% id in 211 aa, and to Helicobacter pylori succinyl-coa:3-ketoacid-coenzyme A transferase subunit B ScoB or hp0692 SW:SCOB_HELPY (P56007) (207 aa) fasta scores: E(): 2.8e-44, 60.76% id in 209 aa. Also similar to BP1789 (46.667% identity in 210 aa overlap), and to BP222 (49.756% identity in 205 aa overlap).; coenzyme A transferase subunit complement(2540921..2541574) Bordetella pertussis Tohama I 2665492 NP_881033.1 CDS BP2402 NC_002929.2 2542388 2542837 R Similar to Pseudomonas aeruginosa hypothetical protein Pa2801 TR:Q9I042 (EMBL:AE004707) (134 aa) fasta scores: E(): 4.8e-12, 36.97% id in 119 aa; hypothetical protein complement(2542388..2542837) Bordetella pertussis Tohama I 2667270 NP_881034.1 CDS BP2403 NC_002929.2 2542965 2544593 D Similar to many eg. Pseudomonas aeruginosa electron transfer flavoprotein-ubiquinone oxidoreductase Pa2953 TR:Q9HZP5 (EMBL:AE004721) (551 aa) fasta scores: E(): 1.7e-137, 61.9% id in 546 aa, and to Homo sapiens electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial precursor EtfdH SW:ETFD_HUMAN (Q16134) (617 aa) fasta scores: E(): 4.5e-83, 55.43% id in 552 aa; electron transfer flavoprotein-ubiquinone oxidoreductase 2542965..2544593 Bordetella pertussis Tohama I 2667271 NP_881035.1 CDS BP2404 NC_002929.2 2544691 2545575 D Similar to Pseudomonas aeruginosa hypothetical protein Pa5343 TR:Q9HTL5 (EMBL:AE004946) (283 aa) fasta scores: E(): 2.3e-30, 42.6% id in 284 aa, and to Escherichia coli, and protein YeeZ precursor or b2016 or z3178 or ecs2818 SW:YEEZ_ECOLI (P76370) (274 aa) fasta scores: E(): 2.4e-13, 32.5% id in 283 aa; hypothetical protein 2544691..2545575 Bordetella pertussis Tohama I 2667272 NP_881036.1 CDS BP2405 NC_002929.2 2545572 2546720 D Similar to Streptomyces galilaeus AknT TR:Q9L4U5 (EMBL:AF264025) (443 aa) fasta scores: E(): 0.0076, 28.02% id in 389 aa, and to Rhodococcus fascians cytochrome p450 Fas1 or cyp105e1 SW:FAS1_RHOFA (P46373) (399 aa) fasta scores: E(): 0.48, 23.63% id in 402 aa; cytochrome p450 oxidoreductase 2545572..2546720 Bordetella pertussis Tohama I 2667273 NP_881037.1 CDS BP2406 NC_002929.2 2546717 2547079 D Similar to Rhizobium loti Mll4602 protein TR:Q98DQ1 (EMBL:AP003004) (114 aa) fasta scores: E(): 9.8e-29, 69.36% id in 111 aa; hypothetical protein 2546717..2547079 Bordetella pertussis Tohama I 2667274 NP_881038.1 CDS ltaE NC_002929.2 2547093 2548112 R Similar to Escherichia coli low-specificity L-threonine aldolase LtaE or b0870 SWALL:LTAE_ECOLI (SWALL:P75823) (333 aa) fasta scores: E(): 8.3e-65, 55.49% id in 337 aa, and to Pseudomonas aeruginosa L-allo-threonine aldolase Gly1 or pa0902 SWALL:O50178 (EMBL:AF011922) (334 aa) fasta scores: E(): 2e-69, 61.81% id in 330 aa; low-specificity L-threonine aldolase complement(2547093..2548112) Bordetella pertussis Tohama I 2667275 NP_881039.1 CDS BP2408 NC_002929.2 2548134 2549024 R Similar to several including: Escherichia coli O157:H7 EDL933 hypothetical protein YijE TR:AAG59144 (EMBL:AE005625) (312 aa) fasta scores: E(): 5.7e-41, 44.01% id in 284 aa and to Escherichia coli hypothetical protein YijE or b3943 SW:YIJE_ECOLI (P32667) (301 aa) fasta scores: E(): 9.6e-41, 44.01% id in 284 aa; hypothetical protein complement(2548134..2549024) Bordetella pertussis Tohama I 2667276 NP_881040.1 CDS BP2409 NC_002929.2 2549170 2551149 R Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA; acetyl-CoA synthetase complement(2549170..2551149) Bordetella pertussis Tohama I 2667277 NP_881041.1 CDS BP2411 NC_002929.2 2552696 2553103 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5352 pa5352 TR:Q9HTK6 (EMBL:AE004947) (133 aa) fasta scores: E(): 4.8e-26, 60.9% id in 133 aa, and to Escherichia coli protein glcg glcg or b2977 SW:GLCG_ECOLI (P45504) (134 aa) fasta scores: E(): 8.9e-24, 56.39% id in 133 aa; hypothetical protein complement(2552696..2553103) Bordetella pertussis Tohama I 2666738 NP_881042.1 CDS BP2413 NC_002929.2 2555224 2555883 D Similar in parts to several including: Neisseria meningitidis outer membrane protein precursor Gna2001 TR:Q9JPN8 (EMBL:AF226471) (251 aa) fasta scores: E(): 2.1e-23, 44.37% id in 160 aa and to Xylella fastidiosa hypothetical protein Xf0653 TR:Q9PFK4 (EMBL:AE003909) (212 aa) fasta scores: E(): 1.5e-19, 47.93% id in 121 aa; lipoprotein 2555224..2555883 Bordetella pertussis Tohama I 2666742 NP_881043.1 CDS BP2414 NC_002929.2 2555988 2556329 R Similar to Campylobacter jejuni hypothetical protein Cj1384C TR:Q9PMR6 (EMBL:AL139078) (104 aa) fasta scores: E(): 0.0014, 30.58% id in 85 aa and to Clostridium acetobutylicum predicted diverged chey-domain Cac1602 TR:Q97IN8 (EMBL:AE007670) (103 aa) fasta scores: E(): 1.4e-07, 34.06% id in 91 aa; hypothetical protein complement(2555988..2556329) Bordetella pertussis Tohama I 2666743 NP_881044.1 CDS BP2415 NC_002929.2 2556638 2557588 D transposase for IS481 element; transposase 2556638..2557588 Bordetella pertussis Tohama I 2666744 NP_881045.1 CDS BP2416 NC_002929.2 2557585 2558538 R Similar to several LysR-family transcriptional regulators including: Pseudomonas aeruginosa CysB or pa1754 TR:O05926 (EMBL:U95379) (324 aa) fasta scores: E(): 1.6e-49, 46.45% id in 310 aa and to Salmonella typhimurium cys regulon transcriptional activator CysB or Stm1713 SW:CYSB_SALTY (P06614) (324 aa) fasta scores: E(): 6.7e-49, 45.68% id in 313 aa; transcriptional regulator CysB-like protein complement(2557585..2558538) Bordetella pertussis Tohama I 2666745 NP_881046.1 CDS BP2417 NC_002929.2 2558638 2560104 R Highly similar to Eukaryotic methylmalonate semi-aldehyde dehydrogenases. Note as you would expect the predicted product of this CDS lacks the N-terminal Mitochondrial targeting signal sequence possessed by the Eukaryotic proteins. Similar to Arabidopsis thaliana methylmalonate semi-aldehyde dehydrogenase At2g14170 TR:Q9SI43 (EMBL:AC007197) (607 aa) fasta scores: E(): 4.5e-113, 56.87% id in 487 aa and to Homo sapiens methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor MmsdH SW:MMSA_HUMAN (Q02252) (535 aa) fasta scores: E(): 1.6e-110, 55.27% id in 474 aa. Also similar to prokaryotic dehydrogenases inculding: Pseudomonas aeruginosa probable aldehyde dehydrogenase Pa0747 TR:Q9I5I2 (EMBL:AE004509) (502 aa) fasta scores: E(): 4.4e-102, 53.13% id in 495 aa; oxidoreductase complement(2558638..2560104) Bordetella pertussis Tohama I 2666746 NP_881047.1 CDS BP2418 NC_002929.2 2560217 2561434 R Similar to many members of the ABC family of transport proteins incuding: Rhizobium meliloti periplasmic binding ABC transporter protein Smc03121 TR:CAC47551 (EMBL:AL591792) (401 aa) fasta scores: E(): 3.7e-75, 50.5% id in 394 aa and to Azoarcus evansii substrate binding protein TR:AAL02070 (EMBL:AF320253) (391 aa) fasta scores: E(): 1.5e-13, 25.26% id in 372 aa; ABC transporter substrate-binding protein complement(2560217..2561434) Bordetella pertussis Tohama I 2666747 NP_881048.1 CDS BP2419 NC_002929.2 2561574 2562494 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa3711 SWALL:Q9HXT0 (EMBL:AE004790) (301 aa) fasta scores: E(): 7.6e-46, 43.37% id in 302 aa, and to Rhizobium meliloti transcription regulator protein R02971 or Smc03122 SWALL:Q92LQ9 (EMBL:AL591792) (315 aa) fasta scores: E(): 2.4e-42, 39.93% id in 303 aa; LysR family transcriptional regulator 2561574..2562494 Bordetella pertussis Tohama I 2666748 NP_881049.1 CDS BP2420 NC_002929.2 2562491 2563603 R Similar to Neisseria meningitidis hypothetical protein Nmb1570 TR:Q9JYI6 (EMBL:AE002507) (371 aa) fasta scores: E(): 1.6e-33, 32.86% id in 359 aa and to Neisseria meningitidis conserved integral membrane hypothetical protein Nma1759 TR:Q9JTI7 (EMBL:AL162757) (371 aa) fasta scores: E(): 2.1e-33, 32.78% id in 363 aa; hypothetical protein complement(2562491..2563603) Bordetella pertussis Tohama I 2666749 NP_881050.1 CDS pepA NC_002929.2 2563657 2565156 D catalyzes the removal of N-terminal amino acids preferably leucine from various peptides; leucyl aminopeptidase 2563657..2565156 Bordetella pertussis Tohama I 2666733 NP_881051.1 CDS BP2422 NC_002929.2 2565174 2565629 D Similar to Rhizobium meliloti hypothetical protein Smc00586 TR:CAC45735 (EMBL:AL591786) (149 aa) fasta scores: E(): 8.8e-06, 29.8% id in 151 aa and weakly to Escherichia coli DNA polymerase III, chi subunit HolC or b4259 SW:HOLC_ECOLI (P28905) (147 aa) fasta scores: E(): 0.00013, 26.24% id in 141 aa; hypothetical protein 2565174..2565629 Bordetella pertussis Tohama I 2666734 NP_881052.1 CDS BP2423 NC_002929.2 2565660 2565986 D no significant database hits; hypothetical protein 2565660..2565986 Bordetella pertussis Tohama I 2666735 NP_881053.1 CDS BP2424 NC_002929.2 2566085 2566795 D Similar to several including: Escherichia coli hypothetical protein YccA or b0970 SW:YCCA_ECOLI (P06967) (219 aa) fasta scores: E(): 3.5e-22, 42.38% id in 210 aa and to Escherichia coli O157:H7 carrier/transport protein Ecs1054 TR:BAB34477 (EMBL:AP002554) (219 aa) fasta scores: E(): 4.6e-22, 42.38% id in 210 aa; hypothetical protein 2566085..2566795 Bordetella pertussis Tohama I 2666736 NP_881054.1 CDS BP2425 NC_002929.2 2566977 2567930 D Similar in parts to Rhizobium meliloti hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 3.2e-45, 43.75% id in 320 aa, and to Alcaligenes eutrophus hypothetical 35.7 kDa protein MacB TR:Q9RBG2 (EMBL:AF130250) (340 aa) fasta scores: E(): 1.4e-36, 38.65% id in 313 aa; hypothetical protein 2566977..2567930 Bordetella pertussis Tohama I 2665861 NP_881055.1 CDS BP2426 NC_002929.2 2568027 2568896 D Weakly similar to several proteins of undefined function including: Agrobacterium tumefaciens StrC58 TR:AAK90609 (EMBL:AE007893) (335 aa) fasta scores: E(): 5.1e-19, 31.81% id in 286 aa, and to Rhizobium loti Mlr7142 protein TR:Q987A0 (EMBL:AP003011) (349 aa) fasta scores: E(): 1.6e-16, 29.24% id in 277 aa; hypothetical protein 2568027..2568896 Bordetella pertussis Tohama I 2665862 NP_881056.1 CDS BP2428 NC_002929.2 2571046 2571981 R Similar to many LysR-family transcriptional regulators including: Escherichia coli LysR or b2839 SW:LYSR_ECOLI (P03030) (311 aa) fasta scores: E(): 6.5e-21, 31.74% id in 293 aa and to Rhizobium loti Mlr7023 TR:Q987J8 (EMBL:AP003010) (301 aa) fasta scores: E(): 3.9e-17, 29.23% id in 301 aa; LysR family transcriptional regulator complement(2571046..2571981) Bordetella pertussis Tohama I 2665865 NP_881057.1 CDS BP2429 NC_002929.2 2571986 2572573 R Similar to the N-termini of many RecO orthologues involved in recombination repair, including: Vibrio cholerae DNA repair protein RecO or Vc2459 TR:Q9KPB4 (EMBL:AE004316) (241 aa) fasta scores: E(): 2.7e-18, 42.85% id in 161 aa and to Pasteurella multocida DNA repair protein RecO or Pm1867 SW:RECO_PASMU (P57974) (240 aa) fasta scores: E(): 1.8e-17, 45.39% id in 141 aa; hypothetical protein complement(2571986..2572573) Bordetella pertussis Tohama I 2665866 NP_881058.1 CDS era NC_002929.2 2572566 2573456 R Era; Escherichia coli Ras-like protein; Bex; Bacillus Era-complementing segment; essential protein in Escherichia coli that is involved in many cellular processes; GTPase; binds the cell membrane through apparent C-terminal domain; mutants are arrested during the cell cycle; Streptococcus pneumoniae Era binds to RNA and Escherichia coli Era binds 16S rRNA and 30S ribosome; GTP-binding protein Era complement(2572566..2573456) Bordetella pertussis Tohama I 2665867 NP_881059.1 CDS rnc NC_002929.2 2573453 2574223 R cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity; ribonuclease III complement(2573453..2574223) Bordetella pertussis Tohama I 2665868 NP_881060.1 CDS lep NC_002929.2 2574220 2575104 R Previously sequenced Bordetella pertussis leader peptidase Lep TR:Q9RN42 (EMBL:AF188620) (294 aa) fasta scores: E(): 1.9e-121, 100% id in 294 aa. Highly similar to Escherichia coli signal peptidase I LepB or b2568 SW:LEP_ECOLI (P00803) (324 aa) fasta scores: E(): 3.7e-22, 41.81% id in 342 aa, and to; signal peptidase I complement(2574220..2575104) Bordetella pertussis Tohama I 2665869 NP_881061.1 CDS lepA NC_002929.2 2575127 2576920 R binds to the ribosome on the universally-conserved alpha-sarcin loop; GTP-binding protein LepA complement(2575127..2576920) Bordetella pertussis Tohama I 2665494 NP_881062.1 CDS mucD NC_002929.2 2577051 2578538 R Similar to Pseudomonas aeruginosa serine protease MucD or Pa0766 TR:Q57155 (EMBL:U49151) (474 aa) fasta scores: E(): 1.4e-63, 45.88% id in 486 aa and to Azotobacter vinelandii MucD TR:Q44476 (EMBL:U30799) (473 aa) fasta scores: E(): 2.4e-47, 37.89% id in 504 aa; serine protease complement(2577051..2578538) Bordetella pertussis Tohama I 2665495 NP_881063.1 CDS mucB NC_002929.2 2578576 2579634 R Similar to many regulators of rpoE/algU which is located upstream, including: Azotobacter vinelandii MucB TR:Q9RCH6 (EMBL:U22660) (317 aa) fasta scores: E(): 4.7e-15, 32.11% id in 327 aa and Escherichia coli sigma-e factor regulatory protein RseB precursor SW:RSEB_ECOLI (P46186) (318 aa) fasta scores: E(): 9.5e-10, 25.32% id in 308 aa; sigma factor regulatory protein complement(2578576..2579634) Bordetella pertussis Tohama I 2665496 NP_881064.1 CDS BP2436 NC_002929.2 2579634 2580143 R no significant database hits; hypothetical protein complement(2579634..2580143) Bordetella pertussis Tohama I 2665497 NP_881065.1 CDS sigE NC_002929.2 2580147 2580746 R Member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; this sigma factor is involved in heat shock and oxidative stress response; RNA polymerase sigma factor RpoE complement(2580147..2580746) Bordetella pertussis Tohama I 2665498 NP_881066.1 CDS BP2438 NC_002929.2 2580743 2581243 R weakly similar to Gallus gallus transport associated protein 2 Tap2 TR:O73903 (EMBL:AL023516) (701 aa) fasta scores: E(): 1.6, 32.21% id in 149 aa and to Streptomyces coelicolor integral membrane protein Sc3c9.20C TR:CAC42759 (EMBL:AL592262) (618 aa) fasta scores: E(): 3.8, 32.94% id in 173 aa; hypothetical protein complement(2580743..2581243) Bordetella pertussis Tohama I 2665499 NP_881067.1 CDS fabF NC_002929.2 2581245 2582474 R FabF; beta-ketoacyl-ACP synthase II, KASII; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP; 3-oxoacyl-ACP synthase complement(2581245..2582474) Bordetella pertussis Tohama I 2665500 NP_881068.1 CDS acpP NC_002929.2 2582664 2582903 R carries the fatty acid chain in fatty acid biosynthesis; acyl carrier protein complement(2582664..2582903) Bordetella pertussis Tohama I 2665501 NP_881069.1 CDS fabG NC_002929.2 2583086 2583838 R Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase complement(2583086..2583838) Bordetella pertussis Tohama I 2666884 NP_881070.1 CDS fabD NC_002929.2 2583840 2584775 R Highly similar to Escherichia coli malonyl CoA-acyl carrier protein transacylase FabD or TfpA or b1092 SW:FABD_ECOLI (P25715) (308 aa) fasta scores: E(): 2.9e-55, 58.36% id in 305 aa and to Salmonella typhimurium malonyl CoA-acyl carrier protein transacylase FabD or Stm1194 SW:FABD_SALTY (O85140) (308 aa) fasta scores: E(): 6.9e-56, 59.01% id in 305 aa; ACP S-malonyltransferase complement(2583840..2584775) Bordetella pertussis Tohama I 2666885 NP_881071.1 CDS fabH NC_002929.2 2584857 2585843 R 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; 3-oxoacyl-ACP synthase complement(2584857..2585843) Bordetella pertussis Tohama I 2666886 NP_881072.1 CDS BP2444 NC_002929.2 2585843 2586901 R involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY; glycerol-3-phosphate acyltransferase PlsX complement(2585843..2586901) Bordetella pertussis Tohama I 2667650 NP_881073.1 CDS rpmF NC_002929.2 2586958 2587140 R some L32 proteins have zinc finger motifs consisting of CXXC while others do not; 50S ribosomal protein L32 complement(2586958..2587140) Bordetella pertussis Tohama I 2667651 NP_881074.1 CDS BP2446 NC_002929.2 2587192 2587785 R Weakly similar to Neisseria meningitidis hypothetical protein Nma0545 TR:Q9JW51 (EMBL:AL162753) (167 aa) fasta scores: E(): 2e-07, 30.38% id in 181 aa and to Escherichia coli hypothetical protein YceD or b1088 or z1727 or Ecs1466 SW:YCED_ECOLI (P14189) (173 aa) fasta scores: E(): 3.7e-07, 39.82% id in 113 aa; hypothetical protein complement(2587192..2587785) Bordetella pertussis Tohama I 2667652 NP_881075.1 CDS maf NC_002929.2 2587894 2588493 D Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 2587894..2588493 Bordetella pertussis Tohama I 2667653 NP_881076.1 CDS BP2448 NC_002929.2 2588490 2589200 D Similar to many including: Neisseria meningitidis hypothetical protein Nmb1908 TR:Q9JXS3 (EMBL:AE002540) (241 aa) fasta scores: E(): 2.4e-36, 47.45% id in 236 aa. Also similar to many proposed methyltransferases e.g. Chlamydia trachomatis SAM-dependent methyltransferase YraL or Ct048 TR:O84051 (EMBL:AE001279) (237 aa) fasta scores: E(): 1.3e-19, 38.75% id in 240 aa; hypothetical protein 2588490..2589200 Bordetella pertussis Tohama I 2667654 NP_881077.1 CDS BP2449 NC_002929.2 2589202 2590029 D Similar to Escherichia coli probable N-acetylmuramoyl-L-alanine amidase YbjR or b0867 SW:YBJR_ECOLI (P75820) (276 aa) fasta scores: E(): 7.3e-29, 43.79% id in 274 aa, and to Caulobacter crescentus N-acetylmuramoyl-L-alanine amidase Cc2567 TR:Q9A590 (EMBL:AE005925) (242 aa) fasta scores: E(): 5.2e-16, 42.55% id in 235 aa; hydrolase 2589202..2590029 Bordetella pertussis Tohama I 2667655 NP_881078.1 CDS BP2451 NC_002929.2 2591846 2593087 R Similar to membrane transport proteins including: Legionella pneumophila transport protein TR:Q9RG52 (EMBL:AF153695) (387 aa) fasta scores: E(): 1.4e-13, 26.82% id in 369 aa, Pseudomonas aeruginosa probable mfs transporter pa3303 TR:Q9HYU1 (EMBL:AE004752) (391 aa) fasta scores: E(): 2.4e-09, 30.33% id in 333 aa and Bacillus subtilis hexuronate transporter exuT SW:EXUT_BACSU (O34456) (422 aa) fasta scores: E(): 1.2e-06, 24.1% id in 419 aa; membrane transport protein complement(2591846..2593087) Bordetella pertussis Tohama I 2667657 NP_881079.1 CDS BP2452 NC_002929.2 2593099 2593872 R Similar to several including: Vibrio cholerae hypothetical protein Vc2355 vc2355 TR:Q9KPL2 (EMBL:AE004305) (257 aa) fasta scores: E(): 1.3e-51, 51.56% id in 256 aa, and to Escherichia coli protein yaaa yaaa or b0006 SW:YAAA_ECOLI (P11288) (258 aa) fasta scores: E(): 2.5e-51, 52.36% id in 254 aa; hypothetical protein complement(2593099..2593872) Bordetella pertussis Tohama I 2667307 NP_881080.1 CDS BP2453 NC_002929.2 2593899 2594849 R transposase for IS481 element; transposase complement(2593899..2594849) Bordetella pertussis Tohama I 2667308 NP_881081.1 CDS BP2454 NC_002929.2 2594948 2595730 R Similar to Alcaligenes eutrophus D-beta-hydroxybutyrate dehydrogenase HbdH1 SW:BDHA_ALCEU (Q9X6U2) (258 aa) fasta scores: E(): 7.9e-57, 63.84% id in 260 aa and to Rhizobium meliloti D-beta-hydroxybutyrate dehydrogenase BdhA or Rb1136 or Smb21010 SW:BDHA_RHIME (O86034) (258 aa) fasta scores: E(): 1e-45, 54.29% id in 256 aa; oxidoreductase complement(2594948..2595730) Bordetella pertussis Tohama I 2667309 NP_881082.1 CDS BP2455 NC_002929.2 2595819 2597045 R Similar to Escherichia coli glutathione-regulated potassium-efflux system protein KefB or TrkB or b3350 SW:KEFB_ECOLI (P45522) (601 aa) fasta scores: E(): 2.2e-55, 45.78% id in 380 aa and to Vibrio cholerae glutathione-regulated potassium-efflux system protein KefB vc2606 TR:Q9KNX4 (EMBL:AE004327) (656 aa) fasta scores: E(): 2.8e-53, 46.25% id in 387 aa; membrane efflux protein complement(2595819..2597045) Bordetella pertussis Tohama I 2667310 NP_881083.1 CDS alcA NC_002929.2 2597771 2599156 D Previously sequenced in Bordetella bronchiseptica alcaligin biosynthesis enzyme AlcA SW:ALCA_BORBR (Q44740) (461 aa) fasta scores: E(): 1.4e-197, 100% id in 461 aa. Also similar to Escherichia coli L-lysine 6-monooxygenase IucD or AerA SW:IUCD_ECOLI (P11295) (425 aa) fasta scores: E(): 2.5e-37, 28.97% id in 428 aa; alcaligin biosynthesis enzyme 2597771..2599156 Bordetella pertussis Tohama I 2665743 NP_881084.1 CDS alcB NC_002929.2 2599175 2599780 D Previously sequenced in Bordetella bronchiseptica AlcB iron siderophore alcaligin biosynthetic protein TR:P94254 (EMBL:U61153) (201 aa) fasta scores: E(): 7.8e-87, 100% id in 201 aa. Also similar to Escherichia coli aerobactin siderophore biosynthesis protein IucB SW:IUCB_ECOLI (Q47317) (315 aa) fasta scores: E(): 1.1e-05, 24.4% id in 168 aa; alcaligin biosynthesis protein 2599175..2599780 Bordetella pertussis Tohama I 2665744 NP_881085.1 CDS alcC NC_002929.2 2599777 2601633 D Previously sequenced in Bordetella bronchiseptica AlcC iron siderophore alcaligin biosynthesis protein TR:P94255 (EMBL:U61153) (618 aa) fasta scores: E(): 0, 99.83% id in 618 aa. Also similar to Echerichia coli aerobactin siderophore biosynthesis protein IucC SW:IUCC_ECOLI (Q47318) (580 aa) fasta scores: E(): 8.9e-46, 28.57% id in 595 aa; alcaligin biosynthesis protein 2599777..2601633 Bordetella pertussis Tohama I 2665745 NP_881086.1 CDS alcD NC_002929.2 2601630 2602430 D Previously sequenced in Bordetella bronchiseptica hypothetical protein AlcD predicted to be involved in the iron siderophore alcaligin biosynthesis TR:O52832 (EMBL:AJ000061) (267 aa) fasta scores: E(): 3.7e-105, 93.63% id in 267 aa; hypothetical protein 2601630..2602430 Bordetella pertussis Tohama I 2665746 NP_881087.1 CDS alcE NC_002929.2 2602445 2603638 D Previously sequenced in Bordetella bronchiseptica AlcE, involved in the iron siderophore alcaligin biosynthesis, TR:O52833 (EMBL:AJ000061) (397 aa) fasta scores: E(): 7.3e-176, 99.74% id in 397 aa. Also similar to BP2804, 71.842% identity in 380 aa overlap.; iron-sulfur protein 2602445..2603638 Bordetella pertussis Tohama I 2665747 NP_881088.1 CDS alcR NC_002929.2 2603706 2604680 D Previously sequenced Bordetella pertussis AlcR the regulator of alcaligin siderophore biosynthesis TR:O52066 (EMBL:AF018255) (324 aa) fasta scores: E(): 3.4e-130, 100% id in 324 aa; transcriptional regulator 2603706..2604680 Bordetella pertussis Tohama I 2665748 NP_881089.1 CDS bcr NC_002929.2 2604803 2606026 D Previously sequenced in Bordetella bronchiseptica Bcr protein TR:O52835 (EMBL:AJ000061) (110 aa) fasta scores: E(): 4.8e-35, 96.36% id in 110 aa. Note the differing C-termini. Also similar to Escherichia coli bicyclomycin resistance protein Bcr or BicR or BicR or Sur or SuxA or b2182 SW:BCR_ECOLI (P28246) (396 aa) fasta scores: E(): 1.1e-25, 29.41% id in 391 aa; drug resistance translocase 2604803..2606026 Bordetella pertussis Tohama I 2665749 NP_881090.1 CDS fauA NC_002929.2 2606137 2608341 D Previously sequenced Bordetella pertussis ferric alcaligin siderophore receptor FauA TR:Q9X6A5 (EMBL:AF135154) (734 aa) fasta scores: E(): 0, 100% id in 734 aa; ferric alcaligin siderophore receptor 2606137..2608341 Bordetella pertussis Tohama I 2667469 NP_881091.1 CDS mar NC_002929.2 2608636 2609295 D Similar to many proteins involved in multiple antibiotic resistance including: Salmonella typhimurium multiple antibiotic resistance protein MarC SW:MARC_SALTY (Q56068) (221 aa) fasta scores: E(): 6.2e-17, 29.68% id in 219 aa and to Escherichia coli multiple antibiotic resistance protein MarC SW:MARC_ECOLI (P31123) (221 aa) fasta scores: E(): 1.5e-16, 30.18% id in 222 aa. Previously sequenced as Bordetella pertussis multiple antibiotic resistance protein Mar TR:Q9X6A6 (EMBL:AF135154) (132 aa) fasta scores: E(): 1.2e-36, 100% id in 111 aa. Note the differing N-termini with the previously reported Bordetella protein.; membrane efflux protein 2608636..2609295 Bordetella pertussis Tohama I 2667470 NP_881092.1 CDS BP2465 NC_002929.2 2609881 2610603 D Database similarities to the predicted product o fthis CDS covers a region defined by the PFAM motif PF00990, GGDEF domain, the function of which is unknown. Similar in parts to several regulators including: Rhizobium meliloti response regulator sma2301 TR:AAK65897 (EMBL:AE007308) (448 aa) fasta scores: E(): 1e-16, 42.16% id in 185 aa, and to Pseudomonas aeruginosa hypothetical protein Pa1107 pa1107 TR:Q9I4M8 (EMBL:AE004541) (398 aa) fasta scores: E(): 1.1e-16, 38.91% id in 185 aa; hypothetical protein 2609881..2610603 Bordetella pertussis Tohama I 2667471 NP_881093.1 CDS BP2466 NC_002929.2 2610619 2610780 R No siginificant database matches; hypothetical protein complement(2610619..2610780) Bordetella pertussis Tohama I 2667472 NP_881094.1 CDS BP2467 NC_002929.2 2610874 2611389 D Weakly similar to Xylella fastidiosa phage-related protein Xf0485 TR:Q9PG17 (EMBL:AE003898) (181 aa) fasta scores: E(): 3e-06, 29.18% id in 185 aa; hypothetical protein 2610874..2611389 Bordetella pertussis Tohama I 2667473 NP_881095.1 CDS vrg-6 NC_002929.2 2611662 2611979 D Previously sequenced Bordetella pertussis virulence related protein, Vrg-6 TR:Q45395 (EMBL:M77374) (105 aa) fasta scores: E(): 4.2e-36, 100% id in 105 aa; virulence protein 2611662..2611979 Bordetella pertussis Tohama I 2667474 NP_881096.1 CDS BP2469 NC_002929.2 2612167 2612511 R no significant database hits; hypothetical protein complement(2612167..2612511) Bordetella pertussis Tohama I 2667475 NP_881097.1 CDS BP2470 NC_002929.2 2612694 2614049 R 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; seryl-tRNA synthetase complement(2612694..2614049) Bordetella pertussis Tohama I 2667476 NP_881098.1 CDS BP2471 NC_002929.2 2614096 2615436 R Similar to Burkholderia solanacearum conserved hypothetical protein Rsc2338 TR:CAD16045 (EMBL:AL646069) (449 aa) fasta scores: E(): 1e-98, 67.92% id in 452 aa, and to Salmonella enterica subspenterica serovar Typhi conserved hypothetical protein Sty0960 TR:CAD05362 (EMBL:AL627268) (447 aa) fasta scores: E(): 8.5e-76, 54.34% id in 449 aa; recombination factor protein RarA complement(2614096..2615436) Bordetella pertussis Tohama I 2667477 NP_881099.1 CDS lolA NC_002929.2 2615538 2616170 R participates with LolB in the incorporation of lipoprotein into the outer membrane; outer-membrane lipoprotein carrier protein complement(2615538..2616170) Bordetella pertussis Tohama I 2666547 NP_881100.1 CDS ftsK NC_002929.2 2616170 2618539 R Similar to many including: Burkholderia solanacearum probable cell division transmembrane protein FtsK TR:CAD16048 (EMBL:AL646069) (781 aa) fasta scores: E(): 1.1e-166, 66.62% id in 785 aa, and to Coxiella burnetii cell division protein FtsK SW:FTSK_COXBU (P39920) (778 aa) fasta scores: E(): 3.8e-125, 47.78% id in 766 aa. Also similar to the C-terminal of Escherichia coli cell division protein Ftsk or b0890 SW:FTSK_ECOLI (P46889) (1329 aa) fasta scores: E(): 5.4e-111, 60.81% id in 541 aa; cell division protein complement(2616170..2618539) Bordetella pertussis Tohama I 2666548 NP_881101.1 CDS trxB NC_002929.2 2618572 2619531 D Similar to Escherichia coli thioredoxin reductase TrxB or b0888 or z1232 or Ecs0973 SW:TRXB_ECOLI (P09625) (320 aa) fasta scores: E(): 1e-84, 71.65% id in 314 aa, and to Vibrio cholerae thioredoxin reductase Vc1182 TR:Q9KSS4 (EMBL:AE004198) (318 aa) fasta scores: E(): 1.9e-90, 73.04% id in 319 aa; thioredoxin reductase 2618572..2619531 Bordetella pertussis Tohama I 2666549 NP_881102.1 CDS BP2475 NC_002929.2 2619518 2620204 D Similar to several including: Xylella fastidiosa hypothetical protein Xf1295 TR:Q9PDT4 (EMBL:AE003963) (180 aa) fasta scores: E(): 1.4e-10, 37.85% id in 177 aa and to Neisseria meningitidis hypothetical protein Nma1237 TR:Q9JUM1 (EMBL:AL162755) (201 aa) fasta scores: E(): 5.3e-08, 31.6% id in 212 aa; hypothetical protein 2619518..2620204 Bordetella pertussis Tohama I 2666550 NP_881103.1 CDS BP2476 NC_002929.2 2620201 2620533 D Similar to Escherichia coli quaternary ammonium compound-resistance protein QacE SW:QACE_ECOLI (Q57225) (110 aa) fasta scores: E(): 1.4e-20, 58.18% id in 110 aa and to Pseudomonas aeruginosa GacE2 protein TR:Q9ZEH0 (EMBL:AJ223604) (110 aa) fasta scores: E(): 3.3e-21, 57.27% id in 110 aa; mebrane transport protein 2620201..2620533 Bordetella pertussis Tohama I 2666551 NP_881104.1 CDS BP2477 NC_002929.2 2620649 2621599 D transposase for IS481 element; transposase 2620649..2621599 Bordetella pertussis Tohama I 2666552 NP_881105.1 CDS BP2478 NC_002929.2 2621596 2623662 R Similar to Aquifex aeolicus Na Ssf or aq_2106 TR:O67873 (EMBL:AE000773) (487 aa) fasta scores: E(): 2e-25, 38.81% id in 572 aa and to Escherichia coli symporter YjcG or b4067 SW:YJCG_ECOLI (P32705) (549 aa) fasta scores: E(): 1.1e-13, 24.57% id in 639 aa; membrane transport protein complement(2621596..2623662) Bordetella pertussis Tohama I 2666553 NP_881106.1 CDS BP2479 NC_002929.2 2623662 2623934 R no significant database hits; hypothetical protein complement(2623662..2623934) Bordetella pertussis Tohama I 2666554 NP_881107.1 CDS kdpA NC_002929.2 2624718 2626502 D catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit A 2624718..2626502 Bordetella pertussis Tohama I 2666555 NP_881108.1 CDS kdpB NC_002929.2 2626526 2628691 D Similar to Escherichia coli potassium-transporting ATPase B chain KdpB or b0697 SW:ATKB_ECOLI (P03960) (682 aa) fasta scores: E(): 5.4e-136, 66.71% id in 694 aa, and to Escherichia coli O157:H7 high-affinity potassium-transporting ATPase B chain Ecs0725 TR:BAB34148 (EMBL:AP002552) (682 aa) fasta scores: E(): 6.2e-136, 66.57% id in 694 aa; potassium-transporting ATPase subunit B 2626526..2628691 Bordetella pertussis Tohama I 2666556 NP_881109.1 CDS kdpC NC_002929.2 2628702 2629301 D One of the components of the high-affinity ATP-driven potassium transport (or KDP)system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions. The C subunit may be involved in assembly of the KDP complex; potassium-transporting ATPase subunit C 2628702..2629301 Bordetella pertussis Tohama I 2666680 NP_881110.1 CDS kdpD NC_002929.2 2629367 2632081 D Similar to Escherichia coli sensor protein KdpD or b0695 SW:KDPD_ECOLI (P21865) (894 aa) fasta scores: E(): 1.2e-68, 46.35% id in 863 aa and to Burkholderia solanacearum probable two-component sensor kinase KdpD transcription regulator protein TR:CAD16882 (EMBL:AL646075) (937 aa) fasta scores: E(): 1.6e-84, 58.87% id in 885 aa; two component sensor protein 2629367..2632081 Bordetella pertussis Tohama I 2666681 NP_881111.1 CDS kdpE NC_002929.2 2632123 2632818 D Similar to Escherichia coli Kdp operon (involved in potassium transport) transcriptional regulatory protein KdpE or b0694 SW:KDPE_ECOLI (P21866) (225 aa) fasta scores: E(): 2.9e-54, 63.8% id in 221 aa and to Escherichia coli O157:H7 EDL933 regulator of Kdp operon KdpE TR:AAG55015 (EMBL:AE005247) (225 aa) fasta scores: E(): 4.5e-54, 63.34% id in 221 aa; two component system transcriptional regulatory protein 2632123..2632818 Bordetella pertussis Tohama I 2666682 NP_881112.1 CDS BP2485 NC_002929.2 2632827 2633777 R transposase for IS481 element; transposase complement(2632827..2633777) Bordetella pertussis Tohama I 2666683 NP_881113.1 CDS BP2486 NC_002929.2 2633876 2635117 R weakly similar to Haemophilus influenzae hypothetical protein Hi0874 SW:Y874_HAEIN (P44067) (399 aa) fasta scores: E(): 1.4e-09, 22.42% id in 223 aa; hypothetical protein complement(2633876..2635117) Bordetella pertussis Tohama I 2666684 NP_881114.1 CDS BP2487 NC_002929.2 2635267 2636268 R Weakly similar to Aquifex aeolicus hypothetical 30.0 kDa protein Aq_362 TR:O66687 (EMBL:AE000686) (265 aa) fasta scores: E(): 1.1e-05, 29.38% id in 211 aa; hypothetical protein complement(2635267..2636268) Bordetella pertussis Tohama I 2666685 NP_881115.1 CDS icd NC_002929.2 2636446 2637702 R Converts isocitrate to alpha ketoglutarate; isocitrate dehydrogenase complement(2636446..2637702) Bordetella pertussis Tohama I 2666686 NP_881116.1 CDS BP2489 NC_002929.2 2637905 2638330 D Similar to Neisseria meningitidis hypothetical protein Nma1720 TR:Q9JTL8 (EMBL:AL162756) (156 aa) fasta scores: E(): 5.3e-17, 40.58% id in 138 aa; hypothetical protein 2637905..2638330 Bordetella pertussis Tohama I 2666687 NP_881117.1 CDS BP2490 NC_002929.2 2638372 2638734 R Similar in parts to many cytochromes including: to Vibrio cholerae cytochrome C554 Vc2241 TR:Q9KPX1 (EMBL:AE004296) (107 aa) fasta scores: E(): 4.7e-06, 41.07% id in 112 aa and to Pseudomonas stutzeri cytochrome C4 precursor Cc4 SW:CYC4_PSEST (Q52369) (210 aa) fasta scores: E(): 2.2e-05, 32.71% id in 107 aa; cytochrome complement(2638372..2638734) Bordetella pertussis Tohama I 2666688 NP_881118.1 CDS BP2491 NC_002929.2 2638747 2639082 R Similar in parts to many cytochromes including: Burkholderia solanacearum periplasmic cytochrome type-C oxidoreductase Srsc0999 TR:CAD14701 (EMBL:AL646062) (115 aa) fasta scores: E(): 3.2e-21, 64.7% id in 102 aa and to Paracoccus sp cytochrome C-554 SW:C554_PARSP (P00105) (83 aa) fasta scores: E(): 3.8e-07, 41.66% id in 84 aa; cytochrome complement(2638747..2639082) Bordetella pertussis Tohama I 2667334 NP_881119.1 CDS BP2492 NC_002929.2 2639267 2640217 D transposase for IS481 element; transposase 2639267..2640217 Bordetella pertussis Tohama I 2667335 NP_881120.1 CDS BP2493 NC_002929.2 2640310 2641197 D Similar to many including: Burkholderia solanacearum conserved hypothetical protein Rsc0998 TR:CAD14700 (EMBL:AL646062) (290 aa) fasta scores: E(): 1.9e-79, 76.4% id in 284 aa, and to Pseudomonas aeruginosa hypothetical protein Pa2707 TR:Q9I0D5 (EMBL:AE004698) (281 aa) fasta scores: E(): 7.7e-74, 71.42% id in 280 aa; ATP-binding protein 2640310..2641197 Bordetella pertussis Tohama I 2666525 NP_881121.1 CDS BP2494 NC_002929.2 2641219 2642391 D highly similar to several including: Rhizobium loti Mlr3961 protein TR:Q98F34 (EMBL:AP003003) (396 aa) fasta scores: E(): 8.7e-89, 57.97% id in 395 aa and to Pseudomonas aeruginosa hypothetical protein Pa2705 TR:Q9I0D7 (EMBL:AE004698) (393 aa) fasta scores: E(): 2.7e-88, 55.58% id in 394 aa; hypothetical protein 2641219..2642391 Bordetella pertussis Tohama I 2666526 NP_881122.1 CDS BP2495 NC_002929.2 2642395 2642937 R Similar to Staphylococcus aureus (strain N315) protein Sa2317 or Sav2529 TR:BAB58691 (EMBL:AP003137) (163 aa) fasta scores: E(): 1.3e-29, 47.53% id in 162 aa, Escherichia coli O157:H7 resistance protein Ecs2052 TR:BAB35475 (EMBL:AP002557) (172 aa) fasta scores: E(): 3.3e-23, 45.28% id in 159 aa and to Rhizobium meliloti acetyltransferase Smc01229 TR:CAC46141 (EMBL:AL591787) (169 aa) fasta scores: E(): 2.4e-22, 43.13% id in 153 aa; hypothetical protein complement(2642395..2642937) Bordetella pertussis Tohama I 2666527 NP_881123.1 CDS BP2496 NC_002929.2 2642975 2643349 R no significant database hits; hypothetical protein complement(2642975..2643349) Bordetella pertussis Tohama I 2666528 NP_881124.1 CDS BP2497 NC_002929.2 2643682 2646432 D Similar to many proposed proteases including: Deinococcus radiodurans protease DR1598 TR:Q9RTZ9 (EMBL:AE002003) (951 aa) fasta scores: E(): 4.7e-130, 42.77% id in 886 aa and to Rhodothermus sp protease PrT TR:Q9ZIG1 (EMBL:AF028721) (300 aa) fasta scores: E(): 1.5e-28, 42.24% id in 258 aa; zinc protease 2643682..2646432 Bordetella pertussis Tohama I 2666529 NP_881125.1 CDS dnaJ NC_002929.2 2646601 2647758 R chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion; molecular chaperone DnaJ complement(2646601..2647758) Bordetella pertussis Tohama I 2666530 NP_881126.1 CDS dnaK NC_002929.2 2647859 2649784 R heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria; molecular chaperone DnaK complement(2647859..2649784) Bordetella pertussis Tohama I 2666522 NP_881127.1 CDS BP2500 NC_002929.2 2649875 2650255 R Weakly similar to several thioredoxins including: Rhodospirillum rubrum thioredoxin TrxA SW:THIO_RHORU (P10473) (104 aa) fasta scores: E(): 0.073, 27.000% id in 100 aa; thioredoxin complement(2649875..2650255) Bordetella pertussis Tohama I 2666523 NP_881128.1 CDS BP2501 NC_002929.2 2650263 2650817 R with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor; heat shock protein GrpE complement(2650263..2650817) Bordetella pertussis Tohama I 2666524 NP_881129.1 CDS BP2502 NC_002929.2 2650959 2651201 R no significant database hits; hypothetical protein complement(2650959..2651201) Bordetella pertussis Tohama I 2665653 NP_881130.1 CDS hemH NC_002929.2 2651283 2652386 R protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic; ferrochelatase complement(2651283..2652386) Bordetella pertussis Tohama I 2665654 NP_881131.1 CDS hrcA NC_002929.2 2652429 2653433 R Negative regulator of class I heat shock genes (grpE-dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons; heat-inducible transcription repressor complement(2652429..2653433) Bordetella pertussis Tohama I 2665655 NP_881132.1 CDS ppnK NC_002929.2 2653548 2654447 D catalyzes the phosphorylation of NAD to NADP; NAD(+)/NADH kinase family protein 2653548..2654447 Bordetella pertussis Tohama I 2665656 NP_881133.1 CDS BP2506 NC_002929.2 2654463 2656124 D Similar to Escherichia coli DNA repair protein RecN or b2616 SW:RECN_ECOLI (P05824) (553 aa) fasta scores: E(): 5.7e-66, 42.754% id in 552 aa; DNA repair protein 2654463..2656124 Bordetella pertussis Tohama I 2665667 NP_881134.1 CDS fur NC_002929.2 2656199 2656618 R Previously sequenced Bordetella pertussis ferric ion uptake regulator Fur TR:Q9S6N2 (EMBL:AJ238308) (104 aa) fasta scores: E(): 2e-38, 100.000% id in 104 aa; ferric ion uptake regulator complement(2656199..2656618) Bordetella pertussis Tohama I 2665668 NP_881135.1 CDS omlA NC_002929.2 2656769 2657317 D Previously sequenced as Bordetella pertussis outer membrane lipoprotein OmlA TR:Q9X6Z0 (EMBL:AJ238308) (182 aa) fasta scores: E(): 1.1e-69, 100.000% id in 182 aa. Also similar to Burkholderia pseudomallei outer membrane lipoprotein OmlA TR:Q9F9X1 (EMBL:AF153356) (133 aa) fasta scores: E(): 5.8e-12, 43.860% id in 114 aa; outer membrane lipoprotein 2656769..2657317 Bordetella pertussis Tohama I 2665669 NP_881136.1 CDS dapB NC_002929.2 2657318 2658127 D catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate reductase 2657318..2658127 Bordetella pertussis Tohama I 2665670 NP_881137.1 CDS murB NC_002929.2 2658164 2659219 R catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis; UDP-N-acetylenolpyruvoylglucosamine reductase complement(2658164..2659219) Bordetella pertussis Tohama I 2665671 NP_881138.1 CDS BP2511 NC_002929.2 2659538 2660329 R Similar to several including: Caulobacter crescentus hydrolase, alpha/beta hydrolase fold family CC2797 TR:Q9A4N3 (EMBL:AE005945) (269 aa) fasta scores: E(): 1.9e-15, 28.782% id in 271 aa; hydrolase complement(2659538..2660329) Bordetella pertussis Tohama I 2665672 NP_881139.1 CDS BP2512 NC_002929.2 2660342 2661778 R Similar to several e.g. Bacillus subtilis hypothetical 47.8 kDa protein YxeQ or lp9I SW:YXEQ_BACSU (P54956) (445 aa) fasta scores: E(): 3.8e-31, 30.588% id in 425 aa; hypothetical protein complement(2660342..2661778) Bordetella pertussis Tohama I 2665673 NP_881140.1 CDS BP2513 NC_002929.2 2661794 2662780 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.2e-42, 38.889% id in 324 aa; hypothetical protein complement(2661794..2662780) Bordetella pertussis Tohama I 2665674 NP_881141.1 CDS purU NC_002929.2 2662818 2663666 R Similar to several including Corynebacterium sp formyltetrahydrofolate deformylase PurU SW:PURU_CORSP (Q46339) (286 aa) fasta scores: E(): 9.7e-50, 46.809% id in 282 aa; formyltetrahydrofolate deformylase complement(2662818..2663666) Bordetella pertussis Tohama I 2665675 NP_881142.1 CDS soxG NC_002929.2 2663667 2664266 R Weakly similar to Rhizobium loti sarcosine oxidase gamma subunit Mlr1276 TR:Q98KX5 (EMBL:AP002997) (195 aa) fasta scores: E(): 0.0011, 27.273% id in 187 aa; sarcosine oxidase subunit gamma complement(2663667..2664266) Bordetella pertussis Tohama I 2665676 NP_881143.1 CDS soxA NC_002929.2 2664274 2667213 R Similar to Rhizobium meliloti sarcosine oxidase alpha subunit SoxA or r00083 or smc02606 SW:SOXA_RHIME (O87386) (987 aa) fasta scores: E(): 5.8e-146, 46.479% id in 994 aa; sarcosine oxidase subunit alpha complement(2664274..2667213) Bordetella pertussis Tohama I 2665677 NP_881144.1 CDS soxD NC_002929.2 2667210 2667482 R Similar to Rhizobium meliloti sarcosine oxidase delta subunit SoxD or r00084 or smc02607 SW:SOXD_RHIME (O87387) (92 aa) fasta scores: E(): 4.4e-14, 52.113% id in 71 aa; sarcosine oxidase subunit delta complement(2667210..2667482) Bordetella pertussis Tohama I 2665678 NP_881145.1 CDS soxB NC_002929.2 2667493 2668746 R Similar to Rhizobium meliloti sarcosine oxidase beta subunit SoxB or r00085 or smc02608 SW:SAOX_RHIME (O87388) (416 aa) fasta scores: E(): 7.9e-109, 64.269% id in 417 aa; sarcosine oxidase subunit beta complement(2667493..2668746) Bordetella pertussis Tohama I 2665679 NP_881146.1 CDS BP2519 NC_002929.2 2669028 2670053 D Similar to many and proven dipeptidases from Prokaryotes and Eukaryotes e.g Rhizobium meliloti dipeptidase Smc03264 TR:CAC47695 (EMBL:AL591792) (336 aa) fasta scores: E(): 7.1e-25, 27.976% id in 336 aa and Mus musculus microsomal dipeptidase precursor Dpep1 SW:MDP1_MOUSE (P31428) (410 aa) fasta scores: E(): 1.5e-15, 30.943% id in 265 aa. Note codon 13 offers an alternative translational start site.; dipeptidase 2669028..2670053 Bordetella pertussis Tohama I 2665680 NP_881147.1 CDS BP2520 NC_002929.2 2670121 2671164 D Similar to many members of the LysR-family of regulatory proteins including: Mycobacterium marinum probable hydrogen peroxide-inducible genes activator OxyR SW:OXYR_MYCMR (O87324) (311 aa) fasta scores: E(): 2.3e-13, 27.899% id in 276 aa and Acinetobacter lwoffii probable cat1 operon transcriptional activator CatR SW:CATR_ACILW (O33945) (303 aa) fasta scores: E(): 3.7e-12, 26.101% id in 318 aa; LysR family transcriptional regulator 2670121..2671164 Bordetella pertussis Tohama I 2665681 NP_881148.1 CDS BP2521 NC_002929.2 2671161 2672189 D Weakly similar to several including: Methanothermus fervidus malate dehydrogenase Mdh SW:MDH_METFE (P16142) (339 aa) fasta scores: E(): 7e-27, 31.212% id in 330 aa; dehydrogenase 2671161..2672189 Bordetella pertussis Tohama I 2666236 NP_881149.1 CDS folD NC_002929.2 2672195 2673070 R Similar to Bacillus subtilis FolD bifunctional protein [includes: methylenetetrahydrofolate dehydrogenase and Methenyltetrahydrofolate cyclohydrolase] FolD SW:FOLD_BACSU (P54382) (283 aa) fasta scores: E(): 5.5e-51, 50.890% id in 281 aa and Haemophilus influenzae FolD bifunctional protein [includes: methylenetetrahydrofolate dehydrogenase SW:FOLD_HAEIN (P44313) (281 aa) fasta scores: E(): 2.6e-50, 53.571% id in 280 aa. Also highly similar to BP0990, 76.241% identity in 282 aa overlap.; bifunctional folylpolyglutamate synthase/dihydrofolate synthase FolC complement(2672195..2673070) Bordetella pertussis Tohama I 2666237 NP_881150.1 CDS BP2523 NC_002929.2 2673074 2674027 R Similar to several proteins of undefined function e.g. Comamonas testosteroni Orf4 protein TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 4.5e-28, 31.975% id in 319 aa; hypothetical protein complement(2673074..2674027) Bordetella pertussis Tohama I 2666238 NP_881151.1 CDS BP2524 NC_002929.2 2674030 2674980 R transposase for IS481 element; transposase complement(2674030..2674980) Bordetella pertussis Tohama I 2666219 NP_881152.1 CDS BP2525 NC_002929.2 2675405 2676250 R hypothetical protein complement(2675405..2676250) Bordetella pertussis Tohama I 2666239 NP_881153.1 CDS BP2526 NC_002929.2 2677861 2679273 R Similar to many proteins associated with secretion and pilus assembly e.g.Pseudomonas aeruginosa fimbrial assembly protein PilQ pa5040 SW:PILQ_PSEAE (P34750) (714 aa) fasta scores: E(): 2.5e-12, 27.110% id in 391 aa, Rhizobium loti probable secretory protein mll0899 TR:Q98LS6 (EMBL:AP002996) (461 aa) fasta scores: E(): 1e-21, 27.845% id in 413 aa and Rhizobium loti pilus assembly protein Mll6479 TR:Q989D0 (EMBL:AP003009) (481 aa) fasta scores: E(): 1.1e-16, 27.660% id in 423 aa. Note codon 18 may offer an alternative translational start site.; secretory apparatus complement(2677861..2679273) Bordetella pertussis Tohama I 2666241 NP_881154.1 CDS BP2527 NC_002929.2 2679270 2680115 R Weakly similar to several e.g. Rhizobium meliloti pilus assembly signal peptide protein TR:CAC41527 (EMBL:AL591782) (269 aa) fasta scores: E(): 0.014, 24.545% id in 220 aa; secretory protein complement(2679270..2680115) Bordetella pertussis Tohama I 2666226 NP_881155.1 CDS BP2528 NC_002929.2 2680112 2680768 R no significant database hits; hypothetical protein complement(2680112..2680768) Bordetella pertussis Tohama I 2666227 NP_881156.1 CDS BP2529 NC_002929.2 2681359 2682675 R no significant database hits; hypothetical protein complement(2681359..2682675) Bordetella pertussis Tohama I 2666229 NP_881157.1 CDS BP2530 NC_002929.2 2682672 2682935 R Similar to the N-terminus of Xylella fastidiosa fimbrial protein xf2542 TR:Q9PAH6 (EMBL:AE004061) (148 aa) fasta scores: E(): 0.68, 36.364% id in 77 aa; hypothetical protein complement(2682672..2682935) Bordetella pertussis Tohama I 2666230 NP_881158.1 CDS ecnB NC_002929.2 2683129 2683260 R Similar to Escherichia coli bacteriolytic toxin entericidin B precursor EcnB or B4147.2 SW:ECNB_ECOLI (P56549) (48 aa) fasta scores: E(): 0.0016, 44.444% id in 45 aa and Citrobacter freundii entericidin B precursor EcnB SW:ECNB_CITFR (P56550) (48 aa) fasta scores: E(): 0.0064, 42.222% id in 45 aa. Note in E. coli ecnB is located next to the anti-toxin ecnA. This is not the situation in B. pertusis. However, B. pertusis possess two possible ecnA paralogues BP0527 and BP2565.; entericidin B-like bacteriolytic toxin complement(2683129..2683260) Bordetella pertussis Tohama I 2666712 NP_881159.1 CDS BP2532 NC_002929.2 2683287 2683982 R Similar to many proteins of unproven function including: Escherichia coli O157:H7 isomerase Ecs3029 TR:BAB36452 (EMBL:AP002560) (233 aa) fasta scores: E(): 1.5e-60, 63.755% id in 229 aa and Caulobacter crescentus fumarylacetoacetate hydrolase family protein cc3567 TR:Q9A2J4 (EMBL:AE006015) (226 aa) fasta scores: E(): 9.1e-47, 54.911% id in 224 aa; hypothetical protein complement(2683287..2683982) Bordetella pertussis Tohama I 2666713 NP_881160.1 CDS ppa NC_002929.2 2684177 2684713 R Highly similar to Escherichia coli inorganic pyrophosphatase Ppa or B4226 SW:IPYR_ECOLI (P17288) (175 aa) fasta scores: E(): 1.1e-42, 65.341% id in 176 aa; inorganic pyrophosphatase complement(2684177..2684713) Bordetella pertussis Tohama I 2666714 NP_881161.1 CDS BP2534 NC_002929.2 2684742 2686337 R Weakly similar to several including: Escherichia coli HemY protein involved in porphyrin biosynthesis SW:HEMY_ECOLI (P09128) (398 aa) fasta scores: E(): 2.6e-09, 24.165% id in 389 aa and Pseudomonas aeruginosa hypothetical protein Pa5257 TR:Q9HTT8 (EMBL:AE004938) (412 aa) fasta scores: E(): 6.1e-14, 29.882% id in 425 aa; hypothetical protein complement(2684742..2686337) Bordetella pertussis Tohama I 2666715 NP_881162.1 CDS BP2535 NC_002929.2 2686341 2687525 R no significant database hits; hypothetical protein complement(2686341..2687525) Bordetella pertussis Tohama I 2666716 NP_881163.1 CDS BP2536 NC_002929.2 2687563 2688351 R Similar to several invloved in porphyrin biosynthesis including: Salmonella typhimurium uroporphyrinogen-III synthase HemD or Stmd1.54 SW:HEM4_SALTY (Q9L6Q3) (246 aa) fasta scores: E(): 2.2e-06, 27.755% id in 245 aa and Escherichia coli uroporphyrinogen-III synthase HemD or b3804 SW:HEM4_ECOLI (P09126) (246 aa) fasta scores: E(): 5.9e-06, 27.236% id in 246 aa; uroporphyrinogen-III synthase complement(2687563..2688351) Bordetella pertussis Tohama I 2666717 NP_881164.1 CDS hemC NC_002929.2 2688384 2689328 R transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis; porphobilinogen deaminase complement(2688384..2689328) Bordetella pertussis Tohama I 2666718 NP_881165.1 CDS BP2538 NC_002929.2 2689447 2690166 R Similar to several e.g. Pseudomonas aeruginosa hypothetical protein Pa1170 TR:Q9I4G7 (EMBL:AE004547) (244 aa) fasta scores: E(): 6.1e-43, 52.790% id in 233 aa. Also similar to BP1646 (69.456% identity in 239 aa), and to BP2539 (46.222% identity in 225 aa); hypothetical protein complement(2689447..2690166) Bordetella pertussis Tohama I 2666719 NP_881166.1 CDS BP2539 NC_002929.2 2690325 2691020 R Similar to Pseudomonas aeruginosa hypothetical protein Pa1170 pa1170 TR:Q9I4G7 (EMBL:AE004547) (244 aa) fasta scores: E(): 1.1e-34, 51.092% id in 229 aa. Also similar to BP2538 (46.222% identity in 225 aa), and to BP1646 45.982% identity in 239 aa.; hypothetical protein complement(2690325..2691020) Bordetella pertussis Tohama I 2666720 NP_881167.1 CDS sucD NC_002929.2 2691296 2692177 R Catalyzes the only substrate-level phosphorylation in the TCA cycle; succinyl-CoA synthetase subunit alpha complement(2691296..2692177) Bordetella pertussis Tohama I 2666721 NP_881168.1 CDS sucC NC_002929.2 2692197 2693357 R catalyzes the interconversion of succinyl-CoA and succinate; succinyl-CoA synthetase subunit beta complement(2692197..2693357) Bordetella pertussis Tohama I 2666045 NP_881169.1 CDS BP2542 NC_002929.2 2693368 2693970 R Similar to Ralstonia solanacearum hypothetical protein Rsc0553 or Rs04912 SWALL:Q8Y1Y4 (EMBL:AL646059) (208 aa) fasta scores: E(): 1.3e-24, 48.14% id in 189 aa; hypothetical protein complement(2693368..2693970) Bordetella pertussis Tohama I 2666046 NP_881170.1 CDS metE NC_002929.2 2694175 2696469 R catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine; 5- methyltetrahydropteroyltriglutamate/homocysteine S-methyltransferase complement(2694175..2696469) Bordetella pertussis Tohama I 2666047 NP_881171.1 CDS metR NC_002929.2 2696631 2697560 D Similar to Pseudomonas putida transcriptional activator MetR TR:Q9AF88 (EMBL:AF363278) (309 aa) fasta scores: E(): 4e-71, 56.863% id in 306 aa, and to Escherichia coli, and transcriptional activator protein MetR SW:METR_ECOLI (P19797) (317 aa) fasta scores: E(): 2.4e-46, 43.607% id in 305 aa; transcriptional regulatory protein 2696631..2697560 Bordetella pertussis Tohama I 2666048 NP_881172.1 CDS recX NC_002929.2 2697635 2698201 R binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities; recombination regulator RecX complement(2697635..2698201) Bordetella pertussis Tohama I 2666049 NP_881173.1 CDS recA NC_002929.2 2698234 2699295 R catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs; recombinase A complement(2698234..2699295) Bordetella pertussis Tohama I 2666050 NP_881174.1 CDS BP2547 NC_002929.2 2699535 2700224 D Similar to many regulatory proteins including: Salmonella typhimurium transcriptional regulatory protein TctD SW:TCTD_SALTY (P22104) (224 aa) fasta scores: E(): 1.8e-36, 50.000% id in 220 aa and Pseudomonas aeruginosa probable two-component response regulator Pa0756 TR:Q9I5H3 (EMBL:AE004510) (223 aa) fasta scores: E(): 2.1e-40, 53.812% id in 223 aa.; two-component response regulatory protein 2699535..2700224 Bordetella pertussis Tohama I 2666053 NP_881175.1 CDS BP2548 NC_002929.2 2700340 2701698 D Similar to several two-component system, histidine kinases e.g. Rhizobium loti Mll7952 TR:Q984L4 (EMBL:AP003013) (452 aa) fasta scores: E(): 1.3e-44, 37.360% id in 447 aa and Salmonella typhi TctE TR:O68289 (EMBL:AF029846) (439 aa) fasta scores: E(): 1.2e-29, 32.576% id in 396 aa; two-component system histidine kinase 2700340..2701698 Bordetella pertussis Tohama I 2666054 NP_881176.1 CDS BP2549 NC_002929.2 2701893 2703569 D Similar to several e.g. Caulobacter crescentus major facilitator family transporter protein Cc0980 TR:Q9A9K0 (EMBL:AE005775) (567 aa) fasta scores: E(): 2.3e-144, 67.956% id in 543 aa; sugar transport protein 2701893..2703569 Bordetella pertussis Tohama I 2666057 NP_881177.1 CDS BP2550 NC_002929.2 2703821 2704615 R Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase complement(2703821..2704615) Bordetella pertussis Tohama I 2667280 NP_881178.1 CDS BP2551 NC_002929.2 2704625 2705689 R Similar to many including: Pseudomonas aeruginosa probable ATP-binding component of ABC transporter Pa0603 TR:Q9I5T5 (EMBL:AE004496) (369 aa) fasta scores: E(): 1.5e-46, 46.006% id in 363 aa and Escherichia coli O157:H7 EDL933 ATP-binding component of a transport system AfuC TR:AAG54709 (EMBL:AE005215) (352 aa) fasta scores: E(): 2.8e-40, 39.589% id in 341 aa; ABC transporter ATP-binding protein complement(2704625..2705689) Bordetella pertussis Tohama I 2667281 NP_881179.1 CDS BP2552 NC_002929.2 2705686 2707437 R Similar to many e.g. Rhizobium loti ABC transport system permease Mll3625 TR:Q98FT7 (EMBL:AP003002) (567 aa) fasta scores: E(): 4e-31, 26.964% id in 560 aa and Streptomyces coelicolor membrane protein Sc10a5.29C TR:O54120 (EMBL:AL021529) (589 aa) fasta scores: E(): 1.4e-40, 32.192% id in 584 aa, and to; ABC transporter substrate-binding protein complement(2705686..2707437) Bordetella pertussis Tohama I 2667282 NP_881180.1 CDS BP2553 NC_002929.2 2707466 2708503 R Weakly similar to several e.g. Rhizobium loti ABC transporter periplasmic substrate-binding protein Mll3626 TR:Q98FT6 (EMBL:AP003002) (328 aa) fasta scores: E(): 3.6e-12, 27.306% id in 271 aa; ABC transporter substrate-binding protein complement(2707466..2708503) Bordetella pertussis Tohama I 2667283 NP_881181.1 CDS fabG NC_002929.2 2708541 2709287 R Similar to Escherichia coli 3-oxoacyl-[acyl-carrier protein] reductase FabG or B1093 SW:FABG_ECOLI (P25716) (244 aa) fasta scores: E(): 3.5e-29, 41.597% id in 238 aa; 3-oxoacyl-ACP reductase complement(2708541..2709287) Bordetella pertussis Tohama I 2667284 NP_881182.1 CDS BP2555 NC_002929.2 2709288 2709731 R Similarover the whole range to proteins of unproven function e.g. Archaeoglobus fulgidus MaoC protein af2313 TR:O27971 (EMBL:AE000944) (151 aa) fasta scores: E(): 1.3e-13, 40.000% id in 130 aa. Similar to the the very C-terminus of Escherichia coli phenylacetic acid degradation protein MaoC SW:MAOC_ECOLI (P77455) (681 aa) fasta scores: E(): 1.6e-08, 35.821% id in 134 aa; hypothetical protein complement(2709288..2709731) Bordetella pertussis Tohama I 2667285 NP_881183.1 CDS BP2556 NC_002929.2 2709732 2710124 R Weakly similar to many proteins of undefined function e.g. Thermoplasma acidophilum hypothetical protein Ta1457 ta1457 TR:Q9HI85 (EMBL:AL445067) (135 aa) fasta scores: E(): 0.018, 25.210% id in 119 aa; hypothetical protein complement(2709732..2710124) Bordetella pertussis Tohama I 2667286 NP_881184.1 CDS BP2557 NC_002929.2 2710132 2711295 R Similar to many e.g. Pseudomonas aeruginosa hypothetical protein Pa1016 TR:Q9I4V7 (EMBL:AE004534) (383 aa) fasta scores: E(): 2.6e-46, 43.669% id in 387 aa; hypothetical protein complement(2710132..2711295) Bordetella pertussis Tohama I 2667287 NP_881185.1 CDS BP2558 NC_002929.2 2711511 2712398 D Similar to many e.g. Escherichia coli, and glycine cleavage system transcriptional activator GcvA or B2808 or Z4125 or Ecs3668 SW:GCVA_ECOLI (P32064) (305 aa) fasta scores: E(): 1.3e-22, 30.208% id in 288 aa; LysR family transcriptional regulator 2711511..2712398 Bordetella pertussis Tohama I 2667288 NP_881186.1 CDS BP2559 NC_002929.2 2712535 2713722 D Similar to many e.g. Escherichia coli hypothetical protein YfdE or B2371 SW:YFDE_ECOLI (P76518) (381 aa) fasta scores: E(): 5.3e-53, 37.333% id in 375 aa; hypothetical protein 2712535..2713722 Bordetella pertussis Tohama I 2665750 NP_881187.1 CDS BP2560 NC_002929.2 2713774 2714190 R no significant database hits; hypothetical protein complement(2713774..2714190) Bordetella pertussis Tohama I 2665751 NP_881188.1 CDS rdgC NC_002929.2 2714344 2715243 D Required for efficient pilin antigenic variation; recombination associated protein 2714344..2715243 Bordetella pertussis Tohama I 2665752 NP_881189.1 CDS pyrB NC_002929.2 2715283 2716578 R catalyzes the conversion of carbamoyl phosphate and aspartate to form N-carbamoyl aspartate; aspartate carbamoyltransferase complement(2715283..2716578) Bordetella pertussis Tohama I 2667336 NP_881190.1 CDS BP2563 NC_002929.2 2716685 2717098 R hypothetical protein complement(2716685..2717098) Bordetella pertussis Tohama I 2667337 NP_881191.1 CDS BP2564 NC_002929.2 2717100 2717534 R no significant database hits; lipoprotein complement(2717100..2717534) Bordetella pertussis Tohama I 2667338 NP_881192.1 CDS ecnA2 NC_002929.2 2717660 2717791 R Similar to many including: Escherichia coli anti-toxin entericidin A precursor EcnaA or B4147.1 SW:ECNA_ECOLI (P56548) (41 aa) fasta scores: E(): 0.29, 44.737% id in 38 aa, Rhizobium meliloti entericidin b signal peptide protein TR:CAC46557 (EMBL:AL591789) (52 aa) fasta scores: E(): 0.035, 48.837% id in 43 aa and Rickettsia conorii hypothetical 6.7 kDa protein Rc1154 TR:AAL03692 (EMBL:AE008664) (64 aa) fasta scores: E(): 0.004, 38.095% id in 42 aa. Note in E. coli ecnA is located next to the bacteriolytic toxin ecnB. This is not the situation in B. pertusis. However, B. pertusis does possess an ecnB orthologue BP2531. B. pertusis also carries a second possible ecnA paralogue, BP0527.; entericidin A anti-toxin complement(2717660..2717791) Bordetella pertussis Tohama I 2667153 NP_881193.1 CDS BP2566 NC_002929.2 2717934 2718707 D Similar to many nucleases e.g. Escherichia coli O157:H7 EDL933 DNA-specific endonuclease I EndA TR:AAG58076 (EMBL:AE005525) (235 aa) fasta scores: E(): 2.4e-39, 47.154% id in 246 aa; endonulease 2717934..2718707 Bordetella pertussis Tohama I 2667154 NP_881194.1 CDS BP2567 NC_002929.2 2718849 2719232 R no significant database hits; hypothetical protein complement(2718849..2719232) Bordetella pertussis Tohama I 2667155 NP_881195.1 CDS BP2568 NC_002929.2 2719919 2720869 R transposase for IS481 element; transposase complement(2719919..2720869) Bordetella pertussis Tohama I 2667156 NP_881196.1 CDS BP2569 NC_002929.2 2721262 2721858 R lipoprotein complement(2721262..2721858) Bordetella pertussis Tohama I 2667157 NP_881197.1 CDS BP2570 NC_002929.2 2722042 2723133 D no significant database hits; hypothetical protein 2722042..2723133 Bordetella pertussis Tohama I 2667158 NP_881198.1 CDS BP2571 NC_002929.2 2723633 2724043 R Similar to in regions to possible DNA-binding domains of several proteins of undefined function e.g. Xylella fastidiosa hypothetical protein Xf0744 xf0744 TR:Q9PFD4 (EMBL:AE003916) (120 aa) fasta scores: E(): 3.5e-22, 66.667% id in 108 aa; transcriptional regulatory protein complement(2723633..2724043) Bordetella pertussis Tohama I 2667159 NP_881199.1 CDS ihfA NC_002929.2 2724102 2724443 R This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control; integration host factor subunit alpha complement(2724102..2724443) Bordetella pertussis Tohama I 2667160 NP_881200.1 CDS pheT NC_002929.2 2724449 2726866 R catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily; phenylalanyl-tRNA synthetase subunit beta complement(2724449..2726866) Bordetella pertussis Tohama I 2667161 NP_881201.2 CDS pheS NC_002929.2 2726879 2727901 R catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a heterotetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 1 subfamily; phenylalanyl-tRNA synthetase subunit alpha complement(2726879..2727901) Bordetella pertussis Tohama I 2666018 NP_881202.1 CDS rplT NC_002929.2 2727976 2728335 R binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit; 50S ribosomal protein L20 complement(2727976..2728335) Bordetella pertussis Tohama I 2666019 NP_881203.1 CDS rpmI NC_002929.2 2728351 2728548 R Similar to Pseudomonas syringae 50s ribosomal protein l35 RpmI SW:RL35_PSESY (P52830) (64 aa) fasta scores: E(): 1.9e-10, 58.065% id in 62 aa and to Neisseria meningitidis (serogroup A) 50s ribosomal protein l35 RpmI or Nma0931 TR:Q9JQN7 (EMBL:AL162754) (65 aa) fasta scores: E(): 1.6e-16, 69.231% id in 65 aa; 50S ribosomal protein L35 complement(2728351..2728548) Bordetella pertussis Tohama I 2666020 NP_881204.1 CDS BP2577 NC_002929.2 2728884 2729834 R transposase for IS481 element; transposase complement(2728884..2729834) Bordetella pertussis Tohama I 2666021 NP_881205.1 CDS dut NC_002929.2 2730029 2730478 D catalyzes the formation of dUMP from dUTP; deoxyuridine 5'-triphosphate nucleotidohydrolase 2730029..2730478 Bordetella pertussis Tohama I 2666022 NP_881206.1 CDS BP2579 NC_002929.2 2730475 2731425 R transposase for IS481 element; transposase complement(2730475..2731425) Bordetella pertussis Tohama I 2666023 NP_881207.1 CDS BP2580 NC_002929.2 2731536 2732984 D Similar to several including: Pseudomonas aeruginosa probable transcriptional regulator Pa2897 TR:Q9HZV0 (EMBL:AE004716) (479 aa) fasta scores: E(): 1e-58, 37.844% id in 473 aa and Escherichia coli O157:H7 regulator Ecs5302 TR:BAB38725 (EMBL:AP002569) (470 aa) fasta scores: E(): 2.4e-53, 35.106% id in 470 aa; GntR family transcriptional regulator 2731536..2732984 Bordetella pertussis Tohama I 2667150 NP_881208.1 CDS BP2581 NC_002929.2 2733099 2733380 R no significant database hits; hypothetical protein complement(2733099..2733380) Bordetella pertussis Tohama I 2667151 NP_881209.1 CDS BP2582 NC_002929.2 2733484 2734434 D transposase for IS481 element; transposase 2733484..2734434 Bordetella pertussis Tohama I 2667152 NP_881210.1 CDS BP2583 NC_002929.2 2734679 2735437 R no significant database hits; hypothetical protein complement(2734679..2735437) Bordetella pertussis Tohama I 2667165 NP_881211.1 CDS BP2585 NC_002929.2 2736037 2736675 R Similar to several members of the DedA-family of membrane proteins e.g. Caulobacter crescentus deda family protein Cc1701 TR:Q9A7M1 (EMBL:AE005844) (205 aa) fasta scores: E(): 2.9e-18, 34.135% id in 208 aa; DedA family integral membrane protein complement(2736037..2736675) Bordetella pertussis Tohama I 2667168 NP_881212.1 CDS BP2586 NC_002929.2 2736784 2737818 D Similar to several including: Pasteurella multocida hypothetical protein Pm0419 TR:Q9CNK9 (EMBL:AE006078) (345 aa) fasta scores: E(): 1.3e-69, 51.604% id in 343 aa, and to Escherichia coli hypothetical protein YbcI or B0527 SW:YBCI_ECOLI (P45570) (173 aa) fasta scores: E(): 0.0012, 31.579% id in 152 aa; hypothetical protein 2736784..2737818 Bordetella pertussis Tohama I 2667169 NP_881213.1 CDS BP2587 NC_002929.2 2737815 2738765 R transposase for IS481 element; transposase complement(2737815..2738765) Bordetella pertussis Tohama I 2665753 NP_881214.1 CDS BP2589 NC_002929.2 2739181 2739705 R no significant database hits; DNA-binding protein complement(2739181..2739705) Bordetella pertussis Tohama I 2665755 NP_881215.1 CDS BP2590 NC_002929.2 2740177 2741238 R Similar to many regulatory proteins e.g. Streptomyces coelicolor LacI-family transcriptional regulator Sce65.21C TR:Q9RKF2 (EMBL:AL133236) (349 aa) fasta scores: E(): 7.7e-30, 34.746% id in 354 aa; LacI family transcriptional regulator complement(2740177..2741238) Bordetella pertussis Tohama I 2665756 NP_881216.1 CDS BP2591 NC_002929.2 2741322 2742956 R Similar to many ABC transport proteins e.g. Mycobacterium tuberculosis CDC1551 peptide ABC transporter ATP-binding protein, Mt3764 TR:AAK48128 (EMBL:AE007174) (548 aa) fasta scores: E(): 5.1e-72, 47.689% id in 541 aa; ABC transporter ATP-binding protein complement(2741322..2742956) Bordetella pertussis Tohama I 2665757 NP_881217.1 CDS BP2592 NC_002929.2 2742958 2743761 R Similar to several ABC-transporter proteins including: Rhizobium loti ABC transporter permease Mlr5418 TR:Q98BU9 (EMBL:AP003006) (303 aa) fasta scores: E(): 1.8e-41, 43.396% id in 265 aa and to Escherichia coli dipeptide transport system permease DppC or Ecs4422 SW:DPPC_ECOLI (P37315) (300 aa) fasta scores: E(): 4.5e-38, 41.791% id in 268 aa; ABC transporter permease complement(2742958..2743761) Bordetella pertussis Tohama I 2665507 NP_881218.1 CDS BP2593 NC_002929.2 2743790 2744749 R Similar to several including: Rhizobium sp probable peptide ABC transporter permease Y4tP SW:Y4TP_RHISN (Q53191) (313 aa) fasta scores: E(): 8.8e-43, 39.936% id in 313 aa and Agrobacterium radiobacter MoaB protein TR:O50268 (EMBL:AF242881) (313 aa) fasta scores: E(): 1.8e-39, 41.066% id in 319 aa; ABC transporter permease complement(2743790..2744749) Bordetella pertussis Tohama I 2665508 NP_881219.1 CDS BP2594 NC_002929.2 2744753 2746267 R Similar to several including: Rhizobium loti ABC transporter substrate-binding protein Mll7247 TR:Q986Q9 (EMBL:AP003011) (505 aa) fasta scores: E(): 9.2e-37, 29.741% id in 501 aa and Escherichia coli ABC transporter periplasmic binding protein YddS precursor B1487 SW:YDDS_ECOLI (P76128) (516 aa) fasta scores: E(): 1.8e-29, 28.516% id in 512 aa; ABC transporter substrate-binding protein complement(2744753..2746267) Bordetella pertussis Tohama I 2665509 NP_881220.1 CDS BP2596 NC_002929.2 2747740 2748210 R Similar to Rhizobium meliloti hypothetical protein Smb21005 TR:CAC49531 (EMBL:AL603646) (155 aa) fasta scores: E(): 8.5e-38, 68.590% id in 156 aa; hypothetical protein complement(2747740..2748210) Bordetella pertussis Tohama I 2665511 NP_881221.1 CDS BP2597 NC_002929.2 2748246 2748857 R Similar to several proteins of undefined function e.g. Rhizobium loti Mlr6177 protein TR:Q98A30 (EMBL:AP003008) (216 aa) fasta scores: E(): 7.8e-32, 52.427% id in 206 aa; membrane transport protein complement(2748246..2748857) Bordetella pertussis Tohama I 2665512 NP_881222.1 CDS BP2598 NC_002929.2 2748888 2749511 R Similar to several including: Pseudomonas aeruginosa hypothetical protein Pa4182 TR:Q9HWJ9 (EMBL:AE004834) (212 aa) fasta scores: E(): 8.9e-50, 61.576% id in 203 aa and Rhizobium loti transcriptional regulator mll0013 TR:Q98NS0 (EMBL:AP002994) (216 aa) fasta scores: E(): 7.7e-32, 42.512% id in 207 aa; hypothetical protein complement(2748888..2749511) Bordetella pertussis Tohama I 2665513 NP_881223.1 CDS BP2599 NC_002929.2 2749592 2751124 D Similar to several e.g. regulators Rhizobium loti transcriptional regulator Mlr6174 TR:Q98A34 (EMBL:AP003008) (489 aa) fasta scores: E(): 2.2e-79, 52.218% id in 496 aa and Rhizobium meliloti probable rhizopine catabolism regulatory protein MocR SW:MOCR_RHIME (P49309) (493 aa) fasta scores: E(): 5.7e-46, 37.657% id in 478 aa; GntR family transcriptional regulator 2749592..2751124 Bordetella pertussis Tohama I 2665514 NP_881224.1 CDS BP2600 NC_002929.2 2751159 2752400 R Similar to several including: Rhizobium loti Mlr8412 protein TR:Q983A8 (EMBL:AP003014) (405 aa) fasta scores: E(): 2.7e-60, 47.594% id in 374 aa and Rhizobium meliloti transport transmembrane protein Smc01779 TR:CAC45796 (EMBL:AL591786) (408 aa) fasta scores: E(): 1.7e-50, 39.216% id in 408 aa. Also similar to BP0980, 49.746% identity in 394 aa overlap.; hypothetical protein complement(2751159..2752400) Bordetella pertussis Tohama I 2665515 NP_881225.1 CDS BP2601 NC_002929.2 2752444 2753475 R Similar to Bacillus stearothermophilus alcohol dehydrogenase SW:ADH3_BACST (P42328) (339 aa) fasta scores: E(): 2.9e-34, 37.615% id in 327 aa; alcohol dehydrogenase complement(2752444..2753475) Bordetella pertussis Tohama I 2665520 NP_881226.1 CDS BP2602 NC_002929.2 2753472 2754641 R Similar to Rhizobium loti Mll3668 hypothetical protein TR:Q98FQ2 (EMBL:AP003002) (436 aa) fasta scores: E(): 1.8e-10, 30.820% id in 451 aa; hypothetical protein complement(2753472..2754641) Bordetella pertussis Tohama I 2665521 NP_881227.1 CDS BP2603 NC_002929.2 2754635 2755315 R no significant database hits; hypothetical protein complement(2754635..2755315) Bordetella pertussis Tohama I 2665522 NP_881228.1 CDS BP2604 NC_002929.2 2755477 2756319 D Similar to several proposed regulatory proteins Rhizobium loti glycine cleavage system transcription activator Mlr1973 TR:Q98JE9 (EMBL:AP002998) (303 aa) fasta scores: E(): 2.8e-37, 42.857% id in 280 aa; LysR family transcriptional regulator 2755477..2756319 Bordetella pertussis Tohama I 2667612 NP_881229.1 CDS BP2605 NC_002929.2 2756482 2757453 R Similar to several proposed regulatory proteins including: Pseudomonas aeruginosa probable transcriptional regulator Pa3782 TR:Q9HXL3 (EMBL:AE004797) (317 aa) fasta scores: E(): 2.8e-63, 53.968% id in 315 aa and Streptomyces coelicolor Arac-family transcriptional regulator AdpA TR:Q9L062 (EMBL:AL163641) (398 aa) fasta scores: E(): 4.4e-54, 47.097% id in 310 aa; AraC family transcriptional regulator complement(2756482..2757453) Bordetella pertussis Tohama I 2667613 NP_881230.1 CDS BP2606 NC_002929.2 2757625 2758503 D Similar in parts to several e.g. Escherichia coli O157:H7 hypothetical 29.1 kDa protein Ecs0400 TR:BAB33823 (EMBL:AP002551) (262 aa) fasta scores: E(): 4.7e-49, 51.331% id in 263 aa; hypothetical protein 2757625..2758503 Bordetella pertussis Tohama I 2667614 NP_881231.1 CDS BP2607 NC_002929.2 2758526 2759596 R Similar to several membrane proteins including: Campylobacter jejuni integral membrane protein Cj0557C TR:Q9PHV8 (EMBL:AL139075) (361 aa) fasta scores: E(): 1.9e-09, 23.193% id in 332 aa and Streptomyces coelicolor integral membrane protein Scg4.15C TR:Q9K3P9 (EMBL:AL360034) (577 aa) fasta scores: E(): 1.1e-07, 35.938% id in 192 aa; hypothetical protein complement(2758526..2759596) Bordetella pertussis Tohama I 2667610 NP_881232.1 CDS BP2608 NC_002929.2 2759637 2760587 R transposase for IS481 element; transposase complement(2759637..2760587) Bordetella pertussis Tohama I 2667611 NP_881233.1 CDS BP2609 NC_002929.2 2760880 2762238 R Similar to Pseudomonas aeruginosa hypothetical protein Pa3614 pa3614 TR:Q9HY12 (EMBL:AE004781) (467 aa) fasta scores: E(): 2.7e-43, 40.870% id in 460 aa; hypothetical protein complement(2760880..2762238) Bordetella pertussis Tohama I 2667620 NP_881234.1 CDS BP2610 NC_002929.2 2762350 2764077 D Similar to many proposed s including : Pseudomonas aeruginosa Pa1647 TR:Q9I378 (EMBL:AE004592) (573 aa) fasta scores: E(): 1.2e-71, 40.146% id in 548 aa and Mycobacterium tuberculosis CDC1551 Mt1781 TR:AAK46054 (EMBL:AE007038) (560 aa) fasta scores: E(): 4.2e-69, 37.613% id in 553 aa; solute transport protein 2762350..2764077 Bordetella pertussis Tohama I 2667621 NP_881235.1 CDS BP2612 NC_002929.2 2765350 2765784 R Weakly similar to Archaeoglobus fulgidus hypothetical protein Af0055 af0055 SW:Y055_ARCFU (O30181) (132 aa) fasta scores: E(): 3.1e-09, 33.898% id in 118 aa, and to Pyrococcus abyssi hypothetical 13.6 kDa protein pab1062 TR:Q9UY93 (EMBL:AJ248288) (130 aa) fasta scores: E(): 4.1e-09, 31.667% id in 120 aa; hypothetical protein complement(2765350..2765784) Bordetella pertussis Tohama I 2666563 NP_881236.1 CDS BP2613 NC_002929.2 2765777 2767012 R Similar to several e.g. Rhizobium loti Mll1737 protein Mll1737 TR:Q98JX4 (EMBL:AP002998) (416 aa) fasta scores: E(): 3.9e-32, 29.496% id in 417 aa; hypothetical protein complement(2765777..2767012) Bordetella pertussis Tohama I 2666564 NP_881237.1 CDS BP2614 NC_002929.2 2767020 2767814 R Similar to many ABC transport proteins including: Streptomyces coelicolor ABC transporter membrane component Sc8g12.20 TR:Q9KYY5 (EMBL:AL355753) (267 aa) fasta scores: E(): 2.4e-26, 34.426% id in 244 aa and Rhizobium loti taurine transport system permease Mlr4519 TR:Q98DW5 (EMBL:AP003004) (286 aa) fasta scores: E(): 1.6e-25, 33.955% id in 268 aa; ABC transporter permease complement(2767020..2767814) Bordetella pertussis Tohama I 2666565 NP_881238.1 CDS BP2615 NC_002929.2 2767811 2768614 R Similar to many ABC transport proteins including: Clostridium acetobutylicum ABC-type sulfate transporter ATPase component cac0107 TR:Q97MT4 (EMBL:AE007523) (279 aa) fasta scores: E(): 1.3e-35, 47.598% id in 229 aa; ABC transporter ATP-binding protein complement(2767811..2768614) Bordetella pertussis Tohama I 2666561 NP_881239.1 CDS BP2616 NC_002929.2 2768641 2769618 R Similar to many ABC transport proteins e.g. Escherichia coli taurine-binding periplasmic protein precursor taua or ssia or b0365 SW:TAUA_ECOLI (Q47537) (320 aa) fasta scores: E(): 4e-10, 25.081% id in 307 aa; ABC transporter substrate-binding protein complement(2768641..2769618) Bordetella pertussis Tohama I 2666566 NP_881240.1 CDS BP2617 NC_002929.2 2769647 2771218 R Similar to many proteins of undefined function e.g. Deinococcus radiodurans conserved hypothetical protein Dr2540 TR:Q9RRF2 (EMBL:AE002083) (496 aa) fasta scores: E(): 4.2e-25, 32.037% id in 437 aa; hypothetical protein complement(2769647..2771218) Bordetella pertussis Tohama I 2666567 NP_881242.1 CDS BP2620 NC_002929.2 2773775 2775193 R Similar to many membrane efflux proteins including: Streptomyces avermitilis transmembrane efflux protein TR:BAB69223 (EMBL:AB070943) (489 aa) fasta scores: E(): 1.7e-55, 42.217% id in 469 aa and Streptomyces coelicolor transmembrane efflux protein Sce22.16C TR:Q9KYU6 (EMBL:AL355832) (505 aa) fasta scores: E(): 2e-52, 39.535% id in 473 aa; membrane efflux protein complement(2773775..2775193) Bordetella pertussis Tohama I 2666570 NP_881243.1 CDS BP2621 NC_002929.2 2775218 2775907 D Similar to many proposed TetR-family transcriptional regulators including: Streptomyces coelicolor Sck13.32 TR:Q9AD73 (EMBL:AL512667) (200 aa) fasta scores: E(): 8.9e-17, 37.838% id in 185 aa, and to Rhizobium meliloti Smc04134 TR:CAC41505 (EMBL:AL591782) (225 aa) fasta scores: E(): 0.0011, 27.273% id in 165 aa; TetR family transcriptional regulator 2775218..2775907 Bordetella pertussis Tohama I 2666571 NP_881244.1 CDS hipA NC_002929.2 2776003 2777343 R Similar to Escherichia coli protein HipA or b1507 SWALL:HIPA_ECOLI (SWALL:P23874) (440 aa) fasta scores: E(): 2.8e-54, 41.92% id in 427 aa, and to Ralstonia solanacearum hipa transcription regulator protein hipa or rsc1446 or rs03861 SWALL:Q8XZF5 (EMBL:AL646064) (445 aa) fasta scores: E(): 7.9e-82, 51.03% id in 437 aa; HipA-like protein complement(2776003..2777343) Bordetella pertussis Tohama I 2667142 NP_881245.1 CDS hipB NC_002929.2 2777345 2777632 R Similar to Escherichia coli protein HipB or b1508 SWALL:HIPB_ECOLI (SWALL:P23873) (88 aa) fasta scores: E(): 0.22, 27.38% id in 84 aa, and to Ralstonia solanacearum transcription regulator protein rsc1447 or rs03860 SWALL:Q8XZF4 (EMBL:AL646064) (84 aa) fasta scores: E(): 1.7e-05, 41.97% id in 81 aa; DNA-binding protein complement(2777345..2777632) Bordetella pertussis Tohama I 2667143 NP_881246.1 CDS guaA NC_002929.2 2777956 2779548 R contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway; GMP synthase complement(2777956..2779548) Bordetella pertussis Tohama I 2667144 NP_881247.1 CDS guaB NC_002929.2 2779645 2781105 R Similar to Escherichia coli inosine-5'-monophosphate dehydrogenase GuaB B2508 or Z3772 or Ecs3370 SW:IMDH_ECOLI (P06981) (488 aa) fasta scores: E(): 2.5e-110, 63.711% id in 485 aa; inosine-5'-monophosphate dehydrogenase complement(2779645..2781105) Bordetella pertussis Tohama I 2667145 NP_881248.1 CDS BP2626 NC_002929.2 2781328 2781939 D Similar to several proteins of undefined function e.g. Pseudomonas aeruginosa hypothetical protein Pa3765 pa3765 TR:Q9HXN0 (EMBL:AE004795) (194 aa) fasta scores: E(): 8.6e-32, 55.026% id in 189 aa; hypothetical protein 2781328..2781939 Bordetella pertussis Tohama I 2667146 NP_881249.1 CDS BP2630 NC_002929.2 2785686 2786636 R transposase for IS481 element; transposase complement(2785686..2786636) Bordetella pertussis Tohama I 2667149 NP_881250.1 CDS BP2632 NC_002929.2 2787052 2789688 R Similar to several Prokaryotic and Eukaryotic proteins of undefined function e.g. Mycobacterium leprae hypothetical protein Ml1120 TR:Q9CC83 (EMBL:AL583920) (873 aa) fasta scores: E(): 7.6e-19, 28.02% id in 910 aa and Leishmania major hypothetical protein L6202.3 TR:Q9NKT9 (EMBL:AC005802) (2354 aa) fasta scores: E(): 1.5e-10, 31.59% id in 652 aa; GTP-binding protein complement(2787052..2789688) Bordetella pertussis Tohama I 2667340 NP_881251.1 CDS BP2633 NC_002929.2 2789685 2790809 R Weakly similar to many hypothetical proteins and to several exonucleases including: Mycobacterium leprae hypothetical protein Ml1119 TR:Q9CC84 (EMBL:AL583920) (383 aa) fasta scores: E(): 2.7e-16, 31.49% id in 381 aa, and to Escherichia coli, and exonuclease SbcD or B0398 or Z0496 or Ecs0448 SW:SBCD_ECOLI (P13457) (400 aa) fasta scores: E(): 0.12, 28.13% id in 295 aa; exonuclease complement(2789685..2790809) Bordetella pertussis Tohama I 2667341 NP_881252.1 CDS lrp NC_002929.2 2792324 2792791 D Highly similar to many including: Escherichia coli leucine-responsive regulatory protein Lrp SW:LRP_ECOLI (P19494) (163 aa) fasta scores: E(): 7.2e-29, 53.28% id in 152 aa and Neisseria meningitidis leucine-responsive regulatory protein Nmb1650 TR:Q9JYC5 (EMBL:AE002515) (154 aa) fasta scores: E(): 3.7e-35, 60.39% id in 154 aa; leucine-responsive regulatory protein 2792324..2792791 Bordetella pertussis Tohama I 2667343 NP_881253.1 CDS BP2636 NC_002929.2 2792913 2793581 D weakly similar to many proteins of unknown function including: Neisseria meningitidis hypothetical protein Nmb0465 TR:Q9K0U6 (EMBL:AE002403) (233 aa) fasta scores: E(): 9.3e-06, 28.79% id in 191 aa and Rhizobium loti Mll0832 protein TR:Q98LX6 (EMBL:AP002995) (250 aa) fasta scores: E(): 0.00035, 25% id in 244 aa; hypothetical protein 2792913..2793581 Bordetella pertussis Tohama I 2667344 NP_881254.1 CDS BP2637 NC_002929.2 2793654 2794856 D no significant database hits; lipoprotein 2793654..2794856 Bordetella pertussis Tohama I 2667449 NP_881255.1 CDS BP2638 NC_002929.2 2794858 2796588 R Highly similar to several Agrobacterium tumefaciens Agr_l_1912p agr_l_1912 TR:AAK89528 (EMBL:AE008295) (573 aa) fasta scores: E(): 9.6e-149, 63.73% id in 579 aa and to Rhizobium loti ABC transporter periplasmic substrate-binding protein Mll5302 TR:Q98C44 (EMBL:AP003006) (443 aa) fasta scores: E(): 6.2e-08, 25.73% id in 443 aa; ABC transporter substrate-binding protein complement(2794858..2796588) Bordetella pertussis Tohama I 2667450 NP_881256.1 CDS BP2639 NC_002929.2 2796706 2797014 R Similar to Rhizobium loti hypothetical protein Msl0703 protein TR:Q98M71 (EMBL:AP002995) (97 aa) fasta scores: E(): 6.2e-10, 50% id in 78 aa; hypothetical protein complement(2796706..2797014) Bordetella pertussis Tohama I 2667451 NP_881257.1 CDS BP2640 NC_002929.2 2797027 2797839 R Similar to many ABC transport proteins e.g. Rhizobium meliloti transport system permease ABC transporter protein Smc02516 TR:CAC47598 (EMBL:AL591792) (274 aa) fasta scores: E(): 1.2e-79, 73.4% id in 267 aa; ABC transporter permease complement(2797027..2797839) Bordetella pertussis Tohama I 2667452 NP_881258.1 CDS BP2642 NC_002929.2 2798720 2799808 R Similar to Ralstonia solanacearum probable ATP-binding ABC transporter protein Rsc3047 or Rs00488 SWALL:Q8XUY6 (EMBL:AL646073) (365 aa) fasta scores: E(): 9.2e-74, 61.74% id in 366 aa.; ABC transporter ATP-binding protein complement(2798720..2799808) Bordetella pertussis Tohama I 2666052 NP_881259.1 CDS glpR NC_002929.2 2801011 2801799 D Similar to many e.g. Pseudomonas aeruginosa glycerol-3-phosphate regulon repressor GlpR or Pa3583 SW:GLPR_PSEAE (Q51391) (251 aa) fasta scores: E(): 5e-48, 55.55% id in 252 aa; glycerol-3-phosphate regulon repressor protein 2801011..2801799 Bordetella pertussis Tohama I 2666059 NP_881260.1 CDS BP2644 NC_002929.2 2801839 2803443 D Similar to several Prokaryotic and Eukaryotic glycerol-3-phosphate dehydrogenases including: Deinococcus radiodurans glycerol-3-phosphate dehydrogenase Dr1019 TR:Q9RVK8 (EMBL:AE001953) (522 aa) fasta scores: E(): 6.5e-102, 55.51% id in 535 aa and to Caenorhabditis elegans probable glycerol-3-phosphate dehydrogenase, mitochondrial precursor T25g3.4 SW:GPDM_CAEEL (P90795) (722 aa) fasta scores: E(): 2e-58, 41.31% id in 547 aa; glycerol-3-phosphate dehydrogenase 2801839..2803443 Bordetella pertussis Tohama I 2666055 NP_881261.1 CDS BP2645 NC_002929.2 2803524 2804264 D Similar to many IclR-family regulatory proteins including: Pectobacterium carotovorum subsp. carotovorum global regulatory protein, KdgR TR:Q9RB25 (EMBL:AF135395) (263 aa) fasta scores: E(): 2.6e-20, 33.6% id in 247 aa and Bacillus halodurans transcriptional regulator Bh2137 TR:Q9KAZ9 (EMBL:AP001514) (251 aa) fasta scores: E(): 7.6e-21, 29.04% id in 241 aa; IclR family transcriptional regulator 2803524..2804264 Bordetella pertussis Tohama I 2666056 NP_881262.1 CDS BP2647 NC_002929.2 2805139 2806158 R Similar to Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.4e-29, 33.76% id in 308 aa and Comamonas testosteroni hypothetical protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 2.7e-27, 33.65% id in 312 aa; hypothetical protein complement(2805139..2806158) Bordetella pertussis Tohama I 2667171 NP_881263.1 CDS BP2648 NC_002929.2 2806155 2807537 R Similar to several including: Shewanella frigidimarina fumarate reductase flavoprotein subunit precursor SW:FRDA_SHEFR (Q02469) (596 aa) fasta scores: E(): 1.1e-21, 30.71% id in 459 aa and Salmonella typhi hypothetical protein R0146 TR:Q9L5J6 (EMBL:AF250878) (467 aa) fasta scores: E(): 8.5e-17, 28.86% id in 485 aa; hypothetical protein complement(2806155..2807537) Bordetella pertussis Tohama I 2667172 NP_881264.1 CDS BP2649 NC_002929.2 2807570 2808430 R Similar to several e.g. Mycobacterium tuberculosis CDC1551 conserved hypothetical protein mt3614 TR:AAK47972 (EMBL:AE007164) (278 aa) fasta scores: E(): 4e-17, 29.31% id in 290 aa; hypothetical protein complement(2807570..2808430) Bordetella pertussis Tohama I 2667173 NP_881265.1 CDS BP2651 NC_002929.2 2809512 2810315 D Similar to several e.g. Pseudomonas aeruginosa hypothetical protein Pa0339 pa0339 TR:Q9I6F4 (EMBL:AE004471) (251 aa) fasta scores: E(): 5.6e-44, 50% id in 254 aa; hypothetical protein 2809512..2810315 Bordetella pertussis Tohama I 2667175 NP_881266.1 CDS BP2652 NC_002929.2 2810308 2810811 D no significant database hits; hypothetical protein 2810308..2810811 Bordetella pertussis Tohama I 2667176 NP_881267.1 CDS BP2653 NC_002929.2 2810902 2811873 R Similar to many including: Burkholderia cepacia hypothetical 35.5 kDa protein TR:AAK81675 (EMBL:AF029344) (337 aa) fasta scores: E(): 3.1e-43, 42.63% id in 319 aa and Rhizobium meliloti conserved hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 5.2e-43, 42.05% id in 321 aa; hypothetical protein complement(2810902..2811873) Bordetella pertussis Tohama I 2667177 NP_881268.1 CDS BP2654 NC_002929.2 2811912 2812856 R Similar to many e.g. Neisseria meningitidis dihydrodipicolinate synthase DapA or Nmb0929 SW:DAPA_NEIMB (Q9JZR4) (291 aa) fasta scores: E(): 3.8e-17, 27.57% id in 301 aa; dihydrodipicolinate synthase complement(2811912..2812856) Bordetella pertussis Tohama I 2667178 NP_881269.1 CDS BP2655 NC_002929.2 2812952 2813761 D Similar to several IclR-family regulatory proteins e.g. Rhizobium loti transcription regulator Mll9009 TR:Q982L6 (EMBL:AP003015) (269 aa) fasta scores: E(): 3.2e-26, 37.55% id in 245 aa; IclR family transcriptional regulator 2812952..2813761 Bordetella pertussis Tohama I 2667179 NP_881270.1 CDS BP2656 NC_002929.2 2813838 2814212 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0540 pa0540 TR:Q9I5Z6 (EMBL:AE004490) (128 aa) fasta scores: E(): 2.6e-12, 43.3% id in 127 aa and Neisseria meningitidis membrane protein nma1176 TR:Q9JUR4 (EMBL:AL162755) (127 aa) fasta scores: E(): 3.7e-11, 42.5% id in 120 aa; hypothetical protein complement(2813838..2814212) Bordetella pertussis Tohama I 2667162 NP_881271.1 CDS BP2657 NC_002929.2 2814319 2815011 R Similar to Pasteurella multocida hypothetical protein Pm1879 TR:Q9CJW2 (EMBL:AE006225) (205 aa) fasta scores: E(): 1.4e-20, 40.51% id in 195 aa and Escherichia coli hypothetical 23.4 kDa protein in melb-fumb intergenic region YjdF or B4121 SW:YJDF_ECOLI (P39270) (209 aa) fasta scores: E(): 7.7e-18, 40.75% id in 211 aa; hypothetical protein complement(2814319..2815011) Bordetella pertussis Tohama I 2667163 NP_881272.1 CDS BP2658 NC_002929.2 2815004 2815420 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0868 pa0868 TR:Q9I573 (EMBL:AE004521) (137 aa) fasta scores: E(): 3.6e-25, 56.29% id in 135 aa. Also similar to a region in many peptide chain release factors e.g. Mycobacterium leprae peptide chain release factor 1 PrfA or Ml1134 SW:RF1_MYCLE (P45833) (361 aa) fasta scores: E(): 1.9, 29.91% id in 117 aa; peptidyl-tRNA hydrolase domain-containing protein complement(2815004..2815420) Bordetella pertussis Tohama I 2667164 NP_881273.1 CDS BP2659 NC_002929.2 2815531 2816163 D Similar to many proteins of undefined function e.g. Caulobacter crescentus hypothetical protein Cc3159 cc3159 TR:Q9A3P3 (EMBL:AE005980) (210 aa) fasta scores: E(): 9.3e-59, 69.52% id in 210 aa; hypothetical protein 2815531..2816163 Bordetella pertussis Tohama I 2665523 NP_881274.1 CDS BP2660 NC_002929.2 2816192 2816635 D Similar to Neisseria meningitidis hypothetical protein Nma0704 nma0704 TR:Q9JVT6 (EMBL:AL162754) (140 aa) fasta scores: E(): 6.6e-14, 36.8% id in 144 aa. Also similar to several proposed tetrahydrobiopterin synthases e.g. Neisseria meningitidis 6-pyruvoyl tetrahydrobiopterin synthase, nmb0527 TR:Q9K0Q7 (EMBL:AE002408) (140 aa) fasta scores: E(): 4.8e-14, 36.8% id in 144 aa; hypothetical protein 2816192..2816635 Bordetella pertussis Tohama I 2665524 NP_881275.1 CDS BP2661 NC_002929.2 2816657 2817748 R Similar to many including: Agrobacterium tumefaciens Agr_l_2908p agr_l_2908 TR:AAK90021 (EMBL:AE008345) (365 aa) fasta scores: E(): 1.4e-67, 49.58% id in 363 aa and to Rhizobium meliloti mannitol-binding periplasmic signal peptide protein Smc04251 TR:CAC46500 (EMBL:AL591788) (368 aa) fasta scores: E(): 1.7e-63, 47.26% id in 366 aa; mannitol ABC transporter substrate-binding protein complement(2816657..2817748) Bordetella pertussis Tohama I 2665525 NP_881276.1 CDS BP2662 NC_002929.2 2817803 2818603 R Similar to several aldolases e.g.Pseudomonas aeruginosa probable aldolase Pa0224 TR:Q9I6R4 (EMBL:AE004460) (260 aa) fasta scores: E(): 3.9e-55, 53.57% id in 252 aa and Haemophilus influenzae L-fuculose phosphate aldolase FucA or Hi0611 SW:FUCA_HAEIN (P44777) (216 aa) fasta scores: E(): 3e-08, 26.7% id in 176 aa; class II aldolase/adducin domain-containing protein complement(2817803..2818603) Bordetella pertussis Tohama I 2665526 NP_881277.1 CDS BP2663 NC_002929.2 2818739 2819359 D Weakly similar to several e.g. Rhizobium loti transcriptional regulator Mll2952 TR:Q98HA7 (EMBL:AP003000) (219 aa) fasta scores: E(): 1.4e-07, 28.2% id in 195 aa; transcriptional regulatory protein 2818739..2819359 Bordetella pertussis Tohama I 2665527 NP_881278.1 CDS BP2664 NC_002929.2 2819499 2819972 D Similar to several MarR-family regulatory proteins e.g. Escherichia coli transcriptional regulator SlyA SW:SLYA_ECOLI (P55740) (146 aa) fasta scores: E(): 1.3e-07, 34.35% id in 131 aa and to Serratia sp. ATCC39006 global regulator of antibiotic and pigment production, Rap TR:Q9RA96 (EMBL:AF168597) (145 aa) fasta scores: E(): 1.5e-07, 33.08% id in 136 aa; MarR family transcriptional regulator 2819499..2819972 Bordetella pertussis Tohama I 2665528 NP_881279.1 CDS BP2666 NC_002929.2 2821112 2822062 D transposase for IS481 element; transposase 2821112..2822062 Bordetella pertussis Tohama I 2665530 NP_881280.1 CDS fhaS NC_002929.2 2822059 2829720 R Highly similar to Bordetella pertussis filamentous hemagglutinin FhaB or BP1879 SW:FHAB_BORPE (P12255) (3591 aa) fasta scores: E(): 6.4e-175, 48.23% id in 2606 aa, and to Bordetella bronchiseptica adhesin FhaB TR:Q9JP78 (EMBL:AF111796) (3634 aa) fasta scores: E(): 2.7e-173, 46.99% id in 2679 aa. The product of this CDS is also similar to B. pertussis BP2907 E(): 9.8e-120 37.940% identity in 2670 aa.; adhesin complement(2822059..2829720) Bordetella pertussis Tohama I 2665531 NP_881281.1 CDS purL NC_002929.2 2829961 2834007 R catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis; phosphoribosylformylglycinamidine synthase complement(2829961..2834007) Bordetella pertussis Tohama I 2665504 NP_881282.1 CDS BP2669 NC_002929.2 2834320 2834901 D Similar in parts to several e.g. Escherichia coli hypothetical protein YiaM B3577 SW:YIAM_ECOLI (P37674) (157 aa) fasta scores: E(): 3.5e-07, 34.05% id in 138 aa; hypothetical protein 2834320..2834901 Bordetella pertussis Tohama I 2665505 NP_881283.1 CDS BP2670 NC_002929.2 2834898 2836196 D Similar to many including: Rhizobium meliloti c4-dicarboxylate transport system, permease Smb21436 TR:CAC49665 (EMBL:AL603646) (426 aa) fasta scores: E(): 6.6e-47, 37.76% id in 421 aa and Rhizobium meliloti conserved hypothetical DedA-like protein Sma0250 TR:AAK64791 (EMBL:AE007207) (425 aa) fasta scores: E(): 7.6e-45, 38.39% id in 435 aa; membrane permease 2834898..2836196 Bordetella pertussis Tohama I 2665506 NP_881284.1 CDS BP2671 NC_002929.2 2836276 2837304 D Similar to Rhizobium meliloti periplasmic binding protein Smc00271 TR:CAC46278 (EMBL:AL591788) (325 aa) fasta scores: E(): 1.2e-29, 34.74% id in 331 aa; hypothetical protein 2836276..2837304 Bordetella pertussis Tohama I 2665535 NP_881285.1 CDS BP2672 NC_002929.2 2837565 2838515 D transposase for IS481 element; transposase 2837565..2838515 Bordetella pertussis Tohama I 2665536 NP_881286.1 CDS BP2673 NC_002929.2 2838512 2839462 R transposase for IS1002 element; transposase complement(2838512..2839462) Bordetella pertussis Tohama I 2665537 NP_881287.1 CDS fimX NC_002929.2 2839779 2840384 D Previously sequenced as B. pertussis fimbrial protein FimX precursor SW:FMFX_BORPE (P09808) (201 aa) fasta scores: E(): 9.5e-77, 99% id in 201 aa. Also similar to many other Bordetella fimbrial proteins including: Bordetella bronchiseptica fimbrial subunit precursor Fim2 TR:Q44885 (EMBL:X74119) (208 aa) fasta scores: E(): 6.7e-38, 59.11% id in 203 aa and Bordetella parapertussis major fimbrial structural subunit FimA TR:O54541 (EMBL:AF022306) (201 aa) fasta scores: E(): 1.5e-22, 43.16% id in 183 aa; fimbrial protein 2839779..2840384 Bordetella pertussis Tohama I 2665538 NP_881288.1 CDS paaK NC_002929.2 2840438 2841751 R Similar to Escherichia coli phenylacetate-coenzyme A ligase PaaK or B1398 SW:PAAK_ECOLI (P76085) (437 aa) fasta scores: E(): 2e-112, 65.5% id in 432 aa; phenylacetate-coenzyme A ligase complement(2840438..2841751) Bordetella pertussis Tohama I 2665539 NP_881289.1 CDS paaI NC_002929.2 2841826 2842296 R Similar to Escherichia coli phenylacetic acid degradation protein PaaI B1396 SW:PAAI_ECOLI (P76084) (140 aa) fasta scores: E(): 4.5e-25, 51.56% id in 128 aa; phenylacetic acid degradation protein complement(2841826..2842296) Bordetella pertussis Tohama I 2665540 NP_881290.1 CDS paaG NC_002929.2 2842296 2843084 R Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase complement(2842296..2843084) Bordetella pertussis Tohama I 2665541 NP_881291.1 CDS BP2678 NC_002929.2 2843095 2844747 R Similar to Streptomyces coelicolor dehydrogenase Sch69.05 TR:Q9XA29 (EMBL:AL079308) (563 aa) fasta scores: E(): 4.9e-114, 56.81% id in 558 aa and to Azoarcus evansii PaaZ TR:Q9F9V2 (EMBL:AF176259) (562 aa) fasta scores: E(): 6.2e-112, 56.44% id in 551 aa; oxidoreductase complement(2843095..2844747) Bordetella pertussis Tohama I 2665542 NP_881292.1 CDS BP2679 NC_002929.2 2844835 2845785 R transposase for IS481 element; transposase complement(2844835..2845785) Bordetella pertussis Tohama I 2665543 NP_881293.1 CDS paaD NC_002929.2 2846947 2847453 R Similar to Escherichia coli phenylacetic acid degradation protein PaaD B1391 SW:PAAD_ECOLI (P76080) (167 aa) fasta scores: E(): 9.2e-28, 47.56% id in 164 aa; phenylacetic acid degradation protein complement(2846947..2847453) Bordetella pertussis Tohama I 2665545 NP_881294.1 CDS paaC NC_002929.2 2847450 2848214 R Similar to Escherichia coli phenylacetic acid degradation protein PaaC or B1390 SW:PAAC_ECOLI (P76079) (248 aa) fasta scores: E(): 1.4e-49, 54.58% id in 251 aa; phenylacetic acid degradation protein complement(2847450..2848214) Bordetella pertussis Tohama I 2665546 NP_881295.1 CDS paaB NC_002929.2 2848230 2848514 R with PaaBCDE catalyzes the hydroxylation of phenylacetyl-CoA; involved in phenylacetate degradation; phenylacetate-CoA oxygenase subunit PaaB complement(2848230..2848514) Bordetella pertussis Tohama I 2665547 NP_881296.1 CDS paaA NC_002929.2 2848579 2849568 R with PaaBCDE catalyzes the hydroxylation of phenylacetyl-CoA; phenylacetate-CoA oxygenase subunit PaaA complement(2848579..2849568) Bordetella pertussis Tohama I 2665548 NP_881297.1 CDS paaX NC_002929.2 2849740 2850669 D Similar to Escherichia coli phenylacetic acid degradation operon negative regulatory protein paaX or B1399 SW:PAAX_ECOLI (P76086) (316 aa) fasta scores: E(): 1.3e-34, 35.94% id in 306 aa; phenylacetic acid degradation operon negative regulatory protein 2849740..2850669 Bordetella pertussis Tohama I 2665549 NP_881298.1 CDS BP2686 NC_002929.2 2850641 2851327 R Similar to N-terminus of many proteins of undefined function e.g. Xylella fastidiosa hypothetical protein Xf0757 xf0757 TR:Q9PFC1 (EMBL:AE003917) (473 aa) fasta scores: E(): 9e-18, 46.79% id in 203 aa. Also similar over the entire length to Schizosaccharomyces pombe hypothetical 26.5 kDa protein C15a10.05c in chromosome I SW:YDO5_SCHPO () (242 aa) fasta scores: E(): 0.0004, 28.64% id in 185 aa; hypothetical protein complement(2850641..2851327) Bordetella pertussis Tohama I 2665550 NP_881299.1 CDS BP2687 NC_002929.2 2851361 2851906 R 3'-5' exoribonuclease specific for small oligoribonuclotides; oligoribonuclease complement(2851361..2851906) Bordetella pertussis Tohama I 2665551 NP_881300.1 CDS BP2688 NC_002929.2 2851951 2853216 D Similar to many metalloproteases e.g. Campylobacter jejuni integral membrane zinc-metalloprotease Cj0723C TR:Q9PPI4 (EMBL:AL139076) (395 aa) fasta scores: E(): 1.4e-38, 33.07% id in 393 aa; integral membrane zinc-metalloprotease 2851951..2853216 Bordetella pertussis Tohama I 2665552 NP_881301.1 CDS BP2689 NC_002929.2 2853213 2854115 D EngC; RsgA; CpgA; circularly permuted GTPase; ribosome small subunit-dependent GTPase A; has the pattern G4-G1-G3 as opposed to other GTPases; interacts strongly with 30S ribosome which stimulates GTPase activity; ribosome-associated GTPase 2853213..2854115 Bordetella pertussis Tohama I 2665532 NP_881302.1 CDS BP2691 NC_002929.2 2855297 2856250 R Similar to many membrane transport proteins including: Agrobacterium tumefaciens Agr_l_323p agr_l_323 TR:AAK88730 (EMBL:AE008214) (328 aa) fasta scores: E(): 1.6e-77, 67.53% id in 308 aa, and to Bacillus subtilis oligopeptide transport system permease AppB SW:APPB_BACSU () (317 aa) fasta scores: E(): 1.2e-42, 40.06% id in 317 aa; ABC transporter permease complement(2855297..2856250) Bordetella pertussis Tohama I 2665553 NP_881303.1 CDS BP2692 NC_002929.2 2856336 2857853 R Similar to many membrane transport proteins including: Agrobacterium tumefaciens Agr_l_325p agr_l_325 TR:AAK88731 (EMBL:AE008214) (502 aa) fasta scores: E(): 6.6e-100, 51.78% id in 504 aa, and to Bacillus halodurans oligopeptide ABC transporter Bh3026 TR:Q9K8I0 (EMBL:AP001517) (525 aa) fasta scores: E(): 1.6e-32, 30.48% id in 492 aa; ABC transporter substrate-binding protein complement(2856336..2857853) Bordetella pertussis Tohama I 2665554 NP_881304.1 CDS BP2693 NC_002929.2 2857895 2859523 R Similar to many gamma-glutamyltranspeptidases e.g. Mycobacterium tuberculosis gamma-glutamyltranspeptidase Rv0773c TR:P71828 (EMBL:Z80226) (512 aa) fasta scores: E(): 1.5e-90, 56.76% id in 525 aa. Also similar to Pseudomonas sp acylase acy 1 [includes: cephalosporin acylase SW:PAC1_PSES3 () (557 aa) fasta scores: E(): 1.1e-45, 31.81% id in 550 aa; gamma-glutamyltranspeptidase complement(2857895..2859523) Bordetella pertussis Tohama I 2667311 NP_881305.1 CDS BP2694 NC_002929.2 2859631 2860512 D Similar to many transcriptional regulators e.g. Pseudomonas aeruginosa probable transcriptional regulator Pa0816 TR:Q9I5C3 (EMBL:AE004516) (294 aa) fasta scores: E(): 1.8e-20, 33.88% id in 304 aa; LysR family transcriptional regulator 2859631..2860512 Bordetella pertussis Tohama I 2667312 NP_881306.1 CDS BP2698 NC_002929.2 2863625 2863999 D Similar to Bacteriophage T4 endonuclease V DenV SW:END5_BPT4 (P04418) (138 aa) fasta scores: E(): 2.2e-13, 40.83% id in 120 aa and to Chlorella virus pyrimidine dimer-specific glycosylase TR:Q9W976 (EMBL:AF128157) (139 aa) fasta scores: E(): 2.1e-12, 38.71% id in 124 aa; endonuclease 2863625..2863999 Bordetella pertussis Tohama I 2667316 NP_881307.1 CDS glnB NC_002929.2 2864024 2864362 R Similar to many nitrogen regulatory proteins e.g. Rhodobacter sphaeroides P-II SW:GLNB_RHOSH () (112 aa) fasta scores: E(): 8.4e-31, 76.78% id in 112 aa; nitrogen regulatory protein complement(2864024..2864362) Bordetella pertussis Tohama I 2667317 NP_881308.1 CDS nadE NC_002929.2 2864406 2866040 R NH(3)-dependent; catalyzes the formation of nicotinamide adenine dinucleotide (NAD) from nicotinic acid adenine dinucleotide (NAAD) using either ammonia or glutamine as the amide donor and ATP; ammonia-utilizing enzymes include the ones from Bacillus and Escherichia coli while glutamine-utilizing enzymes include the Mycobacterial one; forms homodimers; NAD synthetase complement(2864406..2866040) Bordetella pertussis Tohama I 2667318 NP_881309.1 CDS BP2701 NC_002929.2 2866079 2867425 R Similar to many proteins of undefined function e.g. Escherichia coli hypothetical protein YbdG SW:YBDG_ECOLI (P39455) (415 aa) fasta scores: E(): 3.3e-60, 42.23% id in 393 aa; membrane transport protein complement(2866079..2867425) Bordetella pertussis Tohama I 2667319 NP_881310.1 CDS argH NC_002929.2 2867533 2868954 D catalyzes the formation of arginine from (N-L-arginino)succinate; argininosuccinate lyase 2867533..2868954 Bordetella pertussis Tohama I 2667320 NP_881311.1 CDS BP2703 NC_002929.2 2869024 2869608 R Similar to many proteins of undefined function e.g. Pseudomonas aeruginosa hypothetical protein Pa3208 TR:Q9HZ32 (EMBL:AE004744) (186 aa) fasta scores: E(): 9.6e-18, 38.83% id in 188 aa; hypothetical protein complement(2869024..2869608) Bordetella pertussis Tohama I 2667321 NP_881312.1 CDS BP2704 NC_002929.2 2869711 2870661 R transposase for IS481 element; transposase complement(2869711..2870661) Bordetella pertussis Tohama I 2667322 NP_881313.1 CDS BP2705 NC_002929.2 2870796 2871902 D Similar to several including : Clostridium acetobutylicum molybdate-binding protein Cac0252 TR:Q97ME6 (EMBL:AE007538) (319 aa) fasta scores: E(): 1.6e-14, 34.68% id in 173 aa and Alcaligenes eutrophus formate dehydrogenase FdsR TR:Q9RBF7 (EMBL:AJ007718) (299 aa) fasta scores: E(): 5.4e-48, 50.17% id in 293 aa; molybdenum-binding protein 2870796..2871902 Bordetella pertussis Tohama I 2667323 NP_881314.1 CDS moaA NC_002929.2 2871913 2873010 D together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z; molybdenum cofactor biosynthesis protein A 2871913..2873010 Bordetella pertussis Tohama I 2667324 NP_881315.1 CDS moeA NC_002929.2 2873155 2874360 R Similar to many including: Escherichia coli molybdopterin biosynthesis protein MoeA or Chle or BisB or NarE or B0827 SW:MOEA_ECOLI (P12281) (411 aa) fasta scores: E(): 8.4e-42, 37.73% id in 371 aa; molybdopterin cofactor biosynthesis protein complement(2873155..2874360) Bordetella pertussis Tohama I 2667325 NP_881316.1 CDS moaB NC_002929.2 2874367 2874888 R Similar to Escherichia coli, and molybdenum cofactor biosynthesis protein B MoaB or Chla2 or B0782 or Z1001 or Ecs0860 SW:MOAB_ECOLI (P30746) (169 aa) fasta scores: E(): 1e-29, 52.56% id in 156 aa; molybdenum cofactor biosynthesis protein complement(2874367..2874888) Bordetella pertussis Tohama I 2667326 NP_881317.1 CDS moaE NC_002929.2 2874885 2875376 R Similar to Haemophilus influenzae molybdopterin converting factor, subunit 2 MoaE or Hi1673 SW:MOAE_HAEIN (P45308) (150 aa) fasta scores: E(): 1.9e-23, 44.37% id in 151 aa; molybdopterin converting factor complement(2874885..2875376) Bordetella pertussis Tohama I 2667327 NP_881318.1 CDS moaD NC_002929.2 2875373 2875624 R Similar to Escherichia coli molybdopterin converting factor, subunit 1 MoaD or Chla4 or ChlM or B0784 SW:MOAD_ECOLI (P30748) (81 aa) fasta scores: E(): 4.9e-05, 46.34% id in 82 aa; molybdopterin converting factor complement(2875373..2875624) Bordetella pertussis Tohama I 2667328 NP_881319.1 CDS moaC NC_002929.2 2875605 2876090 R Similar to Haemophilus influenzae molybdenum cofactor biosynthesis protein C MoaC or Hi1675 SW:MOAC_HAEIN (P45310) (160 aa) fasta scores: E(): 4.2e-24, 49.02% id in 153 aa; molybdenum cofactor biosynthesis protein complement(2875605..2876090) Bordetella pertussis Tohama I 2667329 NP_881320.1 CDS BP2712 NC_002929.2 2876226 2879687 D Similar over entire range to Pseudomonas aeruginosa hypothetical protein Pa4735 TR:Q9HV64 (EMBL:AE004887) (1088 aa) fasta scores: E(): 2.2e-37, 28.25% id in 1161 aa; hypothetical protein 2876226..2879687 Bordetella pertussis Tohama I 2667330 NP_881321.1 CDS BP2713 NC_002929.2 2879705 2880589 D Similar to Methylobacterium extorquens carboxymethylenebutenolidase SW:DLHH_METEX (P71505) (291 aa) fasta scores: E(): 4.8e-59, 56.8% id in 294 aa. Also similar to BP1256, 55.253% identity (55.469% ungapped) in 257 aa overlap.; hydrolase 2879705..2880589 Bordetella pertussis Tohama I 2667331 NP_881322.1 CDS BP2714 NC_002929.2 2880599 2881030 R lipoprotein complement(2880599..2881030) Bordetella pertussis Tohama I 2667332 NP_881323.1 CDS BP2715 NC_002929.2 2881277 2881780 D Similar to Caulobacter crescentus ahpc/tsa family protein Cc3394 TR:Q9A312 (EMBL:AE006000) (160 aa) fasta scores: E(): 2.3e-30, 53.61% id in 166 aa and Rhizobium meliloti hypothetical peroxiredoxin protein Smc00072 TR:CAC45487 (EMBL:AL591785) (161 aa) fasta scores: E(): 5.1e-27, 50.9% id in 165 aa; AhpC/TSA-family protein 2881277..2881780 Bordetella pertussis Tohama I 2667333 NP_881324.1 CDS BP2716 NC_002929.2 2881858 2883258 D Similar to many membrane transport proteins e.g. Pseudomonas aeruginosa probable MFS transporter Pa4887 TR:Q9HUS6 (EMBL:AE004901) (438 aa) fasta scores: E(): 1.2e-78, 54.5% id in 455 aa; membrane transport protein 2881858..2883258 Bordetella pertussis Tohama I 2666691 NP_881325.1 CDS BP2717 NC_002929.2 2883333 2884208 R Similar to many proteins of undefined function e.g. Neisseria meningitidis hypothetical protein Nmb1028 TR:Q9JZJ2 (EMBL:AE002453) (291 aa) fasta scores: E(): 3.1e-51, 52.26% id in 287 aa; hypothetical protein complement(2883333..2884208) Bordetella pertussis Tohama I 2666692 NP_881326.1 CDS BP2718 NC_002929.2 2884205 2885227 R Similar to many e.g. Haemophilus influenzae biotin synthase BioB or Hi1022 SW:BIOB_HAEIN (P44987) (333 aa) fasta scores: E(): 1.9e-79, 63.29% id in 316 aa; biotin synthase complement(2884205..2885227) Bordetella pertussis Tohama I 2666693 NP_881327.1 CDS BP2719 NC_002929.2 2885680 2885985 D no significant database hits. Similar to BP0266, BP1766, BP3099, BP3683, and BP3731; hypothetical protein 2885680..2885985 Bordetella pertussis Tohama I 2666696 NP_881328.1 CDS BP2720 NC_002929.2 2886076 2886666 D Similar to many proposed regulators e.g. Rhizobium loti transcriptional regulator Mlr4666 TR:Q98DK2 (EMBL:AP003004) (195 aa) fasta scores: E(): 2.7e-15, 34.09% id in 176 aa; TetR family transcriptional regulator 2886076..2886666 Bordetella pertussis Tohama I 2666697 NP_881329.1 CDS BP2721 NC_002929.2 2886857 2887873 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 complement(2886857..2887873) Bordetella pertussis Tohama I 2666689 NP_881330.1 CDS BP2722 NC_002929.2 2888065 2890401 R Similar to Pseudomonas putida Cadmium-Transporting ATPase CadA TR:AAK48831 (EMBL:AF333961) (737 aa) fasta scores: E(): 6.3e-147, 62% id in 737 aa and to Pseudomonas aeruginosa probable metal-transporting P-type ATPase pa3690 TR:Q9HXV0 (EMBL:AE004788) (740 aa) fasta scores: E(): 5.2e-141, 60.85% id in 746 aa; membrane transport ATPase complement(2888065..2890401) Bordetella pertussis Tohama I 2666690 NP_881331.1 CDS BP2723 NC_002929.2 2890484 2890918 D Similar to Pseudomonas putida MerR-family response regulator CadR TR:AAK48830 (EMBL:AF333961) (147 aa) fasta scores: E(): 8e-24, 51.72% id in 145 aa, and to Haemophilus influenzae Zn ZntR or Hi1623 SW:ZNTR_HAEIN (P45277) (135 aa) fasta scores: E(): 4.6e-17, 46.61% id in 118 aa; MerR family transcriptional regulator 2890484..2890918 Bordetella pertussis Tohama I 2665982 NP_881332.1 CDS BP2724 NC_002929.2 2891017 2891967 D transposase for IS481 element; transposase 2891017..2891967 Bordetella pertussis Tohama I 2665983 NP_881333.1 CDS BP2725 NC_002929.2 2891964 2892758 R Similar to Caulobacter crescentus formiminoglutamase Cc0958 TR:Q9A9M0 (EMBL:AE005772) (271 aa) fasta scores: E(): 8e-43, 45.72% id in 269 aa and to Pseudomonas aeruginosa N-formylglutamate amidohydrolase HutG or Pa5091 TR:Q9HU92 (EMBL:AE004922) (266 aa) fasta scores: E(): 7.3e-41, 45.86% id in 266 aa; hypothetical protein complement(2891964..2892758) Bordetella pertussis Tohama I 2665984 NP_881334.1 CDS BP2726 NC_002929.2 2892790 2893494 R Similar to many inculding several proposed Prokaryotic and Eukaryotic acyl carrier proteins: Rhizobium loti 3-oxoacyl-acyl carrier protein reductase Mll1830 TR:Q98JQ5 (EMBL:AP002998) (234 aa) fasta scores: E(): 6.3e-55, 64.53% id in 234 aa and Cuphea lanceolata 3-oxoacyl-[acyl-carrier protein] reductase, chloroplast precursor Clkr27 SW:FABG_CUPLA (P28643) (320 aa) fasta scores: E(): 1.1e-17, 32.52% id in 246 aa 72.22% id in 234 aa; oxidoreductase complement(2892790..2893494) Bordetella pertussis Tohama I 2665985 NP_881335.1 CDS BP2727 NC_002929.2 2893569 2894369 R Similar to many SurF1-family proteins including: Caulobacter crescentus Cc1769 TR:Q9A7F4 (EMBL:AE005851) (225 aa) fasta scores: E(): 9.8e-41, 57.01% id in 228 aa and Rhizobium meliloti Smb21490 TR:CAC49719 (EMBL:AL603646) (251 aa) fasta scores: E(): 4.2e-23, 46.36% id in 179 aa; SurF1-family protein complement(2893569..2894369) Bordetella pertussis Tohama I 2665986 NP_881336.1 CDS BP2728 NC_002929.2 2894366 2894773 R Similar to Escherichia coli cytochrome O ubiquinol oxidase CyoD or B0429 or Z0532 or Ecs0483 SW:CYOD_ECOLI (P18403) (109 aa) fasta scores: E(): 1.7e-18, 54.71% id in 106 aa and to Rhizobium loti cytochrome O ubiquinol oxidase subunit IV Mlr6849 TR:Q987Y8 (EMBL:AP003010) (125 aa) fasta scores: E(): 1.4e-28, 63.41% id in 123 aa; cytochrome ubiquinol oxidase subunit IV complement(2894366..2894773) Bordetella pertussis Tohama I 2665987 NP_881337.1 CDS BP2729 NC_002929.2 2894770 2895411 R Similar to Escherichia coli cytochrome O ubiquinol oxidase subunit III CyoC or B0430 SW:CYOC_ECOLI (P18402) (204 aa) fasta scores: E(): 1.4e-45, 59.89% id in 187 aa and Rhizobium meliloti cytochrome O ubiquinol oxidase chain III protein TR:CAC49717 (EMBL:AL603646) (210 aa) fasta scores: E(): 9.6e-60, 69.48% id in 213 aa. Also similar to BP2931, 57.310% identity in 171 aa overlap; cytochrome ubiquinol oxidase subunit III complement(2894770..2895411) Bordetella pertussis Tohama I 2665988 NP_881338.1 CDS BP2730 NC_002929.2 2895404 2897404 R Similar to Escherichia coli ubiquinol oxidase polypeptide I CyoB or B0431 or Z0534 or Ecs0485 SW:CYOB_ECOLI (P18401) (663 aa) fasta scores: E(): 1e-175, 65.74% id in 648 aa. Also similar to BP2932 (65.284% identity in 651 aa overlap), and to BP3743 (42.636% identity in 516 aa overlap); cytochrome ubiquinol oxidase subunit I complement(2895404..2897404) Bordetella pertussis Tohama I 2665989 NP_881339.1 CDS BP2732 NC_002929.2 2898665 2899996 D Similar to many proposed membrane transport proteins e.g. Rhizobium meliloti metabolite transport protein Smb21486 TR:CAC49714 (EMBL:AL603646) (431 aa) fasta scores: E(): 4.3e-91, 58.21% id in 414 aa; membrane transport protein 2898665..2899996 Bordetella pertussis Tohama I 2666901 NP_881340.1 CDS BP2733 NC_002929.2 2899993 2900943 R transposase for IS481 element; transposase complement(2899993..2900943) Bordetella pertussis Tohama I 2666902 NP_881341.1 CDS BP2734 NC_002929.2 2901042 2902543 R Pseudogene. This CDS appears to have a frameshift mutation following codon 274. The frameshift occurs within a polymeric tract of (C)5. The sequence has been checked and believed to be correct. Similar to many including: Neisseria meningitidis chelatase Nma2080 TR:Q9JSY3 (EMBL:AL162758) (498 aa) fasta scores: E(): 2.2e-82, 55.66% id in 503 aa and to Xylella fastidiosa competence related protein Xf1179 TR:Q9PE49 (EMBL:AE003951) (506 aa) fasta scores: E(): 6.9e-76, 52.57% id in 504 aa; chelatase (pseudogene) complement(join(2901042..2901722,2901722..2902543)) Bordetella pertussis Tohama I 2666903 NP_881342.1 CDS BP2735 NC_002929.2 2902650 2902916 R Similar to several e.g. Neisseria meningitidis hypothetical protein Nmb0404 TR:Q9K0Z7 (EMBL:AE002396) (106 aa) fasta scores: E(): 3.7e-09, 44.31% id in 88 aa; hypothetical protein complement(2902650..2902916) Bordetella pertussis Tohama I 2666904 NP_881343.1 CDS BP2736 NC_002929.2 2903624 2903962 D Similar to many e.g. Escherichia coli nitrogen regulatory protein P-II 2 GlnK or B0450 or Z0562 or Ecs0504 SW:GLNK_ECOLI (P38504) (112 aa) fasta scores: E(): 1.4e-27, 69.64% id in 112 aa. Note this CDS is also highly similar to the upstrean CDS BP2699 fasta scores: E(): 3.6e-29 75% identity in 112 aa.; nitrogen regulatory protein P-II 2903624..2903962 Bordetella pertussis Tohama I 2666905 NP_881344.1 CDS bapC NC_002929.2 2905291 2908277 R Previously characterised as Bordetella pertussis autotransporter BapC TR:O86044 (EMBL:AF081494) (759 aa) fasta scores: E(): 0, 100% id in 759 aa. Also highly similar to Bordetella parapertussis pertactin precursor an agglutinogen that binds Eukaryotic cells, Prn SW:PERT_BORPA (P24328) (922 aa) fasta scores: E(): 6.6e-75, 44.29% id in 806 aa.; autotransporter complement(join(2905291..2907627,2907632..2908003,2908005..2908277)) Bordetella pertussis Tohama I 2666060 NP_881345.1 CDS BP2741 NC_002929.2 2908516 2909118 R Similar to many transcriptional regulators e.g. Rhizobium loti transcriptional regulatory protein Mlr4117 TR:Q98ER4 (EMBL:AP003003) (205 aa) fasta scores: E(): 3.5e-42, 63.21% id in 193 aa; TetR family transcriptional regulator complement(2908516..2909118) Bordetella pertussis Tohama I 2666061 NP_881346.1 CDS BP2742 NC_002929.2 2909215 2910504 D Similar to many membrane transport proteins e.g. Rhizobium loti transmembrane transport protein Mll4118 TR:Q98ER5 (EMBL:AP003003) (446 aa) fasta scores: E(): 4.8e-105, 66.9% id in 414 aa; membrane transport protein 2909215..2910504 Bordetella pertussis Tohama I 2666062 NP_881347.1 CDS BP2743 NC_002929.2 2910562 2911293 R Similar to many membrane transport proteins e.g. Thermotoga maritima branched chain amino acid ABC transporter ATP-binding protein Tm1139 TR:Q9X0M3 (EMBL:AE001771) (239 aa) fasta scores: E(): 9.5e-43, 55.5% id in 236 aa; ABC transporter ATP-binding protein complement(2910562..2911293) Bordetella pertussis Tohama I 2666063 NP_881348.1 CDS BP2744 NC_002929.2 2911290 2912093 R Similar to many membrane transport proteins e.g. Deinococcus radiodurans branched-chain amino acid ABC transporter ATP-binding protein Dr2119 TR:Q9RSK5 (EMBL:AE002047) (259 aa) fasta scores: E(): 2.5e-44, 57.83% id in 249 aa; ABC transporter ATP-binding protein complement(2911290..2912093) Bordetella pertussis Tohama I 2666064 NP_881349.1 CDS BP2745 NC_002929.2 2912090 2913178 R Similar to many membrane transport proteins e.g. Deinococcus radiodurans branched-chain amino acid ABC transporter permease dr1036 TR:Q9RVJ2 (EMBL:AE001955) (471 aa) fasta scores: E(): 2.8e-50, 48.04% id in 358 aa; ABC transporter ATP-binding protein complement(2912090..2913178) Bordetella pertussis Tohama I 2666065 NP_881350.1 CDS BP2746 NC_002929.2 2913175 2914104 R Similar to many membrane transport proteins including: Rhizobium meliloti probable high-affinity branched-chain amino acid transport permease ABC transporter protein TR:CAC47064 (EMBL:AL591790) (300 aa) fasta scores: E(): 9.8e-43, 48.52% id in 305 aa and Escherichia coli high-affinity branched-chain amino acid transport system permease livH or B3457 or Z4827 or Ecs4304 SW:LIVH_ECOLI (P08340) (308 aa) fasta scores: E(): 1e-39, 45.09% id in 306 aa; ABC transporter permease complement(2913175..2914104) Bordetella pertussis Tohama I 2666066 NP_881351.1 CDS BP2747 NC_002929.2 2914253 2915398 R Similar to many membrane transport solute-binding proteins including: Rhizobium meliloti leucine-specific binding protein precursor TR:CAC47059 (EMBL:AL591790) (372 aa) fasta scores: E(): 3.8e-35, 36.21% id in 359 aa and Pseudomonas aeruginosa leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein precursor BraC or Pa1074 SW:BRAC_PSEAE (P21175) (373 aa) fasta scores: E(): 4.3e-32, 33.33% id in 357 aa; ABC transporter substrate-binding protein complement(2914253..2915398) Bordetella pertussis Tohama I 2666067 NP_881352.1 CDS BP2748 NC_002929.2 2915420 2916370 R transposase for IS481 element; transposase complement(2915420..2916370) Bordetella pertussis Tohama I 2666068 NP_881353.1 CDS putA NC_002929.2 2916701 2920522 R proline utilization protein A; multifunctional protein that functions in proline catabolism in the first two enzymatic steps resulting in the conversion of proline to glutamate; in Escherichai coli this protein also self-regulates transcription via a DNA-binding domain at the N-terminus; forms dimers and is a peripherally membrane-associated protein; trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase complement(2916701..2920522) Bordetella pertussis Tohama I 2666915 NP_881354.1 CDS BP2750 NC_002929.2 2920679 2921347 R no significant database hits; lipoprotein complement(2920679..2921347) Bordetella pertussis Tohama I 2666916 NP_881355.1 CDS BP2751 NC_002929.2 2921352 2923025 R Similar to many including: Neisseria meningitidis (serogroup A) hypothetical integral membrane protein Nma1929 or Nmb1671 TR:Q9JRE7 (EMBL:AL162757) (553 aa) fasta scores: E(): 4.3e-47, 32.27% id in 567 aa and Escherichia coli paraquat-inducible protein B PqiB SW:PQIB_ECOLI (P43671) (546 aa) fasta scores: E(): 9.6e-37, 33.14% id in 528 aa; hypothetical protein complement(2921352..2923025) Bordetella pertussis Tohama I 2666932 NP_881356.1 CDS BP2752 NC_002929.2 2923044 2924240 R Similar to Escherichia coli paraquat-inducible protein a pqia or pqi5a or b0950 SW:PQIA_ECOLI (P43670) (417 aa) fasta scores: E(): 8.1e-35, 36.09% id in 374 aa; hypothetical protein complement(2923044..2924240) Bordetella pertussis Tohama I 2666933 NP_881357.1 CDS clpA NC_002929.2 2924368 2926683 R Similar to Escherichia coli ATP-dependent Clp protease ATP-binding protein ClpA or LopD or B0882 or Z1119 or Ecs0968 SW:CLPA_ECOLI (P15716) (758 aa) fasta scores: E(): 8.5e-171, 61.73% id in 763 aa. Also similar to BP1198, 37.133% identity (46.014% ungapped) in 886 aa overlap.; ATP-dependent Clp protease ATP-binding complement(2924368..2926683) Bordetella pertussis Tohama I 2666934 NP_881358.1 CDS pbp NC_002929.2 2926739 2928907 R Similar to Escherichia coli penicillin-binding protein 1c PbpC or B2519 SW:PBPC_ECOLI (P76577) (770 aa) fasta scores: E(): 1.3e-106, 46.04% id in 771 aa; penicillin-binding protein complement(2926739..2928907) Bordetella pertussis Tohama I 2667033 NP_881359.1 CDS BP2755 NC_002929.2 2928904 2934093 R Similar to Xylella fastidiosa hypothetical protein Xf1252 TR:Q9PDX7 (EMBL:AE003959) (1641 aa) fasta scores: E(): 9.2e-134, 37.23% id in 1708 aa; hypothetical protein complement(2928904..2934093) Bordetella pertussis Tohama I 2667034 NP_881360.1 CDS clpS NC_002929.2 2934183 2934497 R involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation; binds to the N-terminal domain of the chaperone ClpA; ATP-dependent Clp protease adaptor protein ClpS complement(2934183..2934497) Bordetella pertussis Tohama I 2667035 NP_881361.1 CDS BP2757 NC_002929.2 2934725 2934970 D Similar to Salmonella typhimurium cold shock protein CspA SW:CSPA_SALTY (P37410) (69 aa) fasta scores: E(): 8.7e-15, 66.66% id in 66 aa. Also similar to many cold shock-like proteins e.g. Stigmatella aurantiaca cold shock-like protein CspA SW:CSPA_STIAU (P72366) (68 aa) fasta scores: E(): 6.8e-17, 72.3% id in 65 aa; cold-shock protein 2934725..2934970 Bordetella pertussis Tohama I 2667036 NP_881362.1 CDS BP2758 NC_002929.2 2935065 2935583 D Similar in parts to several including: Plasmid pSB102 hypothetical 17.7 kDa protein TR:CAC79159 (EMBL:AJ304453) (160 aa) fasta scores: E(): 4.9e-15, 36.91% id in 149 aa and Treponema pallidum conserved hypothetical protein tp0087 TR:O83125 (EMBL:AE001193) (179 aa) fasta scores: E(): 7.1e-14, 41.81% id in 110 aa; hypothetical protein 2935065..2935583 Bordetella pertussis Tohama I 2667037 NP_881363.1 CDS BP2759 NC_002929.2 2935683 2936888 R catalyzes the thiolytic cleavage of beta-ketoadipyl-CoA to succinate and acetyl-CoA; beta-ketoadipyl CoA thiolase complement(2935683..2936888) Bordetella pertussis Tohama I 2666339 NP_881364.1 CDS BP2760 NC_002929.2 2937004 2938320 R Similar to several chloride-channel proteins including: Burkholderia cepacia chloride-channel protein TR:AAK81672 (EMBL:AF029344) (443 aa) fasta scores: E(): 2.8e-45, 40.82% id in 414 aa and to Escherichia coli voltage-gated Clc-type chloride channel EriC or B0155 SW:ERIC_ECOLI (P37019) (473 aa) fasta scores: E(): 1.1e-17, 30.11% id in 455 aa; chloride-channel protein complement(2937004..2938320) Bordetella pertussis Tohama I 2666340 NP_881365.1 CDS sodB NC_002929.2 2938518 2939096 R Previously sequence: Bordetella pertussis superoxide dismutase [fe] SodB SW:SODF_BORPE (P37369) (192 aa) fasta scores: E(): 3.9e-80, 99.47% id in 192 aa. Also similar to BP0193, 40.201% identity (41.885% ungapped) in 199 aa overlap.; superoxide dismutase complement(2938518..2939096) Bordetella pertussis Tohama I 2666341 NP_881366.1 CDS xseA NC_002929.2 2939169 2940560 R bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides; exodeoxyribonuclease VII large subunit complement(2939169..2940560) Bordetella pertussis Tohama I 2666342 NP_881367.1 CDS BP2763 NC_002929.2 2940728 2941678 R transposase for IS481 element; transposase complement(2940728..2941678) Bordetella pertussis Tohama I 2666343 NP_881368.1 CDS BP2764 NC_002929.2 2941959 2942579 D Similar to several e.g. Synechocystis sp biopolymer transport ExbB-like protein 3 sll1404 SW:EXB3_SYNY3 (P72604) (210 aa) fasta scores: E(): 2.4e-09, 29.89% id in 184 aa; biopolymer transport protein 2941959..2942579 Bordetella pertussis Tohama I 2666350 NP_881369.1 CDS BP2765 NC_002929.2 2942576 2942989 D Similar to many including Vibrio cholerae biopolymer transport protein Exbd2 or Vc1545 SW:EXD2_VIBCH (Q9ZHV9) (134 aa) fasta scores: E(): 5.3e-06, 30.3% id in 132 aa and to Bordetella pertussis ExbD protein TR:Q9S3M4 (EMBL:AJ132741) (155 aa) fasta scores: E(): 9.4e-06, 31.61% id in 136 aa; biopolymer transport protein 2942576..2942989 Bordetella pertussis Tohama I 2666351 NP_881370.1 CDS lpxK NC_002929.2 2942986 2944029 D transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate; tetraacyldisaccharide 4'-kinase 2942986..2944029 Bordetella pertussis Tohama I 2666352 NP_881371.1 CDS BP2767 NC_002929.2 2944085 2944273 D Similar to Escherichia coli, and protein YcaR or B0917 or Z1263 or Ecs1000 SW:YCAR_ECOLI (P75844) (60 aa) fasta scores: E(): 2.6e-11, 53.57% id in 56 aa; hypothetical protein 2944085..2944273 Bordetella pertussis Tohama I 2666344 NP_881372.1 CDS BP2768 NC_002929.2 2944283 2945047 D CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS; 3-deoxy-manno-octulosonate cytidylyltransferase 2944283..2945047 Bordetella pertussis Tohama I 2666345 NP_881373.1 CDS adk NC_002929.2 2945138 2945794 D essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP; adenylate kinase 2945138..2945794 Bordetella pertussis Tohama I 2666346 NP_881374.1 CDS BP2770 NC_002929.2 2945886 2946644 D Similar to many Prokaryotic and Eukaryotic dehydrogenases e.g. Pseudomonas aeruginosa probable short-chain dehydrogenase Pa2554 TR:Q9I0T0 (EMBL:AE004683) (255 aa) fasta scores: E(): 3.8e-60, 67.05% id in 255 aa and Drosophila melanogaster 3-hydroxyacyl-coa dehydrogenase type II Scu or Cg7113 SW:HCD2_DROME (O18404) (255 aa) fasta scores: E(): 6.6e-45, 55.9% id in 254 aa; short-chain dehydrogenase 2945886..2946644 Bordetella pertussis Tohama I 2666347 NP_881375.1 CDS BP2771 NC_002929.2 2946670 2948271 D Similar to many proteins which display high sequence similarity to the MviN virulence factor. The function of these related proteins remains unclear e.g. Escherichia coli virulence factor homolog MviN or B1069 or Z1707 or Ecs1447 SW:MVIN_ECOLI (P75932) (511 aa) fasta scores: E(): 3.2e-89, 49.71% id in 521 aa; hypothetical protein 2946670..2948271 Bordetella pertussis Tohama I 2666242 NP_881376.1 CDS BP2772 NC_002929.2 2948472 2949476 D Weakly similar to many proposed trancriptional regulators e.g. Escherichia coli protein FecR or B4292 SW:FECR_ECOLI (P23485) (317 aa) fasta scores: E(): 4.4e-17, 30.38% id in 316 aa; hypothetical protein 2948472..2949476 Bordetella pertussis Tohama I 2666243 NP_881377.1 CDS rpsT NC_002929.2 2949577 2949840 D binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase; 30S ribosomal protein S20 2949577..2949840 Bordetella pertussis Tohama I 2666866 NP_881378.1 CDS BP2774 NC_002929.2 2949958 2950734 R cleaves 5-dehydro-4-deoxy-glucarate and 2-dehydro-3-deoxy-D-glucarate; alpha-dehydro-beta-deoxy-D-glucarate aldolase complement(2949958..2950734) Bordetella pertussis Tohama I 2666867 NP_881379.1 CDS BP2776 NC_002929.2 2951325 2952275 D transposase for IS481 element; transposase 2951325..2952275 Bordetella pertussis Tohama I 2666869 NP_881380.1 CDS BP2780 NC_002929.2 2954659 2955771 R Similar to several e.g. Pyrococcus abyssi malate dehydrogenase Mdh or Pab1791 SW:MDH_PYRAB (Q9V0D5) (362 aa) fasta scores: E(): 1e-28, 34.88% id in 344 aa.; malate dehydrogenase complement(2954659..2955771) Bordetella pertussis Tohama I 2666852 NP_881381.1 CDS BP2781 NC_002929.2 2955828 2956778 R transposase for IS481 element; transposase complement(2955828..2956778) Bordetella pertussis Tohama I 2666870 NP_881382.1 CDS BP2782 NC_002929.2 2956987 2957208 R Similar to many proteins of undefined function e.g. Pseudomonas aeruginosa hypothetical 8.0 kDa protein Pa3031 TR:O68801 (EMBL:AF053982) (73 aa) fasta scores: E(): 4.7e-10, 51.51% id in 66 aa; lipoprotein complement(2956987..2957208) Bordetella pertussis Tohama I 2666871 NP_881383.1 CDS thrC NC_002929.2 2957422 2958828 R catalyzes the formation of L-threonine from O-phospho-L-homoserine; threonine synthase complement(2957422..2958828) Bordetella pertussis Tohama I 2666872 NP_881384.1 CDS BP2784 NC_002929.2 2958825 2960129 R catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine; homoserine dehydrogenase complement(2958825..2960129) Bordetella pertussis Tohama I 2666873 NP_881385.1 CDS BP2785 NC_002929.2 2960126 2961313 R Similar to Escherichia coli hypothetical aminotransferase YfdZ or B2379 SW:YFDZ_ECOLI (P77434) (412 aa) fasta scores: E(): 4.8e-129, 79.64% id in 393 aa; aminotransferase complement(2960126..2961313) Bordetella pertussis Tohama I 2666874 NP_881386.1 CDS BP2786 NC_002929.2 2961530 2961982 D Similar in parts to Methylobacillus flagellatum membrane protein TR:Q9RAN1 (EMBL:L78665) (122 aa) fasta scores: E(): 3e-05, 35.17% id in 145 aa; hypothetical protein 2961530..2961982 Bordetella pertussis Tohama I 2666195 NP_881387.1 CDS BP2787 NC_002929.2 2961985 2962449 D Similar to many bacterioferritin comigratory proteins the function of which are unclear e.g. Pseudomonas aeruginosa Bcp or Pa1008 TR:Q9I4W5 (EMBL:AE004533) (157 aa) fasta scores: E(): 1.9e-35, 62.33% id in 154 aa; hypothetical protein 2961985..2962449 Bordetella pertussis Tohama I 2666196 NP_881388.1 CDS BP2788 NC_002929.2 2962520 2964208 D The C-terminus of the product of this CDS is similar to many hypothetical proteins e.g. Vibrio cholerae hypothetical protein Vc2507 vc2507 TR:Q9KP69 (EMBL:AE004321) (458 aa) fasta scores: E(): 1.3e-48, 42.85% id in 462 aa. The N-terminus displays no significant database hits and conrtains a proline rich repeat region with 4xPAPA repeats.; hypothetical protein 2962520..2964208 Bordetella pertussis Tohama I 2666197 NP_881389.1 CDS BP2789 NC_002929.2 2964313 2965290 D Weakly similar to a number of pyridoxal phosphate biosynthetic proteins e.g. Escherichia coli PdxA or B0052 SW:PDXA_ECOLI (P19624) (329 aa) fasta scores: E(): 9.4e-36, 38.43% id in 320 aa. Also similar to BP1813, 46.233% identity (49.451% ungapped) in 292 aa overlap.; hypothetical protein 2964313..2965290 Bordetella pertussis Tohama I 2666198 NP_881390.1 CDS BP2790 NC_002929.2 2965370 2966338 D Similar to several proteins of undefined function e.g. Pseudomonas aeruginosa hypothetical protein Pa2026 SW:YK26_PSEAE (P39879) (333 aa) fasta scores: E(): 8.2e-82, 65.83% id in 322 aa; hypothetical protein 2965370..2966338 Bordetella pertussis Tohama I 2666199 NP_881391.1 CDS dnaB NC_002929.2 2966359 2967732 R unwinds double stranded DNA; replicative DNA helicase complement(2966359..2967732) Bordetella pertussis Tohama I 2666200 NP_881392.1 CDS BP2792 NC_002929.2 2967729 2968565 R no significant database hits; hypothetical protein complement(2967729..2968565) Bordetella pertussis Tohama I 2666201 NP_881393.1 CDS rplI NC_002929.2 2968682 2969137 R in Escherichia coli this protein is wrapped around the base of the L1 stalk; 50S ribosomal protein L9 complement(2968682..2969137) Bordetella pertussis Tohama I 2666190 NP_881394.1 CDS rpsR NC_002929.2 2969153 2969425 R binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit; 30S ribosomal protein S18 complement(2969153..2969425) Bordetella pertussis Tohama I 2666191 NP_881395.1 CDS priB NC_002929.2 2969518 2969841 R binds single-stranded DNA at the primosome assembly site; primosomal replication protein N complement(2969518..2969841) Bordetella pertussis Tohama I 2666192 NP_881396.1 CDS rpsF NC_002929.2 2969889 2970269 R binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21; 30S ribosomal protein S6 complement(2969889..2970269) Bordetella pertussis Tohama I 2666193 NP_881397.1 CDS BP2797 NC_002929.2 2970489 2971286 R similar protein in Methanocaldococcus converts GTP to 7,8-dihydro-D-neopterin 2',3'-cyclic phosphate as the first step in methanopterin biosynthesis; GTP cyclohydrolase complement(2970489..2971286) Bordetella pertussis Tohama I 2666919 NP_881398.1 CDS dxs NC_002929.2 2971443 2973305 R catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate; 1-deoxy-D-xylulose-5-phosphate synthase complement(2971443..2973305) Bordetella pertussis Tohama I 2666920 NP_881399.1 CDS BP2799 NC_002929.2 2973355 2974266 R Similar to Bradyrhizobium japonicum probable geranyltranstransferase SW:ISPA_BRAJA (Q45220) (332 aa) fasta scores: E(): 2.2e-42, 49.65% id in 288 aa; geranyltranstransferase complement(2973355..2974266) Bordetella pertussis Tohama I 2666921 NP_881400.1 CDS xseB NC_002929.2 2974271 2974537 R catalyzes the bidirectional exonucleolytic cleavage of DNA; exodeoxyribonuclease VII small subunit complement(2974271..2974537) Bordetella pertussis Tohama I 2666922 NP_881401.1 CDS BP2801 NC_002929.2 2974624 2975493 R Similar in the C-terminus to many transcriptional regulators e.g. Rhizobium meliloti transcriptional regulator IclR family protein Smb20586 TR:CAC49898 (EMBL:AL603647) (251 aa) fasta scores: E(): 6.9e-13, 30.08% id in 246 aa. Similar over the entire range to Pseudomonas putida pca regulon regulatory protein PcaR SW:PCAR_PSEPU (Q52154) (291 aa) fasta scores: E(): 3.1e-12, 27.64% id in 293 aa; transcriptional regulator complement(2974624..2975493) Bordetella pertussis Tohama I 2666923 NP_881402.1 CDS BP2802 NC_002929.2 2975629 2976594 D Similar to several proteins of undefined function e.g. Bordetella pertussis hypothetical 34.9 kDa protein SW:YBR5_BORPE (O30446) (323 aa) fasta scores: E(): 8.8e-37, 34.29% id in 312 aa; hypothetical protein 2975629..2976594 Bordetella pertussis Tohama I 2666924 NP_881403.1 CDS BP2803 NC_002929.2 2976765 2977775 D no significant database hits; hypothetical protein 2976765..2977775 Bordetella pertussis Tohama I 2666925 NP_881404.1 CDS BP2804 NC_002929.2 2977923 2979074 D Similar to Bordetella bronchiseptica AlcE, involved in the iron siderophore alcaligin biosynthesis, SWALL:O52833 (EMBL:AJ000061) (397 aa) fasta scores: E(): 3.3e-120, 71.57% id in 380 aa. Also similar to BP2460, 71.842% identity in 380 aa overlap.; iron-sulfur protein 2977923..2979074 Bordetella pertussis Tohama I 2666926 NP_881405.1 CDS BP2806 NC_002929.2 2980217 2981689 R Similar to many Mg transporters e.g. Pseudomonas aeruginosa probable Mg transporter MgtE or Pa0913 TR:Q9I544 (EMBL:AE004525) (482 aa) fasta scores: E(): 7.3e-87, 55.36% id in 475 aa; cation transport protein complement(2980217..2981689) Bordetella pertussis Tohama I 2666928 NP_881406.1 CDS BP2807 NC_002929.2 2981700 2982110 R Similar to several thioesterases e.g. Escherichia coli acyl-CoA thioester hydrolase precursor YciA SW:YCIA_ECOLI (P04379) (132 aa) fasta scores: E(): 1.3e-15, 43.65% id in 126 aa; thioesterase complement(2981700..2982110) Bordetella pertussis Tohama I 2666929 NP_881407.1 CDS BP2808 NC_002929.2 2982174 2983220 R Similar to severale.g. Pseudomonas aeruginosa hypothetical protein Pa5383 TR:Q9HTI1 (EMBL:AE004951) (355 aa) fasta scores: E(): 1.5e-45, 42.45% id in 351 aa; hypothetical protein complement(2982174..2983220) Bordetella pertussis Tohama I 2666930 NP_881408.1 CDS BP2809 NC_002929.2 2983327 2984205 D Similar to many transcriptional regulators e.g. Chromatium vinosum rubisco operon transcriptional regulator RbcR SW:RBCR_CHRVI (P25544) (302 aa) fasta scores: E(): 1e-21, 36.96% id in 257 aa; transcriptional regulator 2983327..2984205 Bordetella pertussis Tohama I 2666931 NP_881409.1 CDS BP2810 NC_002929.2 2984219 2985415 R Similar to many e.g. Pseudomonas aeruginosa probable hydrolase Pa2922 TR:Q9HZS5 (EMBL:AE004718) (389 aa) fasta scores: E(): 3.3e-76, 49.87% id in 395 aa and to Arabidopsis thaliana IAA-amino acid hydrolase 3 precursor Iar3 or Ill1 or At5g56650 SW:ILR3_ARATH (P54969) (438 aa) fasta scores: E(): 1.6e-50, 40.62% id in 384 aa. Also similar to BP3857 (57.179% identity in 397 aa overlap), and to BP3036 (49.873% identity in 393 aa overlap); hydrolase complement(2984219..2985415) Bordetella pertussis Tohama I 2665599 NP_881410.1 CDS fadD NC_002929.2 2985477 2987168 D Similar to Escherichia coli long-chain-fatty-acid--CoA ligase FadD SW:LCFA_ECOLI (P29212) (561 aa) fasta scores: E(): 4e-115, 54.93% id in 557 aa; long-chain-fatty-acid--CoA ligase 2985477..2987168 Bordetella pertussis Tohama I 2665600 NP_881411.1 CDS BP2812 NC_002929.2 2987165 2988115 R transposase for IS481 element; transposase complement(2987165..2988115) Bordetella pertussis Tohama I 2665601 NP_881412.1 CDS BP2813 NC_002929.2 2988236 2989231 R Similar in the C-terminus to many extragenic suppressor proteins e.g. Escherichia coli extragenic suppressor protein SuhB or SsyA or B2533 SW:SUHB_ECOLI (P22783) (267 aa) fasta scores: E(): 2.4e-20, 41.87% id in 277 aa. Also similar to Vibrio cholerae inositol monophosphate family protein vc0745 TR:Q9KTY5 (EMBL:AE004160) (288 aa) fasta scores: E(): 3.7e-16, 39.24% id in 265 aa. Also similar to BP1902, 40.000% identity (43.200% ungapped) in 270 aa overlap.; inositol monophosphatase complement(2988236..2989231) Bordetella pertussis Tohama I 2665602 NP_881413.1 CDS BP2815 NC_002929.2 2991410 2993635 D Weakly similar to several e.g. Thermotoga maritima alpha-xylosidase Tm0308 TR:Q9WYE4 (EMBL:AE001712) (764 aa) fasta scores: E(): 2.3e-34, 25.7% id in 607 aa; hypothetical protein 2991410..2993635 Bordetella pertussis Tohama I 2665604 NP_881414.1 CDS BP2816 NC_002929.2 2993800 2994888 D Similar to Escherichia coli ATP-binding protein ABC SW:ABC_ECOLI (P30750) (343 aa) fasta scores: E(): 2.1e-49, 44.28% id in 350 aa; ABC transporter ATP-binding protein 2993800..2994888 Bordetella pertussis Tohama I 2665605 NP_881415.1 CDS BP2817 NC_002929.2 2994899 2995498 D Similar to many ABC transport proteins e.g. Rhizobium loti ABC transporter permease Mll4791 TR:Q98DA3 (EMBL:AP003005) (218 aa) fasta scores: E(): 3.7e-40, 65.32% id in 199 aa; ABC transporter permease 2994899..2995498 Bordetella pertussis Tohama I 2665606 NP_881416.1 CDS BP2818 NC_002929.2 2995546 2996343 D Similar to Rhizobium meliloti outer membrane lipoprotein Smc03157 TR:CAC47467 (EMBL:AL591792) (258 aa) fasta scores: E(): 3.2e-54, 58.39% id in 262 aa; hypothetical protein 2995546..2996343 Bordetella pertussis Tohama I 2665607 NP_881417.1 CDS BP2819 NC_002929.2 2996875 2997825 D transposase for IS481 element; transposase 2996875..2997825 Bordetella pertussis Tohama I 2665608 NP_881418.1 CDS BP2820 NC_002929.2 2997900 2999054 D Similar to several including: Pseudomonas putida alcohol dehydrogenase AdhA TR:O68647 (EMBL:AF052750) (382 aa) fasta scores: E(): 2e-38, 39.06% id in 384 aa and to Escherichia coli ethanolamine utilization protein EutG or b2453 SW:EUTG_ECOLI (P76553) (395 aa) fasta scores: E(): 9.7e-33, 33.77% id in 379 aa; alcohol dehydrogenase 2997900..2999054 Bordetella pertussis Tohama I 2665609 NP_881419.1 CDS BP2821 NC_002929.2 2999111 3000061 R transposase for IS481 element; transposase complement(2999111..3000061) Bordetella pertussis Tohama I 2665610 NP_881420.1 CDS BP2823 NC_002929.2 3000494 3000880 R Similar to several proteins of undefined function e.g. Pyrococcus abyssi hypothetical 13.6 kDa protein pab1062 TR:Q9UY93 (EMBL:AJ248288) (130 aa) fasta scores: E(): 4e-10, 32.2% id in 118 aa; hypothetical protein complement(3000494..3000880) Bordetella pertussis Tohama I 2667096 NP_881421.1 CDS BP2824 NC_002929.2 3000930 3002174 R Similar to several proteins of undefined function e.g. Methanothermobacter thermautotrophicus conserved protein Mth1421 TR:O27472 (EMBL:AE000904) (399 aa) fasta scores: E(): 1.9e-34, 33.5% id in 391 aa; hypothetical protein complement(3000930..3002174) Bordetella pertussis Tohama I 2667097 NP_881422.1 CDS BP2825 NC_002929.2 3002171 3002881 R Similar to Rhizobium meliloti GntR-family transcription factor Sma1442 TR:AAK65446 (EMBL:AE007265) (254 aa) fasta scores: E(): 2.5e-11, 28.82% id in 229 aa; GntR family transcriptional regulator complement(3002171..3002881) Bordetella pertussis Tohama I 2667098 NP_881423.1 CDS BP2826 NC_002929.2 3002896 3003879 R Similar to several e.g. Rhizobium meliloti conserved hypothetical protein sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 8.5e-40, 37.22% id in 317 aa; hypothetical protein complement(3002896..3003879) Bordetella pertussis Tohama I 2667099 NP_881424.1 CDS BP2827 NC_002929.2 3004170 3004574 D no significant database hits; hypothetical protein 3004170..3004574 Bordetella pertussis Tohama I 2667100 NP_881425.1 CDS BP2830 NC_002929.2 3005941 3006807 D Similar to Streptococcus pneumoniae ABC transporter permease Sp1689 TR:Q97PE2 (EMBL:AE007461) (294 aa) fasta scores: E(): 5.9e-31, 31.56% id in 282 aa and to Rhizobium loti sugar ABC transporter permease Mlr7226 TR:Q986S7 (EMBL:AP003011) (298 aa) fasta scores: E(): 1.5e-27, 31.84% id in 292 aa; ABC transporter permease 3005941..3006807 Bordetella pertussis Tohama I 2667102 NP_881426.1 CDS BP2831 NC_002929.2 3006830 3007621 D Similar to many membrane transport proteins e.g. Rhizobium meliloti sugar uptake ABC transporter permease Smb21458 TR:CAC49684 (EMBL:AL603646) (291 aa) fasta scores: E(): 2.1e-29, 35.98% id in 264 aa; ABC transporter permease 3006830..3007621 Bordetella pertussis Tohama I 2667103 NP_881427.1 CDS BP2832 NC_002929.2 3007632 3008759 D Similar to many membrane transport proteins e.g. Rhizobium loti sugar binding protein of ABC transporter mll1716 TR:Q98JZ1 (EMBL:AP002998) (383 aa) fasta scores: E(): 2.7e-41, 40.47% id in 378 aa; ABC transporter ATP-binding protein 3007632..3008759 Bordetella pertussis Tohama I 2667104 NP_881428.1 CDS BP2835 NC_002929.2 3011117 3012379 D Similar to Escherichia coli ABC transporter periplasmic binding protein YcjN precursor or B1310 SW:YCJN_ECOLI (P76042) (430 aa) fasta scores: E(): 1.3e-18, 24.53% id in 428 aa; ABC transporter substrate-binding protein 3011117..3012379 Bordetella pertussis Tohama I 2667107 NP_881429.1 CDS BP2836 NC_002929.2 3012386 3013138 D Weakly similar to Rhizobium loti transcription regulator Mll9009 TR:Q982L6 (EMBL:AP003015) (269 aa) fasta scores: E(): 6.5e-05, 24.41% id in 213 aa; DNA-binding protein 3012386..3013138 Bordetella pertussis Tohama I 2667108 NP_881430.1 CDS BP2837 NC_002929.2 3013651 3014115 D Similar to Pseudomonas aeruginosa redox-sensitive transcriptional activator SoxR or Pa2273 SW:SOXR_PSEAE (Q51506) (156 aa) fasta scores: E(): 1.6e-33, 62.41% id in 149 aa; MerR family transcriptional regulator 3013651..3014115 Bordetella pertussis Tohama I 2665611 NP_881431.1 CDS BP2838 NC_002929.2 3014147 3014806 D Similar to many DNA hydrolases responsble for DNA damage repair e.g. Escherichia coli DNA-3-methyladenine glycosylase I Tag or B3549 SW:3MG1_ECOLI (P05100) (187 aa) fasta scores: E(): 6.5e-31, 48.6% id in 179 aa; hydrolase 3014147..3014806 Bordetella pertussis Tohama I 2665612 NP_881432.1 CDS BP2839 NC_002929.2 3014951 3017059 D Highly similar to several proteins of undefined function e.g. Pseudomonas aeruginosa hypothetical protein Pa4879 pa4879 TR:Q9HUT4 (EMBL:AE004901) (689 aa) fasta scores: E(): 9e-116, 58.92% id in 706 aa; hypothetical protein 3014951..3017059 Bordetella pertussis Tohama I 2665613 NP_881433.1 CDS BP2840 NC_002929.2 3017061 3017681 R Similar to many proposed regulators e.g. Rhizobium loti probable transcriptional regulator Mlr0535 TR:Q98ML2 (EMBL:AP002995) (204 aa) fasta scores: E(): 6e-33, 51.92% id in 208 aa; TetR family transcriptional regulator complement(3017061..3017681) Bordetella pertussis Tohama I 2665614 NP_881434.1 CDS BP2841 NC_002929.2 3017773 3018525 D Similar to Pseudomonas aeruginosa probable short-chain dehydrogenase Pa0182 TR:Q9I6V0 (EMBL:AE004456) (250 aa) fasta scores: E(): 1.5e-43, 55.2% id in 250 aa and to Bacillus subtilis 3-oxoacyl-[acyl-carrier protein] reductase FabG SW:FABG_BACSU (P51831) (246 aa) fasta scores: E(): 7.9e-25, 37.86% id in 243 aa; short-chain dehydrogenase 3017773..3018525 Bordetella pertussis Tohama I 2665615 NP_881435.1 CDS BP2845 NC_002929.2 3021440 3022390 R transposase for IS481 element; transposase complement(3021440..3022390) Bordetella pertussis Tohama I 2666973 NP_881436.1 CDS BP2848 NC_002929.2 3024354 3025304 D transposase for IS481 element; transposase 3024354..3025304 Bordetella pertussis Tohama I 2666975 NP_881437.1 CDS BP2849 NC_002929.2 3025301 3026209 R Similar to several transcriptional regulators e.g. Escherichia coli hca operon transcriptional activator HcaR or PhdR or B2537 SW:HCAR_ECOLI (Q47141) (296 aa) fasta scores: E(): 9.7e-08, 27.3% id in 282 aa; LysR family transcriptional regulator complement(3025301..3026209) Bordetella pertussis Tohama I 2666069 NP_881438.1 CDS panB NC_002929.2 3026336 3027172 D catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate; 3-methyl-2-oxobutanoate hydroxymethyltransferase 3026336..3027172 Bordetella pertussis Tohama I 2666070 NP_881439.1 CDS BP2851 NC_002929.2 3027685 3028794 D Highly similar to the Bordetella pertussis outer membrane porin protein precursor (BP0840) SW:OMP_BORPE (Q04064) (385 aa) fasta scores: E(): 6.4e-58, 53.72% id in 389 aa. Also similar to BP0267 (63.345% identity in 281 aa overlap), and BP0840 (53.728% identity in 389 aa overlap).; outer membrane porin protein 3027685..3028794 Bordetella pertussis Tohama I 2666071 NP_881440.1 CDS BP2852 NC_002929.2 3028856 3029806 R transposase for IS481 element; transposase complement(3028856..3029806) Bordetella pertussis Tohama I 2666072 NP_881441.1 CDS BP2853 NC_002929.2 3029999 3030781 R Similar to several e.g. Streptomyces exfoliatus 20-beta-hydroxysteroid dehydrogenase SW:2BHD_STREX (P19992) (255 aa) fasta scores: E(): 1e-26, 41.4% id in 256 aa; short chain dehydrogenase complement(3029999..3030781) Bordetella pertussis Tohama I 2666073 NP_881442.1 CDS BP2854 NC_002929.2 3030795 3031544 R Similar to Bacillus subtilis glucose 1-dehydrogenase ii ycdF SW:DHG2_BACSU (P80869) (258 aa) fasta scores: E(): 1.7e-26, 38.34% id in 253 aa; short chain dehydrogenase complement(3030795..3031544) Bordetella pertussis Tohama I 2666074 NP_881443.1 CDS BP2855 NC_002929.2 3031572 3032918 R Similar to many membrane transport proteins e.g. Escherichia coli alpha-ketoglutarate permease KgtP or WitA or B2587 SW:KGTP_ECOLI (P17448) (432 aa) fasta scores: E(): 1.3e-45, 34.81% id in 428 aa; membrane transport protein complement(3031572..3032918) Bordetella pertussis Tohama I 2666075 NP_881444.1 CDS BP2856 NC_002929.2 3032944 3033873 R Similar to several proteins of unknown function e.g. Escherichia coli hypothetical 31.7 kDa protein SW:YPT2_ECOLI (Q99390) (286 aa) fasta scores: E(): 8.1e-15, 27.11% id in 284 aa; hypothetical protein complement(3032944..3033873) Bordetella pertussis Tohama I 2666076 NP_881445.1 CDS BP2857 NC_002929.2 3033989 3034894 D Similar to several including: Caulobacter crescentus isoleucine biosynthesis transcriptional activator Ilvr or Cc3045 SW:ILVR_CAUCR (P52670) (296 aa) fasta scores: E(): 1.2e-18, 33.11% id in 311 aa; LysR family transcriptional regulator 3033989..3034894 Bordetella pertussis Tohama I 2666077 NP_881446.1 CDS tyrB NC_002929.2 3034912 3036111 R catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase complement(3034912..3036111) Bordetella pertussis Tohama I 2666078 NP_881447.1 CDS BP2859 NC_002929.2 3036184 3036876 R Similar to many proteins of unknown function e.g. Escherichia coli O157:H7 hypothetical 25.8 kDa protein Ecs2700 TR:BAB36123 (EMBL:AP002559) (231 aa) fasta scores: E(): 3.5e-32, 50.46% id in 214 aa; hypothetical protein complement(3036184..3036876) Bordetella pertussis Tohama I 2666079 NP_881448.1 CDS BP2860 NC_002929.2 3036925 3039351 R Highly similar to Rhizobium meliloti copper-transporting ATPase ActP SW:ATCU_RHIME (Q9X5X3) (827 aa) fasta scores: E(): 1.5e-179, 66.58% id in 802 aa, and to Synechococcus sp cation-transporting ATPase PacS SW:ATCS_SYNP7 (P37279) (747 aa) fasta scores: E(): 2.3e-110, 49.33% id in 748 aa. Note the differing predicted N-termini of these proteins. The Bordetella protein is predicted to be ~18 aa shorter than the other two examples. The upstream IS481 element may offer one explanation for this. It is also not clear if the insertion of this IS element affects the expression of this CDS.; cation-transporting ATPase complement(3036925..3039351) Bordetella pertussis Tohama I 2666801 NP_881449.1 CDS BP2861 NC_002929.2 3039396 3040346 R transposase for IS481 element; transposase complement(3039396..3040346) Bordetella pertussis Tohama I 2666809 NP_881450.1 CDS BP2862 NC_002929.2 3040563 3040931 R Similar to several proteins of undefined function e.g. Rhizobium loti Mll7047 protein TR:Q987H8 (EMBL:AP003010) (126 aa) fasta scores: E(): 1.1e-09, 37.06% id in 116 aa; hypothetical protein complement(3040563..3040931) Bordetella pertussis Tohama I 2666810 NP_881451.1 CDS BP2863 NC_002929.2 3041253 3042143 D Similar to several proteins of undefined function e.g. Rhizobium loti Mlr0372 protein TR:Q98MZ7 (EMBL:AP002994) (296 aa) fasta scores: E(): 8.7e-07, 26.91% id in 301 aa; hypothetical protein 3041253..3042143 Bordetella pertussis Tohama I 2666811 NP_881452.1 CDS BP2864 NC_002929.2 3042187 3043197 D Similar to many alcohol dehydrogenases e.g. Halobacterium sp alcohol dehydrogenase Adh4 or Vng1821G TR:Q9HP38 (EMBL:AE005083) (347 aa) fasta scores: E(): 1.7e-29, 42.33% id in 352 aa; alcohol dehydrogenase 3042187..3043197 Bordetella pertussis Tohama I 2666812 NP_881453.1 CDS BP2865 NC_002929.2 3043194 3043628 D Similar to several proteins of undefined function e.g. Sphingomonas aromaticivorans hypothetical 14.5 kDa protein TR:O85848 (EMBL:AF079317) (137 aa) fasta scores: E(): 5.1e-06, 31.91% id in 141 aa; hypothetical protein 3043194..3043628 Bordetella pertussis Tohama I 2666813 NP_881454.1 CDS BP2867 NC_002929.2 3044754 3045542 D Similar to many membrane transport proteins e.g. Escherichia coli taurine transport ATP-binding protein TauB or SsiB or B0366 SW:TAUB_ECOLI (Q47538) (255 aa) fasta scores: E(): 2.9e-29, 45.37% id in 216 aa; ABC transporter ATP-binding protein 3044754..3045542 Bordetella pertussis Tohama I 2666815 NP_881455.1 CDS BP2868 NC_002929.2 3045552 3046334 D Similar to many membrane transport proteins e.g. Rhizobium loti ABC transporter permease mlr6798 TR:Q988C6 (EMBL:AP003010) (275 aa) fasta scores: E(): 5.8e-26, 34.28% id in 245 aa, and to Escherichia coli aliphatic sulfonates transport permease ssuc ssuc or b0934 SW:SSUC_ECOLI (P75851) (263 aa) fasta scores: E(): 4.6e-19, 28.92% id in 242 aa; ABC transporter inner membrane protein 3045552..3046334 Bordetella pertussis Tohama I 2666816 NP_881456.1 CDS BP2869 NC_002929.2 3046338 3047429 R The very N-terminus of the predicted product of this CDS is similar to Rhizobium loti Msr6094 protein TR:Q98A99 (EMBL:AP003008) (79 aa) fasta scores: E(): 9.3e-05, 44.59% id in 74 aa. Otherwise there are no significant database hits. Similar to BP0779, 43.785% identity (43.909% ungapped) in 354 aa overlap.; hypothetical protein complement(3046338..3047429) Bordetella pertussis Tohama I 2666817 NP_881457.1 CDS BP2870 NC_002929.2 3047535 3049010 D Similar to many acid CoA ligases e.g. Rhizobium loti Mlr1843 TR:Q98JP7 (EMBL:AP002998) (495 aa) fasta scores: E(): 4.9e-39, 33.12% id in 486 aa; acid CoA ligase 3047535..3049010 Bordetella pertussis Tohama I 2666281 NP_881458.1 CDS BP2871 NC_002929.2 3049152 3049700 D no significant database hits. Similar to BP3011, 45.562% identity (47.531% ungapped) in 169 aa overlap.; hypothetical protein 3049152..3049700 Bordetella pertussis Tohama I 2666282 NP_881459.1 CDS BP2872 NC_002929.2 3049716 3050177 R Similar to many proposed transcriptional regulators e.g. Rhizobium meliloti transcription regulator protein Smc00131 TR:CAC46458 (EMBL:AL591788) (162 aa) fasta scores: E(): 7.2e-38, 63.57% id in 151 aa; AsnC family transcriptional regulator complement(3049716..3050177) Bordetella pertussis Tohama I 2666283 NP_881460.1 CDS BP2873 NC_002929.2 3050278 3051267 R Similar to many proteins of undefined function e.g. Rhizobium meliloti hypothetical protein Sma1927 sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.9e-52, 48.91% id in 321 aa; hypothetical protein complement(3050278..3051267) Bordetella pertussis Tohama I 2666284 NP_881461.1 CDS ribE NC_002929.2 3051566 3052267 D catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine; riboflavin synthase subunit alpha 3051566..3052267 Bordetella pertussis Tohama I 2666285 NP_881462.1 CDS BP2875 NC_002929.2 3052306 3053679 R Similar to Pseudomonas putida amidase SW:AMID_PSEPU (O69768) (466 aa) fasta scores: E(): 5.2e-18, 27.98% id in 461 aa and to Rhizobium loti glu-trna amidotransferase, subunit a mlr6081 TR:Q98AB0 (EMBL:AP003008) (478 aa) fasta scores: E(): 3.4e-23, 31.6% id in 443 aa; amidase complement(3052306..3053679) Bordetella pertussis Tohama I 2666286 NP_881463.1 CDS BP2878 NC_002929.2 3055891 3056793 D Similar to many transcriptional regulators e.g. Escherichia coli glycine cleavage system transcriptional activator GcvA or b2808 or Z4125 or Ecs3668 SW:GCVA_ECOLI (P32064) (305 aa) fasta scores: E(): 2.4e-34, 37.5% id in 288 aa; LysR family transcriptional regulator 3055891..3056793 Bordetella pertussis Tohama I 2666274 NP_881464.1 CDS BP2879 NC_002929.2 3056741 3057961 R Similar to many membrane transport proteins e.g. Escherichia coli cyanate transport protein CynX or b0341 SW:CYNX_ECOLI (P17583) (384 aa) fasta scores: E(): 1.9e-46, 41.36% id in 382 aa; membrane transport protein complement(3056741..3057961) Bordetella pertussis Tohama I 2666275 NP_881465.1 CDS BP2880 NC_002929.2 3057958 3058467 R Similar to several proteins of undefined function e.g. Pseudomonas aeruginosa probable deaminase Pa2499 TR:Q9I0Y3 (EMBL:AE004677) (151 aa) fasta scores: E(): 8e-31, 59.45% id in 148 aa; hypothetical protein complement(3057958..3058467) Bordetella pertussis Tohama I 2666276 NP_881466.1 CDS BP2881 NC_002929.2 3058457 3059134 R Similar to many proteins carrying the mainly Eukaryotic Ankyrin repeat motif e.g. Pseudomonas aeruginosa hypothetical protein Pa2498 pa2498 TR:Q9I0Y4 (EMBL:AE004677) (210 aa) fasta scores: E(): 2.2e-42, 66.19% id in 213 aa, and to Burkholderia solanacearum probable ankyrin repeat harboring signal peptide protein rsc0781 TR:CAD14483 (EMBL:AL646061) (261 aa) fasta scores: E(): 2.7e-26, 49.73% id in 189 aa; hypothetical protein complement(3058457..3059134) Bordetella pertussis Tohama I 2666277 NP_881467.1 CDS BP2882 NC_002929.2 3059223 3060092 D Similar to many proposed transcriptional regulators including: Streptomyces coelicolor Sc4b5.05C TR:Q9ZBW3 (EMBL:AL034443) (292 aa) fasta scores: E(): 1.5e-24, 38.43% id in 281 aa and to Pseudomonas aeruginosa Pa2497 TR:Q9I0Y5 (EMBL:AE004677) (292 aa) fasta scores: E(): 8.5e-67, 66.31% id in 285 aa; lysR family transcriptional regulator 3059223..3060092 Bordetella pertussis Tohama I 2666278 NP_881468.1 CDS BP2884 NC_002929.2 3060442 3061392 D transposase for IS481 element; transposase 3060442..3061392 Bordetella pertussis Tohama I 2666280 NP_881469.1 CDS BP2885 NC_002929.2 3061389 3062465 R Similar to many proteins of undefined function e.g. Pseudomonas aeruginosa hypothetical protein Pa2651 TR:Q9I0I7 (EMBL:AE004694) (352 aa) fasta scores: E(): 1.2e-93, 76.1% id in 339 aa, and to Escherichia coli hypothetical protein YdiK or B1688 SW:YDIK_ECOLI (P77175) (370 aa) fasta scores: E(): 3.8e-19, 28.32% id in 346 aa; hypothetical protein complement(3061389..3062465) Bordetella pertussis Tohama I 2667552 NP_881470.1 CDS BP2886 NC_002929.2 3062510 3063262 R lipoprotein complement(3062510..3063262) Bordetella pertussis Tohama I 2667553 NP_881471.1 CDS BP2887 NC_002929.2 3063777 3064106 D no significant database hits; hypothetical protein 3063777..3064106 Bordetella pertussis Tohama I 2667554 NP_881472.1 CDS BP2888 NC_002929.2 3064168 3064863 D Similar to Chromatium vinosum hydrogenase cytochrome B-type subunit homolog TR:Q46471 (EMBL:U25811) (231 aa) fasta scores: E(): 4.2e-30, 45.07% id in 213 aa; hypothetical protein 3064168..3064863 Bordetella pertussis Tohama I 2667555 NP_881473.1 CDS BP2889 NC_002929.2 3064948 3065406 R Similar to Alcaligenes xylosoxydans xylosoxydans cytochrome c' SW:CYCP_ALCXX (P00138) (127 aa) fasta scores: E(): 1.2e-39, 81.89% id in 127 aa and to Neisseria meningitidis C-type cytochrome Nma1119 TR:Q9JUV4 (EMBL:AL162755) (152 aa) fasta scores: E(): 2.3e-15, 38.81% id in 152 aa; c'cytochrome complement(3064948..3065406) Bordetella pertussis Tohama I 2667556 NP_881474.1 CDS purB NC_002929.2 3065469 3066845 R Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide; adenylosuccinate lyase complement(3065469..3066845) Bordetella pertussis Tohama I 2667557 NP_881475.1 CDS BP2891 NC_002929.2 3067005 3067616 D Similar to serveral including: Escherichia coli hypothetical Gst-like protein YibF or b3592 SW:YIBF_ECOLI (P32105) (202 aa) fasta scores: E(): 1.5e-26, 40.88% id in 203 aa, and to Escherichia coli O157:H7 EDL933 S-transferase YibF TR:AAG58736 (EMBL:AE005586) (202 aa) fasta scores: E(): 1.5e-26, 40.88% id in 203 aa; hypothetical protein 3067005..3067616 Bordetella pertussis Tohama I 2665844 NP_881476.1 CDS BP2892 NC_002929.2 3067714 3068532 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0340 pa0340 TR:Q9I6F3 (EMBL:AE004472) (267 aa) fasta scores: E(): 3e-32, 41.4% id in 256 aa, and to Neisseria meningitidis hypothetical protein Nmb1319 nmb1319 TR:Q9JZ32 (EMBL:AE002480) (257 aa) fasta scores: E(): 1.4e-28, 37.74% id in 257 aa; hypothetical protein complement(3067714..3068532) Bordetella pertussis Tohama I 2665845 NP_881477.1 CDS mnmA NC_002929.2 3068633 3069748 R catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs; tRNA-specific 2-thiouridylase MnmA complement(3068633..3069748) Bordetella pertussis Tohama I 2665846 NP_881478.1 CDS BP2894 NC_002929.2 3069761 3070681 R Similar to several including: Pseudomonas aeruginosa probable transcriptional regulator Pa0448 TR:Q9I670 (EMBL:AE004482) (302 aa) fasta scores: E(): 1.3e-48, 43.05% id in 295 aa and to Escherichia coli glycine cleavage system transcriptional activator GcvA or b2808 or z4125 or Ecs3668 SW:GCVA_ECOLI (P32064) (305 aa) fasta scores: E(): 5.1e-32, 34.78% id in 299 aa; LysR family transcriptional regulator complement(3069761..3070681) Bordetella pertussis Tohama I 2665847 NP_881479.1 CDS BP2895 NC_002929.2 3070852 3071838 D Similar to many including: Rhizobium meliloti hypothetical protein Sma1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.5e-51, 45.79% id in 321 aa and to Streptomyces coelicolor secreted protein 2Scg38.31 TR:Q9EWY8 (EMBL:AL445503) (332 aa) fasta scores: E(): 6e-14, 26.39% id in 322 aa; hypothetical protein 3070852..3071838 Bordetella pertussis Tohama I 2665848 NP_881480.1 CDS BP2896 NC_002929.2 3071899 3072774 D Similar to many proposed hydrolases including: Rhizobium loti N-formylglutamate amidohydrolase Mll3040 TR:Q98H42 (EMBL:AP003001) (313 aa) fasta scores: E(): 4.9e-33, 40.6% id in 266 aa, and to Rhizobium loti N-formylglutamate amidohydrolase, hutg mlr8322 TR:Q983H9 (EMBL:AP003013) (273 aa) fasta scores: E(): 7e-11, 30.14% id in 282 aa; hydrolase 3071899..3072774 Bordetella pertussis Tohama I 2665851 NP_881481.1 CDS pntaA NC_002929.2 3073029 3074147 D Similar to Rhodospirillum rubrum NAD(P) transhydrogenase, alpha subunit part 1 PntaA or NntA1 SWALL:Q60164 (EMBL:U05294) (384 aa) fasta scores: E(): 8.2e-59, 51.32% id in 378 aa, and to Ralstonia solanacearum probable NAD(P) transhydrogenase PntaA or Rsc2730 or Rs00124 SWALL:CAD16437 (EMBL:AL646071) (379 aa) fasta scores: E(): 2.6e-96, 73.51% id in 370 aa; NAD(P) transhydrogenase subunit alpha part 1 3073029..3074147 Bordetella pertussis Tohama I 2665852 NP_881482.1 CDS BP2900 NC_002929.2 3075942 3076973 R Similar in the C-terminus to several transcriptional regulators including: Salmonella typhimurium transcriptional activator in FoxA 5'region TR:O69047 (EMBL:AF060876) (325 aa) fasta scores: E(): 6.3e-12, 31.75% id in 296 aa and to Bordetella bronchiseptica AlcR TR:O52834 (EMBL:AJ000061) (303 aa) fasta scores: E(): 7.5e-11, 28.17% id in 291 aa; transcriptional regulator complement(3075942..3076973) Bordetella pertussis Tohama I 2666160 NP_881483.1 CDS bfeA NC_002929.2 3077128 3079341 D Fep; Cbt; Cbr; FeuB; FepA; PfeA; IroN; BfeA; outer membrane receptor of ferric enterobactin and colicins B and D; interacts with the TonB-ExbBD complex which catalyzes the translocation of the siderophore to the periplasmic space; outer membrane receptor FepA 3077128..3079341 Bordetella pertussis Tohama I 2666161 NP_881484.1 CDS BP2902 NC_002929.2 3079344 3080255 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2689 SWALL:Q9I0F2 (EMBL:AE004697) (304 aa) fasta scores: E(): 2.4e-25, 39.79% id in 289 aa, and to Escherichia coli IroE protein SWALL:CAC43425 (EMBL:X16664) (318 aa) fasta scores: E(): 1.8e-16, 34.01% id in 244 aa; Weakly similar to several proteins of undefined function e.g. Pseudomonas aeruginosa hypothetical protein Pa2689 TR:Q9I0F2 (EMBL:AE004697) (304 aa) fasta scores: E(): 2.4e-25, 39.79% id in 289 aa; hypothetical protein 3079344..3080255 Bordetella pertussis Tohama I 2666162 NP_881485.1 CDS glcF NC_002929.2 3080246 3081475 R Similar to Escherichia coli glycolate oxidase iron-sulfur subunit GlcF or Gox or b2978 SW:GLCF_ECOLI (P52074) (407 aa) fasta scores: E(): 3.4e-77, 52.69% id in 408 aa and to Rhizobium loti glycolate oxidase subunit Mlr6920 TR:Q987T7 (EMBL:AP003010) (441 aa) fasta scores: E(): 4.7e-34, 42.79% id in 423 aa; glycolate oxidase iron-sulfur subunit complement(3080246..3081475) Bordetella pertussis Tohama I 2666163 NP_881486.1 CDS glcE NC_002929.2 3081508 3082617 R Similar to Pseudomonas aeruginosa glycolate oxidase subunit GlcE or Pa5354 TR:Q9HTK4 (EMBL:AE004947) (359 aa) fasta scores: E(): 2.9e-36, 51.51% id in 363 aa, and to Escherichia coli glycolate oxidase subunit GlcE or Gox or b2977.1 SW:GLCE_ECOLI (P52073) (350 aa) fasta scores: E(): 7.5e-36, 47.93% id in 363 aa; glycolate oxidase FAD binding subunit complement(3081508..3082617) Bordetella pertussis Tohama I 2666164 NP_881487.1 CDS glcD NC_002929.2 3082629 3084128 R Similar to Escherichia coli glycolate oxidase subunit GlcD or Gox or b2979 SW:GLCD_ECOLI (P52075) (499 aa) fasta scores: E(): 1.7e-117, 60.2% id in 495 aa, and to Pseudomonas aeruginosa glycolate oxidase subunit GlcD or Pa5355 TR:Q9HTK3 (EMBL:AE004947) (499 aa) fasta scores: E(): 8.2e-120, 62.02% id in 503 aa; glycolate oxidase subunit complement(3082629..3084128) Bordetella pertussis Tohama I 2666165 NP_881488.1 CDS BP2906 NC_002929.2 3084263 3085672 R Similar to many including: Rhizobium loti probable D-lactate dehydrogenase Mll1488 TR:Q98KG4 (EMBL:AP002997) (575 aa) fasta scores: E(): 5.3e-98, 55.26% id in 456 aa and to Kluyveromyces lactis D-lactate dehydrogenase [cytochrome] mitochondrial precursor Dld1 SW:DLD1_KLULA (Q12627) (579 aa) fasta scores: E(): 3.2e-62, 40.61% id in 426 aa and to Escherichia coli glycolate oxidase subunit GlcD GlcD or Gox or b2979 SW:GLCD_ECOLI (P52075) (499 aa) fasta scores: E(): 1e-39, 31.38% id in 462 aa. Also weakly similar to the adjoining CDS: BP2905 fasta scores: E(): 3.8e-39 30.655% identity in 473 aa; oxidoreductase complement(3084263..3085672) Bordetella pertussis Tohama I 2666166 NP_881489.1 CDS fhaL NC_002929.2 3085865 3098455 D Similar to Bordetella bronchiseptica adhesin FhaB or BP1879 TR:Q9JP78 (EMBL:AF111796) (3634 aa)fasta scores: E(): 9e-125, 33.527% id in 2750 aa and to Bordetella pertussis filamentous hemagglutinin fhaB SW:FHAB_BORPE (P12255) (3591 aa) fasta scores: E(): 1.4e-123, 33.67% id in 2705 aa. The product of this CDS is also similar to B. pertussis BP2667 E(): 7.1e-117, 37.949% identity in 2672 aa.; adhesin 3085865..3098455 Bordetella pertussis Tohama I 2666167 NP_881490.1 CDS aroG NC_002929.2 3098477 3099550 R catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive; phospho-2-dehydro-3-deoxyheptonate aldolase complement(3098477..3099550) Bordetella pertussis Tohama I 2666168 NP_881491.1 CDS BP2909 NC_002929.2 3099807 3101267 R Similar to many proteins displaying simlarity to the E. coli suppressor protein TldD e.g. Neisseria meningitidis protein TldD homolog or Nma0367 TR:Q9JWH8 (EMBL:AL162752) (480 aa) fasta scores: E(): 6.2e-116, 63.91% id in 485 aa. Also similar to the Escherichia coli TldD protein SW:TLDD_ECOLI (P46473) (481 aa) fasta scores: E(): 1.7e-106, 59% id in 483 aa; hypothetical protein complement(3099807..3101267) Bordetella pertussis Tohama I 2666169 NP_881492.1 CDS BP2910 NC_002929.2 3101278 3102108 R Similar to many including: Neisseria meningitidis nitrilase Nmb0441 TR:Q9K0W5 (EMBL:AE002400) (270 aa) fasta scores: E(): 5.6e-52, 53.23% id in 263 aa and to Pseudomonas aeruginosa hypothetical protein Pa4475 TR:Q9HVU6 (EMBL:AE004861) (282 aa) fasta scores: E(): 5.1e-42, 46.86% id in 271 aa; hydrolase complement(3101278..3102108) Bordetella pertussis Tohama I 2666170 NP_881493.1 CDS bph3 NC_002929.2 3102233 3102604 D Previously sequenced Bordetella pertussis Bph3 TR:O07507 (EMBL:U82566) (123 aa) fasta scores: E(): 5.2e-42, 100% id in 123 aa; DNA-binding protein (histone) 3102233..3102604 Bordetella pertussis Tohama I 2666171 NP_881494.1 CDS BP2912 NC_002929.2 3102703 3103653 R transposase for IS481 element; transposase complement(3102703..3103653) Bordetella pertussis Tohama I 2666172 NP_881495.1 CDS BP2913 NC_002929.2 3103752 3104555 R Similar to several including: Agrobacterium tumefaciens Agr_c_3680p agr_c_3680 TR:AAK87785 (EMBL:AE008119) (262 aa) fasta scores: E(): 5.1e-25, 37.02% id in 262 aa and to Pseudomonas fluorescens transmembrane regulator PrtR TR:Q9KIN0 (EMBL:AF228766) (242 aa) fasta scores: E(): 1.7e-12, 31.25% id in 240 aa; hypothetical protein complement(3103752..3104555) Bordetella pertussis Tohama I 2666173 NP_881496.1 CDS BP2914 NC_002929.2 3104552 3105079 R Similar to many RNA polymerase sigma factors e.g. Bradyrhizobium japonicum EcfA TR:Q9EXR8 (EMBL:AJ304855) (172 aa) fasta scores: E(): 1.6e-20, 51.22% id in 164 aa; RNA polymerase sigma factor complement(3104552..3105079) Bordetella pertussis Tohama I 2666174 NP_881497.1 CDS BP2915 NC_002929.2 3105130 3105498 R Similar to several including: Pseudomonas syringae pvmaculicola hypothetical protein TR:AAK49553 (EMBL:AF359557) (126 aa) fasta scores: E(): 2.7e-25, 58.62% id in 116 aa and to Rhizobium meliloti hypothetical signal peptide protein Smc01418 TR:CAC46680 (EMBL:AL591789) (124 aa) fasta scores: E(): 5.3e-19, 48.36% id in 122 aa; hypothetical protein complement(3105130..3105498) Bordetella pertussis Tohama I 2666175 NP_881498.1 CDS BP2916 NC_002929.2 3105699 3106181 R 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; nucleotide-binding protein complement(3105699..3106181) Bordetella pertussis Tohama I 2666176 NP_881499.1 CDS BP2917 NC_002929.2 3106312 3106764 D Similar to Pseudomonas aeruginosa hypothetical protein Pa1044 TR:Q9I4T0 (EMBL:AE004536) (154 aa) fasta scores: E(): 2e-14, 43.05% id in 144 aa; hypothetical protein 3106312..3106764 Bordetella pertussis Tohama I 2666177 NP_881500.1 CDS BP2918 NC_002929.2 3106772 3107185 R Similar to Bacillus halodurans Bh3119 protein TR:Q9K887 (EMBL:AP001517) (134 aa) fasta scores: E(): 2.8e-27, 50.39% id in 127 aa, and to Rhizobium meliloti hypothetical protein Smc01879 TR:Q92NM9 (EMBL:AL591789) (134 aa) fasta scores: E(): 5.2e-26, 53.54% id in 127 aa; hypothetical protein complement(3106772..3107185) Bordetella pertussis Tohama I 2666178 NP_881501.1 CDS BP2919 NC_002929.2 3107307 3108050 R Similar to Salmonella enterica subsp enterica serovar Typhi possible lipoprotein Sty3194 TR:CAD02868 (EMBL:AL627277) (250 aa) fasta scores: E(): 1.8e-19, 37.44% id in 243 aa and to Pseudomonas aeruginosa lipoprotein NlpD/LppB homolog precursor Pa3623 SW:NLPD_PSEAE (P45682) (297 aa) fasta scores: E(): 1.1e-18, 39.1% id in 289 aa; lipoprotein complement(3107307..3108050) Bordetella pertussis Tohama I 2667038 NP_881502.1 CDS BP2920 NC_002929.2 3108196 3109425 D Similar to Pseudomonas aeruginosa probable transporter Pa4289 TR:Q9HWB1 (EMBL:AE004845) (401 aa) fasta scores: E(): 4.4e-72, 59.55% id in 403 aa and to Bacillus halodurans chromate transporter ChrA or Bh0574 TR:Q9KFB1 (EMBL:AP001509) (397 aa) fasta scores: E(): 2e-59, 50.9% id in 387 aa; chromate transport protein 3108196..3109425 Bordetella pertussis Tohama I 2667039 NP_881503.1 CDS BP2921 NC_002929.2 3109428 3110897 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0435 TR:Q9I682 (EMBL:AE004480) (492 aa) fasta scores: E(): 1.8e-84, 51.11% id in 495 aa; hypothetical protein complement(3109428..3110897) Bordetella pertussis Tohama I 2667040 NP_881504.1 CDS bfrG NC_002929.2 3110909 3113107 R Similar to Pseudomonas aeruginosa hypothetical protein Pa0434 TR:Q9I683 (EMBL:AE004480) (730 aa) fasta scores: E(): 7.2e-136, 49.52% id in 737 aa, and to Escherichia coli ferrichrome-iron receptor precursor FhuA or TonA or b0150 SW:FHUA_ECOLI (P06971) (747 aa) fasta scores: E(): 3.7e-14, 22.9% id in 786 aa; TonB-dependent receptor complement(3110909..3113107) Bordetella pertussis Tohama I 2667041 NP_881505.1 CDS BP2923 NC_002929.2 3113270 3113707 R no significant database hits; lipoprotein complement(3113270..3113707) Bordetella pertussis Tohama I 2667042 NP_881506.1 CDS BP2924 NC_002929.2 3114009 3114305 D Weakly similar to Burkholderia solanacearum probable signal peptide protein Rsp1034 TR:CAD18185 (EMBL:AL646082) (89 aa) fasta scores: E(): 2e-07, 49.33% id in 75 aa; hypothetical protein 3114009..3114305 Bordetella pertussis Tohama I 2667043 NP_881507.1 CDS BP2925 NC_002929.2 3114302 3115186 D Similar to Rhizobium meliloti hypothetical protein Smb20529 TR:CAC48908 (EMBL:AL603643) (309 aa) fasta scores: E(): 3.9e-53, 52.76% id in 271 aa and to Caulobacter crescentus hypothetical protein Cc3255 TR:Q9A3E9 (EMBL:AE005989) (280 aa) fasta scores: E(): 1.2e-44, 48.14% id in 270 aa; hypothetical protein 3114302..3115186 Bordetella pertussis Tohama I 2667044 NP_881508.1 CDS BP2926 NC_002929.2 3115201 3115956 D Weakly similar to Rhizobium meliloti hypothetical protein Smb20528 TR:CAC48907 (EMBL:AL603643) (266 aa) fasta scores: E(): 3.4e-19, 35.08% id in 248 aa and to Caulobacter crescentus hypothetical protein Cc3256 TR:Q9A3E8 (EMBL:AE005989) (254 aa) fasta scores: E(): 3.3e-14, 33.07% id in 254 aa; hypothetical protein 3115201..3115956 Bordetella pertussis Tohama I 2667045 NP_881509.1 CDS BP2927 NC_002929.2 3115960 3116457 D Similar in parts to Caulobacter crescentus hypothetical protein Cc3257 TR:Q9A3E7 (EMBL:AE005989) (150 aa) fasta scores: E(): 4.7e-15, 46.66% id in 135 aa and to Rhizobium meliloti hypothetical protein Smb20527 TR:CAC48906 (EMBL:AL603643) (144 aa) fasta scores: E(): 8.9e-12, 38.88% id in 144 aa; hypothetical protein 3115960..3116457 Bordetella pertussis Tohama I 2667046 NP_881510.1 CDS BP2928 NC_002929.2 3116489 3117919 R Similar to many membrane transport proteins including: Streptomyces avermitilis MFS transporter protein TR:BAB69375 (EMBL:AB070955) (465 aa) fasta scores: E(): 6e-81, 54.64% id in 463 aa and to Nocardia lactamdurans cephamycin export protein CmcT SW:CMCT_NOCLA (Q04733) (486 aa) fasta scores: E(): 7.3e-42, 38.28% id in 465 aa; membrane transport protein complement(3116489..3117919) Bordetella pertussis Tohama I 2667047 NP_881511.1 CDS BP2929 NC_002929.2 3118058 3118405 D Similar to several ArsR-family regulatory proteins including: Rhizobium meliloti regulator NitR TR:Q9AH16 (EMBL:AF323118) (123 aa) fasta scores: E(): 1.4e-10, 44.89% id in 98 aa and Rhizobium loti probable regulatory protein Mlr2511 TR:Q98I91 (EMBL:AP002999) (118 aa) fasta scores: E(): 2.7e-11, 45.09% id in 102 aa; regulatory protein 3118058..3118405 Bordetella pertussis Tohama I 2667048 NP_881512.1 CDS cyoD NC_002929.2 3118526 3118873 R Similar to Escherichia coli cytochrome O ubiquinol oxidase CyoD or b0429 or z0532 or Ecs0483 SW:CYOD_ECOLI (P18403) (109 aa) fasta scores: E(): 3.1e-15, 47.27% id in 110 aa and to Pseudomonas putida cytochrome O ubiquinol oxidase CyoD SW:CYOD_PSEPU (Q9WWR4) (110 aa) fasta scores: E(): 4.2e-15, 43.92% id in 107 aa; cytochrome 0 ubiquinol oxidase complement(3118526..3118873) Bordetella pertussis Tohama I 2667049 NP_881513.1 CDS cyoC NC_002929.2 3118873 3119484 R Similar to Escherichia coli cytochrome O ubiquinol oxidase subunit III CyoC or b0430 SW:CYOC_ECOLI (P18402) (204 aa) fasta scores: E(): 1.9e-47, 60.29% id in 204 aa and to Pseudomonas putida cytochrome O ubiquinol oxidase subunit III CyoC SW:CYOC_PSEPU (Q9WWR3) (207 aa) fasta scores: E(): 4.6e-49, 61.57% id in 203 aa; cytochrome O ubiquinol oxidase complement(3118873..3119484) Bordetella pertussis Tohama I 2667050 NP_881514.1 CDS cyoB NC_002929.2 3119488 3121467 R Similar to Escherichia coli cytochrome O ubiquinol oxidase polypeptide I CyoB or B0431 or Z0534 or Ecs0485 SW:CYOB_ECOLI (P18401) (663 aa) fasta scores: E(): 4.1e-193, 70.27% id in 656 aa and to Pseudomonas putida ubiquinol oxidase polypeptide I CyoB SW:CYOB_PSEPU (Q9WWR2) (672 aa) fasta scores: E(): 7.3e-181, 66.92% id in 659 aa; ubiquinol oxidase subunit I complement(3119488..3121467) Bordetella pertussis Tohama I 2667032 NP_881515.1 CDS cyoA NC_002929.2 3121471 3122385 R Similar to Escherichia coli ubiquinol oxidase polypeptide II precursor CyoA or B0432 SW:CYOA_ECOLI (P18400) (315 aa) fasta scores: E(): 1.1e-59, 55.19% id in 279 aa and to Pseudomonas putida ubiquinol oxidase polypeptide II precursor CyoA SW:CYOA_PSEPU (Q9WWR1) (314 aa) fasta scores: E(): 2.5e-61, 54.15% id in 301 aa. Also similar to BP2731, 50.000% identity (52.107% ungapped) in 272 aa overlap.; ubiquinol oxidase polypeptide II complement(3121471..3122385) Bordetella pertussis Tohama I 2666186 NP_881516.1 CDS BP2934 NC_002929.2 3122594 3123148 R Similar to many two component system response regulators including: Xylella fastidiosa two-component system, regulatory protein Xf2578 TR:Q9PAE0 (EMBL:AE004064) (192 aa) fasta scores: E(): 6.1e-40, 66.66% id in 177 aa and to Rhodovulum sulfidophilum photosynthetic apparatus regulatory protein RegA SW:REGA_RHOSU (O82868) (183 aa) fasta scores: E(): 1e-20, 43.93% id in 173 aa; two component system response regulator complement(3122594..3123148) Bordetella pertussis Tohama I 2666187 NP_881517.1 CDS BP2935 NC_002929.2 3123145 3124356 R Similar to many two component system histidine kinases including: Xylella fastidiosa two-component system Xf2577 TR:Q9PAE1 (EMBL:AE004064) (405 aa) fasta scores: E(): 2.1e-72, 52.76% id in 398 aa and to Rhodobacter sphaeroides sensor histidine kinase RegB or PrrB SW:REGB_RHOSH (Q53068) (462 aa) fasta scores: E(): 1.6e-15, 29.06% id in 406 aa; two component system, histidine kinase complement(3123145..3124356) Bordetella pertussis Tohama I 2665682 NP_881518.1 CDS BP2936 NC_002929.2 3124551 3125558 R no significant database hits; hypothetical protein complement(3124551..3125558) Bordetella pertussis Tohama I 2665683 NP_881519.1 CDS BP2937 NC_002929.2 3125697 3126563 R Similar to Yersinia pestis conserved hypothetical protein Ypo2149 TR:CAC90958 (EMBL:AJ414151) (289 aa) fasta scores: E(): 7.6e-78, 67.24% id in 287 aa and to Salmonella typhimurium LT2 cytoplasmic protein Stm0951 TR:AAL19886 (EMBL:AE008740) (286 aa) fasta scores: E(): 1.7e-74, 65.15% id in 287 aa; hypothetical protein complement(3125697..3126563) Bordetella pertussis Tohama I 2665684 NP_881520.1 CDS BP2939 NC_002929.2 3127322 3128128 R Similar to many transcriptional regulators e.g. Rhizobium meliloti transcriptional activator Sma1933 TR:AAK65718 (EMBL:AE007292) (204 aa) fasta scores: E(): 2.1e-26, 51.38% id in 181 aa. Note that the BP2939 lacks the first ~25 aa possessed by almost all of the database hits.; LysR family transcriptional regulator complement(3127322..3128128) Bordetella pertussis Tohama I 2665686 NP_881521.1 CDS BP2940 NC_002929.2 3128182 3129540 D Similar to many membrane transport proteins including: Rhizobium meliloti transmembrane transport protein Sma1937 TR:AAK65720 (EMBL:AE007292) (412 aa) fasta scores: E(): 5.7e-47, 43.87% id in 392 aa and to Pseudomonas aeruginosa probable MFS transporter Pa3718 TR:Q9HXS3 (EMBL:AE004791) (413 aa) fasta scores: E(): 1.6e-33, 36.95% id in 387 aa; hypothetical protein 3128182..3129540 Bordetella pertussis Tohama I 2665687 NP_881522.1 CDS BP2941 NC_002929.2 3129537 3130727 R Similar to Streptomyces coelicolor racemase Sc5f2a.13 TR:Q9X7N6 (EMBL:AL049587) (398 aa) fasta scores: E(): 1e-70, 55.22% id in 364 aa, and to Mycobacterium tuberculosis CDC1551 fatty acid-coA racemase Mt1176 TR:AAK45435 (EMBL:AE006996) (395 aa) fasta scores: E(): 3.7e-69, 51.16% id in 387 aa; racemase complement(3129537..3130727) Bordetella pertussis Tohama I 2665688 NP_881523.1 CDS BP2942 NC_002929.2 3130785 3131696 D Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa1826 TR:Q9I2R9 (EMBL:AE004609) (301 aa) fasta scores: E(): 5.4e-29, 39% id in 300 aa and to Bacillus subtilis Als operon regulatory protein AlsR SW:ALSR_BACSU (Q04778) (302 aa) fasta scores: E(): 3.4e-25, 34% id in 250 aa; LysR family transcriptional regulator 3130785..3131696 Bordetella pertussis Tohama I 2665876 NP_881524.1 CDS BP2943 NC_002929.2 3131720 3132709 R Similar to several proteins of undefined function e.g. Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 8.5e-43, 42.02% id in 326 aa and to Rhizobium meliloti hypothetical protein Sma1927 TR:Q92Y30 (EMBL:AE007292) (330 aa) fasta scores: E(): 5e-40, 38.58% id in 324 aa; hypothetical protein complement(3131720..3132709) Bordetella pertussis Tohama I 2665877 NP_881525.1 CDS BP2944 NC_002929.2 3132734 3133201 R Weakly similar to Sulfolobus tokodaii hypothetical protein St0068 TR:BAB65025 (EMBL:AP000981) (165 aa) fasta scores: E(): 4.8e-09, 30.87% id in 149 aa and to Rhodococcus sp NCIMB 9784 FAD-binding protein CampD TR:AAK50623 (EMBL:AF323755) (167 aa) fasta scores: E(): 1.2e-07, 32.41% id in 145 aa; hypothetical protein complement(3132734..3133201) Bordetella pertussis Tohama I 2665886 NP_881526.1 CDS BP2946 NC_002929.2 3133888 3134595 D Similar to several transcriptional regulators including: Pseudomonas aeruginosa probable transcriptional regulator Pa0279 TR:Q9I6L1 (EMBL:AE004466) (232 aa) fasta scores: E(): 4.6e-34, 46.94% id in 213 aa and to Caulobacter crescentus transcriptional regulator Cc3070 TR:Q9A3Y1 (EMBL:AE005970) (234 aa) fasta scores: E(): 9e-28, 43.98% id in 216 aa; ArsR family transcriptional regulator 3133888..3134595 Bordetella pertussis Tohama I 2665888 NP_881527.1 CDS BP2947 NC_002929.2 3134715 3135665 D transposase for IS481 element; transposase 3134715..3135665 Bordetella pertussis Tohama I 2665889 NP_881528.1 CDS BP2948 NC_002929.2 3135811 3136971 R Similar to Escherichia coli riboflavin biosynthesis protein (diamino hydroxyphospho ribosylaminopyrimidine deaminase) RibD or RibG or b0414 SW:RIBD_ECOLI (P25539) (367 aa) fasta scores: E(): 1.6e-50, 46.46% id in 368 aa and to Xylella fastidiosa riboflavin-specific deaminase Xf0950 TR:Q9PES8 (EMBL:AE003934) (364 aa) fasta scores: E(): 1.1e-53, 48.77% id in 367 aa; riboflavin biosynthesis protein ribd [includes: diaminohydroxyphosphoribosylaminopyrimidine deaminase complement(3135811..3136971) Bordetella pertussis Tohama I 2667453 NP_881529.1 CDS BP2949 NC_002929.2 3137060 3137704 D Similar in parts to several including: Agrobacterium tumefaciens TR:AAK86081 (EMBL:AE007965) (239 aa) fasta scores: E(): 1.6e-18, 50.82% id in 183 aa and to Pseudomonas aeruginosa hypothetical protein Pa1677TR:Q9I348 (EMBL:AE004595) (198 aa) fasta scores: E(): 1.9e-07, 30.47% id in 210 aa; hypothetical protein 3137060..3137704 Bordetella pertussis Tohama I 2667463 NP_881530.1 CDS nrdR NC_002929.2 3138699 3139181 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4057 SW:Y4F7_PSEAE (Q9HWX1) (154 aa) fasta scores: E(): 4.9e-29, 52.38% id in 147 aa and to Vibrio cholerae hypothetical protein Vc2272 SW:YM72_VIBCH (Q9KPU0) (149 aa) fasta scores: E(): 6.4e-29, 54.73% id in 148 aa; transcriptional regulator NrdR complement(3138699..3139181) Bordetella pertussis Tohama I 2667465 NP_881531.1 CDS glyA NC_002929.2 3139339 3140586 R catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate; serine hydroxymethyltransferase complement(3139339..3140586) Bordetella pertussis Tohama I 2667466 NP_881532.1 CDS BP2953 NC_002929.2 3140807 3141463 R Similar to Thauera aromatica ypothetical protein BbsI TR:Q9KJE6 (EMBL:AF173961) (209 aa) fasta scores: E(): 2.9e-49, 58.04% id in 205 aa and to Xylella fastidiosa hypothetical protein Xf2170 TR:Q9PBH4 (EMBL:AE004031) (204 aa) fasta scores: E(): 7.3e-40, 50.24% id in 205 aa; hypothetical protein complement(3140807..3141463) Bordetella pertussis Tohama I 2667467 NP_881533.1 CDS tyrS NC_002929.2 3141499 3142728 R catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr); tyrosyl-tRNA synthetase complement(3141499..3142728) Bordetella pertussis Tohama I 2667468 NP_881534.1 CDS BP2955 NC_002929.2 3142996 3143946 D transposase for IS481 element; transposase 3142996..3143946 Bordetella pertussis Tohama I 2665693 NP_881535.1 CDS BP2956 NC_002929.2 3144038 3145453 D Weakly similar to several including: Pseudomonas aeruginosa hypothetical protein Pa0667 TR:Q9I5Q4 (EMBL:AE004501) (447 aa) fasta scores: E(): 5.2e-42, 39.83% id in 369 aa and to Neisseria meningitidis hypothetical protein Nmb0315 TR:Q9K163 (EMBL:AE002388) (430 aa) fasta scores: E(): 2.4e-35, 32.8% id in 445 aa; hypothetical protein 3144038..3145453 Bordetella pertussis Tohama I 2665694 NP_881536.1 CDS anmK NC_002929.2 3145459 3146595 D catalyzes hydrolysis of 1,6-anhydro bond of anyhydro-N-acetylmuramic acid (anhMurNAc) and phosphorylates anhMurNAc to produce N-acetyl-muramate-6-phosphate; involved in murein recycling; anhydro-N-acetylmuramic acid kinase 3145459..3146595 Bordetella pertussis Tohama I 2665695 NP_881537.1 CDS BP2958 NC_002929.2 3146665 3147036 R essential respiratory protein A; may be involved in the transfer of iron-sulfur clusters; essential for growth using oxygen or alternate electron acceptors; iron-sulfur cluster insertion protein ErpA complement(3146665..3147036) Bordetella pertussis Tohama I 2665696 NP_881538.1 CDS BP2959 NC_002929.2 3147124 3147870 R Weakly similar in parts to Pseudomonas aeruginosa hypothetical protein Pa0663 TR:Q9I5Q8 (EMBL:AE004501) (239 aa) fasta scores: E(): 9.1e-06, 28.82% id in 222 aa; hypothetical protein complement(3147124..3147870) Bordetella pertussis Tohama I 2665697 NP_881539.1 CDS argC NC_002929.2 3147907 3148971 R 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; N-acetyl-gamma-glutamyl-phosphate reductase complement(3147907..3148971) Bordetella pertussis Tohama I 2665698 NP_881540.1 CDS rpsI NC_002929.2 3149160 3149552 R forms a direct contact with the tRNA during translation; 30S ribosomal protein S9 complement(3149160..3149552) Bordetella pertussis Tohama I 2665699 NP_881541.1 CDS rplM NC_002929.2 3149562 3149990 R in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit; 50S ribosomal protein L13 complement(3149562..3149990) Bordetella pertussis Tohama I 2667005 NP_881542.1 CDS BP2963 NC_002929.2 3150286 3151383 R Similar to many proposed extracellular solute binding proteins including: Rhodobacter sphaeroides periplasmic mannitol-binding protein SmoM TR:O30835 (EMBL:AF018073) (365 aa) fasta scores: E(): 1.4e-78, 52.87% id in 365 aa and to Rhodobacter capsulatus C4-dicarboxylate-binding periplasmic protein precursor DctP SW:DCTP_RHOCA (P37735) (333 aa) fasta scores: E(): 9.7e-05, 21.53% id in 325 aa; ABC transporter substrate-binding protein complement(3150286..3151383) Bordetella pertussis Tohama I 2667006 NP_881543.1 CDS BP2964 NC_002929.2 3151725 3153089 R Similar to several proteins of the PmbA/TldD family including: Pseudomonas aeruginosa PmbA protein TR:Q9HVU9 (EMBL:AE004861) (449 aa) fasta scores: E(): 1e-82, 52.86% id in 437 aa, and to Escherichia coli PmbA protein thought to be involved with secretion and maturation of microcin B17 (TldE or b4235 or z5845 or Ecs5212) SW:PMBA_ECOLI (P24231) (450 aa) fasta scores: E(): 2.7e-77, 49.66% id in 445 aa; hypothetical protein complement(3151725..3153089) Bordetella pertussis Tohama I 2667007 NP_881544.1 CDS BP2965 NC_002929.2 3153082 3153699 D Weakly similar to several proteins of undefined function including: Pasteurella multocida hypothetical protein Pm0119 TR:Q9CPC8 (EMBL:AE006047) (180 aa) fasta scores: E(): 1.8e-18, 44.02% id in 159 aa and to Vibrio cholerae hypothetical protein Vc2536 TR:Q9KP43 (EMBL:AE004323) (193 aa) fasta scores: E(): 5.7e-16, 41.11% id in 180 aa; hypothetical protein 3153082..3153699 Bordetella pertussis Tohama I 2667008 NP_881545.1 CDS BP2966 NC_002929.2 3153713 3154387 D Similar to many carboxylesterases including: Xylella fastidiosa Xf1624 TR:Q9PCY0 (EMBL:AE003989) (224 aa) fasta scores: E(): 1.5e-37, 49.53% id in 216 aa and to Pseudomonas fluorescens EstA SW:EST1_PSEFL (Q51758) (218 aa) fasta scores: E(): 2.9e-26, 41.31% id in 213 aa; carboxylesterase 3153713..3154387 Bordetella pertussis Tohama I 2667009 NP_881546.1 CDS BP2969 NC_002929.2 3155644 3156453 D Similar to Clostridium acetobutylicum nitrate ABC transporter ATP binding protein Cac0619 TR:Q97LE3 (EMBL:AE007577) (253 aa) fasta scores: E(): 2e-42, 48.42% id in 254 aa, and to Bacillus subtilis transporter YtlC TR:O34314 (EMBL:AF008220) (260 aa) fasta scores: E(): 2.9e-38, 47.58% id in 248 aa; ABC transporter ATP-binding protein 3155644..3156453 Bordetella pertussis Tohama I 2666991 NP_881547.1 CDS BP2970 NC_002929.2 3156456 3157292 D Similar to Clostridium acetobutylicum uncharacterised permease Cac0618 TR:Q97LE4 (EMBL:AE007577) (264 aa) fasta scores: E(): 3.7e-38, 40.99% id in 261 aa and to Pseudomonas aeruginosa probable permease of ABC transporter Pa3512 TR:Q9HY97 (EMBL:AE004771) (258 aa) fasta scores: E(): 1.9e-19, 32.5% id in 240 aa; ABC transporter inner membrane protein 3156456..3157292 Bordetella pertussis Tohama I 2667010 NP_881548.1 CDS BP2971 NC_002929.2 3157307 3157999 D Similar to many proteins of undefined function including: Rhizobium loti Mlr4169 protein TR:Q98EN3 (EMBL:AP003003) (223 aa) fasta scores: E(): 5.1e-11, 32.74% id in 226 aa, and to Streptomyces coelicolor hydrolase Scd65.07C TR:Q9F2S5 (EMBL:AL392176) (224 aa) fasta scores: E(): 1.2e-07, 28.76% id in 226 aa; hydrolase 3157307..3157999 Bordetella pertussis Tohama I 2667011 NP_881549.1 CDS BP2972 NC_002929.2 3158011 3158400 R Similar to Streptomyces coelicolor conserved hypothetical protein Scf76.17 TR:Q9RJF7 (EMBL:AL121600) (130 aa) fasta scores: E(): 6.3e-27, 58.91% id in 129 aa, and to Bacillus subtilis YurT protein TR:O32161 (EMBL:Z99120) (127 aa) fasta scores: E(): 3.4e-25, 57.93% id in 126 aa; hypothetical protein complement(3158011..3158400) Bordetella pertussis Tohama I 2667012 NP_881550.1 CDS dbpA NC_002929.2 3158506 3159894 R exhibits an RNA-dependent ATPase activity, specifically stimulated by bacterial 23S rRNA; ATP-dependent RNA helicase DbpA complement(3158506..3159894) Bordetella pertussis Tohama I 2667013 NP_881551.1 CDS BP2974 NC_002929.2 3160011 3161507 R Similar to several including: Bacillus halodurans Bh2161 protein TR:Q9KAX5 (EMBL:AP001514) (477aa) fasta scores: E(): 1.3e-38, 51.11% id in 493 aa, and to Bacillus subtilis hypothetical 48.8 kDa protein YhfA TR:O07599 (EMBL:Y14083) (463 aa) fasta scores: E(): 2e-17, 33.8% id in 497 aa. Also highly similar to BP0358, 65.339% identity in 502 aa overlap.; hypothetical protein complement(3160011..3161507) Bordetella pertussis Tohama I 2667014 NP_881552.1 CDS BP2975 NC_002929.2 3161804 3162478 D Similar to several including: Streptomyces coelicolor GntR-family transcriptional regulator Scgd3.11C TR:Q9XA67 (EMBL:AL096822) (216 aa) fasta scores: E(): 3.1e-14, 36.09% id in 205 aa and to Acinetobacter calcoaceticus transcriptional repressor MdcY TR:Q9F0Q8 (EMBL:AF209728) (224 aa) fasta scores: E(): 1.7e-13, 35.35% id in 198 aa; GntR family transcriptional regulator 3161804..3162478 Bordetella pertussis Tohama I 2667015 NP_881553.1 CDS BP2976 NC_002929.2 3162577 3163527 D transposase for IS481 element; transposase 3162577..3163527 Bordetella pertussis Tohama I 2667016 NP_881554.1 CDS BP2977 NC_002929.2 3163524 3165983 R Similar to several proteins of undefined function e.g. Escherichia coli O157:H7 hypothetical 52.7 kDa protein Ecs3450 TR:BAB36873 (EMBL:AP002562) (484 aa) fasta scores: E(): 4.1e-28, 32% id in 475 aa; hypothetical protein complement(3163524..3165983) Bordetella pertussis Tohama I 2666917 NP_881555.1 CDS gltX NC_002929.2 3166143 3167525 D Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation; glutamyl-tRNA synthetase 3166143..3167525 Bordetella pertussis Tohama I 2666918 NP_881556.1 CDS BP2979 NC_002929.2 3167529 3168716 R Similar to many proposed transport proteins e.g. Clostridium acetobutylicum permease, MDR related, probably tetracycline resistance protein Cap0124 TR:Q97TH7 (EMBL:AE001438) (393 aa) fasta scores: E(): 3e-22, 26.89% id in 357 aa and to Pseudomonas aeruginosa probable MFS transporter Pa3303 TR:Q9HYU1 (EMBL:AE004752) (391 aa) fasta scores: E(): 1.8e-13, 28.53% id in 382 aa; membrane transport protein complement(3167529..3168716) Bordetella pertussis Tohama I 2665855 NP_881557.1 CDS BP2980 NC_002929.2 3168785 3169324 R no significant database hits; lipoprotein complement(3168785..3169324) Bordetella pertussis Tohama I 2665856 NP_881558.1 CDS BP2981 NC_002929.2 3169496 3169948 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa4508 TR:Q9HVR3 (EMBL:AE004864) (157 aa) fasta scores: E(): 7.9e-21, 44% id in 150 aa and to Caulobacter crescentus leucine-responsive regulatory protein Cc0805 TR:Q9AA06 (EMBL:AE005757) (155 aa) fasta scores: E(): 2.7e-19, 44% id in 150 aa; AsnC family transcriptional regulator complement(3169496..3169948) Bordetella pertussis Tohama I 2665857 NP_881559.1 CDS nrdA NC_002929.2 3173878 3176805 D Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha 3173878..3176805 Bordetella pertussis Tohama I 2665859 NP_881560.1 CDS nrdB NC_002929.2 3176827 3178023 D Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit beta 3176827..3178023 Bordetella pertussis Tohama I 2665860 NP_881561.1 CDS bpH1 NC_002929.2 3178341 3178868 D Previously sequenced in Bordetella pertussis as histone H1 TR:Q45370 (EMBL:L37438) (182 aa) fasta scores: E(): 1.1e-39, 97.14% id in 175 aa; histone protein 3178341..3178868 Bordetella pertussis Tohama I 2665849 NP_881562.1 CDS BP2986 NC_002929.2 3179007 3179582 D Similar to Escherichia coli hypothetical protein YggT or b2952 or z4297 or Ecs3828 SW:YGGT_ECOLI (P52058) (188 aa) fasta scores: E(): 3.3e-14, 35.75% id in 179 aa and to Vibrio cholerae hypothetical protein Vc0459 TR:Q9KUQ6 (EMBL:AE004132) (185 aa) fasta scores: E(): 4.9e-14, 38.69% id in 168 aa; hypothetical protein 3179007..3179582 Bordetella pertussis Tohama I 2665850 NP_881563.1 CDS dltA NC_002929.2 3179590 3181053 R Similar to Lactococcus lactis D-alanine activating enzyme DltA TR:Q9CG49 (EMBL:AE006358) (499 aa) fasta scores: E(): 6.8e-40, 32.8% id in 445 aa and to Bacillus subtilis D-alanine-activating enzyme DltA SW:DLTA_BACSU (P39581) (503 aa) fasta scores: E(): 1e-32, 36.99% id in 492 aa; D-alanine--D-alanine ligase complement(3179590..3181053) Bordetella pertussis Tohama I 2665707 NP_881564.1 CDS dltB NC_002929.2 3181064 3182191 R Similar to Bacillus subtilis protein DltB thought to be involved in D-alanine transport SW:DLTB_BACSU (P39580) (395 aa) fasta scores: E(): 5.5e-25, 33.68% id in 282 aa, and to Lactococcus lactis peptidoglycan biosynthesis protein DltB TR:Q9CG50 (EMBL:AE006358) (407 aa) fasta scores: E(): 1.8e-23, 34.69% id in 245 aa; protein involved in the transfer of D-alanine into teichoic acids complement(3181064..3182191) Bordetella pertussis Tohama I 2665708 NP_881565.1 CDS BP2989 NC_002929.2 3182199 3182324 R hypothetical protein complement(3182199..3182324) Bordetella pertussis Tohama I 2665709 NP_881566.1 CDS dltD NC_002929.2 3182321 3183448 R Similar to Staphylococcus xylosus DltD dltD SWALL:Q9X2N7 (EMBL:AF032440) (382 aa) fasta scores: E(): 3.8e-07, 21.71% id in 327 aa, and to Streptococcus agalactiae secreted protein, DltD dltD SWALL:Q8VM64 (EMBL:AJ291784) (420 aa) fasta scores: E(): 0.00019, 22.72% id in 330 aa; protein involved in the transfer of D-alanine into teichoic acids complement(3182321..3183448) Bordetella pertussis Tohama I 2665700 NP_881567.1 CDS BP2991 NC_002929.2 3183474 3183713 R Similar to in regions to: Escherichia coli O157:H7 EDL933 acyl carrier protein z4853 TR:AAG58588 (EMBL:AE005571) (85 aa) fasta scores: E(): 0.0049, 37.03% id in 81 aa and to Bacillus subtilis D-alanyl carrier protein DltC SW:DLTC_BACSU (P39579) (78 aa) fasta scores: E(): 0.14, 30.5% id in 59 aa; acyl carrier protein complement(3183474..3183713) Bordetella pertussis Tohama I 2665701 NP_881568.1 CDS pcp NC_002929.2 3183994 3184497 R Similar to many Pectobacterium carotovorum subspcarotovorum. outer membrane lipoprotein Pcp TR:Q9RB08 (EMBL:AF168687) (155 aa) fasta scores: E(): 3.6e-13, 40.64% id in 155 aa and to Salmonella typhimurium outer membrane lipoprotein SlyB SW:SLYB_SALTY (Q53549) (155 aa) fasta scores: E(): 8.1e-14, 40.64% id in 155 aa. Note the extended N-terminal region of the Bordetella orthologue.; lipoprotein complement(3183994..3184497) Bordetella pertussis Tohama I 2665702 NP_881569.1 CDS BP2993 NC_002929.2 3184670 3185611 R Similar to Streptomyces coelicolor kinase Sc6g10.31C TR:Q9X816 (EMBL:AL049497) (338 aa) fasta scores: E(): 1.2e-28, 35.69% id in 311 aa and in the C-terminal region to Haemophilus influenzae ribokinase RbsK or Hi0505 SW:RBSK_HAEIN (P44331) (306 aa) fasta scores: E(): 0.0005, 24.34% id in 267 aa; carbohydrate kinase complement(3184670..3185611) Bordetella pertussis Tohama I 2665703 NP_881570.1 CDS BP2994 NC_002929.2 3185623 3186720 R Weakly similar in parts to Pseudomonas aeruginosa hypothetical protein Pa4851 TR:Q9HUW2 (EMBL:AE004898) (421 aa) fasta scores: E(): 0.00026, 27.27% id in 418 aa; hypothetical protein complement(3185623..3186720) Bordetella pertussis Tohama I 2665704 NP_881571.1 CDS fabG NC_002929.2 3187686 3189032 R an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism; acetyl-CoA carboxylase biotin carboxylase subunit complement(3187686..3189032) Bordetella pertussis Tohama I 2665711 NP_881572.1 CDS fabE NC_002929.2 3189042 3189491 R composes the biotin carboxyl carrier protein subunit of the acetyl-CoA carboxylase complex, the enzyme that catalyzes the carboxylation of acetyl-CoA to malonyl-CoA, which in turn controls the rate of fatty acid metabolism; acetyl-CoA carboxylase biotin carboxyl carrier protein subunit complement(3189042..3189491) Bordetella pertussis Tohama I 2665890 NP_881573.1 CDS aroQ NC_002929.2 3189581 3190015 R catalyzes the formation of 3-dehydroshikimate from 3-dehydroquinate in chorismate biosynthesis; 3-dehydroquinate dehydratase complement(3189581..3190015) Bordetella pertussis Tohama I 2665891 NP_881574.1 CDS BP2999 NC_002929.2 3190094 3190663 R Similar in parts to many thioredoxins e.g. Xylella fastidiosa thioredoxin Xf1990 TR:Q9PBZ5 (EMBL:AE004018) (211 aa) fasta scores: E(): 3.6e-12, 35.46% id in 141 aa and to Bradyrhizobium japonicum thiol:disulfide interchange protein TlpA SW:TLPA_BRAJA (P43221) (221 aa) fasta scores: E(): 1.9e-09, 34.1% id in 173 aa; thioredoxin complement(3190094..3190663) Bordetella pertussis Tohama I 2665892 NP_881575.1 CDS mpl NC_002929.2 3190725 3192095 D Similar to Escherichia coli UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diami nopimelate ligase Mpl or b4233 SW:MPL_ECOLI (P37773) (457 aa) fasta scores: E(): 2.3e-91, 55.79% id in 457 aa, and to Pseudomonas aeruginosa UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diami nopimelate ligase Mpl or Pa4020 TR:Q9HX07 (EMBL:AE004818) (451 aa) fasta scores: E(): 1.7e-101, 60.83% id in 457 aa; UDP-N-acetylmuramate--L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase 3190725..3192095 Bordetella pertussis Tohama I 2665893 NP_881576.1 CDS BP3001 NC_002929.2 3192106 3192699 D Similar to Pseudomonas aeruginosa hypothetical protein PA4968 TR:Q9HUJ7 (EMBL:AE004909) (206 aa) fasta scores: E(): 2.5e-20, 42.56% id in 195 aa; hypothetical protein 3192106..3192699 Bordetella pertussis Tohama I 2665894 NP_881577.1 CDS BP3002 NC_002929.2 3192771 3194654 D Similar to Neisseria meningitidis hypothetical protein NMA2205 TR:Q9JSP1 (EMBL:AL162758) (635 aa) fasta scores: E(): 1.2e-70, 40.63% id in 598 aa, and to Neisseria meningitidis ribonuclease II-related protein NMB0282 TR:Q9K185 (EMBL:AE002385) (626 aa) fasta scores: E(): 9.7e-70, 40.13% id in 598 aa; hypothetical protein 3192771..3194654 Bordetella pertussis Tohama I 2665895 NP_881578.1 CDS BP3003 NC_002929.2 3194692 3195591 D Similar to Pseudomonas aeruginosa hypothetical protein PA0406 TR:Q9I698 (EMBL:AE004477) (319 aa) fasta scores: E(): 7.2e-18, 31.63% id in 294 aa; hypothetical protein 3194692..3195591 Bordetella pertussis Tohama I 2665896 NP_881579.1 CDS aroE NC_002929.2 3195588 3196451 D AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate; shikimate 5-dehydrogenase 3195588..3196451 Bordetella pertussis Tohama I 2665897 NP_881580.1 CDS BP3005 NC_002929.2 3196550 3197500 D transposase for IS481 element; transposase 3196550..3197500 Bordetella pertussis Tohama I 2665898 NP_881581.1 CDS pagP NC_002929.2 3197509 3198057 D catalyzes the transfer of palmitate to lipid A; palmitoyl transferase 3197509..3198057 Bordetella pertussis Tohama I 2665899 NP_881582.1 CDS BP3007 NC_002929.2 3198054 3198674 R Similar to Rhizobium loti hypothetical protein MLL3532 TR:Q98G14 (EMBL:AP003002) (184 aa) fasta scores: E(): 1.2e-23, 48.12% id in 160 aa. Also similar to BP3250, 57.714% identity (57.714% ungapped) in 175 aa overlap.; hypothetical protein complement(3198054..3198674) Bordetella pertussis Tohama I 2665900 NP_881583.1 CDS grp NC_002929.2 3198845 3199315 R Similar to Zymomonas mobilis glutamate uptake regulatory protein Grp SW:GRP_ZYMMO (P74996) (164 aa) fasta scores: E(): 1.1e-25, 51.67% id in 149 aa; glutamate uptake regulatory protein complement(3198845..3199315) Bordetella pertussis Tohama I 2665901 NP_881584.1 CDS BP3009 NC_002929.2 3199322 3200581 R Similar to Escherichia coli D-amino acid dehydrogenase small subunit DadA or DadR or B1189 or Z1952 or ECS1684 SW:DADA_ECOLI (P29011) (432 aa) fasta scores: E(): 1.2e-60, 41.62% id in 418 aa; D-amino acid dehydrogenase small subunit complement(3199322..3200581) Bordetella pertussis Tohama I 2665902 NP_881585.1 CDS BP3010 NC_002929.2 3200634 3201446 R Similar to Rhizobium meliloti oxidoreductase SMC01157 TR:CAC41799 (EMBL:AL591783) (259 aa) fasta scores: E(): 3e-26, 39.01% id in 264 aa; oxidoreductase complement(3200634..3201446) Bordetella pertussis Tohama I 2665903 NP_881586.1 CDS BP3011 NC_002929.2 3201498 3202115 D Weakly similar to Pseudomonas aeruginosa hypothetical protein PA2602 TR:Q9I0N5 (EMBL:AE004689) (201 aa) fasta scores: E(): 2.8e-08, 28.57% id in 133 aa. Also similar to BP2871, 45.562% identity (47.531% ungapped) in 169 aa overlap.; hypothetical protein 3201498..3202115 Bordetella pertussis Tohama I 2665904 NP_881587.1 CDS BP3012 NC_002929.2 3202125 3203174 R Similar to Rhizobium meliloti conserved hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.3e-40, 39.02% id in 328 aa; hypothetical protein complement(3202125..3203174) Bordetella pertussis Tohama I 2665905 NP_881588.1 CDS BP3013 NC_002929.2 3203294 3204013 R Poor database matches. Weakly similar to the N-terminal regions of Agrobacterium tumefaciens hypothetical protein AGR_C_2627p TR:AAK87216 (EMBL:AE008068) (292 aa) fasta scores: E(): 0.0046, 28.75% id in 240 aa, and Rhizobium loti hypothetical protein MLR0372 TR:Q98MZ7 (EMBL:AP002994) (296 aa) fasta scores: E(): 0.018, 25.45% id in 220 aa; hypothetical protein complement(3203294..3204013) Bordetella pertussis Tohama I 2665906 NP_881589.1 CDS secA NC_002929.2 3204030 3206765 R functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; proteins in this cluster correspond SecA1; SecA2 is not essential and seems to play a role in secretion of a subset of proteins; preprotein translocase subunit SecA complement(3204030..3206765) Bordetella pertussis Tohama I 2665907 NP_881590.1 CDS BP3015 NC_002929.2 3206945 3207874 R Similar to Shewanella violacea hypothetical protein YebA TR:Q9F1M5 (EMBL:AB052554) (299 aa) fasta scores: E(): 1.6e-20, 37.33% id in 233 aa, and to Xylella fastidiosa hypothetical protein XF0805 TR:Q9PF73 (EMBL:AE003920) (319 aa) fasta scores: E(): 5e-21, 36.13% id in 238 aa; M23/M37 family peptidase complement(3206945..3207874) Bordetella pertussis Tohama I 2665908 NP_881591.1 CDS BP3016 NC_002929.2 3208060 3208467 D Poor database matches. Similar to Neisseria meningitidis hypothetical protein NMA1734 TR:Q9JTK8 (EMBL:AL162757) (140 aa) fasta scores: E(): 0.01, 29% id in 131 aa; hypothetical protein 3208060..3208467 Bordetella pertussis Tohama I 2665909 NP_881592.1 CDS lpxC NC_002929.2 3208579 3209502 R 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; UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase complement(3208579..3209502) Bordetella pertussis Tohama I 2665910 NP_881593.1 CDS ftsZ NC_002929.2 3209731 3210915 R GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function; cell division protein FtsZ complement(3209731..3210915) Bordetella pertussis Tohama I 2665911 NP_881594.1 CDS ftsA NC_002929.2 3211104 3212330 R Similar to Escherichia coli cell division protein FtsA or DivA or B0094 or Z0104 or ECS0098 SW:FTSA_ECOLI (P06137) (420 aa) fasta scores: E(): 5.2e-64, 45.76% id in 413 aa, and to Pseudomonas aeruginosa cell division protein FtsA or PA4408 SW:FTSA_PSEAE (P47203) (417 aa) fasta scores: E(): 5.2e-86, 58.16% id in 404 aa; cell division protein FtsA complement(3211104..3212330) Bordetella pertussis Tohama I 2665912 NP_881595.1 CDS ftsQ NC_002929.2 3212335 3213156 R Similar to Pseudomonas aeruginosa cell division protein FtsQ or PA4409 TR:Q9LCT5 (EMBL:U19797) (287 aa) fasta scores: E(): 7e-19, 32.12% id in 249 aa, and to Escherichia coli cell division protein FtsQ or B0093 SW:FTSQ_ECOLI (P06136) (276 aa) fasta scores: E(): 2.3e-14, 29.32% id in 266 aa; cell division protein FtsQ complement(3212335..3213156) Bordetella pertussis Tohama I 2665913 NP_881596.1 CDS ddl NC_002929.2 3213169 3214119 R D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli; D-alanine--D-alanine ligase complement(3213169..3214119) Bordetella pertussis Tohama I 2665914 NP_881597.1 CDS murC NC_002929.2 3214116 3215522 R Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis; UDP-N-acetylmuramate--L-alanine ligase complement(3214116..3215522) Bordetella pertussis Tohama I 2665870 NP_881598.1 CDS murG NC_002929.2 3215519 3216592 R UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis; undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase complement(3215519..3216592) Bordetella pertussis Tohama I 2665871 NP_881599.1 CDS ftsW NC_002929.2 3216589 3217782 R Similar to Escherichia coli cell division protein FtsW or B0089 or Z0099 or ECS0093 SW:FTSW_ECOLI (P16457) (414 aa) fasta scores: E(): 6.3e-53, 40.63% id in 379 aa; cell division protein FtsW complement(3216589..3217782) Bordetella pertussis Tohama I 2665872 NP_881600.1 CDS murD NC_002929.2 3217779 3219311 R UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation; UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase complement(3217779..3219311) Bordetella pertussis Tohama I 2665873 NP_881601.1 CDS mraY NC_002929.2 3219308 3220441 R First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan; phospho-N-acetylmuramoyl-pentapeptide- transferase complement(3219308..3220441) Bordetella pertussis Tohama I 2665874 NP_881602.1 CDS murE NC_002929.2 3220467 3223304 R fused protein. N-terminal region is similar to Escherichia coli UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimela te ligase MurE SW:MURE_ECOLI (P22188) (494 aa) fasta scores: E(): 2e-41, 42.77% id in 491 aa. C-terminal region is similar to to Escherichia coli UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate --D-alanyl-D-alanyl ligase MurF SW:MURF_ECOLI (P11880) (452 aa) fasta scores: E(): 6.5e-52, 42.55% id in 430 aa. Possibly bifunctional, catalysing the last two steps in the synthesis of UDP-N-acetylmuramyl-pentapeptide; bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase complement(3220467..3223304) Bordetella pertussis Tohama I 2666363 NP_881603.1 CDS ftsI NC_002929.2 3223301 3225031 R Similar to Escherichia coli peptidoglycan synthetase FtsI precursor or PbpB or B0084 or Z0094 or ECS0088 SW:FTSI_ECOLI (P04286) (588 aa) fasta scores: E(): 2.7e-79, 43.27% id in 550 aa, and to Neisseria gonorrhoeae penicillin-binding protein 2 PenA SW:PBP2_NEIGO (P08149) (581 aa) fasta scores: E(): 1.7e-86, 41.23% id in 553 aa; peptidoglycan synthetase complement(3223301..3225031) Bordetella pertussis Tohama I 2666358 NP_881604.1 CDS ftsL NC_002929.2 3225028 3225306 R Similar to Escherichia coli cell division protein FtsL or MraR or B0083 or Z0093 or ECS0087 SW:FTSL_ECOLI (P22187) (121 aa) fasta scores: E(): 0.005, 29.11% id in 79 aa; cell division protein complement(3225028..3225306) Bordetella pertussis Tohama I 2666359 NP_881605.1 CDS mraW NC_002929.2 3225306 3226400 R Similar to Escherichia coli hypothetical protein YabC or B0082 or Z0092 or ECS0086 SW:YABC_ECOLI (P18595) (313 aa) fasta scores: E(): 2.3e-52, 52.94% id in 289 aa, and to Neisseria meningitidis hypothetical protein NMA2074 TR:Q9JSY9 (EMBL:AL162758) (328 aa) fasta scores: E(): 2.7e-59, 58.74% id in 303 aa; S-adenosyl-methyltransferase MraW complement(3225306..3226400) Bordetella pertussis Tohama I 2666360 NP_881606.1 CDS mraZ NC_002929.2 3226409 3226837 R MraZ; UPF0040; crystal structure shows similarity to AbrB; cell division protein MraZ complement(3226409..3226837) Bordetella pertussis Tohama I 2666361 NP_881607.1 CDS BP3034 NC_002929.2 3227640 3229448 D Similar to Escherichia coli ABC transporter ATP-binding protein Uup or B0949 SW:UUP_ECOLI (P43672) (635 aa) fasta scores: E(): 9.7e-71, 46.03% id in 630 aa, and to Caulobacter crescentus holdfast attachment protein C HfaC or CC2631 SW:HFAC_CAUCR (Q45978) (608 aa) fasta scores: E(): 2.7e-62, 42.88% id in 611 aa; ABC transporter ATP-binding protein 3227640..3229448 Bordetella pertussis Tohama I 2666362 NP_881608.1 CDS pyrC NC_002929.2 3229488 3230567 R catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis; dihydroorotase complement(3229488..3230567) Bordetella pertussis Tohama I 2666364 NP_881609.1 CDS BP3036 NC_002929.2 3230564 3231757 R Similar to Rhizobium meliloti hippurate hydrolase TR:CAC45132 (EMBL:AL591784) (389 aa) fasta scores: E(): 1.6e-72, 52.52% id in 377 aa; hydrolase complement(3230564..3231757) Bordetella pertussis Tohama I 2666365 NP_881610.1 CDS BP3037 NC_002929.2 3231907 3232185 D Similar to Chlamydia muridarum hypothetical protein TC0745 TR:Q9PJT3 (EMBL:AE002343) (86 aa) fasta scores: E(): 5.8e-15, 54.21% id in 83 aa; hypothetical protein 3231907..3232185 Bordetella pertussis Tohama I 2666366 NP_881612.1 CDS lrp NC_002929.2 3239631 3240119 R Similar to Escherichia coli, leucine-responsive regulatory protein Lrp or AlsB or LivR or Ihb or OppI or B0889 or Z1234 or ECD0974 SW:LRP_ECOLI (P19494) (163 aa) fasta scores: E(): 3.6e-23, 44.23% id in 156 aa, and to Neisseria meningitidis AsnC-family transcriptional regulator NMA0756 TR:Q9JVP4 (EMBL:AL162754) (160 aa) fasta scores: E(): 4.1e-25, 46.15% id in 156 aa; leucine-responsive regulatory protein complement(3239631..3240119) Bordetella pertussis Tohama I 2665447 NP_881613.1 CDS bllY NC_002929.2 3240260 3241372 D Similar to Vibrio vulnificus hemolysin VllY SW:VLLY_VIBVU (O06695) (357 aa) fasta scores: E(): 9.6e-47, 56.78% id in 361 aa, and to Pseudomonas aeruginosa 4-hydroxyphenylpyruvate dioxygenase Hpd or PA0865 TR:Q9I576 (EMBL:AE004521) (357 aa) fasta scores: E(): 6.5e-54, 57.61% id in 361 aa; hemolysin 3240260..3241372 Bordetella pertussis Tohama I 2665448 NP_881614.1 CDS BP3041 NC_002929.2 3241440 3242000 R this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress; methionine sulfoxide reductase A complement(3241440..3242000) Bordetella pertussis Tohama I 2665449 NP_881615.1 CDS cyt NC_002929.2 3242024 3242356 R Similar to Nitrosomonas europaea Cytochrome c-552 precursor Cyt SW:C552_NITEU (P95339) (103 aa) fasta scores: E(): 8.4e-16, 53.46% id in 101 aa; cytochrome c-552 complement(3242024..3242356) Bordetella pertussis Tohama I 2665450 NP_881616.1 CDS ilvD NC_002929.2 3242340 3244028 R catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis; dihydroxy-acid dehydratase complement(3242340..3244028) Bordetella pertussis Tohama I 2665451 NP_881617.1 CDS lgt NC_002929.2 3244148 3244936 D transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein; prolipoprotein diacylglyceryl transferase 3244148..3244936 Bordetella pertussis Tohama I 2665452 NP_881618.1 CDS BP3046 NC_002929.2 3245644 3246594 D transposase for IS481 element; transposase 3245644..3246594 Bordetella pertussis Tohama I 2665454 NP_881619.1 CDS BP3047 NC_002929.2 3247039 3247350 R Similar to Neisseria meningitidis (serogroup A) hypothetical protein NMA0377 or NMB2058 TR:Q9JRG6 (EMBL:AL162753) (101 aa) fasta scores: E(): 3.7e-05, 35.05% id in 97 aa; hypothetical protein complement(3247039..3247350) Bordetella pertussis Tohama I 2665455 NP_881620.1 CDS BP3048 NC_002929.2 3247350 3247880 R Low similarity to N-teminal region of Mycobacterium tuberculosis hypothetical protein RV2229c or MT2288 or MTCY427.10c SW:YM29_MYCTU (Q10513) (245 aa) fasta scores: E(): 0.32, 30.51% id in 154 aa; hypothetical protein complement(3247350..3247880) Bordetella pertussis Tohama I 2665456 NP_881621.1 CDS BP3049 NC_002929.2 3248043 3248993 D transposase for IS481 element; transposase 3248043..3248993 Bordetella pertussis Tohama I 2665457 NP_881622.1 CDS BP3050 NC_002929.2 3249283 3249747 D Similar to Agrobacterium tumefaciens AGR_C_182p TR:AAK85937 (EMBL:AE007953) (153 aa) fasta scores: E(): 2.8e-11, 35.33% id in 133 aa; hypothetical protein 3249283..3249747 Bordetella pertussis Tohama I 2665458 NP_881623.1 CDS BP3051 NC_002929.2 3249762 3251267 D Similar to Agrobacterium tumefaciens Agr_c_184p TR:AAK85938 (EMBL:AE007953) (501 aa) fasta scores: E(): 5.5e-122, 65.86% id in 501 aa, and to Rhizobium meliloti conserved hypothetical protein SMB20027 TR:CAC48430 (EMBL:AL603642) (501 aa) fasta scores: E(): 1.1e-121, 65.26% id in 501 aa. Also similar to BP3869, 42.886% identity (43.776% ungapped) in 492 aa overlap.; hypothetical protein 3249762..3251267 Bordetella pertussis Tohama I 2666531 NP_881624.1 CDS BP3052 NC_002929.2 3251521 3253128 D Similar to Mycobacterium tuberculosis CDC1551 gamma-glutamyltransferase MT0797 TR:AAK45039 (EMBL:AE006970) (512 aa) fasta scores: E(): 4.2e-112, 56.73% id in 520 aa, and to Pseudomonas sp acylase AcyI SW:PAC1_PSES3 (P15557) (557 aa) fasta scores: E(): 5.3e-37, 33.03% id in 557 aa; gamma-glutamyltranspeptidase 3251521..3253128 Bordetella pertussis Tohama I 2666532 NP_881625.1 CDS BP3053 NC_002929.2 3253256 3254089 D Similar to Escherichia coli 2-hydroxy-3-oxopropionate reductase GlxR SW:GLXR_ECOLI (P77161) (292 aa) fasta scores: E(): 4.5e-25, 34.54% id in 275 aa, and to Rhizobium meliloti oxidoreductase SMC00133 TR:CAC46456 (EMBL:AL591788) (289 aa) fasta scores: E(): 2.1e-70, 69.56% id in 276 aa. CDS is truncated at the N-terminus in comparison to similar proteins. Similarity extends beyond the predicted translational start, however no start codons exsist; oxidoreductase 3253256..3254089 Bordetella pertussis Tohama I 2666535 NP_881626.1 CDS BP3055 NC_002929.2 3254530 3255480 R transposase for IS481 element; transposase complement(3254530..3255480) Bordetella pertussis Tohama I 2666537 NP_881627.1 CDS ung NC_002929.2 3255619 3256371 D 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; uracil-DNA glycosylase 3255619..3256371 Bordetella pertussis Tohama I 2666538 NP_881628.1 CDS BP3057 NC_002929.2 3256610 3258334 D Similar to Escherichia coli ATP-dependent RNA helicase RhlE SW:RHLE_ECOLI (P25888) (454 aa) fasta scores: E(): 9.2e-52, 43.36% id in 475 aa, and to Escherichia coli cold-shock DeaD-box protein A DeaD SW:DEAD_ECOLI (P23304) (628 aa) fasta scores: E(): 2.1e-47, 40.5% id in 511 aa. CDS contains an imperfect internal repeat (hexamer x15), residues 423 to 542. Similarity in the repeat region is poor; ATP-dependent RNA helicase 3256610..3258334 Bordetella pertussis Tohama I 2666539 NP_881629.1 CDS BP3058 NC_002929.2 3258354 3259613 D Similar to Neisseria meningitidis hypothetical protein NMA2076 TR:Q9JSY7 (EMBL:AL162758) (405 aa) fasta scores: E(): 2.8e-46, 40.49% id in 405 aa; hypothetical protein 3258354..3259613 Bordetella pertussis Tohama I 2666540 NP_881630.1 CDS cca NC_002929.2 3259628 3260722 R catalyzes the addition and repair of the 3'-terminal CCA sequence in tRNA; these proteins belong to the CCA-adding enzyme subfamily 2 which does not have phosphohydrolase activity; tRNA CCA-pyrophosphorylase complement(3259628..3260722) Bordetella pertussis Tohama I 2666541 NP_881631.1 CDS BP3060 NC_002929.2 3260719 3262782 R Similar to Escherichia coli soluble lytic murein transglycosylase precursor Slt SW:SLT_ECOLI (645 aa) fasta scores: E(): 1.4e-22, 23.39% id in 607 aa, and to Neisseria meningitidis transglycosylase NMA0503 TR:Q9JW81 (EMBL:AL162753) (616 aa) fasta scores: E(): 9e-47, 36.42% id in 582 aa. Possible alternative translational start sites; transglycosylase complement(3260719..3262782) Bordetella pertussis Tohama I 2666542 NP_881632.1 CDS BP3061 NC_002929.2 3262858 3263538 D Similar to Rhizobium meliloti conserved hypothetical protein SMC02594 TR:CAC41462 (EMBL:AL591782) (222 aa) fasta scores: E(): 1.2e-14, 34.42% id in 183 aa, and to Escherichia coli hypothetical protein YgfA SW:YGFA_ECOLI () (182 aa) fasta scores: E(): 1.5e-07, 29.84% id in 191 aa; 5-formyltetrahydrofolate cyclo-ligase 3262858..3263538 Bordetella pertussis Tohama I 2666543 NP_881633.1 CDS BP3062 NC_002929.2 3263816 3265189 D Similar to Streptomyces coelicolor integral membrane transport protein 2SCG2.23 TR:Q9EX30 (EMBL:AL445963) (478 aa) fasta scores: E(): 3.6e-57, 42.82% id in 418 aa, and to Escherichia coli shikimate transporter ShiA SW:SHIA_ECOLI (438 aa) fasta scores: E(): 2.2e-52, 36.96% id in 422 aa; integral membrane transport protein 3263816..3265189 Bordetella pertussis Tohama I 2666544 NP_881634.1 CDS BP3063 NC_002929.2 3265191 3266210 D Similar to Rhizobium loti acetylpolyamine aminohydrolase MLL0103 TR:Q98NK3 (EMBL:AP002994) (342 aa) fasta scores: E(): 3.3e-59, 44.67% id in 338 aa, and to Mycoplana ramosa acetylpolyamine aminohydrolase AphA SW:APHA_MYCRA (EMBL:D10463) (341 aa) fasta scores: E(): 2.5e-43, 36.65% id in 341 aa; aminohydrolase 3265191..3266210 Bordetella pertussis Tohama I 2666545 NP_881635.1 CDS BP3064 NC_002929.2 3266274 3267245 D Similar to Rhizobium meliloti transcriptional regulator, LysR family protein, SMB21180 TR:CAC49246 (EMBL:AL603645) (317 aa) fasta scores: E(): 1.2e-32, 36.89% id in 290 aa, and to Chromatium vinosum rubisco operon transcriptional regulator RbcR SW:RBCR_CHRVI (EMBL:M64032) (302 aa) fasta scores: E(): 2.1e-12, 26.4% id in 284 aa; transcriptional regulator 3266274..3267245 Bordetella pertussis Tohama I 2666546 NP_881636.1 CDS BP3065 NC_002929.2 3267310 3268260 R transposase for IS481 element; transposase complement(3267310..3268260) Bordetella pertussis Tohama I 2665922 NP_881637.1 CDS BP3066 NC_002929.2 3268359 3269201 R Similar to Pseudomonas aeruginosa 5,10-methylenetetrahydrofolate reductase MetF or PA0430 TR:Q9I687 (EMBL:AE004480) (290 aa) fasta scores: E(): 3.4e-64, 60.93% id in 279 aa, and to Escherichia coli 5,10-methylenetetrahydrofolate reductase MetF SW:METF_ECOLI (EMBL:V01502) (296 aa) fasta scores: E(): 1.2e-36, 40.97% id in 266 aa; methylenetetrahydrofolate reductase complement(3268359..3269201) Bordetella pertussis Tohama I 2665923 NP_881638.1 CDS BP3067 NC_002929.2 3269201 3269536 R Similar to Synechocystis sp hypothetical protein SLR0284 TR:P74406 (EMBL:D90914) (116 aa) fasta scores: E(): 3.2e-13, 44.64% id in 112 aa, and to Streptomyces coelicolor hypothetical protein SCQ11.05c SW:YPT3_STRCO (EMBL:U37580) (125 aa) fasta scores: E(): 6.8e-09, 42.1% id in 114 aa; hypothetical protein complement(3269201..3269536) Bordetella pertussis Tohama I 2665924 NP_881639.1 CDS acyH NC_002929.2 3269607 3271025 R catalyzes the formation of L-homocysteine from S-adenosyl-L-homocysteine; S-adenosyl-L-homocysteine hydrolase complement(3269607..3271025) Bordetella pertussis Tohama I 2665925 NP_881640.1 CDS BP3069 NC_002929.2 3271305 3272345 R Similar to Caulobacter crescentus glycosyl transferase, group 1 family protein CC3345 TR:Q9A361 (EMBL:AE005996) (363 aa) fasta scores: E(): 2.1e-58, 47.8% id in 341 aa, and to Rhizobium loti probable glycosyl transferase MLR2668 TR:Q98HX4 (EMBL:AP003000) (340 aa) fasta scores: E(): 6.9e-56, 48.62% id in 327 aa; glycosyl transferase family protein complement(3271305..3272345) Bordetella pertussis Tohama I 2665926 NP_881641.1 CDS BP3070 NC_002929.2 3272425 3272676 R Similar to Escherichia coli hypothetical protein YdhL SW:YDHL_ECOLI (P76188) (125 aa) fasta scores: E(): 0.039, 36.17% id in 94 aa. C-terminal region is similar to Pseudomonas aeruginosa hypothetical protein PA1788 TR:Q9I2V4 (EMBL:AE004604) (155 aa) fasta scores: E(): 6.1e-05, 51.11% id in 45 aa; hypothetical protein complement(3272425..3272676) Bordetella pertussis Tohama I 2665927 NP_881642.1 CDS metK NC_002929.2 3272787 3273950 R methionine adenosyltransferase; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase; S-adenosylmethionine synthetase complement(3272787..3273950) Bordetella pertussis Tohama I 2665928 NP_881643.1 CDS BP3072 NC_002929.2 3274234 3275088 D Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis lauroyl acyltransferase 3274234..3275088 Bordetella pertussis Tohama I 2666331 NP_881644.1 CDS BP3073 NC_002929.2 3275085 3275975 D Similar to Neisseria meningitidis HtrB/MsbB family protein NMB1418 TR:Q9JYV2 (EMBL:AE002491) (289 aa) fasta scores: E(): 1.2e-32, 35.14% id in 276 aa, and to Escherichia coli lipid A biosynthesis lauroyl acyltransferase HtrB SW:HTRB_ECOLI (EMBL:X61000) (306 aa) fasta scores: E(): 4.5e-28, 34.19% id in 272 aa; acyltransferase 3275085..3275975 Bordetella pertussis Tohama I 2666332 NP_881645.1 CDS dapF NC_002929.2 3276018 3276929 D involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate; diaminopimelate epimerase 3276018..3276929 Bordetella pertussis Tohama I 2666333 NP_881646.1 CDS BP3075 NC_002929.2 3276956 3277648 D Similar to Xylella fastidiosa hypothetical protein XF1482 TR:Q9PD97 (EMBL:AE003977) (226 aa) fasta scores: E(): 6.6e-13, 32.27% id in 220 aa; hypothetical protein 3276956..3277648 Bordetella pertussis Tohama I 2666334 NP_881647.1 CDS xerC NC_002929.2 3277663 3278643 D site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs; site-specific tyrosine recombinase XerC 3277663..3278643 Bordetella pertussis Tohama I 2666335 NP_881648.1 CDS BP3077 NC_002929.2 3278656 3280797 R Similar to Neisseria meningitidis outer-membrane receptor protein NMA1161 TR:Q9JUS2 (EMBL:AL162755) (764 aa) fasta scores: E(): 2e-34, 35.94% id in 740 aa; outer membrane protein complement(3278656..3280797) Bordetella pertussis Tohama I 2666326 NP_881649.1 CDS BP3078 NC_002929.2 3280846 3281784 R Similar to Rhizobium meliloti hypothetical transmembrane protein SMC02986 TR:CAC47457 (EMBL:AL591792) (344 aa) fasta scores: E(): 2.4e-23, 44.54% id in 330 aa; hypothetical protein complement(3280846..3281784) Bordetella pertussis Tohama I 2666327 NP_881650.1 CDS BP3079 NC_002929.2 3281805 3282386 R Similar to Rhizobium meliloti conserved hypothetical protein SMC02985 TR:CAC47456 (EMBL:AL591792) (214 aa) fasta scores: E(): 2.1e-09, 27.91% id in 197 aa; hypothetical protein complement(3281805..3282386) Bordetella pertussis Tohama I 2666328 NP_881651.1 CDS BP3080 NC_002929.2 3282434 3283369 R Similar to Rhizobium loti ABC transporter periplasmic binding protein MLL8313 TR:Q983I7 (EMBL:AP003013) (313 aa) fasta scores: E(): 8.5e-44, 44.72% id in 313 aa, and to Neisseria meningitidis adhesin, NMB0586 TR:Q9K0K8 (EMBL:AE002414) (304 aa) fasta scores: E(): 2.5e-41, 42.12% id in 311 aa; ABC transporter substrate-binding protein complement(3282434..3283369) Bordetella pertussis Tohama I 2666329 NP_881652.1 CDS BP3081 NC_002929.2 3283366 3284262 R Similar to Rhizobium loti ABC transporter permease MLL8314 TR:Q983I6 (EMBL:AP003013) (291 aa) fasta scores: E(): 6.8e-52, 59.85% id in 269 aa, and to Neisseria meningitidis membrane protein NMB0587 TR:Q9K0K7 (EMBL:AE002415) (291 aa) fasta scores: E(): 5.7e-51, 55.05% id in 287 aa; ABC transporter permease complement(3283366..3284262) Bordetella pertussis Tohama I 2666330 NP_881653.1 CDS BP3082 NC_002929.2 3284259 3284981 R Similar to Rhizobium loti ABC transporter ATP-binding protein MLL8315 TR:Q983I5 (EMBL:AP003013) (272 aa) fasta scores: E(): 3.5e-36, 51.73% id in 230 aa, and to Neisseria meningitidis ABC transporter ATP-binding protein NMB0588 TR:Q9K0K6 (EMBL:AE002415) (251 aa) fasta scores: E(): 2.5e-29, 47.11% id in 225 aa; transport protein ATP-binding complement(3284259..3284981) Bordetella pertussis Tohama I 2667051 NP_881654.1 CDS BP3083 NC_002929.2 3285301 3285813 D Similar to Pseudomonas aeruginosa transcriptional regulator NP20 or PA5499 TR:Q9HT74 (EMBL:AE004962) (167 aa) fasta scores: E(): 6.6e-17, 37.34% id in 158 aa, and to Escherichia coli zinc uptake regulation protein Zur SW:ZUR_ECOLI (EMBL:U00006) (171 aa) fasta scores: E(): 8.2e-16, 37.41% id in 155 aa; regulatory protein 3285301..3285813 Bordetella pertussis Tohama I 2667052 NP_881655.1 CDS BP3084 NC_002929.2 3286090 3287205 D Similar to Caulobacter crescentus hypothetical protein CC0321 TR:Q9ABB0 (EMBL:AE005705) (365 aa) fasta scores: E(): 9.5e-60, 47.79% id in 362 aa.; hypothetical protein 3286090..3287205 Bordetella pertussis Tohama I 2667053 NP_881656.1 CDS dksA NC_002929.2 3287348 3287812 D Similar to Neisseria meningitidis dnaK suppressor protein DksA or NMA0213 TR:Q9JWW3 (EMBL:AL162752) (138 aa) fasta scores: E(): 2.9e-26, 61.19% id in 134 aa, and to Escherichia coli dnaK suppressor protein DksA or B0145 or Z0156 or ECS0149SW:DKSA_ECOLI (EMBL:M34945) (151 aa) fasta scores: E(): 2e-14, 37.06% id in 143 aa; dnaK suppressor protein 3287348..3287812 Bordetella pertussis Tohama I 2667054 NP_881657.1 CDS hslV NC_002929.2 3287960 3288499 D heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease peptidase subunit 3287960..3288499 Bordetella pertussis Tohama I 2667055 NP_881658.1 CDS hslU NC_002929.2 3288521 3289855 D heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease ATP-binding protein HslU 3288521..3289855 Bordetella pertussis Tohama I 2666368 NP_881659.1 CDS BP3088 NC_002929.2 3289869 3290174 R Similar to Agrobacterium tumefaciens hypothetical protein Agr_l_1727p TR:AAK89437 (EMBL:AE008284) (94 aa) fasta scores: E(): 9.9e-08, 43.67% id in 87 aa; hypothetical protein complement(3289869..3290174) Bordetella pertussis Tohama I 2666369 NP_881660.1 CDS BP3090 NC_002929.2 3290599 3291159 D Similar to Pseudomonas aeruginosa hypothetical protein PA4399 TR:Q9HW07 (EMBL:AE004855) (192 aa) fasta scores: E(): 1.4e-26, 48.95% id in 192 aa. Similar to BP0266, BP1766, BP2719, BP3683, and BP3731; hypothetical protein 3290599..3291159 Bordetella pertussis Tohama I 2666370 NP_881661.1 CDS BP3091 NC_002929.2 3291258 3292208 D transposase for IS481 element; transposase 3291258..3292208 Bordetella pertussis Tohama I 2666371 NP_881662.1 CDS BP3092 NC_002929.2 3292425 3293999 D Similar to Neisseria meningitidis phopholipase D-family protein NMA1646 TR:Q9JTT1 (EMBL:AL162756) (525 aa) fasta scores: E(): 5.7e-86, 49.51% id in 519 aa; phospholipase D 3292425..3293999 Bordetella pertussis Tohama I 2666372 NP_881663.1 CDS modD NC_002929.2 3294006 3295115 R Similar to Azotobacter vinelandii molybdenum transport ATP-binding protein ModD SW:MODD_AZOVI (EMBL:X69077) (380 aa) fasta scores: E(): 8.8e-76, 65.92% id in 358 aa; molybdenum transport ATP-binding protein complement(3294006..3295115) Bordetella pertussis Tohama I 2666373 NP_881664.1 CDS modC NC_002929.2 3295127 3295807 R Similar to Azotobacter vinelandii molybdenum transport system permease ModC SW:MODC_AZOVI (EMBL:X69077) (226 aa) fasta scores: E(): 2.1e-66, 80.45% id in 220 aa; molybdenum transport system permease complement(3295127..3295807) Bordetella pertussis Tohama I 2665459 NP_881665.1 CDS modB NC_002929.2 3295829 3296584 R Similar to Azotobacter vinelandii molybdate-binding periplasmic protein precursor ModB SW:MODB_AZOVI (EMBL:X69077) (252 aa) fasta scores: E(): 7.4e-61, 69.7% id in 241 aa. Also similar to BP3105, 45.600% identity (45.783% ungapped) in 250 aa overlap.; molybdate ABC transporter substrate-binding protein complement(3295829..3296584) Bordetella pertussis Tohama I 2665460 NP_881666.1 CDS BP3096 NC_002929.2 3296720 3297604 R Similar to Saccharomyces cerevisiae hypothetical protein SW:YN93_YEAST (EMBL:Z71679) (290 aa) fasta scores: E(): 1.3e-44, 44.16% id in 274 aa; hydrolase complement(3296720..3297604) Bordetella pertussis Tohama I 2665461 NP_881667.1 CDS BP3097 NC_002929.2 3297692 3298273 D Similar to Streptomyces coelicolor hypothetical protein SCE59.14c TR:Q9L1U0 (EMBL:AL138851) (196 aa) fasta scores: E(): 2.2e-09, 33.33% id in 195 aa; hypothetical protein 3297692..3298273 Bordetella pertussis Tohama I 2665462 NP_881668.1 CDS BP3098 NC_002929.2 3298366 3298488 R hypothetical protein complement(3298366..3298488) Bordetella pertussis Tohama I 2665463 NP_881669.1 CDS BP3099 NC_002929.2 3298534 3298833 R hypothetical protein complement(3298534..3298833) Bordetella pertussis Tohama I 2665464 NP_881670.1 CDS BP3100 NC_002929.2 3298985 3299464 R Similar to Rhizobium meliloti hypothetical/unknown transmembrane protein SMC00031 TR:CAC45518 (EMBL:AL591785) (159 aa) fasta scores: E(): 9.6e-08, 36.42% id in 140 aa; hypothetical protein complement(3298985..3299464) Bordetella pertussis Tohama I 2665465 NP_881671.1 CDS BP3102 NC_002929.2 3301617 3302045 R Similar to Rhodobacter capsulatus proline dehydrogenase transcriptional activator PutR SW:PUTR_RHOCA (Q52710) (154 aa) fasta scores: E(): 8.5e-08, 30.13% id in 146 aa, and to Rhizobium meliloti transcriptional regulator, AsnC family protein SMB21493 TR:CAC49722 (EMBL:AL603646) (153 aa) fasta scores: E(): 1.5e-22, 52.2% id in 136 aa; regulatory protein complement(3301617..3302045) Bordetella pertussis Tohama I 2665467 NP_881672.1 CDS BP3103 NC_002929.2 3302136 3303086 R transposase for IS481 element; transposase complement(3302136..3303086) Bordetella pertussis Tohama I 2665475 NP_881673.1 CDS BP3105 NC_002929.2 3303614 3304387 R Similar to Rhodobacter capsulatus molybdate-binding periplasmic protein precursor ModA SW:MODA_RHOCA (EMBL:L06254) (252 aa) fasta scores: E(): 9.2e-27, 37.84% id in 251 aa, and to Escherichia coli molybdate-binding periplasmic protein precursor ModA SW:MODA_ECOLI (EMBL:L34009) (257 aa) fasta scores: E(): 1.6e-09, 27.3% id in 249 aa. Also similar to BP3095, 45.600% identity (45.783% ungapped) in 250 aa overlap.; molybdate ABC transporter substrate-binding protein complement(3303614..3304387) Bordetella pertussis Tohama I 2665477 NP_881674.1 CDS BP3106 NC_002929.2 3304520 3305530 R Similar to Rhizobium meliloti conserved hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 3.7e-51, 43.93% id in 330 aa; hypothetical protein complement(3304520..3305530) Bordetella pertussis Tohama I 2665807 NP_881675.1 CDS BP3107 NC_002929.2 3305682 3307337 R Similar to Streptomyces coelicolor gamma-glutamyltranspeptidase SC3C8.26 TR:O69935 (EMBL:AL023861) (603 aa) fasta scores: E(): 3.6e-36, 31.41% id in 573 aa, and to Escherichia coli gamma-glutamyltranspeptidase precursor Ggt or B3447 SW:GGT_ECOLI () (580 aa) fasta scores: E(): 1.5e-21, 31.52% id in 533 aa; gamma-glutamyltranspeptidase complement(3305682..3307337) Bordetella pertussis Tohama I 2665808 NP_881676.1 CDS BP3108 NC_002929.2 3307392 3307733 R Similar to Pseudomonas aeruginosa hypothetical protein PA1917 TR:Q9I2I7 (EMBL:AE004617) (115 aa) fasta scores: E(): 8.7e-17, 50% id in 114 aa, and to Pseudomonas aeruginosa hypothetical protein PA3425 TR:Q9HYI0 (EMBL:AE004763) (114 aa) fasta scores: E(): 6.4e-18, 55.76% id in 104 aa; hypothetical protein complement(3307392..3307733) Bordetella pertussis Tohama I 2665809 NP_881677.1 CDS BP3109 NC_002929.2 3307747 3309186 R Similar to Pseudomonas aeruginosa hypothetical protein PA1918 TR:Q9I2I6 (EMBL:AE004617) (466 aa) fasta scores: E(): 1.4e-104, 59.09% id in 462 aa, and to Pseudomonas aeruginosa hypothetical protein PA3424 TR:Q9HYI1 (EMBL:AE004763) (468 aa) fasta scores: E(): 3.2e-29, 32.19% id in 469 aa; hypothetical protein complement(3307747..3309186) Bordetella pertussis Tohama I 2665810 NP_881678.1 CDS BP3110 NC_002929.2 3309319 3310158 R Similar to Rhizobium meliloti hypothetical protein SMB21187 TR:CAC49253 (EMBL:AL603645) (276 aa) fasta scores: E(): 3.8e-34, 41.32% id in 271 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA4987 TR:Q9HUH8 (EMBL:AE004911) (199 aa) fasta scores: E(): 1.3e-10, 30.8% id in 198 aa; MerR family transcriptional regulator complement(3309319..3310158) Bordetella pertussis Tohama I 2665811 NP_881679.1 CDS BP3111 NC_002929.2 3310328 3311278 D transposase for IS481 element; transposase 3310328..3311278 Bordetella pertussis Tohama I 2665812 NP_881680.1 CDS BP3114 NC_002929.2 3314655 3315605 R transposase for IS481 element; transposase complement(3314655..3315605) Bordetella pertussis Tohama I 2665815 NP_881681.1 CDS BP3115 NC_002929.2 3315789 3317000 R Very low similarity to Sulfolobus tokodaii 382aa long hypothetical protein ST2010 TR:BAB67105 (EMBL:AP000988) (382 aa) fasta scores: E(): 0.0051, 20.61% id in 388 aa; hypothetical protein complement(3315789..3317000) Bordetella pertussis Tohama I 2665816 NP_881682.1 CDS BP3116 NC_002929.2 3317016 3319967 R Similar in its N-terminal region to Thermoplasma volcanium modification methylase TVG1542167 TR:Q978C7 (EMBL:AP000996) (616 aa) fasta scores: E(): 1.4e-12, 25.46% id in 534 aa. From residue 646 to residue 839 presents low similarity to Vibrio cholera RtxA toxin TR:Q9X4W2 (EMBL:AF119150) blast scores: E(): 1.7, score: 35 20% id; modification methylase complement(3317016..3319967) Bordetella pertussis Tohama I 2665817 NP_881683.1 CDS BP3117 NC_002929.2 3319969 3323088 R Low similarity to Thermoplasma volcanium TVG1539639 protein TR:Q978C8 (EMBL:AP000996) (843 aa) fasta scores: E(): 0.0031, 22.79% id in 974 aa; restriction endonuclease complement(3319969..3323088) Bordetella pertussis Tohama I 2665818 NP_881684.1 CDS BP3118 NC_002929.2 3323236 3324282 R Similar to Escherichia coli O157:H7 hypothetical 48.5 kDa protein ECS4465 TR:BAB37888 (EMBL:AP002566) (431 aa) fasta scores: E(): 7.4e-09, 27.41% id in 321 aa; hypothetical protein complement(3323236..3324282) Bordetella pertussis Tohama I 2665819 NP_881685.1 CDS BP3120 NC_002929.2 3324624 3325751 R Similar to Escherichia coli prophage cp4-57 integrase IntA or SlpA or IntX or B2622 SW:INTA_ECOLI (P32053) (413 aa) fasta scores: E(): 4.4e-37, 31.93% id in 404 aa; integrase complement(3324624..3325751) Bordetella pertussis Tohama I 2665820 NP_881686.1 CDS BP3121 NC_002929.2 3326031 3327122 R translation-associated GTPase; the crystal structure of the Haemophilus influenzae YchF protein showed similarity to the yeast structure (PDB: 1NI3); fluorescence spectroscopy revealed nucleic acid binding; the yeast protein YBR025c interacts with the translation elongation factor eEF1; GTP-dependent nucleic acid-binding protein EngD complement(3326031..3327122) Bordetella pertussis Tohama I 2665821 NP_881687.1 CDS BP3122 NC_002929.2 3327195 3327977 R no significant database matches; hypothetical protein complement(3327195..3327977) Bordetella pertussis Tohama I 2666965 NP_881688.1 CDS pth NC_002929.2 3327974 3328570 R Enables the recycling of peptidyl-tRNAs produced at termination of translation; peptidyl-tRNA hydrolase complement(3327974..3328570) Bordetella pertussis Tohama I 2666966 NP_881689.1 CDS rplY NC_002929.2 3328699 3329325 R 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; 50S ribosomal protein L25 complement(3328699..3329325) Bordetella pertussis Tohama I 2666967 NP_881690.1 CDS prsA NC_002929.2 3329436 3330386 R catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP; ribose-phosphate pyrophosphokinase complement(3329436..3330386) Bordetella pertussis Tohama I 2666968 NP_881691.1 CDS ipk NC_002929.2 3330595 3331494 R An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis; 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase complement(3330595..3331494) Bordetella pertussis Tohama I 2666374 NP_881692.1 CDS lolB NC_002929.2 3331543 3332142 R Incorporates lipoproteins in the outer membrane after they are released by the LolA protein; outer membrane lipoprotein LolB complement(3331543..3332142) Bordetella pertussis Tohama I 2666375 NP_881693.1 CDS BP3128 NC_002929.2 3332139 3334025 R Similar to Pseudomonas aeruginosa hypothetical protein PA4667 SW:YAG7_PSEAE (P42810) (590 aa) fasta scores: E(): 9.6e-24, 28.9% id in 609 aa, and to Neisseria meningitidis periplasmic protein NMA1090 TR:Q9JUX9 (EMBL:AL162755) (612 aa) fasta scores: E(): 1.4e-18, 24.55% id in 619 aa; hypothetical protein complement(3332139..3334025) Bordetella pertussis Tohama I 2666376 NP_881694.1 CDS mutM NC_002929.2 3334024 3334851 D Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases; formamidopyrimidine-DNA glycosylase 3334024..3334851 Bordetella pertussis Tohama I 2666377 NP_881695.1 CDS BP3130 NC_002929.2 3334942 3335895 D Similar to Aquifex aeolicus beta lactamase precursor CphA1 or AQ_1798 TR:O67667 (EMBL:AE000757) (326 aa) fasta scores: E(): 3.2e-20, 28.62% id in 297 aa; cyclase 3334942..3335895 Bordetella pertussis Tohama I 2666378 NP_881696.1 CDS BP3131 NC_002929.2 3335997 3337676 D Similar to Streptomyces argillaceus oxygenase MtmOII TR:O86481 (EMBL:AJ007932) (531 aa) fasta scores: E(): 4.6e-36, 33.57% id in 557 aa, and to Escherichia coli 3-(3-hydroxy-phenyl)propionate hydroxylase MhpA or B0347 SW:MHPA_ECOLI (P77397) (554 aa) fasta scores: E(): 6.3e-23, 27.63% id in 532 aa; FAD-dependent oxidoreductase 3335997..3337676 Bordetella pertussis Tohama I 2666379 NP_881697.1 CDS BP3132 NC_002929.2 3337688 3337897 D Similar to Ralstonia solanacearum hypothetical protein rsp0701 rsp0701 or rs01748 SWALL:Q8XRY0 (EMBL:AL646080) (68 aa) fasta scores: E(): 2.6e-13, 69.84% id in 63 aa; hypothetical protein 3337688..3337897 Bordetella pertussis Tohama I 2666380 NP_881698.1 CDS BP3133 NC_002929.2 3337907 3338815 R Similar to Pseudomonas putida transcriptional activator protein NahR SW:NAHR_PSEPU (P10183) (300 aa) fasta scores: E(): 5.1e-46, 43.81% id in 299 aa; LysR family transcriptional regulator complement(3337907..3338815) Bordetella pertussis Tohama I 2666381 NP_881699.1 CDS hmgA NC_002929.2 3338998 3340296 D An oxygenase that acts to open the ring of homogentisate formingmaleylacetoacetate as part of the catabolism of L-tyrosine and L-phenylalanine; homogentisate 1,2-dioxygenase 3338998..3340296 Bordetella pertussis Tohama I 2666382 NP_881700.1 CDS fahA NC_002929.2 3340405 3341718 D Similar to Emericella nidulans fumarylacetoacetase Fah or FahA TR:Q00770 (EMBL:L41670) (431 aa) fasta scores: E(): 5.9e-54, 41% id in 439 aa, and to Pseudomonas aeruginosa fumarylacetoacetase FahA or Pa2008 TR:Q9I2A2 (EMBL:AE004627) (432 aa) fasta scores: E(): 9.9e-93, 57.84% id in 427 aa; fumarylacetoacetase 3340405..3341718 Bordetella pertussis Tohama I 2666383 NP_881701.1 CDS BP3136 NC_002929.2 3341844 3343805 R Similar to Haemophilus influenzae hypothetical protein HI1246 SW:YC46_HAEIN (P44135) (647 aa) fasta scores: E(): 1.1e-113, 47.61% id in 628 aa; sulfatase complement(3341844..3343805) Bordetella pertussis Tohama I 2666384 NP_881702.1 CDS BP3137 NC_002929.2 3343885 3345207 R Similar to Pseudomonas aeruginosa probable two-component sensor PA4380 TR:Q9HW22 (EMBL:AE004854) (426 aa) fasta scores: E(): 2.4e-23, 29.38% id in 439 aa; two-component system sensor protein complement(3343885..3345207) Bordetella pertussis Tohama I 2666385 NP_881703.1 CDS BP3138 NC_002929.2 3345204 3345914 R Similar to Pseudomonas aeruginosa probable two-component response regulator PA4381 TR:Q9HW21 (EMBL:AE004854) (227 aa) fasta scores: E(): 8.3e-34, 47.57% id in 227 aa; two-component system response regulator complement(3345204..3345914) Bordetella pertussis Tohama I 2667358 NP_881704.1 CDS BP3139 NC_002929.2 3345932 3347347 R Similar to Agrobacterium tumefaciens Agr_C_1314p TR:AAK86533 (EMBL:AE008006) (478 aa) fasta scores: E(): 3.2e-83, 49.46% id in 463 aa; oxidoreductase complement(3345932..3347347) Bordetella pertussis Tohama I 2667359 NP_881705.1 CDS BP3140 NC_002929.2 3347439 3348011 R Similar to central region of Streptomyces coelicolor acetyl/propionyl CoA carboxylase, alpha subunit SCD10.13 TR:Q9K3W3 (EMBL:AL359988) (614 aa) fasta scores: E(): 0.033, 30.33% id in 178 aa; hypothetical protein complement(3347439..3348011) Bordetella pertussis Tohama I 2667360 NP_881706.1 CDS pgm NC_002929.2 3348329 3349711 D Identical to the Bordetella bronchiseptica phosphoglucomutase Pgm TR:Q9S3V9 (EMBL:AF171632) (392 aa) fasta scores: E(): 1.1e-149, 99.23% id in 392 aa, and similar to Pseudomonas aeruginosa phosphomannomutase AlgC or PA5322 SW:ALGC_PSEAE (P26276) (462 aa) fasta scores: E(): 3.9e-93, 53.26% id in 460 aa, and to Neisseria meningitidis phosphoglucomutase Pgm or NMB0790 SW:PGMU_NEIMB (P40391) (460 aa) fasta scores: E(): 1.2e-91, 54.54% id in 440 aa, and to Neisseria gonorrhoeae phosphoglucomutase PGM SW:PGMU_NEIGO (P40390) (460 aa) fasta scores: E(): 1.3e-90, 53.52% id in 454 aa; phosphoglucomutase 3348329..3349711 Bordetella pertussis Tohama I 2667361 NP_881707.1 CDS pgi NC_002929.2 3349718 3351283 D functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family; glucose-6-phosphate isomerase 3349718..3351283 Bordetella pertussis Tohama I 2667362 NP_881708.1 CDS BP3143 NC_002929.2 3351291 3352421 R Similar to Pseudomonas aeruginosa WbpU TR:Q9RHD0 (EMBL:AF035937) (376 aa) fasta scores: E(): 1e-80, 62.06% id in 369 aa, and to Vibrio cholerae Orf139-23 protein TR:O87140 (EMBL:AB012956) (376 aa) fasta scores: E(): 7.4e-67, 53.63% id in 371 aa; glycosyltransferase complement(3351291..3352421) Bordetella pertussis Tohama I 2667363 NP_881709.1 CDS BP3144 NC_002929.2 3352418 3353572 R Similar to Pseudomonas aeruginosa WbpT TR:Q9RHD1 (EMBL:AF035937) (383 aa) fasta scores: E(): 7.7e-49, 43.55% id in 388 aa; glycosyltransferase complement(3352418..3353572) Bordetella pertussis Tohama I 2667364 NP_881710.1 CDS BP3145 NC_002929.2 3353569 3354690 R Similar to Yersinia enterocolitica WbcM protein WbcM TR:Q56916 (EMBL:Z47767) (358 aa) fasta scores: E(): 8e-13, 26.31% id in 361 aa, and to Rhizobium meliloti glycosyltransferase Smb21250 TR:CAC49154 (EMBL:AL603644) (427 aa) fasta scores: E(): 4.1e-22, 37.05% id in 367 aa. Also similar to BP3147, 41.509% identity (42.897% ungapped) in 371 aa overlap.; glycosyltransferase complement(3353569..3354690) Bordetella pertussis Tohama I 2667365 NP_881711.1 CDS BP3146 NC_002929.2 3354687 3356612 R Similar to Pseudomonas aeruginosa WbpS TR:Q9RHD2 (EMBL:AF035937) (627 aa) fasta scores: E(): 1.5e-123, 53.29% id in 638 aa, and to Rhizobium loti asparagine synthase MLR6755 TR:Q988G2 (EMBL:AP003010) (665 aa) fasta scores: E(): 3.9e-68, 46.56% id in 655 aa; asparagine synthase complement(3354687..3356612) Bordetella pertussis Tohama I 2667366 NP_881712.1 CDS BP3147 NC_002929.2 3356659 3357795 R Similar to Rhizobium meliloti glycosyltransferase SMB21250 TR:CAC49154 (EMBL:AL603644) (427 aa) fasta scores: E(): 9.2e-37, 37.46% id in 371 aa, and to Streptomyces coelicolor transferase SC1c3.12 TR:O69854 (EMBL:AL023702) (697 aa) fasta scores: E(): 4.8e-19, 28.97% id in 390 aa, and to Yersinia enterocolitica TrsD TR:Q56916 (EMBL:Z47767) (358 aa) fasta scores: E(): 3.8e-18, 28.13% id in 359 aa. Also similar to BP3145, 41.509% identity (42.897% ungapped) in 371 aa overlap.; glycosyltransferase complement(3356659..3357795) Bordetella pertussis Tohama I 2667367 NP_881713.1 CDS BP3148 NC_002929.2 3357796 3359166 R Similar to Rhizobium loti virulence factor Mvin-like protein MLL5320 TR:Q98C28 (EMBL:AP003006) (526 aa) fasta scores: E(): 1.3e-13, 25.71% id in 420 aa, and to Streptomyces coelicolor integral membrane protein SCC61a.30 TR:Q9KYG3 (EMBL:AL356595) (523 aa) fasta scores: E(): 1.5e-11, 28.97% id in 421 aa; hypothetical protein complement(3357796..3359166) Bordetella pertussis Tohama I 2667368 NP_881714.1 CDS BP3149 NC_002929.2 3359168 3360193 R Similar to Salmonella typhi vi polysaccharide biosynthesis protein VipB or TviC or Sty4660 SW:VIPB_SALTI (Q04973) (348 aa) fasta scores: E(): 2.8e-85, 63.17% id in 334 aa, and to Pseudomonas aeruginosa WbpP TR:Q9RHD6 (EMBL:AF035937) (341 aa) fasta scores: E(): 1e-96, 69.79% id in 341 aa; UDP-N-acetylglucosamine C4 epimerase complement(3359168..3360193) Bordetella pertussis Tohama I 2665555 NP_881715.1 CDS wbpO NC_002929.2 3360205 3361479 R Similar to Salmonella typhi Vi polysaccharide biosynthesis protein VipA or TviB or Sty4661 SW:VIPA_SALTI (Q04972) (425 aa) fasta scores: E(): 1.1e-118, 68.72% id in 422 aa, and to Pseudomonas aeruginosa WbpO TR:Q9RHD7 (EMBL:AF035937) (422 aa) fasta scores: E(): 3.6e-132, 80.09% id in 422 aa. Almost identical to BP1629, 99.762% identity in 420 aa overlap; polysaccharide biosynthesis protein complement(3360205..3361479) Bordetella pertussis Tohama I 2665556 NP_881716.1 CDS BP3151 NC_002929.2 3361585 3362688 R Similar to Burkholderia pseudomallei undecaprenol phosphate N-acetylglucosaminyl transferase TR:O69131 (EMBL:AF064070) (368 aa) fasta scores: E(): 7.8e-51, 41.12% id in 355 aa, and to Pseudomonas aeruginosa glycosyltransferase wbpl wbpl or pa3145 TR:Q9HZ82 (EMBL:AE004738) (339 aa) fasta scores: E(): 3.5e-16, 29.05% id in 327 aa; glycosyltransferase complement(3361585..3362688) Bordetella pertussis Tohama I 2665557 NP_881717.1 CDS BP3152 NC_002929.2 3363417 3364085 R Similar to Pseudomonas aeruginosa hypothetical protein PA0655 TR:Q9I5R6 (EMBL:AE004500) (215 aa) fasta scores: E(): 8e-35, 49.28% id in 211 aa; hypothetical protein complement(3363417..3364085) Bordetella pertussis Tohama I 2665558 NP_881718.1 CDS BP3153 NC_002929.2 3364209 3364646 D Similar to Pseudomonas aeruginosa hypothetical protein PAa0653 TR:O05133 (EMBL:U89892) (140 aa) fasta scores: E(): 6.9e-25, 53.57% id in 140 aa; hypothetical protein 3364209..3364646 Bordetella pertussis Tohama I 2665559 NP_881719.1 CDS thyA NC_002929.2 3364699 3365670 D ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived; thymidylate synthase 3364699..3365670 Bordetella pertussis Tohama I 2665560 NP_881720.1 CDS folA NC_002929.2 3365695 3366198 D Similar to Escherichia coli dihydrofolate reductase FolA or TmrA or B0048 SW:DYR_ECOLI (P00379) (159 aa) fasta scores: E(): 1.9e-23, 46.54% id in 159 aa, and to Salmonella typhimurium dihydrofolate reductase type III DhfrIII SW:DYR3_SALTY (P12833) (162 aa) fasta scores: E(): 3.6e-25, 47.17% id in 159 aa; dihydrofolate reductase 3365695..3366198 Bordetella pertussis Tohama I 2665561 NP_881721.1 CDS BP3156 NC_002929.2 3366162 3367619 R Similar to Rhizobium meliloti transcriptional regulator protein SMBb20039 TR:CAC48442 (EMBL:AL603642) (474 aa) fasta scores: E(): 2.6e-54, 39.15% id in 475 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA5283 TR:Q9HTS1 (EMBL:AE004941) (458 aa) fasta scores: E(): 3.4e-52, 37.77% id in 458 aa; GntR family transcriptional regulator complement(3366162..3367619) Bordetella pertussis Tohama I 2665562 NP_881722.1 CDS BP3157 NC_002929.2 3367802 3369127 D catalyzes the formation of pyruvate and beta-alanine from L-alanine and 3-oxopropanoate; beta alanine--pyruvate transaminase 3367802..3369127 Bordetella pertussis Tohama I 2665563 NP_881723.1 CDS BP3159 NC_002929.2 3370905 3372470 D Similar to Rhizobium sp probable peptide ABC transporter periplasmic binding protein Y4tO precursor SW:Y4TO_RHISN (P55669) (531 aa) fasta scores: E(): 2.9e-69, 40.76% id in 520 aa; peptide ABC transporter substrate-binding protein 3370905..3372470 Bordetella pertussis Tohama I 2665565 NP_881724.1 CDS BP3160 NC_002929.2 3372516 3373457 D Similar to Rhizobium sp probable peptide ABC transporter permease Y4tP SW:Y4TP_RHISN (Q53191) (313 aa) fasta scores: E(): 4e-60, 52.07% id in 313 aa; ABC transporter permease 3372516..3373457 Bordetella pertussis Tohama I 2665566 NP_881725.1 CDS BP3161 NC_002929.2 3373460 3374347 D Similar to Rhizobium sp probable peptide ABC transporter permease Y4tQ SW:Y4TQ_RHISN (Q53192) (291 aa) fasta scores: E(): 3.3e-44, 49.47% id in 283 aa, and to Bacillus firmus dipeptide transport system permease DppC SW:DPPC_BACFI (P94312) (304 aa) fasta scores: E(): 6.6e-33, 38.02% id in 284 aa; peptide ABC transporter permease 3373460..3374347 Bordetella pertussis Tohama I 2665567 NP_881726.1 CDS BP3163 NC_002929.2 3375935 3377410 D Similar to Rhizobium loti MLR6294 protein TR:Q989S9 (EMBL:AP003008) (525 aa) fasta scores: E(): 1.1e-43, 33.66% id in 499 aa; hypothetical protein 3375935..3377410 Bordetella pertussis Tohama I 2666184 NP_881727.1 CDS BP3164 NC_002929.2 3377509 3378459 D transposase for IS481 element; transposase 3377509..3378459 Bordetella pertussis Tohama I 2666185 NP_881728.1 CDS ureG NC_002929.2 3378864 3379508 R Identical to Bordetella bronchiseptica urease accessory protein UreG SW:UREG_BORBR (O06709) (214 aa) fasta scores: E(): 1e-74, 99.53% id in 214 aa, and similar to Escherichia coli urease accessory protein UreG SW:UREG_ECOLI (Q03287) (205 aa) fasta scores: E(): 1.4e-44, 65.98% id in 197 aa; urease accessory protein complement(3378864..3379508) Bordetella pertussis Tohama I 2666181 NP_881730.1 CDS ureC NC_002929.2 3380838 3382553 R ureases catalyze the hydrolysis of urea into ammonia and carbon dioxide; in Helicobacter pylori the ammonia released plays a key role in bacterial survival by neutralizing acids when colonizing the gastric mucosa; the holoenzyme is composed of 3 ureC (alpha) and 3 ureAB (gamma/beta) subunits; urease subunit alpha complement(3380838..3382553) Bordetella pertussis Tohama I 2667492 NP_881731.1 CDS ureB NC_002929.2 3382550 3382858 R ureases catalyze the hydrolysis of urea into ammonia and carbon dioxide; in Helicobacter pylori and Yersinia enterocolitica the ammonia released plays a key role in bacterial survival by neutralizing acids when colonizing the gastric mucosa; the holoenzyme is composed of 3 UreC (alpha) and 3 UreAB (gamma/beta); in Brucella suis the urease encoded by this operon (one of two urease-encoding operons found in its genome) is involved with urease activity, optimum growth, resistance to low-pH killing in-vitro and persistence in-vivo, while the other operon does not seem to be active; urease subunit beta complement(3382550..3382858) Bordetella pertussis Tohama I 2667493 NP_881732.1 CDS ureJ NC_002929.2 3382875 3383483 R Similar to Bordetella bronchiseptica urease accessory protein UreJ TR:O06706 (EMBL:AF000579) (202 aa) fasta scores: E(): 7.6e-73, 99.5% id in 202 aa, and to Rhizobium leguminosarum HupE protein precursor SW:HUPE_RHILV (P27650) (191 aa) fasta scores: E(): 6.2e-18, 38.69% id in 199 aa; urease accessory protein complement(3382875..3383483) Bordetella pertussis Tohama I 2667494 NP_881733.1 CDS ureA NC_002929.2 3383537 3383839 R UreA, with UreB and UreC catalyzes the hydrolysis of urea into ammonia and carbon dioxide; nickel metalloenzyme; accessory proteins UreD, UreE, UreF, and UreG are necessary for assembly of the metallocenter; urease subunit gamma complement(3383537..3383839) Bordetella pertussis Tohama I 2666123 NP_881734.1 CDS ureD NC_002929.2 3383940 3384794 R Identical to Bordetella bronchiseptica urease accessory protein UreD SW:URED_BORBR (O06704) (284 aa) fasta scores: E(): 3.6e-121, 100% id in 284 aa, and similar to Escherichia coli urease accessory protein UreD SW:URED_ECOLI (Q03285) (278 aa) fasta scores: E(): 1.5e-24, 33.68% id in 282 aa; urease accessory protein complement(3383940..3384794) Bordetella pertussis Tohama I 2666124 NP_881736.1 CDS BP3175 NC_002929.2 3386066 3386473 R Similar to Rhizobium loti MLL4859 protein TR:Q98D49 (EMBL:AP003005) (134 aa) fasta scores: E(): 8.4e-23, 46.34% id in 123 aa; hypothetical protein complement(3386066..3386473) Bordetella pertussis Tohama I 2667512 NP_881737.1 CDS BP3176 NC_002929.2 3386843 3387637 R Similar to Pseudomonas aeruginosa probable transcriptional regulator PA2299 TR:Q9I1H6 (EMBL:AE004655) (249 aa) fasta scores: E(): 1.6e-16, 33.04% id in 227 aa; GntR family transcriptional regulator complement(3386843..3387637) Bordetella pertussis Tohama I 2667513 NP_881738.1 CDS BP3177 NC_002929.2 3387738 3388973 D Similar to Clostridium tetanomorphum methylaspartate ammonia-lyase SW:MAAL_CLOTT (Q05514) (413 aa) fasta scores: E(): 2.1e-44, 36.67% id in 409 aa. Also similar to BP0806, 40.500% identity (40.704% ungapped) in 400 aa overlap.; methylaspartate ammonia-lyase 3387738..3388973 Bordetella pertussis Tohama I 2667514 NP_881739.1 CDS BP3178 NC_002929.2 3389042 3390058 D Similar to Rhizobium meliloti conserved hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 3.7e-53, 49.07% id in 324 aa; hypothetical protein 3389042..3390058 Bordetella pertussis Tohama I 2667515 NP_881740.1 CDS BP3179 NC_002929.2 3390070 3391446 D Similar to Agrobacterium tumefaciens AGR_l_2924p TR:AAK90029 (EMBL:AE008346) (448 aa) fasta scores: E(): 2.3e-29, 34.33% id in 434 aa; hypothetical protein 3390070..3391446 Bordetella pertussis Tohama I 2667516 NP_881741.1 CDS BP3180 NC_002929.2 3391443 3392639 D Similar to Streptomyces coelicolor nitrate/nitrite transporter protein SCJ12.25c TR:Q9RI35 (EMBL:AL109989) (412 aa) fasta scores: E(): 2.4e-06, 27.6% id in 413 aa; hypothetical protein 3391443..3392639 Bordetella pertussis Tohama I 2667517 NP_881742.1 CDS BP3181 NC_002929.2 3392636 3394174 R Similar to Pseudomonas aeruginosa hypothetical protein PA0586 TR:Q9I5V1 (EMBL:AE004494) (517 aa) fasta scores: E(): 2.6e-137, 66.06% id in 498 aa, and to Escherichia coli hypothetical protein YcgB or B1188 SW:YCGB_ECOLI (P29013) (510 aa) fasta scores: E(): 1.1e-127, 60.32% id in 494 aa; SpoVR family protein complement(3392636..3394174) Bordetella pertussis Tohama I 2667518 NP_881743.1 CDS BP3182 NC_002929.2 3394171 3395430 R Similar to Vibrio cholerae hypothetical protein VC1873 TR:Q9KQX4 (EMBL:AE004263) (423 aa) fasta scores: E(): 1e-79, 48.82% id in 426 aa, and to Escherichia coli hypothetical protein YeaH or B1784 SW:YEAH_ECOLI (P76235) (427 aa) fasta scores: E(): 2.8e-79, 49.52% id in 424 aa; hypothetical protein complement(3394171..3395430) Bordetella pertussis Tohama I 2667519 NP_881744.1 CDS BP3185 NC_002929.2 3397371 3398321 R transposase for IS481 element; transposase complement(3397371..3398321) Bordetella pertussis Tohama I 2667521 NP_881745.1 CDS BP3186 NC_002929.2 3398420 3399370 R transposase for IS481 element; transposase complement(3398420..3399370) Bordetella pertussis Tohama I 2667522 NP_881746.1 CDS BP3188 NC_002929.2 3400137 3401231 R Similar to Streptomyces coelicolor dehydratase SCE66.09 TR:Q9K3T4 (EMBL:AL359989) (391 aa) fasta scores: E(): 2e-14, 30.44% id in 381 aa; hypothetical protein complement(3400137..3401231) Bordetella pertussis Tohama I 2667524 NP_881747.1 CDS BP3189 NC_002929.2 3401224 3402558 R Similar to Escherichia coli phenylacetate-coenzyme A ligase PaaK or B1398 SW:PAAK_ECOLI (P76085) (437 aa) fasta scores: E(): 2.2e-40, 34.97% id in 446 aa, and to Archaeoglobus fulgidus coenzyme F390 synthetase Af2013 TR:O28266 (EMBL:AE000964) (440 aa) fasta scores: E(): 2.3e-53, 38.51% id in 444 aa; coenzyme A ligase complement(3401224..3402558) Bordetella pertussis Tohama I 2667525 NP_881748.1 CDS BP3190 NC_002929.2 3402512 3403195 R Similar to Deinococcus radiodurans transcriptional regulator, TetR family Dr2376 TR:Q9RRV9 (EMBL:AE002068) (197 aa) fasta scores: E(): 3.9e-08, 27.97% id in 193 aa; TetR family transcriptional regulator complement(3402512..3403195) Bordetella pertussis Tohama I 2667526 NP_881749.1 CDS BP3191 NC_002929.2 3403221 3404384 R Similar to Pseudomonas aeruginosa probable acyl-CoA dehydrogenase PA2552 TR:Q9I0T2 (EMBL:AE004683) (375 aa) fasta scores: E(): 7.5e-50, 40.22% id in 363 aa, and to Bacillus subtilis acyl-CoA dehydrogenase AcdA or Acd SW:ACDA_BACSU (P45867) (379 aa) fasta scores: E(): 1.1e-46, 39.88% id in 361 aa; acyl-CoA dehydrogenase complement(3403221..3404384) Bordetella pertussis Tohama I 2667527 NP_881750.1 CDS BP3192 NC_002929.2 3404381 3405382 R Similar to Deinococcus radiodurans branched-chain amino acid ABC transporter permease DR0282 TR:Q9RXM8 (EMBL:AE001889) (334 aa) fasta scores: E(): 6.5e-21, 31.46% id in 321 aa; ABC transporter permease complement(3404381..3405382) Bordetella pertussis Tohama I 2667528 NP_881751.1 CDS BP3193 NC_002929.2 3405382 3406254 R Similar to Deinococcus radiodurans branched-chain amino acid ABC transporter permease DR0281 TR:Q9RXM9 (EMBL:AE001889) (285 aa) fasta scores: E(): 2.4e-25, 31.57% id in 285 aa; ABC transporter permease complement(3405382..3406254) Bordetella pertussis Tohama I 2667529 NP_881752.1 CDS BP3194 NC_002929.2 3406251 3407000 R Similar to Deinococcus radiodurans branched-chain amino acid ABC transporter ATP-binding protein DRA0260 TR:Q9RYP9 (EMBL:AE001863) (238 aa) fasta scores: E(): 2e-30, 50% id in 240 aa, and to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport ATP-binding protein BraG or PA1070 SW:BRAG_PSEAE (P21630) (233 aa) fasta scores: E(): 9.8e-27, 42.19% id in 237 aa; ABC transporter ATP-binding protein complement(3406251..3407000) Bordetella pertussis Tohama I 2667530 NP_881753.1 CDS BP3195 NC_002929.2 3406997 3407788 R Similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivG or B3455 or Z4825 or ECS4302 SW:LIVG_ECOLI (P22730) (255 aa) fasta scores: E(): 6.6e-23, 36.86% id in 255 aa; ABC transporter ATP-binding protein complement(3406997..3407788) Bordetella pertussis Tohama I 2667531 NP_881754.1 CDS BP3196 NC_002929.2 3407785 3408924 R Similar to Escherichia coli Leu/Ile/Val-binding protein precursor LivJ or B3460 SW:LIVJ_ECOLI (P02917) (367 aa) fasta scores: E(): 3.6e-14, 27.74% id in 364 aa; amino acid binding protein complement(3407785..3408924) Bordetella pertussis Tohama I 2667532 NP_881755.1 CDS BP3198 NC_002929.2 3410019 3410801 D Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 3410019..3410801 Bordetella pertussis Tohama I 2666120 NP_881756.1 CDS BP3199 NC_002929.2 3410805 3411194 D Similar to Sulfolobus solfataricus hypothetical protein SSO2626 TR:Q97VJ8 (EMBL:AE006858) (128 aa) fasta scores: E(): 3.4e-05, 28.15% id in 103 aa; hypothetical protein 3410805..3411194 Bordetella pertussis Tohama I 2666121 NP_881757.1 CDS BP3201 NC_002929.2 3412334 3413197 D Similar to Pseudomonas aeruginosa (R)-specific enoyl-CoA hydratase PhaJ2 or PA1018 TR:Q9LBK1 (EMBL:AB040026) (288 aa) fasta scores: E(): 8.3e-39, 46.09% id in 282 aa, and to Mycobacterium tuberculosis CDC1551 maoc family protein mt3496 TR:AAK47833 (EMBL:AE007156) (290 aa) fasta scores: E(): 5.4e-31, 41.27% id in 298 aa; hydratase 3412334..3413197 Bordetella pertussis Tohama I 2667594 NP_881758.1 CDS BP3202 NC_002929.2 3413233 3414321 D Similar to Arabidopsis thaliana hypothetical 44.2 kDa protein T22A6.50 or At4G24220 TR:Q9STX2 (EMBL:AL078637) (388 aa) fasta scores: E(): 3.8e-17, 29.75% id in 373 aa; hypothetical protein 3413233..3414321 Bordetella pertussis Tohama I 2667595 NP_881759.1 CDS BP3203 NC_002929.2 3414318 3415268 R transposase for IS481 element; transposase complement(3414318..3415268) Bordetella pertussis Tohama I 2667596 NP_881760.1 CDS BP3207 NC_002929.2 3419527 3420405 D Weak similarity to Synechococcus vulcanus delta 9 acyl-lipid fatty acid desaturase DesC TR:Q9ZAP7 (EMBL:U90417) (279 aa) fasta scores: E(): 0.0008, 25.09% id in 255 aa, and to Anabaena sp delta-9 desaturase DesC TR:BAB76690 (EMBL:AP003598) (285 aa) fasta scores: E(): 0.0015, 23.22% id in 254 aa; fatty acid desaturase 3419527..3420405 Bordetella pertussis Tohama I 2667599 NP_881761.1 CDS BP3210 NC_002929.2 3422354 3423304 D transposase for IS481 element; transposase 3422354..3423304 Bordetella pertussis Tohama I 2667676 NP_881762.1 CDS rnhA NC_002929.2 3423301 3423768 R An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids; ribonuclease H complement(3423301..3423768) Bordetella pertussis Tohama I 2667677 NP_881763.1 CDS BP3212 NC_002929.2 3423811 3424581 R Similar to Pseudomonas aeruginosa hypothetical protein PA1814 TR:Q9I2T0 (EMBL:AE004608) (253 aa) fasta scores: E(): 1.3e-18, 31.47% id in 251 aa; hypothetical protein complement(3423811..3424581) Bordetella pertussis Tohama I 2667678 NP_881764.1 CDS gloB NC_002929.2 3424602 3425402 D Similar to Escherichia coli probable hydroxyacylglutathione hydrolase GloB or b0212 or z0236 or ecs0208 SWALL:GLO2_ECOLI (SWALL:Q47677) (251 aa) fasta scores: E(): 1.1e-36, 47.45% id in 255 aa; hydroxyacylglutathione hydrolase 3424602..3425402 Bordetella pertussis Tohama I 2667506 NP_881765.1 CDS BP3214 NC_002929.2 3425413 3426822 D Similar to Escherichia coli membrane-bound lytic murein transglycosylase D precursor MltD or DniR or B0211 SW:MLTD_ECOLI (P23931) (452 aa) fasta scores: E(): 2.4e-29, 32.05% id in 443 aa, and to Pseudomonas aeruginosa membrane-bound lytic murein transglycosylase d precursor MltD or Pa1812 TR:Q9I2T2 (EMBL:AE004607) (534 aa) fasta scores: E(): 1.1e-47, 38.84% id in 484 aa; membrane-bound precursor protein; membrane-bound lytic murein transglycosylase D precursor 3425413..3426822 Bordetella pertussis Tohama I 2667507 NP_881766.1 CDS fabI NC_002929.2 3426917 3427702 D Catalyzes a key regulatory step in fatty acid biosynthesis; enoyl-(acyl carrier protein) reductase 3426917..3427702 Bordetella pertussis Tohama I 2667508 NP_881767.1 CDS BP3216 NC_002929.2 3427942 3428958 D Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 3427942..3428958 Bordetella pertussis Tohama I 2667509 NP_881768.1 CDS BP3217 NC_002929.2 3429066 3429458 R Similar to Pseudomonas aeruginosa hypothetical protein PA1203 TR:Q9I4D5 (EMBL:AE004550) (135 aa) fasta scores: E(): 3.9e-09, 33.58% id in 134 aa; hypothetical protein complement(3429066..3429458) Bordetella pertussis Tohama I 2667510 NP_881769.1 CDS BP3218 NC_002929.2 3429596 3430276 D Similar to Pseudomonas aeruginosa hypothetical protein PA3712 TR:Q9HXS9 (EMBL:AE004790) (231 aa) fasta scores: E(): 1.7e-39, 58.4% id in 226 aa; hypothetical protein 3429596..3430276 Bordetella pertussis Tohama I 2667502 NP_881770.1 CDS BP3219 NC_002929.2 3430281 3431279 R Similar to Rhizobium meliloti conserved hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 8.5e-42, 41.61% id in 310 aa; hypothetical protein complement(3430281..3431279) Bordetella pertussis Tohama I 2667503 NP_881771.1 CDS BP3220 NC_002929.2 3431348 3432298 R transposase for IS481 element; transposase complement(3431348..3432298) Bordetella pertussis Tohama I 2667504 NP_881772.1 CDS ompR NC_002929.2 3433803 3434504 D Similar to Escherichia coli transcriptional regulatory protein OmpR or OmpB or Kmt or B3405 or Z4760 or ECS4247 SW:OMPR_ECOLI (P03025) (239 aa) fasta scores: E(): 9.5e-40, 50.87% id in 230 aa, and to Bordetella pertussis, Bordetella bronchiseptica, Bordetella avium, and Bordetella parapertussis RisA proteinTR:O88117 (EMBL:AJ224798) (244 aa) fasta scores: E(): 8.4e-40, 50.21% id in 235 aa; two component response regulator 3433803..3434504 Bordetella pertussis Tohama I 2667495 NP_881773.1 CDS BP3223 NC_002929.2 3434504 3435928 D Similar to Pseudomonas aeruginosa two-component sensor EnvZ or PA5199 TR:Q9HTZ0 (EMBL:AE004932) (439 aa) fasta scores: E(): 5.9e-24, 31.87% id in 480 aa, and to Bordetella pertussis, Bordetella bronchiseptica, Bordetella avium, and Bordetella parapertussis RisS protein TR:O88100 (EMBL:AJ224799) (474 aa) fasta scores: E(): 4.6e-22, 34.2% id in 307 aa; two-component sensor kinase 3434504..3435928 Bordetella pertussis Tohama I 2667496 NP_881774.1 CDS BP3224 NC_002929.2 3435945 3437000 R Similar to Escherichia coli cytochrome D ubiquinol oxidase subunit II CydB SW:CYDB_ECOLI (P11027) (379 aa) fasta scores: E(): 0.022, 21.97% id in 364 aa, and to Rhizobium loti quinol oxidase, subunit II MLR4525 TR:Q98DW0 (EMBL:AP003004) (334 aa) fasta scores: E(): 1.9e-39, 35.78% id in 327 aa; cytochrome oxidase complement(3435945..3437000) Bordetella pertussis Tohama I 2667497 NP_881775.1 CDS BP3225 NC_002929.2 3436997 3438337 R Similar to Ralstonia solanacearum transmembrane cytochrome BD-II oxidase Rsp1242 TR:CAD18393 (EMBL:AL646083) (462 aa) fasta scores: E(): 1.7e-56, 41.14% id in 435 aa, and to Rhizobium loti quinol oxidase subunit I mlr4524 TR:Q98DW1 (EMBL:AP003004) (453 aa) fasta scores: E(): 7.3e-52, 38.03% id in 447 aa; transmembrane cytochrome oxidase complement(3436997..3438337) Bordetella pertussis Tohama I 2667498 NP_881776.1 CDS glnS NC_002929.2 3438453 3440216 D catalyzes a two-step reaction, first charging a glutamine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; glutaminyl-tRNA synthetase 3438453..3440216 Bordetella pertussis Tohama I 2667499 NP_881777.1 CDS minC NC_002929.2 3440328 3441206 D blocks the formation of polar Z-ring septums; septum formation inhibitor 3440328..3441206 Bordetella pertussis Tohama I 2667500 NP_881778.1 CDS minD NC_002929.2 3441319 3442134 D Similar to Escherichia coli septum site-determining protein MinD SW:MIND_ECOLI (P18197) (269 aa) fasta scores: E(): 4.8e-70, 73.13% id in 268 aa, and to Vibrio cholerae septum site-determining protein mind VC1960 TR:Q9KQN8 (EMBL:AE004271) (276 aa) fasta scores: E(): 1.4e-70, 70.9% id in 275 aa; septum site-determining protein 3441319..3442134 Bordetella pertussis Tohama I 2667501 NP_881779.1 CDS minE NC_002929.2 3442138 3442389 D works in conjunction with MinC and MinD to enable cell division at the midpoint of the long axis of the cell; cell division topological specificity factor MinE 3442138..3442389 Bordetella pertussis Tohama I 2667486 NP_881780.1 CDS BP3230 NC_002929.2 3442474 3443490 R Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 5.2e-17, 28.165% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 1.9e-49, 47.205% id in 322 aa; transposase for IS1663 complement(3442474..3443490) Bordetella pertussis Tohama I 2667487 NP_881781.1 CDS osmB NC_002929.2 3443821 3444042 R Similar to Escherichia coli osmotically inducible lipoprotein B precursor OsmB or B1283 or Z2523 or Ecs1856 SW:OSMB_ECOLI (P17873) (72 aa) fasta scores: E(): 6.7e-08, 51.47% id in 68 aa; osmotically inducible lipoprotein B complement(3443821..3444042) Bordetella pertussis Tohama I 2667488 NP_881782.1 CDS BP3234 NC_002929.2 3446403 3447269 R Similar to Pseudomonas aeruginosa hypothetical protein Pa4287 TR:Q9HWB3 (EMBL:AE004845) (296 aa) fasta scores: E(): 6.9e-45, 50.17% id in 289 aa, and to Rhizobium meliloti hypothetical transmembrane protein Smc00642 TR:CAC47308 (EMBL:AL591791) (296 aa) fasta scores: E(): 6.1e-22, 30.98% id in 284 aa. Lies alongside a ABC transport protein.; hypothetical protein complement(3446403..3447269) Bordetella pertussis Tohama I 2667352 NP_881783.1 CDS BP3235 NC_002929.2 3447433 3447948 D hypothetical protein 3447433..3447948 Bordetella pertussis Tohama I 2667353 NP_881784.1 CDS BP3237 NC_002929.2 3449106 3450677 R Similar to Rhizobium meliloti peptide-binding periplasmic ABC transporter protein smc02417 TR:CAC47172 (EMBL:AL591791) (520 aa) fasta scores: E(): 1.6e-72, 39.18% id in 518 aa; peptide ABC transporter substrate-binding protein complement(3449106..3450677) Bordetella pertussis Tohama I 2667355 NP_881785.1 CDS BP3238 NC_002929.2 3450795 3451730 R Similar to proteins involved in polysaccharide biosynthesis eg. Yersinia enterocolitica WbcL protein TR:Q56915 (EMBL:Z47767) (292 aa) fasta scores: E(): 5.7e-18, 28.51% id in 270 aa, and to Streptococcus agalactiae CpsvN TR:Q9AFH5 (EMBL:AF349539) (295 aa) fasta scores: E(): 1.2e-10, 28.5% id in 228 aa; glycosyl transferase family protein complement(3450795..3451730) Bordetella pertussis Tohama I 2667356 NP_881786.1 CDS BP3239 NC_002929.2 3451856 3452863 D Similar to many eg. Pseudomonas aeruginosa transcriptional regulator PtxR or pa2258 SW:PTXR_PSEAE (P72131) (312 aa) fasta scores: E(): 1.1e-21, 30.69% id in 316 aa. Also similar to BP0265, 49.329% identity (50.690% ungapped) in 298 aa overlap.; LysR family transcriptional regulator 3451856..3452863 Bordetella pertussis Tohama I 2667357 NP_881787.1 CDS BP3239A NC_002929.2 3452932 3453147 R Similar to Neisseria meningitidis; periplasmic protein Nma2065 SWALL:Q9JSZ4 (EMBL:AL162758)(90 aa) fasta scores: E()3.9 45.65% id in 46 aa overlap; hypothetical protein complement(3452932..3453147) Bordetella pertussis Tohama I 2667658 NP_881788.1 CDS uvrA2 NC_002929.2 3453431 3459148 D Full length similarity to Deinococcus radiodurans excinuclease ABC subunit A UvrA or dr1771 SW:UVRA_DEIRA (Q46577) (1016 aa) fasta scores: E(): 2.9e-103, 39.43% id in 1070 aa, and partial sinilarity to others eg. Escherichia coli excinuclease ABC subunit A UvrA or DinE or b4058 SW:UVRA_ECOLI (P07671) (940 aa) fasta scores: E(): 4.7e-66, 42.29% id in 960 aa; excinuclease ABC subunit 3453431..3459148 Bordetella pertussis Tohama I 2667659 NP_881789.1 CDS BP3241 NC_002929.2 3459154 3460281 D catalyzes the formation of 4-amino-4-deoxychorismate from chorismate and glutamine; aminodeoxychorismate synthase 3459154..3460281 Bordetella pertussis Tohama I 2667660 NP_881790.1 CDS BP3242 NC_002929.2 3460337 3460963 D Similar to Rhizobium loti Mlr3007 protein TR:Q98H69 (EMBL:AP003000) (220 aa) fasta scores: E(): 4.6e-18, 36.71% id in 207 aa, and to Rhizobium meliloti hypothetical protein Smc04014 TR:CAC47377 (EMBL:AL591791) (208 aa) fasta scores: E(): 4.7e-17, 40.77% id in 206 aa; hypothetical protein 3460337..3460963 Bordetella pertussis Tohama I 2667661 NP_881791.1 CDS BP3243 NC_002929.2 3461235 3462251 D Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 2e-17, 28.48% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 8.2e-50, 47.516% id in 322 aa; transposase for IS1663 3461235..3462251 Bordetella pertussis Tohama I 2667662 NP_881792.1 CDS BP3244 NC_002929.2 3462382 3463092 R Similar to Streptomyces galilaeus aklaviketone reductase AknU TR:Q9L4U4 (EMBL:AF264025) (267 aa) fasta scores: E(): 7.4e-22, 40.16% id in 244 aa, and to Streptomyces peucetius daunorubicin-doxorubicin polyketide synthase DnrH TR:Q54810 (EMBL:L35560) (251 aa) fasta scores: E(): 1.7e-19, 40.89% id in 247 aa; oxidoreductase complement(3462382..3463092) Bordetella pertussis Tohama I 2667663 NP_881793.1 CDS BP3245 NC_002929.2 3463089 3464078 R Similar to Comamonas testosteroni OrfJ protein TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 9.7e-39, 40.37% id in 317 aa, and to Variovorax paradoxus 2,4-diphenoxyacetic acid gene cluster protein TR:Q9RHQ7 (EMBL:AB028643) (337 aa) fasta scores: E(): 1.6e-35, 35.84% id in 332 aa; hypothetical protein complement(3463089..3464078) Bordetella pertussis Tohama I 2667664 NP_881794.1 CDS BP3246 NC_002929.2 3464174 3465805 D activates fatty acids by binding to coenzyme A; acyl-CoA synthetase 3464174..3465805 Bordetella pertussis Tohama I 2667665 NP_881795.1 CDS BP3247 NC_002929.2 3465808 3466545 D Similar to Klebsiella aerogenes histidine utilization repressor HutC SW:HUTC_KLEAE (P12380) (241 aa) fasta scores: E(): 5.8e-09, 25.64% id in 234 aa; transcriptional regulator 3465808..3466545 Bordetella pertussis Tohama I 2667666 NP_881796.1 CDS BP3248 NC_002929.2 3466701 3467564 R Similar to Escherichia coli hypothetical protein YgdL or b2812 SW:YGDL_ECOLI (Q46927) (268 aa) fasta scores: E(): 8.8e-33, 42.85% id in 273 aa, and to Neisseria meningitidis hypothetical protein NMA1704 TR:Q9JTN0 (EMBL:AL162756) (258 aa) fasta scores: E(): 1.7e-32, 45.31% id in 267 aa; hypothetical protein complement(3466701..3467564) Bordetella pertussis Tohama I 2667667 NP_881797.1 CDS BP3249 NC_002929.2 3467842 3469062 D Similar to Streptomyces coelicolor integral membrane transport protein SCI30A.30C TR:Q9S243 (EMBL:AL096811) (463 aa) fasta scores: E(): 6.1e-19, 30.78% id in 393 aa, and to Streptoverticillium netropsis SpcT TR:Q9S1M2 (EMBL:U70376) (433 aa) fasta scores: E(): 6.8e-08, 27.29% id in 392 aa; inner membrane efflux protein 3467842..3469062 Bordetella pertussis Tohama I 2667668 NP_881798.1 CDS BP3250 NC_002929.2 3469059 3469718 D Similar to Rhizobium loti Mll3532 protein TR:Q98G14 (EMBL:AP003002) (184 aa) fasta scores: E(): 1.2e-24, 46.15% id in 169 aa, and to Escherichia coli cation transport protein ChaC or b1218 SW:CHAC_ECOLI (P39163) (231 aa) fasta scores: E(): 1.2e-22, 38.61% id in 202 aa. Also similar to BP3007, 57.714% identity (57.714% ungapped) in 175 aa overlap.; hypothetical protein 3469059..3469718 Bordetella pertussis Tohama I 2667669 NP_881799.1 CDS pdxH NC_002929.2 3469790 3470422 D Similar to Escherichia coli pyridoxamine 5'-phosphate oxidase PdxH or b1638 SW:PDXH_ECOLI (P28225) (217 aa) fasta scores: E(): 4.8e-34, 45.23% id in 210 aa, and to Pseudomonas aeruginosa pyridoxine 5'-phosphate oxidase PdxH or pa1049 TR:Q9I4S5 (EMBL:AE004537) (215 aa) fasta scores: E(): 3.9e-46, 58.87% id in 214 aa; pyridoxamine 5'-phosphate oxidase 3469790..3470422 Bordetella pertussis Tohama I 2667670 NP_881800.1 CDS BP3252 NC_002929.2 3470452 3470970 D Similar to Chelatobacter heintzii nitrilotriacetate monooxygenase component B NtaB or NmoB SW:NTAB_CHEHE (P54990) (322 aa) fasta scores: E(): 8.1e-20, 38.78% id in 165 aa; monooxygenase component 3470452..3470970 Bordetella pertussis Tohama I 2667671 NP_881801.1 CDS BP3253 NC_002929.2 3470981 3472090 D Similar to Agrobacterium tumefaciens StrC58 Agr_c_4955p TR:AAK88449 (EMBL:AE008187) (367 aa) fasta scores: E(): 9.3e-78, 59.51% id in 368 aa, and to Caulobacter crescentus hypothetical protein Cc3174 TR:Q9A3M8 (EMBL:AE005981) (372 aa) fasta scores: E(): 4.1e-67, 51.64% id in 364 aa; hypothetical protein 3470981..3472090 Bordetella pertussis Tohama I 2667672 NP_881802.1 CDS purU NC_002929.2 3472137 3472991 D produces formate from formyl-tetrahydrofolate which is the major source of formate for PurT in de novo purine nucleotide biosynthesis; has a role in one-carbon metabolism; forms a homohexamer; activated by methionine and inhibited by glycine; formyltetrahydrofolate deformylase 3472137..3472991 Bordetella pertussis Tohama I 2667673 NP_881803.1 CDS BP3255 NC_002929.2 3472993 3473895 R Similar to Pseudomonas aeruginosa probable transcriptional regulator Pa3594 TR:Q9HY32 (EMBL:AE004780) (295 aa) fasta scores: E(): 6.6e-45, 47.26% id in 292 aa, and to Bacillus subtilis als operon regulatory protein AlsR SW:ALSR_BACSU (Q04778) (302 aa) fasta scores: E(): 4.8e-27, 37.65% id in 247 aa; LysR family transcriptional regulator complement(3472993..3473895) Bordetella pertussis Tohama I 2667674 NP_881804.1 CDS BP3257 NC_002929.2 3475118 3476068 R transposase for IS481 element; transposase complement(3475118..3476068) Bordetella pertussis Tohama I 2667430 NP_881805.1 CDS trpC NC_002929.2 3478987 3479775 R involved in tryptophan biosynthesis; amino acid biosynthesis; converts 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate to C(1)-(3-indolyl)-glycerol 3-phosphate and carbon dioxide and water; indole-3-glycerol phosphate synthase complement(3478987..3479775) Bordetella pertussis Tohama I 2667433 NP_881806.1 CDS trpD NC_002929.2 3479772 3480803 R Catalyzes the conversion of N-(5-phospho-D-ribosyl)-anthranilate and diphosphate to anthranilate and 5-phospho-alpha-D-ribose 1-diphosphate; anthranilate phosphoribosyltransferase complement(3479772..3480803) Bordetella pertussis Tohama I 2667434 NP_881807.1 CDS trpG NC_002929.2 3480822 3481385 R TrpG; with TrpE catalyzes the formation of anthranilate and glutamate from chorismate and glutamine; TrpG provides the glutamine amidotransferase activity; anthranilate synthase component II complement(3480822..3481385) Bordetella pertussis Tohama I 2667534 NP_881808.1 CDS trpE NC_002929.2 3481441 3482961 R with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine; anthranilate synthase component I complement(3481441..3482961) Bordetella pertussis Tohama I 2667535 NP_881809.1 CDS gph NC_002929.2 3483225 3483929 R Similar to Alcaligenes eutrophus phosphoglycolate phosphatase CbbzC SW:GPHC_ALCEU (P40852) (231 aa) fasta scores: E(): 1.3e-28, 47.14% id in 210 aa; phosphoglycolate phosphatase complement(3483225..3483929) Bordetella pertussis Tohama I 2667536 NP_881810.1 CDS rpe NC_002929.2 3483937 3484674 R Similar to Alcaligenes eutrophus ribulose-phosphate 3-epimerase, plasmid CbbEP or CfxE SW:RPEP_ALCEU (Q04539) (241 aa) fasta scores: E(): 1.1e-62, 69.74% id in 238 aa, and to Escherichia coli, and ribulose-phosphate 3-epimerase Rpe or Dod or b3386 or z4739 or ecs4228 SW:RPE_ECOLI (P32661) (225 aa) fasta scores: E(): 1.3e-58, 72.27% id in 220 aa; ribulose-phosphate 3-epimerase complement(3483937..3484674) Bordetella pertussis Tohama I 2667478 NP_881811.1 CDS apaG NC_002929.2 3484759 3485154 D protein associated with Co2+ and Mg2+ efflux; ApaG protein 3484759..3485154 Bordetella pertussis Tohama I 2667479 NP_881812.1 CDS BP3268 NC_002929.2 3485197 3486486 D Similar to Pseudomonas aeruginosa probable membrane-bound lytic murein transglycolase A Pa1222 TR:Q9I4B6 (EMBL:AE004552) (385 aa) fasta scores: E(): 8.8e-50, 41.99% id in 381 aa, and to many from Neisseria spp. eg. Neisseria meningitidis outer membrane lipoprotein Gna33 TR:Q9JPQ9 (EMBL:AF226404) (441 aa) fasta scores: E(): 2.7e-33, 34.7% id in 461 aa, and to Escherichia coli membrane-bound lytic murein transglycosylase A precursor MltA or Mlt or b2813 or z4130 or ecs3673 SW:MLTA_ECOLI (P46885) (365 aa) fasta scores: E(): 9.1e-16, 33.11% id in 302 aa; membrane-bound transglycosylase 3485197..3486486 Bordetella pertussis Tohama I 2667480 NP_881813.1 CDS BP3269 NC_002929.2 3486483 3487652 D Similar to Pseudomonas aeruginosa probable FAD-dependent monooxygenase Pa5221 TR:Q9HTW9 (EMBL:AE004935) (405 aa) fasta scores: E(): 1.1e-33, 39.01% id in 387 aa, and to Escherichia coli 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase UbiF or b0662 SW:UBIF_ECOLI (P75728) (391 aa) fasta scores: E(): 2.1e-29, 34.17% id in 395 aa; ubiquinone biosynthesis hydroxylase family protein 3486483..3487652 Bordetella pertussis Tohama I 2667481 NP_881814.1 CDS BP3270 NC_002929.2 3487649 3488488 D Similar to Neisseria meningitidis (serogroup A), and thiol:disulphide interchange protein NMA0730 or NMB0550 TR:Q9JR63 (EMBL:AL162754) (260 aa) fasta scores: E(): 3.9e-26, 36.9% id in 233 aa, and to Escherichia coli thiol:disulfide interchange protein DsbC precursor or XprA or b2893 or z4231 or ecs3765 SW:DSBC_ECOLI (P21892) (236 aa) fasta scores: E(): 9e-12, 28.57% id in 231 aa; thiol:disulfide interchange protein (periplasmic) 3487649..3488488 Bordetella pertussis Tohama I 2667482 NP_881815.1 CDS BP3271 NC_002929.2 3488548 3489483 D Similar to Streptomyces coelicolor 2-hydroxyacid dehydrogenase SCC61A.17 TR:Q9KYH6 (EMBL:AL356595) (330 aa) fasta scores: E(): 1.2e-49, 49.67% id in 308 aa, and to Bacillus subtilis D-3-phosphoglycerate dehydrogenase SerA SW:SERA_BACSU (P35136) (525 aa) fasta scores: E(): 1.4e-22, 32.48% id in 274 aa; 2-hydroxyacid dehydrogenase 3488548..3489483 Bordetella pertussis Tohama I 2667483 NP_881816.1 CDS BP3272 NC_002929.2 3489496 3490446 R transposase for IS481 element; transposase complement(3489496..3490446) Bordetella pertussis Tohama I 2667484 NP_881817.1 CDS BP3273 NC_002929.2 3490545 3491507 R TtcA; YdaO; catalyzes the thiolation of cytosine 32 in specific tRNAs; C32 tRNA thiolase complement(3490545..3491507) Bordetella pertussis Tohama I 2667485 NP_881818.1 CDS folB NC_002929.2 3491539 3491898 R Similar to Escherichia coli dihydroneopterin aldolase FolB or b3058 SW:FOLB_ECOLI (P31055) (122 aa) fasta scores: E(): 2.2e-05, 32.43% id in 111 aa, and to Xylella fastidiosa dihydroneopterin aldolase Xf0436 TR:Q9PG66 (EMBL:AE003894) (120 aa) fasta scores: E(): 2.6e-09, 40% id in 115 aa; dihydroneopterin aldolase complement(3491539..3491898) Bordetella pertussis Tohama I 2666894 NP_881819.1 CDS BP3275 NC_002929.2 3492023 3492925 D Similar to C-terminal portion of many eg. Salmonella typhimurium alkyl hydroperoxide reductase subunit F AhpF or stm0609 SW:AHPF_SALTY (P19480) (521 aa) fasta scores: E(): 8.1e-08, 28.84% id in 312 aa, and to Escherichia coli alkyl hydroperoxide reductase subunit F AhpF or b0606 SW:AHPF_ECOLI (P35340) (521 aa) fasta scores: E(): 2.4e-07, 27.65% id in 311 aa; oxidoreductase 3492023..3492925 Bordetella pertussis Tohama I 2666895 NP_881820.1 CDS BP3276 NC_002929.2 3492927 3494699 R Similar to Neisseria meningitidis hypothetical protein NMB1726 TR:Q9JY58 (EMBL:AE002523) (582 aa) fasta scores: E(): 1.1e-56, 40.9% id in 594 aa; hypothetical protein complement(3492927..3494699) Bordetella pertussis Tohama I 2666896 NP_881821.1 CDS BP3277 NC_002929.2 3494683 3495510 D Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 3494683..3495510 Bordetella pertussis Tohama I 2666897 NP_881822.1 CDS BP3279 NC_002929.2 3496834 3497784 R transposase for IS481 element; transposase complement(3496834..3497784) Bordetella pertussis Tohama I 2666899 NP_881823.1 CDS BP3281 NC_002929.2 3498636 3498956 D Similar to Neisseria meningitidis hypothetical protein Nmb1941 TR:Q9JXP8 (EMBL:AE002542) (117 aa) fasta scores: E(): 0.032, 32.69% id in 104 aa, and to Vibrio cholerae ATP synthase I AtpI or vc2771 SW:ATPZ_VIBCH (Q9KNG8) (129 aa) fasta scores: E(): 0.095, 39.7% id in 68 aa; inner membrane ATP synthase 3498636..3498956 Bordetella pertussis Tohama I 2666900 NP_881824.1 CDS atpB NC_002929.2 3499029 3499910 D Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit A is part of the membrane proton channel F0; ATP synthase F0F1 subunit A 3499029..3499910 Bordetella pertussis Tohama I 2666842 NP_881825.1 CDS atpE NC_002929.2 3500027 3500269 D Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0; ATP synthase F0F1 subunit C 3500027..3500269 Bordetella pertussis Tohama I 2666843 NP_881826.1 CDS atpF NC_002929.2 3500407 3500877 D Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel.; ATP synthase F0F1 subunit B 3500407..3500877 Bordetella pertussis Tohama I 2666853 NP_881827.1 CDS atpH NC_002929.2 3500890 3501429 D 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; ATP synthase F0F1 subunit delta 3500890..3501429 Bordetella pertussis Tohama I 2666854 NP_881828.1 CDS atpA NC_002929.2 3501464 3503005 D produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit; ATP synthase F0F1 subunit alpha 3501464..3503005 Bordetella pertussis Tohama I 2666855 NP_881829.1 CDS atpG NC_002929.2 3503104 3504009 D Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit; ATP synthase F0F1 subunit gamma 3503104..3504009 Bordetella pertussis Tohama I 2666856 NP_881830.1 CDS atpD NC_002929.2 3504052 3505452 D Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit; ATP synthase F0F1 subunit beta 3504052..3505452 Bordetella pertussis Tohama I 2667372 NP_881831.1 CDS atpC NC_002929.2 3505462 3505884 D 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; ATP synthase F0F1 subunit epsilon 3505462..3505884 Bordetella pertussis Tohama I 2667373 NP_881832.1 CDS BP3290 NC_002929.2 3506067 3506951 D hypothetical protein 3506067..3506951 Bordetella pertussis Tohama I 2667374 NP_881833.1 CDS hemE NC_002929.2 3507027 3508103 D catalyzes the formation of coproporphyrinogen from uroporphyrinogen III; uroporphyrinogen decarboxylase 3507027..3508103 Bordetella pertussis Tohama I 2667375 NP_881834.1 CDS BP3292 NC_002929.2 3508470 3510512 D Similar to Neisseria meningitidis primosomal protein N` NMB0551 TR:Q9K0N6 (EMBL:AE002411) (729 aa) fasta scores: E(): 6.6e-91, 42.97% id in 740 aa, and to Escherichia coli primosomal protein N' PriA or b3935 SW:PRIA_ECOLI (P17888) (732 aa) fasta scores: E(): 1.9e-77, 39.56% id in 738 aa; primosomal protein 3508470..3510512 Bordetella pertussis Tohama I 2667376 NP_881835.1 CDS rep NC_002929.2 3510555 3512624 D Similar to Escherichia coli ATP-dependent DNA helicase Rep or b3778 SW:REP_ECOLI (P09980) (673 aa) fasta scores: E(): 4.4e-103, 49.48% id in 677 aa; ATP-dependent DNA helicase 3510555..3512624 Bordetella pertussis Tohama I 2667377 NP_881836.1 CDS BP3294 NC_002929.2 3512723 3513673 D transposase for IS481 element; transposase 3512723..3513673 Bordetella pertussis Tohama I 2667378 NP_881837.1 CDS BP3295 NC_002929.2 3513802 3514935 R Similar to Bacillus halodurans carboxypeptidase G2 bh0352 TR:Q9KFW8 (EMBL:AP001508) (374 aa) fasta scores: E(): 1e-41, 37.46% id in 363 aa, and to Pseudomonas sp carboxypeptidase G2 precursor cpg2 SW:CBPG_PSES6 (P06621) (415 aa) fasta scores: E(): 2e-21, 26.41% id in 371 aa; peptidase complement(3513802..3514935) Bordetella pertussis Tohama I 2667379 NP_881838.1 CDS BP3296 NC_002929.2 3514979 3515884 R hypothetical protein complement(3514979..3515884) Bordetella pertussis Tohama I 2667380 NP_881839.1 CDS BP3298 NC_002929.2 3517584 3518504 R Similar to Agrobacterium tumefaciens strC58 Agr_pat_365p TR:AAK90629 (EMBL:AE007895) (318 aa) fasta scores: E(): 9.6e-58, 53.95% id in 291 aa, and to Escherichia coli dipeptide transport system permease DppC or b3542 or z4959 or ecs4422 SW:DPPC_ECOLI (P37315) (300 aa) fasta scores: E(): 3.6e-35, 39.56% id in 273 aa; binding-protein-dependent transport permease complement(3517584..3518504) Bordetella pertussis Tohama I 2667382 NP_881840.1 CDS BP3299 NC_002929.2 3518512 3519489 R Similar to Agrobacterium tumefaciens strC58 Agr_pat_363p TR:AAK90628 (EMBL:AE007895) (323 aa) fasta scores: E(): 2.2e-66, 53.43% id in 320 aa, and to Bacillus subtilis oligopeptide transport system permease AppB SW:APPB_BACSU (P42062) (317 aa) fasta scores: E(): 1.9e-40, 36.64% id in 322 aa; binding-protein-dependent transport permease complement(3518512..3519489) Bordetella pertussis Tohama I 2667383 NP_881841.1 CDS BP3300 NC_002929.2 3519548 3520582 R hypothetical protein complement(3519548..3520582) Bordetella pertussis Tohama I 2667384 NP_881842.1 CDS BP3302 NC_002929.2 3522557 3522793 R hypothetical protein complement(3522557..3522793) Bordetella pertussis Tohama I 2667386 NP_881843.1 CDS BP3303 NC_002929.2 3522920 3523783 R Similar to many eg. Neisseria meningitidis hypothetical protein NMA1369 TR:Q9JUD3 (EMBL:AL162755) (296 aa) fasta scores: E(): 8.5e-36, 47.23% id in 271 aa; hypothetical protein complement(3522920..3523783) Bordetella pertussis Tohama I 2667387 NP_881844.1 CDS BP3304 NC_002929.2 3523872 3524693 D Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 3523872..3524693 Bordetella pertussis Tohama I 2667388 NP_881845.1 CDS BP3305 NC_002929.2 3524773 3525510 R Similar to Caulobacter crescentus enoyl-CoA hydratase/isomerase family protein cc0397 TR:Q9AB37 (EMBL:AE005712) (256 aa) fasta scores: E(): 4.8e-33, 46.41% id in 237 aa, and to Mus musculus peroxisomal 3,2-trans-enoyl-CoA isomerase PecI SW:PECI_MOUSE (Q9WUR2) (358 aa) fasta scores: E(): 4.6e-20, 34.13% id in 249 aa; enoyl-CoA hydratase/isomerase complement(3524773..3525510) Bordetella pertussis Tohama I 2666472 NP_881846.1 CDS BP3306 NC_002929.2 3525507 3526499 R Similar to many eg. Rhizobium meliloti hypothetical protein Smc02150 TR:CAC41942 (EMBL:AL591783) (336 aa) fasta scores: E(): 8.8e-66, 57.37% id in 312 aa; hypothetical protein complement(3525507..3526499) Bordetella pertussis Tohama I 2666473 NP_881847.1 CDS BP3307 NC_002929.2 3526652 3527275 D Similar to many eg. Rhodococcus spNCIMB 9784. transcriptional repressor CamPR TR:AAK50621 (EMBL:AF323755) (206 aa) fasta scores: E(): 4.3e-13, 30.69% id in 202 aa; TetR family transcriptional repressor 3526652..3527275 Bordetella pertussis Tohama I 2666474 NP_881848.1 CDS BP3308 NC_002929.2 3527320 3528468 D Similar to many eg. Pseudomonas aeruginosa probable acyl-CoA dehydrogenase Pa1631 TR:Q9I391 (EMBL:AE004590) (384 aa) fasta scores: E(): 2.1e-106, 70.6% id in 381 aa, and to Clostridium acetobutylicum acyl-CoA dehydrogenase, short-chain specific Bcd or Cac2711 SW:ACDS_CLOAB (P52042) (379 aa) fasta scores: E(): 3.3e-46, 38.91% id in 370 aa; acyl-CoA dehydrogenase 3527320..3528468 Bordetella pertussis Tohama I 2666475 NP_881849.1 CDS BP3311 NC_002929.2 3530792 3531742 D transposase for IS481 element; transposase 3530792..3531742 Bordetella pertussis Tohama I 2666466 NP_881850.1 CDS BP3312 NC_002929.2 3532083 3533033 D transposase for IS1002 element; transposase 3532083..3533033 Bordetella pertussis Tohama I 2666467 NP_881851.1 CDS BP3313 NC_002929.2 3533132 3534082 D transposase for IS481 element; transposase 3533132..3534082 Bordetella pertussis Tohama I 2666468 NP_881852.1 CDS BP3314 NC_002929.2 3534349 3534876 D Similar to Rhizobium meliloti copper oxidase, possibly exported Sma1041 TR:AAK65222 (EMBL:AE007246) (170 aa) fasta scores: E(): 9.2e-17, 43.75% id in 160 aa, and to Aeromonas veronii bvSobria. CopC associated with copper tolerance TR:Q9L912 (EMBL:AF187849) (177 aa) fasta scores: E(): 5.4e-16, 46.52% id in 144 aa; blue copper protein 3534349..3534876 Bordetella pertussis Tohama I 2666953 NP_881853.1 CDS copA NC_002929.2 3534919 3536694 D Similar to Ralstonia metallidurans CopA protein TR:Q9F3S1 (EMBL:AJ278983) (614 aa) fasta scores: E(): 1.2e-133, 59.63% id in 602 aa, and to Pseudomonas syringae copper resistance protein A precursor CopA SW:COPA_PSESM (P12374) (609 aa) fasta scores: E(): 2.8e-95, 61.85% id in 603 aa, and to Escherichia coli copper resistance protein A precursor PcoA SW:PCOA_ECOLI (Q47452) (605 aa) fasta scores: E(): 5.4e-91, 59.05% id in 613 aa; copper resitance protein 3534919..3536694 Bordetella pertussis Tohama I 2666954 NP_881854.1 CDS copB NC_002929.2 3536702 3537568 D Similar to Pseudomonas aeruginosa copper resistance protein B precursor PcoB or Pa2064 TR:Q9I251 (EMBL:AE004633) (325 aa) fasta scores: E(): 3.3e-41, 42.76% id in 318 aa, and to Pseudomonas syringae copper resistance protein B precursor CopB SW:COPB_PSESM (P12375) (328 aa) fasta scores: E(): 4.2e-39, 42.66% id in 300 aa, and to Escherichia coli copper resistance protein B precursor PcoB SW:PCOB_ECOLI (Q47453) (296 aa) fasta scores: E(): 1.3e-34, 39.66% id in 295 aa; copper resistance protein 3536702..3537568 Bordetella pertussis Tohama I 2666958 NP_881855.1 CDS BP3317 NC_002929.2 3537575 3538300 R Similar to Mycobacterium tuberculosis probable enoyl-CoA hydratase EchA6 or Rv0905 or Mt0928 or mtcy31.33 SW:ECH6_MYCTU (Q10533) (243 aa) fasta scores: E(): 2.9e-11, 34.41% id in 215 aa; enoyl-CoA hydratase/isomerase complement(3537575..3538300) Bordetella pertussis Tohama I 2666959 NP_881856.1 CDS BP3319 NC_002929.2 3539479 3540273 R Similar to Escherichia coli transcriptional regulator KdgR or b1827 SW:KDGR_ECOLI (P76268) (263 aa) fasta scores: E(): 7.8e-25, 37.94% id in 253 aa, and to Pectobacterium carotovorum subspcarotovorum. KdgR TR:Q9RB25 (EMBL:AF135395) (263 aa) fasta scores: E(): 1.2e-21, 35.17% id in 253 aa; IclR family transcriptional regulator complement(3539479..3540273) Bordetella pertussis Tohama I 2666109 NP_881857.1 CDS BP3320 NC_002929.2 3540563 3541153 D Similar to Pseudomonas aeruginosa hypothetical protein Pa2602 TR:Q9I0N5 (EMBL:AE004689) (201 aa) fasta scores: E(): 2.3e-38, 55.31% id in 188 aa; hypothetical protein 3540563..3541153 Bordetella pertussis Tohama I 2666110 NP_881858.1 CDS BP3321 NC_002929.2 3541187 3542515 R Similar to Rhizobium meliloti amidase Sma1377 TR:AAK65414 (EMBL:AE007262) (471 aa) fasta scores: E(): 1.2e-38, 35.2% id in 446 aa, and to Pseudomonas putida amidase SW:AMID_PSEPU (O69768) (466 aa) fasta scores: E(): 3.9e-24, 37.5% id in 456 aa; amidase complement(3541187..3542515) Bordetella pertussis Tohama I 2666111 NP_881859.1 CDS BP3322 NC_002929.2 3542590 3543735 R Similar to Streptococcus pneumoniae R6 ABC transporter substrate-binding protein-branched chain amino acid transport livJ TR:AAK99463 (EMBL:AE008443) (386 aa) fasta scores: E(): 3.5e-30, 33.76% id in 388 aa, and to Salmonella typhimurium leucine-specific binding protein precursor livk or livC SW:LIVK_SALTY (P17216) (369 aa) fasta scores: E(): 4.2e-22, 27.4% id in 354 aa; binding-protein-dependent transport protein complement(3542590..3543735) Bordetella pertussis Tohama I 2666112 NP_881860.1 CDS BP3323 NC_002929.2 3543847 3544797 D transposase for IS481 element; transposase 3543847..3544797 Bordetella pertussis Tohama I 2666113 NP_881861.1 CDS phhB NC_002929.2 3545529 3545906 D 4-alpha-hydroxytetrahydrobiopterin dehydratase activity; catalyzes the formation of (6R)-6-(L-erythro-1,2-dihydroxypropyl)-7, 8-dihydro-6H-pterin from (6R)-6-(L-erythro-1,2-dihydroxypropyl)-5,6,7, 8-tetrahydro-4a-hydroxypterin; functions in recycling tetrahydrobiopterin (BH4) in phenylalanine hydroxylase reaction; pterin-4-alpha-carbinolamine dehydratase 3545529..3545906 Bordetella pertussis Tohama I 2666115 NP_881862.1 CDS BP3326 NC_002929.2 3545891 3546592 R hypothetical protein complement(3545891..3546592) Bordetella pertussis Tohama I 2666409 NP_881863.1 CDS BP3327 NC_002929.2 3546736 3547428 R Similar to many eg. Neisseria meningitidis sugar-phosphate nucleotidyl transferase nma0615 TR:Q9JVZ0 (EMBL:AL162753) (231 aa) fasta scores: E(): 2.4e-43, 58.55% id in 222 aa; nucleotidyl transferase complement(3546736..3547428) Bordetella pertussis Tohama I 2666410 NP_881864.1 CDS BP3328 NC_002929.2 3547428 3548531 R Similar to many eg. Pseudomonas aeruginosa hypothetical protein Pa0596 TR:Q9I5U1 (EMBL:AE004496) (338 aa) fasta scores: E(): 1.9e-52, 45.85% id in 338 aa; hypothetical protein complement(3547428..3548531) Bordetella pertussis Tohama I 2666411 NP_881865.1 CDS BP3329 NC_002929.2 3548641 3551013 D Similar to Xylella fastidiosa organic solvent tolerance precursor xf0837 TR:Q9PF41 (EMBL:AE003923) (792 aa) fasta scores: E(): 2.4e-46, 30.18% id in 815 aa, and to Escherichia coli organic solvent tolerance protein precursor Imp or OstA or b0054 SW:OSTA_ECOLI (P31554) (784 aa) fasta scores: E(): 4e-40, 26.97% id in 812 aa; outer membrane (permeability) protein 3548641..3551013 Bordetella pertussis Tohama I 2666412 NP_881866.1 CDS BP3330 NC_002929.2 3551010 3552569 D Similar to Xylella fastidiosa peptidyl-prolyl cis-trans isomerase xf0838 TR:Q9PF40 (EMBL:AE003923) (464 aa) fasta scores: E(): 9.3e-12, 31.37% id in 510 aa, and to Escherichia coli, and survival protein SurA precursor or b0053 or z0062 or ecs0058 SW:SURA_ECOLI (P21202) (428 aa) fasta scores: E(): 2e-07, 33.18% id in 461 aa. Thought to assist the correct folding of outer membrane proteins.; peptidyl-prolyl cis-trans isomerase 3551010..3552569 Bordetella pertussis Tohama I 2666413 NP_881867.1 CDS ksgA NC_002929.2 3552594 3553391 D catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin; dimethyladenosine transferase 3552594..3553391 Bordetella pertussis Tohama I 2666417 NP_881868.1 CDS garK NC_002929.2 3553423 3554568 R Similar to Escherichia coli glycerate kinase 2 GarK or b3124 SW:GRK2_ECOLI (P23524) (381 aa) fasta scores: E(): 2.8e-57, 49.6% id in 379 aa, and to Pseudomonas aeruginosa hypothetical protein Pa1052 TR:Q9I4S2 (EMBL:AE004537) (381 aa) fasta scores: E(): 1.6e-81, 68.09% id in 373 aa; glycerate kinase complement(3553423..3554568) Bordetella pertussis Tohama I 2666418 NP_881869.1 CDS pykA NC_002929.2 3554649 3556115 D catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase 3554649..3556115 Bordetella pertussis Tohama I 2666419 NP_881870.1 CDS BP3334 NC_002929.2 3556118 3557347 R Similar to Pseudomonas aeruginosa hypothetical protein Pa5478 TR:Q9HT92 (EMBL:AE004960) (409 aa) fasta scores: E(): 6e-116, 78.18% id in 408 aa. C-terminus similar to Bacillus subtilis spore maturation protein B SpmB SW:SPMB_BACSU (P35158) (179 aa) fasta scores: E(): 3.4e-17, 41.61% id in 173 aa; hypothetical protein complement(3556118..3557347) Bordetella pertussis Tohama I 2666420 NP_881871.1 CDS BP3336 NC_002929.2 3559485 3560435 R transposase for IS481 element; transposase complement(3559485..3560435) Bordetella pertussis Tohama I 2666414 NP_881872.1 CDS BP3339 NC_002929.2 3562617 3563411 R Similar to Escherichia coli ferrichrome transport ATP-binding protein FhuC or b0151 SW:FHUC_ECOLI (P07821) (265 aa) fasta scores: E(): 4.2e-19, 38.49% id in 239 aa; ABC transporter ATP-binding protein complement(3562617..3563411) Bordetella pertussis Tohama I 2666407 NP_881873.1 CDS BP3340 NC_002929.2 3563408 3564457 R Similar to Rhizobium meliloti iron ABC transporter permease smb21430 TR:CAC49658 (EMBL:AL603646) (356 aa) fasta scores: E(): 4.7e-59, 52.41% id in 332 aa, and to Corynebacterium diphtheriae HmuU TR:Q9XD88 (EMBL:AF109162) (350 aa) fasta scores: E(): 1.4e-35, 37.69% id in 329 aa. Also similar to BP0344, 40.256% identity (42.568% ungapped) in 313 aa overlap.; ABC transporter permease complement(3563408..3564457) Bordetella pertussis Tohama I 2666408 NP_881874.1 CDS BP3341 NC_002929.2 3564457 3565146 R Similar to Pseudomonas aeruginosa periplasmic protein pa0974 TR:Q9RNV2 (EMBL:AF177774) (274 aa) fasta scores: E(): 2.7e-09, 30.47% id in 210 aa; hypothetical protein complement(3564457..3565146) Bordetella pertussis Tohama I 2666266 NP_881875.1 CDS BP3342 NC_002929.2 3565233 3565730 R Similar to Haemophilus ducreyi 18 kDa outer membrane protein TR:Q47958 (EMBL:U42466) (157 aa) fasta scores: E(): 1.1e-19, 46.01% id in 163 aa, and to Escherichia coli peptidoglycan-associated lipoprotein precursor Pal or ExcC or b0741 or z0909 or ecs0776 SW:PAL_ECOLI (P07176) (173 aa) fasta scores: E(): 2.3e-15, 38.23% id in 170 aa; peptidoglycan-associated lipoprotein complement(3565233..3565730) Bordetella pertussis Tohama I 2666267 NP_881876.1 CDS tolB NC_002929.2 3565762 3567078 R 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; translocation protein TolB complement(3565762..3567078) Bordetella pertussis Tohama I 2666268 NP_881877.1 CDS BP3344 NC_002929.2 3567095 3568069 R No significant database matches. Contains possible coiled-coil region at residues 131-202.; proline-rich inner membrane protein complement(3567095..3568069) Bordetella pertussis Tohama I 2666269 NP_881878.1 CDS BP3345 NC_002929.2 3568106 3568564 R Similar to Escherichia coli TolR protein or b0738 or z0906 or ecs0773 SW:TOLR_ECOLI (P05829) (142 aa) fasta scores: E(): 9.1e-09, 33.33% id in 138 aa; TolR-like translocation protein complement(3568106..3568564) Bordetella pertussis Tohama I 2666270 NP_881879.1 CDS BP3346 NC_002929.2 3568564 3569244 R Similar to Escherichia coli TolQ protein or Fii or b0737 or z0905 or ecs0772 SW:TOLQ_ECOLI (P05828) (230 aa) fasta scores: E(): 3.2e-38, 50.68% id in 219 aa; TolQ-like translocation protein complement(3568564..3569244) Bordetella pertussis Tohama I 2666271 NP_881880.1 CDS BP3347 NC_002929.2 3569247 3569675 R Similar to many eg. Pasteurella multocida hypothetical protein Pm0971 TR:Q9CM67 (EMBL:AE006136) (136 aa) fasta scores: E(): 1.4e-19, 43.9% id in 123 aa; hypothetical protein complement(3569247..3569675) Bordetella pertussis Tohama I 2666244 NP_881881.1 CDS proS NC_002929.2 3569728 3571458 R catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro); prolyl-tRNA synthetase complement(3569728..3571458) Bordetella pertussis Tohama I 2666245 NP_881882.1 CDS nudH NC_002929.2 3571524 3572096 D hydrolyzes diadenosine polyphosphate; dinucleoside polyphosphate hydrolase 3571524..3572096 Bordetella pertussis Tohama I 2666246 NP_881883.1 CDS BP3350 NC_002929.2 3572077 3572763 D Similar to Salmonella typhimurium transcriptional regulatory protein TctD TR:AAL21670 (EMBL:M28368) (224 aa) fasta scores: E(): 1.1e-37, 50.68% id in 219 aa, and to Ralstonia solanacearum response regulator transcription regulator protein RSC2935 TR:CAD16642 (EMBL:AL646072) (235 aa) fasta scores: E(): 2.8e-55, 66.36% id in 223 aa; two component response regulator 3572077..3572763 Bordetella pertussis Tohama I 2666287 NP_881885.1 CDS BP3352 NC_002929.2 3573119 3573790 D Similar to Salmonella typhimurium gifsy-2 prophage stm1053 SWALL:Q8ZQ78 (EMBL:AE008745) (208 aa) fasta scores: E(): 6.8e-16, 38.83% id in 188 aa, and to Bacteriophage SPBc2 YoqW protein SWALL:O64131 (EMBL:AF020713) (224 aa) fasta scores: E(): 3.3e-09, 27.19% id in 228 aa; hypothetical protein 3573119..3573790 Bordetella pertussis Tohama I 2666289 NP_881886.1 CDS BP3353 NC_002929.2 3574119 3574340 D no significant database matches.; phage-like hypothetical protein 3574119..3574340 Bordetella pertussis Tohama I 2666290 NP_881887.1 CDS BP3354 NC_002929.2 3574340 3574621 D no significant database matches; hypothetical protein 3574340..3574621 Bordetella pertussis Tohama I 2666291 NP_881888.1 CDS BP3355 NC_002929.2 3574618 3575133 R Weakly similar to Bacteriophage N15 protein gp55 precursor 55 SW:VG55_BPN15 (O64363) (181 aa) fasta scores: E(): 0.00017, 31.76% id in 170 aa. Also similar to Escherichia coli hypothetical protein YdfP precursor YdfP SW:YDFP_ECOLI (P76158) (165 aa) fasta scores: E(): 4.5e-06, 32.71% id in 162 aa; hypothetical protein complement(3574618..3575133) Bordetella pertussis Tohama I 2666292 NP_881889.1 CDS BP3356 NC_002929.2 3575133 3575684 R Similar to Serratia marcescens phage lysozyme RegB SWALL:Q54423 (EMBL:U31763) (179 aa) fasta scores: E(): 0.05, 30.76% id in 169 aa, and to Bacteriophage phi-Ea1h lysozyme LyZ SWALL:Q9FZS7 (EMBL:AJ278614) (178 aa) fasta scores: E(): 0.079, 26.7% id in 191 aa; phage lysozyme complement(3575133..3575684) Bordetella pertussis Tohama I 2666293 NP_881890.1 CDS BP3357 NC_002929.2 3575663 3575905 R Weakly similar to Serratia marcescens extracellular secretory protein NucE TR:Q54418 (EMBL:U11698) (89 aa) fasta scores: E(): 0.26, 31.08% id in 74 aa, and to Haemophilus somnus holin TR:Q48281 (EMBL:U28154) (74 aa) fasta scores: E(): 2.6, 28.57% id in 63 aa; hypothetical protein complement(3575663..3575905) Bordetella pertussis Tohama I 2666294 NP_881891.1 CDS BP3358 NC_002929.2 3575910 3576722 R no significant database matches; hypothetical protein complement(3575910..3576722) Bordetella pertussis Tohama I 2666295 NP_881892.1 CDS BP3359 NC_002929.2 3576722 3576982 R no significant database matches; hypothetical protein complement(3576722..3576982) Bordetella pertussis Tohama I 2666296 NP_881893.1 CDS BP3361 NC_002929.2 3577204 3577620 R no significant database matches; hypothetical protein complement(3577204..3577620) Bordetella pertussis Tohama I 2666297 NP_881894.1 CDS BP3362 NC_002929.2 3577625 3581581 R Similar to Bacteriophage D3 Orf26 TR:Q9MC95 (EMBL:AF165214) (909 aa) fasta scores: E(): 4.5e-23, 26.57% id in 700 aa, and to Bacteriophage HK022 GP24 TR:Q9MCU0 (EMBL:AF069308) (1183 aa) fasta scores: E(): 3.4e-08, 22.26% id in 1051 aa. Possible alternative translational start sites.; hypothetical protein complement(3577625..3581581) Bordetella pertussis Tohama I 2666298 NP_881895.1 CDS BP3363 NC_002929.2 3581574 3581963 R Similar to Bacteriophage D3 Orf25 TR:Q9MC96 (EMBL:AF165214) (135 aa) fasta scores: E(): 0.0012, 32.03% id in 128 aa; hypothetical protein complement(3581574..3581963) Bordetella pertussis Tohama I 2666299 NP_881896.1 CDS BP3364 NC_002929.2 3581960 3582493 R Similar to Bacteriophage D3 Orf22 TR:Q9MC99 (EMBL:AF165214) (163 aa) fasta scores: E(): 0.41, 23.12% id in 173 aa; hypothetical protein complement(3581960..3582493) Bordetella pertussis Tohama I 2666300 NP_881897.1 CDS BP3365 NC_002929.2 3582561 3582920 R Similar to Bacteriophage D3 Orf21 TR:Q9MCA0 (EMBL:AF165214) (159 aa) fasta scores: E(): 9.9e-05, 34.31% id in 102 aa, and weakly similar to the C-terminal portion of Drosophila melanogaster protein CG3415 TR:AAK92917 (EMBL:AE003501) (598 aa) fasta scores: E(): 6.4, 26.59% id in 94 aa; hypothetical protein complement(3582561..3582920) Bordetella pertussis Tohama I 2666301 NP_881898.1 CDS BP3366 NC_002929.2 3582930 3585542 R Similar to Bacteriophage lambda minor tail protein precursor H SW:VMTH_LAMBD (P03736) (853 aa) fasta scores: E(): 1.3e-26, 26.31% id in 859 aa, and to Escherichia coli O157:H7 tail length tape measure protein precursor ECS0837 TR:BAB34260 (EMBL:AP002553) (1021 aa) fasta scores: E(): 9.4e-34, 26.83% id in 831 aa; phage tail protein complement(3582930..3585542) Bordetella pertussis Tohama I 2666302 NP_881899.1 CDS BP3367 NC_002929.2 3585568 3585858 R Similar to Yersinia pestis hypothetical phage protein Ypo2118 ypo2118 SWALL:Q8ZEP2 (EMBL:AJ414151) (73 aa) fasta scores: E(): 1.2e-08, 52.05% id in 73 aa; hypothetical protein complement(3585568..3585858) Bordetella pertussis Tohama I 2666303 NP_881900.1 CDS BP3368 NC_002929.2 3585876 3586205 R Similar to Yersinia pestis hypothetical phage protein Ypo2117 ypo2117 SWALL:Q8ZEP3 (EMBL:AJ414151) (103 aa) fasta scores: E(): 2.7e-07, 36.79% id in 106 aa; hypothetical protein complement(3585876..3586205) Bordetella pertussis Tohama I 2666304 NP_881901.1 CDS BP3369 NC_002929.2 3586215 3586733 R Similar to Ralstonia solanacearum hypothetical protein rsc1689 rsc1689 or rs04083 SWALL:Q8XYR9 (EMBL:AL646065) (217 aa) fasta scores: E(): 4.3e-22, 41.07% id in 168 aa; hypothetical protein complement(3586215..3586733) Bordetella pertussis Tohama I 2666305 NP_881902.1 CDS BP3370 NC_002929.2 3586988 3587488 R Similar to Escherichia coli O157:H7 hypothetical protein ECS3504 TR:BAB36927 (EMBL:AP002562) (188 aa) fasta scores: E(): 2.5e-14, 37.5% id in 144 aa. C-terminal region is similar to bacteriophage T7 gene 3.8 hypothetical protein SW:Y38_BPT7 (P03797) (121 aa) fasta scores: E(): 0.0023, 30.39% id in 102 aa; hypothetical protein complement(3586988..3587488) Bordetella pertussis Tohama I 2666306 NP_881903.1 CDS BP3371 NC_002929.2 3587496 3587918 R Similar to Rhizobium loti hypothetical protein MLR8015 TR:Q984G5 (EMBL:AP003013) (137 aa) fasta scores: E(): 0.0066, 30.43% id in 115 aa; hypothetical protein complement(3587496..3587918) Bordetella pertussis Tohama I 2666307 NP_881904.1 CDS BP3372 NC_002929.2 3587915 3588313 R Weakly similar to Yersinia pestis hypothetical phage protein Ypo2114 ypo2114 SWALL:Q8ZEP6 (EMBL:AJ414151) (194 aa) fasta scores: E(): 1.8e-08, 36.93% id in 111 aa; hypothetical protein complement(3587915..3588313) Bordetella pertussis Tohama I 2666308 NP_881905.1 CDS BP3373 NC_002929.2 3588310 3588705 R Similar to Rhizobium loti hypothetical protein MLR8012 TR:Q984G8 (EMBL:AP003013) (130 aa) fasta scores: E(): 0.25, 29.26% id in 123 aa; hypothetical protein complement(3588310..3588705) Bordetella pertussis Tohama I 2666309 NP_881906.1 CDS BP3374 NC_002929.2 3588705 3588905 R no significant database matches; hypothetical protein complement(3588705..3588905) Bordetella pertussis Tohama I 2666310 NP_881907.1 CDS BP3375 NC_002929.2 3588907 3589437 R hypothetical protein complement(3588907..3589437) Bordetella pertussis Tohama I 2666311 NP_881908.1 CDS BP3376 NC_002929.2 3589452 3589703 R hypothetical protein complement(3589452..3589703) Bordetella pertussis Tohama I 2666312 NP_881909.1 CDS BP3380 NC_002929.2 3591757 3592359 R hypothetical protein complement(3591757..3592359) Bordetella pertussis Tohama I 2666449 NP_881910.1 CDS BP3381 NC_002929.2 3592482 3592724 R hypothetical protein complement(3592482..3592724) Bordetella pertussis Tohama I 2666450 NP_881911.1 CDS BP3382 NC_002929.2 3592730 3593785 R Similar to Yersinia pestis hypothetical phage protein Ypo2108 ypo2108 SWALL:Q8ZEQ2 (EMBL:AJ414151) (370 aa) fasta scores: E(): 4.5e-51, 43.61% id in 360 aa, and to Deinococcus radiodurans head morphogenesis protein, dra0097 SWALL:Q9RZ57 (EMBL:AE001862) (253 aa) fasta scores: E(): 0.73, 23.44% id in 273 aa; hypothetical protein complement(3592730..3593785) Bordetella pertussis Tohama I 2666451 NP_881912.1 CDS BP3383 NC_002929.2 3593814 3595232 R Poor database matches. Similar to the N-terminal region of bacteriophage MB78 protein Gp62 TR:Q9T0Q3 (EMBL:Y19202) (540 aa) fasta scores: E(): 1.8e-30, 30.54% id in 455 aa; hypothetical protein complement(3593814..3595232) Bordetella pertussis Tohama I 2666452 NP_881913.1 CDS BP3384 NC_002929.2 3595235 3596512 R Similar to Bacillus subtilis PBSX phage terminase large subunit XtmB SW:XTMB_BACSU (P39786) (433 aa) fasta scores: E(): 0.39, 21.1% id in 417 aa, and to Yersinia pestis hypothetical protein YPMT1.24c TR:O68741 (EMBL:AF074611) (418 aa) fasta scores: E(): 9.3e-18, 27.23% id in 437 aa; phage terminase complement(3595235..3596512) Bordetella pertussis Tohama I 2666453 NP_881914.1 CDS BP3385 NC_002929.2 3596499 3596948 R Similar to Lactococcus lactis bacteriophage Tuc2009 hypothetical protein TR:Q9AYX3 (EMBL:AF109874) (153 aa) fasta scores: E(): 1.9e-11, 44.11% id in 102 aa, and to Bacillus halodurans hypothetical protein BH3534 TR:Q9K739 (EMBL:AP001519) (159 aa) fasta scores: E(): 7.4e-10, 41.12% id in 107 aa; hypothetical protein complement(3596499..3596948) Bordetella pertussis Tohama I 2666454 NP_881915.1 CDS BP3386 NC_002929.2 3597624 3598574 R transposase for IS481 element; transposase complement(3597624..3598574) Bordetella pertussis Tohama I 2666455 NP_881916.1 CDS BP3388 NC_002929.2 3598828 3599526 D no significant database matches; phage-related membrane protein 3598828..3599526 Bordetella pertussis Tohama I 2666457 NP_881917.1 CDS BP3389 NC_002929.2 3599519 3599839 D no significant database matches; hypothetical protein 3599519..3599839 Bordetella pertussis Tohama I 2666458 NP_881918.1 CDS BP3390 NC_002929.2 3600319 3600930 D No significant database matches to the full length CDS. C-terminus is similar to the C-terminal region of bacteriophage D3 repressor protein cI SW:RPC1_BPD3 (Q37906) (223 aa) fasta scores: E(): 1.9e-05, 28.67% id in 143 aa, and to Neisseria meningitidis regulator nma1884 TR:Q9JTC1 (EMBL:AL162757) (234 aa) fasta scores: E(): 7e-06, 28.72% id in 188 aa; phage repressor protein 3600319..3600930 Bordetella pertussis Tohama I 2666459 NP_881919.1 CDS BP3391 NC_002929.2 3600996 3601208 D Poor database matches. Similar to Neisseria meningitidis hypothetical protein NNMB2100 TR:Q9JXD3 (EMBL:AE002559) (77 aa) fasta scores: E(): 2.4, 35.29% id in 51 aa; hypothetical protein 3600996..3601208 Bordetella pertussis Tohama I 2666460 NP_881920.1 CDS BP3392 NC_002929.2 3601460 3602410 R transposase for IS481 element; transposase complement(3601460..3602410) Bordetella pertussis Tohama I 2666461 NP_881921.1 CDS BP3393 NC_002929.2 3602509 3603309 R Similar to Rhizobium meliloti transmembrane protein smc02882 TR:CAC41594 (EMBL:AL591782) (244 aa) fasta scores: E(): 0.09, 24.64% id in 211 aa; hypothetical protein complement(3602509..3603309) Bordetella pertussis Tohama I 2666462 NP_881922.1 CDS BP3394 NC_002929.2 3603308 3603754 D Similar to Ralstonia solanacearum thioredoxin-like protein Rsc0067 or Rs02246 SWALL:Q8Y3B3 (EMBL:AL646057) (129 aa) fasta scores: E(): 7.1e-20, 51.12% id in 133 aa; hypothetical protein 3603308..3603754 Bordetella pertussis Tohama I 2666463 NP_881923.1 CDS BP3395 NC_002929.2 3603766 3605199 R Similar to Escherichia coli ATP-dependent RNA helicase RhlE or b0797 SW:RHLE_ECOLI (P25888) (454 aa) fasta scores: E(): 9e-72, 50% id in 456 aa; ATP-dependent RNA helicase complement(3603766..3605199) Bordetella pertussis Tohama I 2666464 NP_881924.1 CDS BP3396 NC_002929.2 3605406 3605735 R Similar to Streptomyces avermitilis hypothetical 10.3 kDa protein TR:BAB69324 (EMBL:AB070950) (97 aa) fasta scores: E(): 0.00047, 33.67% id in 98 aa, and to Staphylococcus aureus (strain N315) hypothetical protein Sas001 or Sav0011 TR:BAB56173 (EMBL:AP003129) (109 aa) fasta scores: E(): 0.19, 26.47% id in 102 aa; hypothetical protein complement(3605406..3605735) Bordetella pertussis Tohama I 2666465 NP_881925.1 CDS BP3397 NC_002929.2 3605738 3606487 R Similar to Rhodobacter sphaeroides membrane protein TR:Q9KX17 (EMBL:Y09560) (235 aa) fasta scores: E(): 1.5e-15, 28.94% id in 228 aa; hypothetical protein complement(3605738..3606487) Bordetella pertussis Tohama I 2667067 NP_881926.1 CDS ilvE NC_002929.2 3606670 3607590 D catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids; branched-chain amino acid aminotransferase 3606670..3607590 Bordetella pertussis Tohama I 2667068 NP_881927.1 CDS BP3399 NC_002929.2 3607637 3607849 D Similar to Neisseria meningitidis hypothetical protein NMA0721 TR:Q9JVS1 (EMBL:AL162754) (67 aa) fasta scores: E(): 6.4e-07, 48.27% id in 58 aa; hypothetical protein 3607637..3607849 Bordetella pertussis Tohama I 2667069 NP_881928.1 CDS BP3400 NC_002929.2 3607872 3608294 D hypothetical protein 3607872..3608294 Bordetella pertussis Tohama I 2667070 NP_881929.1 CDS BP3401 NC_002929.2 3608311 3609411 D Similar to Escherichia coli hypothetical protein YheT or b3353 SW:YHET_ECOLI (P45524) (340 aa) fasta scores: E(): 1.1e-31, 36.8% id in 269 aa; hypothetical protein 3608311..3609411 Bordetella pertussis Tohama I 2667071 NP_881930.1 CDS BP3402 NC_002929.2 3609508 3611025 R Similar to Vibrio cholerae hypothetical protein Vc2164 TR:Q9KQ40 (EMBL:AE004288) (484 aa) fasta scores: E(): 8.4e-33, 31.91% id in 495 aa; hypothetical protein complement(3609508..3611025) Bordetella pertussis Tohama I 2667072 NP_881931.1 CDS BP3403 NC_002929.2 3611032 3611940 D Similar to Bacillus subtilis UTP--glucose-1-phosphate uridylyltransferase GtaB SW:GTAB_BACSU (Q05852) (292 aa) fasta scores: E(): 1.3e-50, 54.68% id in 267 aa; UTP-glucose-1-phosphate uridylyltransferase 3611032..3611940 Bordetella pertussis Tohama I 2667073 NP_881932.1 CDS BP3404 NC_002929.2 3611962 3612843 R Weakly similar to Streptomyces coelicolor integral membrane protein 2SCG58.15 TR:Q9FC98 (EMBL:AL391017) (316 aa) fasta scores: E(): 6.4e-07, 24.11% id in 282 aa; hypothetical protein complement(3611962..3612843) Bordetella pertussis Tohama I 2667074 NP_881933.1 CDS ompQ NC_002929.2 3612925 3614019 R Previously described as Bordetella pertussis OmpQ TR:Q45342 (EMBL:U16266) (364 aa) fasta scores: E(): 1.5e-148, 99.72% id in 364 aa. Similar to Bordetella pertussis outer membrane porin protein precursor SW:OMP_BORPE (Q04064) (385 aa) fasta scores: E(): 2.4e-13, 34.25% id in 400 aa, and to Neisseria meningitidis major outer membrane protein Porb or nma0398 SW:OMB_NEIMA (P57042) (329 aa) fasta scores: E(): 7e-05, 24.5% id in 351 aa; outer membrane porin protein OmpQ complement(3612925..3614019) Bordetella pertussis Tohama I 2667075 NP_881934.1 CDS BP3406 NC_002929.2 3614313 3615263 R transposase for IS481 element; transposase complement(3614313..3615263) Bordetella pertussis Tohama I 2667077 NP_881935.1 CDS BP3408 NC_002929.2 3616378 3617328 D transposase for IS481 element; transposase 3616378..3617328 Bordetella pertussis Tohama I 2666179 NP_881936.1 CDS BP3409 NC_002929.2 3617412 3617771 R hypothetical protein complement(3617412..3617771) Bordetella pertussis Tohama I 2666469 NP_881937.1 CDS BP3410 NC_002929.2 3618153 3619190 R Similar to Treponema pallidum conserved hypothetical integral membrane protein tp1034 TR:O83997 (EMBL:AE001271) (341 aa) fasta scores: E(): 0.00026, 26.87% id in 346 aa, and to Escherichia coli hypothetical protein YrbG or b3196 SW:YRBG_ECOLI (P45394) (325 aa) fasta scores: E(): 0.016, 25.64% id in 351 aa; hypothetical protein complement(3618153..3619190) Bordetella pertussis Tohama I 2666470 NP_881938.1 CDS BP3411 NC_002929.2 3619507 3620847 D Similar to Pseudomonas aeruginosa aminopeptidase P PepP or pa5224 TR:Q9HTW6 (EMBL:AE004935) (444 aa) fasta scores: E(): 7.3e-84, 51.14% id in 436 aa, and to Escherichia coli Xaa-Pro aminopeptidase PepP or b2908 SW:AMPP_ECOLI (P15034) (440 aa) fasta scores: E(): 2.2e-66, 44.95% id in 436 aa; Xaa-Pro aminopeptidase 3619507..3620847 Bordetella pertussis Tohama I 2666471 NP_881939.1 CDS BP3412 NC_002929.2 3620857 3621309 R hypothetical protein complement(3620857..3621309) Bordetella pertussis Tohama I 2666836 NP_881940.1 CDS BP3413 NC_002929.2 3621406 3622587 D Similar to Pseudomonas aeruginosa UbiH protein or pa5223 TR:Q9HTW7 (EMBL:AE004935) (394 aa) fasta scores: E(): 1.1e-26, 37.34% id in 399 aa, and to Escherichia coli 2-octaprenyl-6-methoxyphenol hydroxylase UbiH or VisB or b2907 SW:UBIH_ECOLI (P25534) (392 aa) fasta scores: E(): 1.3e-25, 34.17% id in 398 aa; hypothetical protein 3621406..3622587 Bordetella pertussis Tohama I 2666837 NP_881941.1 CDS BP3414 NC_002929.2 3622647 3623678 D Similar to many eg. Escherichia coli hypothetical protein YhdG or b3260 or z4620 or ecs4132 SW:YHDG_ECOLI (P25717) (321 aa) fasta scores: E(): 1.6e-63, 55.76% id in 321 aa; hypothetical protein 3622647..3623678 Bordetella pertussis Tohama I 2666838 NP_881942.1 CDS fis NC_002929.2 3623719 3623958 D Similar to Escherichia coli, DNA-binding protein Fis or b3261 or z4621 or ecs4133 or stm3385 or sty3565 SW:FIS_ECOLI (P11028) (98 aa) fasta scores: E(): 1.9e-07, 40.9% id in 66 aa; DNA-binding protein 3623719..3623958 Bordetella pertussis Tohama I 2666839 NP_881943.1 CDS purH NC_002929.2 3624028 3625617 D involved in de novo purine biosynthesis; bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase 3624028..3625617 Bordetella pertussis Tohama I 2666840 NP_881944.1 CDS ruvC NC_002929.2 3625617 3626165 D endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity; Holliday junction resolvase 3625617..3626165 Bordetella pertussis Tohama I 2666841 NP_881945.1 CDS ruvA NC_002929.2 3626246 3626818 D plays an essential role in ATP-dependent branch migration of the Holliday junction; Holliday junction DNA helicase RuvA 3626246..3626818 Bordetella pertussis Tohama I 2665635 NP_881946.1 CDS BP3419 NC_002929.2 3626837 3627748 R Similar to many proposed oxidoreductases eg. Caulobacter crescentus NADH-ubiquinone oxidoreductase 39 kDa subunit precursor cc3604 TR:Q9A2G1 (EMBL:AE006018) (319 aa) fasta scores: E(): 1.6e-35, 39.8% id in 309 aa; hypothetical protein complement(3626837..3627748) Bordetella pertussis Tohama I 2665636 NP_881947.1 CDS BP3420 NC_002929.2 3627822 3628790 R catalyzes the formation of 2-oxobutanoate from L-threonine or the formation of pyruvate from serine; serine/threonine dehydratase complement(3627822..3628790) Bordetella pertussis Tohama I 2665637 NP_881948.1 CDS ruvB NC_002929.2 3628913 3629986 D promotes strand exchange during homologous recombination; RuvAB complex promotes branch migration; RuvABC complex scans the DNA during branch migration and resolves Holliday junctions at consensus sequences; forms hexameric rings around opposite DNA arms; requires ATP for branch migration and orientation of RuvAB complex determines direction of migration; Holliday junction DNA helicase RuvB 3628913..3629986 Bordetella pertussis Tohama I 2665638 NP_881949.1 CDS BP3422 NC_002929.2 3629991 3631811 R Similar to Escherichia coli ATP-dependent DNA helicase RecQ or b3822 SW:RECQ_ECOLI (P15043) (607 aa) fasta scores: E(): 2.3e-87, 45.07% id in 599 aa; ATP-dependent DNA helicase complement(3629991..3631811) Bordetella pertussis Tohama I 2666767 NP_881950.1 CDS BP3423 NC_002929.2 3631888 3632838 R transposase for IS481 element; transposase complement(3631888..3632838) Bordetella pertussis Tohama I 2666768 NP_881951.1 CDS BP3425 NC_002929.2 3633396 3634046 D Similar to Rhizobium meliloti carbonic anhydrase TR:CAC47897 (EMBL:AL591793) (227 aa) fasta scores: E(): 3.7e-41, 50.47% id in 210 aa, and to Escherichia coli carbonic anhydrase CynT or b0339 or z0435 or ecs0392 SW:CYNT_ECOLI (P17582) (219 aa) fasta scores: E(): 1.1e-17, 31.4% id in 207 aa; carbonic anhydrase 3633396..3634046 Bordetella pertussis Tohama I 2666773 NP_881952.1 CDS BP3426 NC_002929.2 3634068 3635486 R Similar to Mycobacterium smegmatis nicotinamidase/pyrazinamidase PzaA TR:Q9ZHK8 (EMBL:AF058285) (468 aa) fasta scores: E(): 1.4e-42, 37.21% id in 481 aa, and to Pseudomonas putida amidase SW:AMID_PSEPU (O69768) (466 aa) fasta scores: E(): 4.4e-35, 37.75% id in 482 aa; amidase complement(3634068..3635486) Bordetella pertussis Tohama I 2666774 NP_881955.1 CDS BP3429 NC_002929.2 3637049 3637930 D Similar to Streptococcus pneumoniae branched-chain amino acid ABC transporter permease sp0750 TR:Q97RP9 (EMBL:AE007382) (289 aa) fasta scores: E(): 1.4e-27, 33.56% id in 286 aa, and to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport system permease BraD or pa1073 SW:BRAD_PSEAE (P21627) (307 aa) fasta scores: E(): 2.1e-13, 30.06% id in 296 aa; branched-chain amino acid ABC transporter permease 3637049..3637930 Bordetella pertussis Tohama I 2666771 NP_881956.1 CDS BP3430 NC_002929.2 3637947 3638654 D Similar to many predicted transporters eg. Rhizobium meliloti high-affinity branched-chain amino acid transport ATP-binding ABC transporter protein smc02357 TR:CAC47163 (EMBL:AL591791) (244 aa) fasta scores: E(): 4.7e-23, 36.17% id in 235 aa, and to Thermotoga maritima ABC transporter ATP-binding protein Tm1054 TR:Q9X0E4 (EMBL:AE001765) (236 aa) fasta scores: E(): 1e-22, 34.61% id in 234 aa; branched-chain amino acid ABC transporter ATP-binding protein 3637947..3638654 Bordetella pertussis Tohama I 2666594 NP_881957.1 CDS BP3431 NC_002929.2 3638657 3639415 D Similar to Deinococcus radiodurans branched-chain amino acid ABC transporter ATP-binding protein Dra0260 TR:Q9RYP9 (EMBL:AE001863) (238 aa) fasta scores: E(): 6.1e-27, 41.35% id in 237 aa, and to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport ATP-binding protein BraG or pa1070 SW:BRAG_PSEAE (P21630) (233 aa) fasta scores: E(): 4e-22, 38.02% id in 213 aa; branched-chain amino acid ABC transporter ATP-binding protein 3638657..3639415 Bordetella pertussis Tohama I 2666595 NP_881958.1 CDS cysI NC_002929.2 3639625 3641367 D Similar to Pseudomonas aeruginosa sulfite reductase CysI TR:O31037 (EMBL:AF026066) (552 aa) fasta scores: E(): 1.5e-133, 64.31% id in 566 aa; sulfite reductase 3639625..3641367 Bordetella pertussis Tohama I 2666024 NP_881959.1 CDS BP3433 NC_002929.2 3641360 3641884 D Similar to Pseudomonas aeruginosa hypothetical protein PA1837 TR:Q9I2Q8 (EMBL:AE004609) (165 aa) fasta scores: E(): 1.4e-15, 37.34% id in 158 aa, and to Caulobacter crescentus hypothetical protein CC1120 TR:Q9A974 (EMBL:AE005790) (168 aa) fasta scores: E(): 1e-09, 35.57% id in 149 aa; hypothetical protein 3641360..3641884 Bordetella pertussis Tohama I 2666025 NP_881960.1 CDS BP3434 NC_002929.2 3641924 3642718 R Similar to Pasteurella haemolytica outer membrane lipoprotein 3 precursor PlpC SW:PLPC_PASHA (Q08870) (263 aa) fasta scores: E(): 1.2e-34, 41.5% id in 265 aa, and to Rhizobium meliloti outer membrane lipoprotein transmembrane SMC03157 TR:CAC47467 (EMBL:AL591792) (258 aa) fasta scores: E(): 1.5e-39, 45.8% id in 262 aa; hypothetical protein complement(3641924..3642718) Bordetella pertussis Tohama I 2666026 NP_881961.1 CDS BP3435 NC_002929.2 3642865 3643959 D Similar to Arabidopsis thaliana hypothetical protein MZE19.4 TR:Q9LHE6 (EMBL:AP002050) (450 aa) fasta scores: E(): 1.2e-14, 31.69% id in 426 aa; hypothetical protein 3642865..3643959 Bordetella pertussis Tohama I 2666027 NP_881962.1 CDS BP3436 NC_002929.2 3644058 3645008 D transposase for IS481 element; transposase 3644058..3645008 Bordetella pertussis Tohama I 2666032 NP_881963.1 CDS BP3437 NC_002929.2 3645064 3645876 D Similar to Neisseria meningitidis CinA-related protein NMB2128 TR:Q9JXC2 (EMBL:AE002560) (266 aa) fasta scores: E(): 6.9e-42, 51.66% id in 240 aa, and to the N-terminal region of Streptococcus pneumoniae competence-damage protein CinA SW:CINA_STRPN (P54184) (418 aa) fasta scores: E(): 0.1, 24.51% id in 257 aa; hypothetical protein 3645064..3645876 Bordetella pertussis Tohama I 2666033 NP_881964.1 CDS BP3438 NC_002929.2 3646035 3646883 D Similar to Escherichia coli acetate operon repressor IclR SW:ICLR_ECOLI (P16528) (274 aa) fasta scores: E(): 1e-19, 30.76% id in 273 aa, and to Streptomyces coelicolor transcriptional regulator SCAH10.11c TR:Q9RKU6 (EMBL:AL132824) (270 aa) fasta scores: E(): 4.8e-22, 37.4% id in 270 aa; IclR family transcriptional regulator 3646035..3646883 Bordetella pertussis Tohama I 2666034 NP_881965.1 CDS dnt NC_002929.2 3647084 3651478 D Previously sequenced as Bordetella pertussis dermonecrotic toxin Dnt TR:Q45336 (EMBL:U10527) (1451 aa) fasta scores: E(): 0, 100% id in 1451 aa. Almost identical to Bordetella bronchiseptica dermonecrotizing toxin TR:Q9S5D5 (EMBL:AB020025) (1464 aa) fasta scores: E(): 0, 98.97% id in 1464 aa; dermonecrotic toxin 3647084..3651478 Bordetella pertussis Tohama I 2666936 NP_881966.1 CDS BP3440 NC_002929.2 3651572 3652549 R Similar to Rhizobium meliloti hypothetical protein SMB20025 TR:CAC48428 (EMBL:AL603642) (325 aa) fasta scores: E(): 9.8e-62, 54.4% id in 318 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_C_180p TR:AAK85936 (EMBL:AE007953) (337 aa) fasta scores: E(): 1.6e-58, 52.58% id in 310 aa; hypothetical protein complement(3651572..3652549) Bordetella pertussis Tohama I 2666937 NP_881967.1 CDS BP3441 NC_002929.2 3652936 3653514 D Similar to Alcaligenes eutrophus granule-associated protein PhaP TR:Q44013 (EMBL:X85729) (192 aa) fasta scores: E(): 5.6e-23, 44.79% id in 192 aa. Weakly similar to an internal region of Escherichia coli membrane protein involved in colicin uptake TolA SW:TOLA_ECOLI (P19934) (421 aa) fasta scores: E(): 1.4, 27.02% id in 185 aa; hypothetical protein 3652936..3653514 Bordetella pertussis Tohama I 2666938 NP_881968.1 CDS pyrD NC_002929.2 3653662 3654711 R catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; uses a flavin nucleotide as an essential cofactor; class 2 enzymes are monomeric and compared to the class 1 class 2 possess an extended N terminus, which plays a role in the membrane association of the enzyme and provides the binding site for the respiratory quinones that serve as physiological electron acceptors; dihydroorotate dehydrogenase 2 complement(3653662..3654711) Bordetella pertussis Tohama I 2666939 NP_881969.1 CDS BP3443 NC_002929.2 3654752 3655486 R Conjugates Arg from its aminoacyl-tRNA to the N-termini of proteins containing an N-terminal aspartate or glutamate; arginyl-tRNA-protein transferase complement(3654752..3655486) Bordetella pertussis Tohama I 2666940 NP_881970.1 CDS BP3445 NC_002929.2 3656281 3656862 R Similar to the C-terminal region of Escherichia coli NADH pyrophosphatase NudC SW:NUDC_ECOLI (P32664) (257 aa) fasta scores: E(): 0.0015, 26.81% id in 179 aa, and to the full length Pseudomonas aeruginosa hypothetical protein PA3755 TR:Q9HXP0 (EMBL:AE004794) (184 aa) fasta scores: E(): 1.1e-37, 55.49% id in 173 aa; NUDIX hydrolase complement(3656281..3656862) Bordetella pertussis Tohama I 2666942 NP_881971.1 CDS BP3446 NC_002929.2 3656859 3657770 R Similar to Vibrio cholerae LysR family transcriptional regulator VCA0982 TR:Q9KKW8 (EMBL:AE004424) (299 aa) fasta scores: E(): 2.6e-40, 42.25% id in 284 aa, and to Rhizobium loti transcriptional regulator MLL2784 TR:Q98HN8 (EMBL:AP003000) (307 aa) fasta scores: E(): 3e-41, 41.41% id in 297 aa; LysR family transcriptional regulator complement(3656859..3657770) Bordetella pertussis Tohama I 2666943 NP_881972.1 CDS BP3447 NC_002929.2 3657886 3658287 D Similar to Bacillus halodurans hypothetical protein YfiD TR:Q9RC47 (EMBL:AB024562) (129 aa) fasta scores: E(): 6.6e-06, 36.44% id in 118 aa, and to Bacillus subtilis hypothetical protein YdfP TR:P96694 (EMBL:AB001488) (129 aa) fasta scores: E(): 4.2e-07, 35.48% id in 124 aa; hypothetical protein 3657886..3658287 Bordetella pertussis Tohama I 2666944 NP_881973.1 CDS BP3448 NC_002929.2 3658305 3658907 R Similar to Ralstonia solanacearum hypothetical protein Rsc0562 or Rs04903 SWALL:Q8Y1X5 (EMBL:AL646060) (195 aa) fasta scores: E(): 2.6e-19, 37.68% id in 207 aa; hypothetical protein complement(3658305..3658907) Bordetella pertussis Tohama I 2666945 NP_881974.1 CDS BP3449 NC_002929.2 3658965 3659348 R Poor database matches. C-terminus is similar to similar to Rhizobium meliloti signal peptide protein SMC00809 TR:Q92RU0 (EMBL:AL591784) (88 aa) fasta scores: E(): 0.0094, 40.26% id in 77 aa. Possible alternative translational start site; hypothetical protein complement(3658965..3659348) Bordetella pertussis Tohama I 2666946 NP_881975.1 CDS BP3451 NC_002929.2 3660047 3660997 R transposase for IS481 element; transposase complement(3660047..3660997) Bordetella pertussis Tohama I 2666948 NP_881976.1 CDS BP3452 NC_002929.2 3661146 3661856 R Similar to Pseudomonas aeruginosa probable transcriptional regulator PA0797 TR:Q9I5E1 (EMBL:AE004515) (240 aa) fasta scores: E(): 5.1e-09, 27.42% id in 237 aa, and to Streptomyces seoulensis transcriptonal regulator PdhR TR:Q9JP85 (EMBL:AF047034) (207 aa) fasta scores: E(): 2.6e-08, 31.73% id in 208 aa; GntR family transcriptional regulator complement(3661146..3661856) Bordetella pertussis Tohama I 2666949 NP_881977.1 CDS BP3453 NC_002929.2 3661928 3663589 R catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; also known as acetolactate synthase large subunit; thiamine pyrophosphate protein complement(3661928..3663589) Bordetella pertussis Tohama I 2666950 NP_881978.1 CDS BP3454 NC_002929.2 3663664 3664629 R Similar to Comamonas testosteroni hypothetical protein OrfJ TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 2.4e-43, 44.41% id in 322 aa, and to Rhizobium meliloti hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 7.9e-44, 40.68% id in 322 aa; lipoprotein complement(3663664..3664629) Bordetella pertussis Tohama I 2666951 NP_881979.1 CDS BP3455 NC_002929.2 3664684 3665592 R Similar to Escherichia coli alpha-ketoglutarate-dependent taurine dioxygenase TauD SW:TAUD_ECOLI (P37610) (282 aa) fasta scores: E(): 5.4e-31, 35.08% id in 285 aa, and to Pseudomonas aeruginosa taurine dioxygenase PA3935 TR:Q9HX81 (EMBL:AE004811) (277 aa) fasta scores: E(): 3.8e-35, 40.98% id in 283 aa; taurine dioxygenase complement(3664684..3665592) Bordetella pertussis Tohama I 2666952 NP_881980.1 CDS maeB NC_002929.2 3665898 3668186 R catalyzes the oxidative decarboxylation of malate to form pyruvate; malic enzyme complement(3665898..3668186) Bordetella pertussis Tohama I 2664806 NP_881981.1 CDS BP3457 NC_002929.2 3668328 3669299 D Similar to Agrobacterium tumefaciens pca operon transcriptional activator PcaQ SW:PCAQ_AGRTU (P52668) (311 aa) fasta scores: E(): 4.6e-15, 28.8% id in 302 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA2206 TR:Q9I1R1 (EMBL:AE004647) (315 aa) fasta scores: E(): 2.4e-23, 30.36% id in 303 aa; LysR family transcriptional regulator 3668328..3669299 Bordetella pertussis Tohama I 2664807 NP_881982.1 CDS BP3458 NC_002929.2 3669551 3670492 D Similar to Bacillus subtilis oligopeptide transport system permease AppB SW:APPB_BACSU (P42062) (317 aa) fasta scores: E(): 6.4e-39, 37.22% id in 317 aa, and to Rhizobium sp probable peptide ABC transporter permease Y4TP SW:Y4TP_RHISN (Q53191) (313 aa) fasta scores: E(): 1.7e-58, 51.43% id in 313 aa; binding-protein-dependent transport system inner membrane protein 3669551..3670492 Bordetella pertussis Tohama I 2664808 NP_881983.1 CDS BP3459 NC_002929.2 3670492 3671325 D Similar to Escherichia coli dipeptide transport system permease DppC SW:DPPC_ECOLI (P37315) (300 aa) fasta scores: E(): 5.6e-34, 38.04% id in 276 aa, and to Rhizobium loti ABC transporter permease MLR6290 TR:Q989T2 (EMBL:AP003008) (280 aa) fasta scores: E(): 6.8e-51, 52.06% id in 267 aa; binding-protein-dependent transport system inner membrane protein 3670492..3671325 Bordetella pertussis Tohama I 2664809 NP_881984.1 CDS BP3460 NC_002929.2 3671329 3673179 D Similar to Escherichia coli hypothetical ABC transporter ATP-binding protein YliA SW:YLIA_ECOLI (P75796) (629 aa) fasta scores: E(): 9.7e-133, 62.29% id in 602 aa. C-terminal region is similar to Bacillus subtilis oligopeptide transport ATP-binding protein AppF SW:APPF_BACSU (P42065) (329 aa) fasta scores: E(): 1.5e-47, 47.07% id in 325 aa; ABC transporter ATP-binding protein 3671329..3673179 Bordetella pertussis Tohama I 2664810 NP_881985.1 CDS BP3462 NC_002929.2 3674859 3676394 D Similar to Rhizobium loti hypothetical protein MLL6676 TR:Q988M5 (EMBL:AP003009) (488 aa) fasta scores: E(): 2.7e-28, 31.18% id in 497 aa, and to Rhizobium meliloti hypothetical protein SMB21161 TR:CAC49227 (EMBL:AL603645) (477 aa) fasta scores: E(): 2.3e-25, 29.05% id in 499 aa; hypothetical protein 3674859..3676394 Bordetella pertussis Tohama I 2664812 NP_881986.1 CDS BP3463 NC_002929.2 3676488 3677429 R Similar to Escherichia coli cyn operon transcriptional activator CynR SW:CYNR_ECOLI (P27111) (311 aa) fasta scores: E(): 7.6e-13, 25.08% id in 295 aa, and to Rhizobium leguminosarum LysR family transcriptional regulator TR:Q52868 (EMBL:U39409) (300 aa) fasta scores: E(): 1.1e-18, 31.54% id in 298 aa; LysR family transcriptional regulator complement(3676488..3677429) Bordetella pertussis Tohama I 2664813 NP_881987.1 CDS BP3464 NC_002929.2 3677540 3678340 D Poor database matches. C-terminus is similar to an internal region of Bordetella bronchiseptica membrane protein BbLPS1.18c TR:O87991 (EMBL:AJ007747) (340 aa) fasta scores: E(): 1.2e-09, 30.3% id in 198 aa; hypothetical protein 3677540..3678340 Bordetella pertussis Tohama I 2664814 NP_881988.1 CDS BP3465 NC_002929.2 3678402 3678908 R Similar to Rhizobium meliloti hypothetical protein SMC01149 TR:CAC41808 (EMBL:AL591783) (160 aa) fasta scores: E(): 3.7e-20, 40.76% id in 157 aa, and to Caulobacter crescentus hypothetical protein CC3077 TR:Q9A3X4 (EMBL:AE005971) (158 aa) fasta scores: E(): 3.4e-18, 37.5% id in 152 aa; hypothetical protein complement(3678402..3678908) Bordetella pertussis Tohama I 2664815 NP_881989.1 CDS BP3466 NC_002929.2 3678905 3679243 R Similar to Rhizobium loti transcriptional regulator MLL3772 TR:Q98FH5 (EMBL:AP003002) (111 aa) fasta scores: E(): 1.5e-16, 47.27% id in 110 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_C_3675p TR:AAK87782 (EMBL:AE008119) (124 aa) fasta scores: E(): 8.9e-17, 46.42% id in 112 aa. Also similar to BP2145, 43.137% identity (43.137% ungapped) in 102 aa overlap.; ArsR family transcriptional regulator complement(3678905..3679243) Bordetella pertussis Tohama I 2664816 NP_881990.1 CDS BP3467 NC_002929.2 3679672 3682191 D Similar to Escherichia coli suppressor of OmpF assembly mutants, outer membrane protein AsmA SW:ASMA_ECOLI (P28249) (617 aa) fasta scores: E(): 0.0063, 23.79% id in 395 aa, and to Vibrio cholerae AsmA protein VC1039 TR:Q9KT66 (EMBL:AE004185) (703 aa) fasta scores: E(): 5.5e-20, 25.44% id in 837 aa; hypothetical protein 3679672..3682191 Bordetella pertussis Tohama I 2664817 NP_881991.1 CDS BP3468 NC_002929.2 3682188 3682574 D Poor database matches. Similar to the N-terminal regions of Streptomyces coelicolor hypothetical protein SCG20A.02 TR:Q9K3N8 (EMBL:AL360055) (275 aa) fasta scores: E(): 0.025, 29.6% id in 125 aa, and Pseudomonas aeruginosa hypothetical protein PA3022 TR:Q9HZI4 (EMBL:AE004727) (268 aa) fasta scores: E(): 0.015, 31.06% id in 103 aa; hypothetical protein 3682188..3682574 Bordetella pertussis Tohama I 2664818 NP_881992.1 CDS BP3469 NC_002929.2 3682582 3683715 R Similar to Acinetobacter calcoaceticus benzoate membrane transport protein BenE SW:BENE_ACICA (P07775) (394 aa) fasta scores: E(): 1.1e-45, 40.21% id in 373 aa, and to Rhizobium loti hypothetical protein MLR5064 TR:Q98CP3 (EMBL:AP003005) (382 aa) fasta scores: E(): 3.5e-45, 39.72% id in 370 aa; transporter complement(3682582..3683715) Bordetella pertussis Tohama I 2664819 NP_881993.1 CDS fdx NC_002929.2 3683779 3684030 R Similar to Chromatium vinosum ferredoxin Fdx SW:FER_CHRVI (P00208) (82 aa) fasta scores: E(): 1.2e-17, 61.25% id in 80 aa, and to Pseudomonas aeruginosa ferredoxin PA0362 TR:Q9I6D2 (EMBL:AE004474) (83 aa) fasta scores: E(): 2.7e-21, 66.26% id in 83 aa; ferredoxin complement(3683779..3684030) Bordetella pertussis Tohama I 2664820 NP_881994.1 CDS coaD NC_002929.2 3684085 3684594 R Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA; phosphopantetheine adenylyltransferase complement(3684085..3684594) Bordetella pertussis Tohama I 2664821 NP_881995.1 CDS BP3472 NC_002929.2 3684615 3685235 R Similar to Escherichia coli methylase YhhF SW:YHHF_ECOLI (P10120) (198 aa) fasta scores: E(): 4.3e-24, 44.94% id in 198 aa, and to Salmonella enterica subspenterica serovar Typhi conserved hypothetical protein STY4239 TR:CAD08058 (EMBL:AL627281) (198 aa) fasta scores: E(): 1.2e-23, 45.02% id in 191 aa; hypothetical protein complement(3684615..3685235) Bordetella pertussis Tohama I 2664822 NP_881996.1 CDS ftsY NC_002929.2 3685305 3686414 D Similar to the C-terminal regions of Escherichia coli cell division protein FtsY SW:FTSY_ECOLI (P10121) (497 aa) fasta scores: E(): 5.5e-34, 46.57% id in 350 aa, and Neisseria meningitidis cell division protein FtsY homologue NMA0291 SW:FTSY_NEIMA (P57010) (421 aa) fasta scores: E(): 4.1e-41, 54.15% id in 349 aa. Possibly truncated at the N-terminus; cell division protein 3685305..3686414 Bordetella pertussis Tohama I 2664823 NP_881997.1 CDS BP3476 NC_002929.2 3688242 3689063 R Similar to Escherichia coli phosphonates transport system permease PhnE b4013/b4104 SW:PHNE_ECOLI (P16683) (276 aa) fasta scores: E(): 2.1e-22, 33.33% id in 246 aa, and to Bacillus halodurans alkylphosphonate ABC tranporter PH2976 TR:Q9K8M9 (EMBL:AP001517) (266 aa) fasta scores: E(): 1.9e-27, 37.03% id in 270 aa; binding-protein-dependent transport system permease complement(3688242..3689063) Bordetella pertussis Tohama I 2664825 NP_881998.1 CDS BP3477 NC_002929.2 3689060 3689959 R Similar to Escherichia coli phosphonates transport system permease PhnE SW:PHNE_ECOLI (P16683) (276 aa) fasta scores: E(): 4.8e-31, 39.54% id in 263 aa, and to Pseudomonas stutzeri inner membrane component of binding-protein-dependent phosphite transporter protein PtxC TR:O69053 (EMBL:AF061070) (275 aa) fasta scores: E(): 2.4e-26, 36.96% id in 257 aa; binding-protein-dependent transport system inner membrane protein complement(3689060..3689959) Bordetella pertussis Tohama I 2664826 NP_881999.1 CDS BP3478 NC_002929.2 3690426 3691376 R transposase for IS481 element; transposase complement(3690426..3691376) Bordetella pertussis Tohama I 2664828 NP_882000.1 CDS BP3481 NC_002929.2 3691769 3692776 R Weakly similar to Escherichia coli phosphonates-binding periplasmic protein precursor PhnD SW:PHND_ECOLI (P16682) (338 aa) fasta scores: E(): 6.7e-09, 23.91% id in 276 aa, and to Pseudomonas stutzeri binding protein component of binding-protein-dependent phosphite transporter PtxB TR:O69052 (EMBL:AF061070) (287 aa) fasta scores: E(): 6.9e-14, 28.13% id in 263 aa; phosphonate ABC transporter substrate-binding protein complement(3691769..3692776) Bordetella pertussis Tohama I 2664829 NP_882001.1 CDS BP3482 NC_002929.2 3692925 3693752 R Similar to Streptomyces coelicolor glycerol operon regulatory protein GylR SW:GYLR_STRCO (P15360) (254 aa) fasta scores: E(): 3.9e-09, 26.74% id in 258 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA2010 TR:Q9I2A1 (EMBL:AE004627) (267 aa) fasta scores: E(): 7.1e-22, 34.45% id in 267 aa; transcriptional regulator complement(3692925..3693752) Bordetella pertussis Tohama I 2664830 NP_882002.1 CDS BP3483 NC_002929.2 3693758 3694555 R Poor database matches. Weakly similar to Mycobacterium leprae hypothetical protein ML0089 TR:Q9CDB9 (EMBL:AL583917) (281 aa) fasta scores: E(): 2.2, 25.44% id in 279 aa, and to Streptomyces coelicolor conserved hypothetical protein SCD16A.02c TR:Q9XAS3 (EMBL:AL078618) (269 aa) fasta scores: E(): 6.9, 26.54% id in 275 aa; haloacid dehalogenase complement(3693758..3694555) Bordetella pertussis Tohama I 2664831 NP_882003.1 CDS ribB NC_002929.2 3694701 3695876 D bifunctional enzyme DHBP synthase/GTP cyclohydrolase II-like protein; functions in riboflavin synthesis; bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein 3694701..3695876 Bordetella pertussis Tohama I 2664832 NP_882004.1 CDS ribH NC_002929.2 3695890 3696411 D 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; 6,7-dimethyl-8-ribityllumazine synthase 3695890..3696411 Bordetella pertussis Tohama I 2664833 NP_882005.1 CDS nusB NC_002929.2 3696419 3696883 D Regulates rRNA biosynthesis by transcriptional antitermination; transcription antitermination protein NusB 3696419..3696883 Bordetella pertussis Tohama I 2664834 NP_882006.1 CDS thiL NC_002929.2 3696923 3697939 D catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP; thiamine monophosphate kinase 3696923..3697939 Bordetella pertussis Tohama I 2664835 NP_882007.1 CDS BP3488 NC_002929.2 3697972 3698478 D Similar to Escherichia coli phosphatidylglycerophosphatase A PgpA SW:PGPA_ECOLI (P18200) (172 aa) fasta scores: E(): 1e-15, 39.31% id in 145 aa, and to Pseudomonas aeruginosa phosphatidylglycerophosphatase A PA4050 TR:Q9HWX8 (EMBL:AE004821) (171 aa) fasta scores: E(): 1.2e-21, 39.28% id in 168 aa; phosphatidylglycerophosphatase 3697972..3698478 Bordetella pertussis Tohama I 2664836 NP_882008.1 CDS BP3489 NC_002929.2 3698475 3699041 D Similar to Enterobacter agglomerans hypothetical protein SW:YGAD_ENTAG (P51967) (164 aa) fasta scores: E(): 7.4e-22, 50.6% id in 166 aa, and to the C-terminal region of Streptococcus pneumoniae competence-damage protein CinA SW:CINA_STRPN (P54184) (418 aa) fasta scores: E(): 5.1e-08, 37.33% id in 150 aa. CDS contains extra residues at the N-terminus in comparison to orthologues; hypothetical protein 3698475..3699041 Bordetella pertussis Tohama I 2664837 NP_882009.1 CDS pyrF NC_002929.2 3699179 3700000 R OMP decarboxylase; OMPDCase; OMPdecase; type 2 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase; orotidine 5'-phosphate decarboxylase complement(3699179..3700000) Bordetella pertussis Tohama I 2664928 NP_882010.1 CDS ndh NC_002929.2 3700008 3701327 R Similar to Escherichia coli NADH dehydrogenase Ndh SW:DHNA_ECOLI (P00393) (433 aa) fasta scores: E(): 1.6e-60, 43.18% id in 433 aa, and to Pseudomonas fluorescens NADH dehydrogenase II Ndh TR:Q9KGX0 (EMBL:AF281147) (432 aa) fasta scores: E(): 3.5e-68, 46.89% id in 435 aa; NADH dehydrogenase complement(3700008..3701327) Bordetella pertussis Tohama I 2664929 NP_882011.1 CDS dgkA NC_002929.2 3701378 3701776 R Similar to Escherichia coli diacylglycerol kinase DgkA SW:KDGL_ECOLI (P00556) (121 aa) fasta scores: E(): 8.8e-15, 46.61% id in 118 aa, and to Pseudomonas aeruginosa diacylglycerol kinase PA3603 TR:Q9HY23 (EMBL:AE004780) (123 aa) fasta scores: E(): 6.6e-19, 50% id in 120 aa; diacylglycerol kinase complement(3701378..3701776) Bordetella pertussis Tohama I 2664930 NP_882012.1 CDS brkB NC_002929.2 3701865 3702755 R Similar to Bordetella pertussis serum resistance protein BrkB TR:Q45339 (EMBL:U12276) (296 aa) fasta scores: E(): 3.8e-111, 100% id in 296 aa. Similar to the N-terminal region of Rhizobium loti hypothetical protein MLL2378 TR:Q98IJ2 (EMBL:AP002999) (339 aa) fasta scores: E(): 3.1e-35, 39.28% id in 280 aa; serum resistance protein complement(3701865..3702755) Bordetella pertussis Tohama I 2664891 NP_882013.1 CDS brkA NC_002929.2 3703057 3706089 D Previously sequenced as Bordetella pertussis serum resistance protein BrkA TR:Q45340 (EMBL:U12276) (1010 aa) fasta scores: E(): 0, 100% id in 1010 aa. Similar to Bordetella pertussis pertactin precursor Prn SW:PERT_BORPE (P14283) (910 aa) fasta scores: E(): 4.2e-52, 38.36% id in 915 aa; serum resistance protein 3703057..3706089 Bordetella pertussis Tohama I 2664892 NP_882014.1 CDS groEL NC_002929.2 3706193 3707836 R 60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is essential for growth; molecular chaperone GroEL complement(3706193..3707836) Bordetella pertussis Tohama I 2664893 NP_882015.1 CDS groES NC_002929.2 3707869 3708156 R 10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring; co-chaperonin GroES complement(3707869..3708156) Bordetella pertussis Tohama I 2664894 NP_882016.1 CDS BP3497 NC_002929.2 3708490 3709119 R No significant database matches to the full length CDS. N-terminus is similar to the N-terminal region of Agrobacterium tumefaciens AGR_L_563p TR:AAK88851 (EMBL:AE008228) (228 aa) fasta scores: E(): 8.2e-07, 36.58% id in 82 aa. Also similar to BP3499, 40.385% identity (41.584% ungapped) in 208 aa overlap.; hypothetical protein complement(3708490..3709119) Bordetella pertussis Tohama I 2664895 NP_882017.1 CDS BP3498 NC_002929.2 3709116 3709817 R Similar to Bordetella bronchiseptica arylmalonate decarboxylase SW:AMDA_BORBR (Q05115) (240 aa) fasta scores: E(): 3.9e-06, 27.31% id in 216 aa, and to Pyrococcus horikoshii hypothetical arylmalonate decarboxylase PH1150 TR:O58884 (EMBL:AP000005) (236 aa) fasta scores: E(): 5.2e-15, 30% id in 210 aa. Possible alternative translational start site; hypothetical protein complement(3709116..3709817) Bordetella pertussis Tohama I 2664896 NP_882018.1 CDS BP3499 NC_002929.2 3709866 3710501 R No significant database matches to the full length CDS. N-terminus is similar to the N-terminal region of Agrobacterium tumefaciens AGR_L_563p TR:AAK88851 (EMBL:AE008228) (228 aa) fasta scores: E(): 9.4e-05, 38.15% id in 76 aa. Also similar to BP3497, 40.385% identity (41.584% ungapped) in 208 aa overlap.; hypothetical protein complement(3709866..3710501) Bordetella pertussis Tohama I 2664897 NP_882019.1 CDS BP3500 NC_002929.2 3710545 3712254 R proposed role in polysaccahride synthesis; FAD-binding dehydrogenase complement(3710545..3712254) Bordetella pertussis Tohama I 2664898 NP_882020.1 CDS BP3501 NC_002929.2 3712316 3713266 R Similar to Rhizobium meliloti hypothetical protein SMA1927 TR:Q92Y30 (EMBL:AE007292) (330 aa) fasta scores: E(): 5e-38, 39.22% id in 311 aa, and to Comamonas testosteroni hypothetical protein OrfJ TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 1.3e-35, 36.67% id in 319 aa; hypothetical protein complement(3712316..3713266) Bordetella pertussis Tohama I 2664899 NP_882021.1 CDS BP3503 NC_002929.2 3713872 3714885 R Similar to Caulobacter crescentus isoleucine biosynthesis transcriptional activator IlvR SW:ILVR_CAUCR (P52670) (296 aa) fasta scores: E(): 1.8e-12, 27.45% id in 244 aa, and to Neisseria meningitidis LysR-family transcriptional regulator NMA1437 TR:Q9JRJ3 (EMBL:AL162755) (304 aa) fasta scores: E(): 4.1e-16, 27.81% id in 284 aa; LysR family transcriptional regulator complement(3713872..3714885) Bordetella pertussis Tohama I 2664900 NP_882022.1 CDS BP3504 NC_002929.2 3714933 3716678 D proposed role in polysaccahride synthesis; FAD-binding dehydrogenase 3714933..3716678 Bordetella pertussis Tohama I 2664901 NP_882023.1 CDS BP3505 NC_002929.2 3716909 3717859 D transposase for IS481 element; transposase 3716909..3717859 Bordetella pertussis Tohama I 2664902 NP_882024.1 CDS BP3506 NC_002929.2 3717941 3718588 D Similar to Escherichia coli pyrazinamidase/nicotinamidase [includes: pyrazinamidase; nicotinamidase] PncA SW:PNCA_ECOLI (P21369) (213 aa) fasta scores: E(): 2.1e-07, 31.81% id in 198 aa, and to Pseudomonas aeruginosa hypothetical protein PA4918 TR:Q9HUP5 (EMBL:AE004905) (219 aa) fasta scores: E(): 3.9e-49, 67.35% id in 193 aa; hypothetical protein 3717941..3718588 Bordetella pertussis Tohama I 2664903 NP_882025.1 CDS BP3507 NC_002929.2 3718603 3720030 R Limited database matches to the full length CDS. Similar to Escherichia coli hypothetical protein YhcK TR:P77793 (EMBL:AE000246) (460 aa) fasta scores: E(): 1.2e-52, 34.74% id in 449 aa. N-terminus is similar to the N-terminal region of Rhizobium loti response regulator protein mll0859 TR:Q98LV6 (EMBL:AP002995) (408 aa) fasta scores: E(): 5.9e-20, 48.48% id in 165 aa; hypothetical protein complement(3718603..3720030) Bordetella pertussis Tohama I 2664904 NP_882026.1 CDS BP3508 NC_002929.2 3720196 3720801 R Similar to Bacillus halodurans hypothetical protein BH3794 TR:Q9K6D5 (EMBL:AP001520) (231 aa) fasta scores: E(): 2.9e-13, 31.76% id in 170 aa, and to the C-terminal region of Thermotoga maritima conserved hypothetical protein TM1699 TR:Q9X225 (EMBL:AE001810) (558 aa) fasta scores: E(): 3.3e-23, 42.1% id in 171 aa. Possible gene remnant resulting from the insertion of the upstream IS element and subsequent recombination events; hypothetical protein complement(3720196..3720801) Bordetella pertussis Tohama I 2664905 NP_882027.1 CDS BP3510 NC_002929.2 3721089 3722039 D transposase for IS481 element; transposase 3721089..3722039 Bordetella pertussis Tohama I 2664907 NP_882028.1 CDS BP3511 NC_002929.2 3722231 3722497 R No significan database matches; hypothetical protein complement(3722231..3722497) Bordetella pertussis Tohama I 2664908 NP_882029.1 CDS BP3512 NC_002929.2 3722863 3723063 D hypothetical protein 3722863..3723063 Bordetella pertussis Tohama I 2664909 NP_882030.1 CDS BP3513 NC_002929.2 3723080 3723337 D hypothetical protein 3723080..3723337 Bordetella pertussis Tohama I 2664910 NP_882031.1 CDS BP3515 NC_002929.2 3724951 3725925 R Similar to Mycobacterium tuberculosis hypothetical protein MTV025.049c TR:O69669 (EMBL:AL022121) (321 aa) fasta scores: E(): 1.1e-25, 35.14% id in 313 aa. N-terminal region is similar to Streptomyces coelicolor hypothetical protein SCM1.46 TR:Q9RCZ8 (EMBL:AL133422) (251 aa) fasta scores: E(): 7.8e-26, 43.85% id in 244 aa; hypothetical protein complement(3724951..3725925) Bordetella pertussis Tohama I 2664912 NP_882032.1 CDS BP3517 NC_002929.2 3726257 3726856 D Similar to Rhizobium loti hypothetical protein MLL2445 TR:Q98ID9 (EMBL:AP002999) (200 aa) fasta scores: E(): 1.6, 24.61% id in 195 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_pAT_413p TR:AAK90663 (EMBL:AE007898) (199 aa) fasta scores: E(): 2, 26.37% id in 182 aa; hypothetical protein 3726257..3726856 Bordetella pertussis Tohama I 2664913 NP_882033.1 CDS BP3518 NC_002929.2 3726844 3728274 D C-terminus is similar to the C-terminal region of Bacillus firmus cardiolipin synthetase Cls SW:CLS_BACFI (O66043) (503 aa) fasta scores: E(): 7.5e-18, 33.41% id in 389 aa, and to Bacillus subtilis probable cardiolipin synthetase 1 YwiE SW:CLS1_BACSU (P45860) (500 aa) fasta scores: E(): 9.5e-19, 32.11% id in 383 aa; phospholipase D 3726844..3728274 Bordetella pertussis Tohama I 2664914 NP_882034.1 CDS BP3519 NC_002929.2 3728284 3729234 R transposase for IS481 element; transposase complement(3728284..3729234) Bordetella pertussis Tohama I 2664915 NP_882035.1 CDS BP3520 NC_002929.2 3729333 3730283 R transposase for IS481 element; transposase complement(3729333..3730283) Bordetella pertussis Tohama I 2664916 NP_882036.1 CDS BP3521 NC_002929.2 3730382 3732043 R Similar to Pseudomonas aeruginosa hypothetical protein PA3602 TR:Q9HY24 (EMBL:AE004780) (536 aa) fasta scores: E(): 1.1e-144, 65.1% id in 533 aa. Internal region of the CDS is similar to an internal region of Porphyra purpurea ferredoxin-dependent glutamate synthase GltB SW:GLSF_PORPU (P51375) (1538 aa) fasta scores: E(): 6.9e-22, 32.84% id in 341 aa; hypothetical protein complement(3730382..3732043) Bordetella pertussis Tohama I 2664917 NP_882037.1 CDS BP3522 NC_002929.2 3732119 3733426 R Similar to Pseudomonas aeruginosa hypothetical protein PA5430 TR:Q9HTD6 (EMBL:AE004955) (404 aa) fasta scores: E(): 1.7e-89, 63.59% id in 401 aa, and to Rhizobium meliloti hypothetical protein SMB21550 TR:CAC49391 (EMBL:AL603645) (413 aa) fasta scores: E(): 1.9e-74, 52.81% id in 409 aa. Possible alternative translational start site; hypothetical protein complement(3732119..3733426) Bordetella pertussis Tohama I 2664918 NP_882038.1 CDS BP3523 NC_002929.2 3733487 3734434 R Similar to Agrobacterium tumefaciens hypothetical protein AGR_C_3303p TR:AAK87565 (EMBL:AE008100) (312 aa) fasta scores: E(): 1.2e-22, 32.81% id in 320 aa, and to Rhizobium meliloti malonate transporter SMC00317 SW:MDCF_RHIME (P56949) (320 aa) fasta scores: E(): 7.4e-22, 31.94% id in 313 aa; hypothetical protein complement(3733487..3734434) Bordetella pertussis Tohama I 2664919 NP_882039.1 CDS BP3524 NC_002929.2 3734559 3735002 D Similar to Bacillus halodurans hypothetical protein BH1438 TR:Q9KCY1 (EMBL:AP001512) (144 aa) fasta scores: E(): 4.1e-15, 38.73% id in 142 aa, and to Pseudomonas aeruginosa probable acetyl transferase PA2631 TR:Q9I0K7 (EMBL:AE004691) (141 aa) fasta scores: E(): 9.9e-15, 40.87% id in 137 aa. Possible alternative translational start site; acetyltransferase 3734559..3735002 Bordetella pertussis Tohama I 2664920 NP_882040.1 CDS BP3525 NC_002929.2 3735342 3735953 D Similar to Pseudomonas aeruginosa hypothetical protein PA1424 TR:Q9I3S0 (EMBL:AE004572) (203 aa) fasta scores: E(): 2.8e-39, 58.91% id in 202 aa, and to Vibrio cholerae hypothetical protein VC1980 TR:Q9KQL8 (EMBL:AE004273) (200 aa) fasta scores: E(): 1.3e-15, 34.67% id in 199 aa; hypothetical protein 3735342..3735953 Bordetella pertussis Tohama I 2666314 NP_882041.1 CDS rnr NC_002929.2 3736455 3738935 D Similar to Shigella flexneri ribonuclease R VacB SW:RNR_SHIFL (P30851) (770 aa) fasta scores: E(): 6.2e-76, 46.18% id in 773 aa, and to Vibrio cholerae ribonuclease R VC2599 TR:Q9KNY1 (EMBL:AE004327) (821 aa) fasta scores: E(): 8.7e-92, 46.41% id in 836 aa; ribonuclease R 3736455..3738935 Bordetella pertussis Tohama I 2666315 NP_882042.1 CDS BP3527 NC_002929.2 3739060 3739797 D Similar to Neisseria meningitidis TrmH family RNA methyltransferase NMB0931 TR:Q9JZR3 (EMBL:AE002444) (250 aa) fasta scores: E(): 3.4e-50, 56.96% id in 244 aa, and to Burkholderia sp. hypothetical protein YjfH TR:Q9RED7 (EMBL:AJ242786) (247 aa) fasta scores: E(): 2.6e-47, 55.14% id in 243 aa; tRNA/rRNA methyltransferase 3739060..3739797 Bordetella pertussis Tohama I 2666316 NP_882043.1 CDS BP3528 NC_002929.2 3739851 3741095 D Similar to Corynebacterium glutamicum cystathionine gamma-synthase MetB TR:Q9RQ97 (EMBL:AF126953) (386 aa) fasta scores: E(): 1.2e-21, 32.43% id in 407 aa, and to Clostridium acetobutylicum O-acetylhomoserine sulfhydrylase CAC0102 TR:Q97MT9 (EMBL:AE007523) (409 aa) fasta scores: E(): 8.4e-46, 32.18% id in 407 aa; hypothetical protein 3739851..3741095 Bordetella pertussis Tohama I 2666317 NP_882044.1 CDS BP3529 NC_002929.2 3741136 3741816 D Previously sequenced as Bordetella bronchiseptica hypothetical protein TR:Q9S3N8 (EMBL:AJ132742) (226 aa) fasta scores: E(): 2e-91, 100% id in 226 aa. Similar to Pseudomonas aeruginosa hypothetical protein PA4515 TR:Q9HVQ7 (EMBL:AE004865) (226 aa) fasta scores: E(): 3.4e-61, 66.37% id in 226 aa; hydroxylase 3741136..3741816 Bordetella pertussis Tohama I 2666318 NP_882045.1 CDS hupB NC_002929.2 3742137 3742409 D Similar to Escherichia coli DNA-binding protein Hu-beta HupB SW:DBHB_ECOLI (P02341) (90 aa) fasta scores: E(): 2.9e-20, 71.11% id in 90 aa. Previously sequenced as Bordetella pertussis DNA-binding protein Hu-beta HupB TR:Q9R336 (EMBL:AJ132741) (90 aa) fasta scores: E(): 1.1e-30, 100% id in 90 aa; DNA-binding protein HU-beta 3742137..3742409 Bordetella pertussis Tohama I 2666319 NP_882046.1 CDS tonB NC_002929.2 3742906 3743706 D Previously sequenced as Bordetella pertussis siderophore-mediated iron transport protein TonB TR:Q9S3M6 (EMBL:AJ132741) (266 aa) fasta scores: E(): 2.2e-64, 100% id in 266 aa. Similar to Pseudomonas aeruginosa siderophore-mediated iron transport protein TonB SW:TONB_PSEAE (Q51368) (342 aa) fasta scores: E(): 8.2e-11, 34.9% id in 255 aa. Contains a proline rich region, residues 74 to 150; siderophore-mediated iron transport protein 3742906..3743706 Bordetella pertussis Tohama I 2664931 NP_882047.1 CDS exbB NC_002929.2 3743708 3744685 D C-terminal region is similar to Escherichia coli inner membrane protein that maintains integrity of cell envelope and tolerance to group A colicins TolQ SW:TOLQ_ECOLI (P05828) (230 aa) fasta scores: E(): 2.1e-13, 31.87% id in 229 aa. Previously sequenced as Bordetella pertussis biopolymer transport protein ExbB TR:Q9S3M5 (EMBL:AJ132741) (325 aa) fasta scores: E(): 1.2e-103, 100% id in 325 aa; MotA/TolQ/ExbB proton channel family protein 3743708..3744685 Bordetella pertussis Tohama I 2664932 NP_882048.1 CDS exbD NC_002929.2 3744685 3745152 D Similar to Escherichia coli biopolymer transport protein ExbD SW:EXBD_ECOLI (P18784) (141 aa) fasta scores: E(): 2.1e-09, 31.53% id in 130 aa. Previously sequenced as Bordetella pertussis biopolymer transport protein ExbD TR:Q9S3M4 (EMBL:AJ132741) (155 aa) fasta scores: E(): 4.4e-53, 100% id in 155 aa; biopolymer transport protein ExbD/TolR 3744685..3745152 Bordetella pertussis Tohama I 2664921 NP_882049.1 CDS basR NC_002929.2 3745235 3745906 D Two-component regulatory system family, response regulator protein. Similar to Salmonella typhimurium transcriptional regulatory protein TctD SW:TCTD_SALTY (P22104) (224 aa) fasta scores: E(): 1.3e-29, 43.37% id in 219 aa. Previously sequenced as Bordetella pertussis transcriptional regulatory protein BasR TR:Q9S3M3 (EMBL:AJ132741) (223 aa) fasta scores: E(): 3.4e-81, 100% id in 223 aa. Similar to BP2547, 53.881% identity (53.881% ungapped) in 219 aa overlap; response regulator protein 3745235..3745906 Bordetella pertussis Tohama I 2664922 NP_882050.1 CDS BP3535 NC_002929.2 3745965 3747083 D Two-component regulatory system family, sensor kinase. No significant database matches to the full length CDS. C-terminus is similar to the C-terminal regions of Escherichia coli sensor protein BasS SW:BASS_ECOLI (P30844) (363 aa) fasta scores: E(): 5.4e-19, 32.29% id in 288 aa, and Rhizobium loti two-component system, sensor protein MLL7952 TR:Q984L4 (EMBL:AP003013) (452 aa) fasta scores: E(): 3.9e-28, 38.83% id in 291 aa; sensor kinase 3745965..3747083 Bordetella pertussis Tohama I 2664923 NP_882051.1 CDS kup NC_002929.2 3747080 3748990 D Similar to Escherichia coli minor potassium uptake system protein Kup SW:KUP_ECOLI (P30016) (622 aa) fasta scores: E(): 3.8e-114, 50.48% id in 616 aa, and to Pseudomonas aeruginosa potassium uptake protein PA0917 TR:Q9I540 (EMBL:AE004526) (634 aa) fasta scores: E(): 2.2e-122, 53.54% id in 635 aa; potassium uptake protein 3747080..3748990 Bordetella pertussis Tohama I 2664933 NP_882052.1 CDS argG NC_002929.2 3749075 3750412 R catalyzes the formation of arginosuccinate from citrulline and aspartate in arginine biosynthesis; argininosuccinate synthase complement(3749075..3750412) Bordetella pertussis Tohama I 2664934 NP_882053.1 CDS argF NC_002929.2 3750563 3751504 R catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation; ornithine carbamoyltransferase complement(3750563..3751504) Bordetella pertussis Tohama I 2665146 NP_882054.1 CDS argD NC_002929.2 3751556 3752737 R catalyzes the formation of N-acetyl-l-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine; acetylornithine aminotransferase complement(3751556..3752737) Bordetella pertussis Tohama I 2665147 NP_882055.1 CDS BP3540 NC_002929.2 3752947 3753237 D Similar to Ralstonia solanacearum hypothetical protein rsc2555 rsc2555 or rs00734 SWALL:Q8XWB9 (EMBL:AL646070) (117 aa) fasta scores: E(): 6.2e-20, 60.63% id in 94 aa; hypothetical protein 3752947..3753237 Bordetella pertussis Tohama I 2665159 NP_882056.1 CDS BP3541 NC_002929.2 3753242 3754150 R Similar to Pseudomonas aeruginosa probable transcriptional regulator PA2877 TR:Q9HZX0 (EMBL:AE004714) (297 aa) fasta scores: E(): 1e-67, 60.46% id in 301 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA2534 TR:Q9I0V0 (EMBL:AE004681) (303 aa) fasta scores: E(): 1.2e-45, 46.1% id in 295 aa; LysR family transcriptional regulator complement(3753242..3754150) Bordetella pertussis Tohama I 2665160 NP_882057.1 CDS BP3542 NC_002929.2 3754262 3754987 R Similar to Picea abies short-chain type dehydrogenase/reductase SW:SDR1_PICAB (Q08632) (271 aa) fasta scores: E(): 2.1e-15, 31.25% id in 240 aa, and to Pseudomonas aeruginosa probable short-chain dehydrogenase PA2918 TR:Q9HZS9 (EMBL:AE004718) (257 aa) fasta scores: E(): 1.8e-69, 82.57% id in 241 aa; short chain dehydrogenase complement(3754262..3754987) Bordetella pertussis Tohama I 2665161 NP_882058.1 CDS BP3543 NC_002929.2 3755134 3756087 R Similar to Hyphomicrobium methylovorum glycerate dehydrogenase SW:DHGY_HYPME (P36234) (321 aa) fasta scores: E(): 9.8e-27, 32.29% id in 322 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_L_379p TR:AAK88759 (EMBL:AE008217) (311 aa) fasta scores: E(): 1.6e-49, 47.26% id in 311 aa; D-isomer specific 2-hydroxyacid dehydrogenase complement(3755134..3756087) Bordetella pertussis Tohama I 2665162 NP_882059.1 CDS BP3544 NC_002929.2 3756190 3757161 R Similar to Rhizobium meliloti hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 9.7e-43, 39.62% id in 318 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_L_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 1.6e-39, 38.8% id in 317 aa; lipoprotein complement(3756190..3757161) Bordetella pertussis Tohama I 2665163 NP_882060.1 CDS BP3545 NC_002929.2 3757242 3757433 R Poor database matches. Similar to C-terminal region of Comamonas testosteroni hypothetical protein Orf5 TR:Q9S154 (EMBL:AB024335) (278 aa) fasta scores: E(): 0.21, 33.33% id in 54 aa. Possible gene remnant; hypothetical protein complement(3757242..3757433) Bordetella pertussis Tohama I 2665164 NP_882061.1 CDS BP3546 NC_002929.2 3757641 3758558 D Similar to Corynebacterium glutamicum dihydrodipicolinate synthase DapA SW:DAPA_CORGL (P19808) (301 aa) fasta scores: E(): 1.8, 20.35% id in 280 aa, and to Rhizobium meliloti hypothetical protein SMB20107 TR:CAC48507 (EMBL:AL603642) (318 aa) fasta scores: E(): 2.4e-43, 41.15% id in 294 aa; hypothetical protein 3757641..3758558 Bordetella pertussis Tohama I 2665165 NP_882062.1 CDS BP3547 NC_002929.2 3758555 3759391 D Similar to Escherichia coli pyruvate dehydrogenase complex repressor PdhR SW:PDHR_ECOLI (P06957) (254 aa) fasta scores: E(): 1.3e-13, 33.9% id in 233 aa, and to Rhizobium meliloti transcription regulator protein SMC04143 TR:CAC41496 (EMBL:AL591782) (240 aa) fasta scores: E(): 4.9e-37, 49.15% id in 236 aa; GntR family transcriptional regulator 3758555..3759391 Bordetella pertussis Tohama I 2665166 NP_882063.1 CDS BP3548 NC_002929.2 3759490 3760440 D transposase for IS481 element; transposase 3759490..3760440 Bordetella pertussis Tohama I 2665167 NP_882064.1 CDS BP3550 NC_002929.2 3761747 3762574 D Similar to Pseudomonas aeruginosa probable transcriptional regulator PA1235 TR:Q9I4A3 (EMBL:AE004553) (260 aa) fasta scores: E(): 1.6e-13, 42.14% id in 242 aa, and to Rhizobium loti probable transcriptional regulator MLL2686 TR:Q98HW2 (EMBL:AP003000) (292 aa) fasta scores: E(): 5.4e-14, 39.92% id in 253 aa; AraC family transcriptional regulator 3761747..3762574 Bordetella pertussis Tohama I 2665169 NP_882065.1 CDS ahpD NC_002929.2 3762642 3763160 R Similar to Mycobacterium tuberculosis, and Mycobacterium bovis AhpD protein or rv2429 or mt2504 or mtcy428.17C SWALL:AHPD_MYCTU (SWALL:Q57353) (177 aa) fasta scores: E(): 2e-12, 37.95% id in 166 aa, and to Ralstonia solanacearum antioxidant protein AhpD or rsc1645 or rs04020 SWALL:Q8XYW1 (EMBL:AL646065) (175 aa) fasta scores: E(): 4.1e-41, 63.58% id in 173 aa; antioxidant protein complement(3762642..3763160) Bordetella pertussis Tohama I 2665170 NP_882066.1 CDS ahpC NC_002929.2 3763216 3763764 R Similar to Streptomyces coelicolor alkyl hydroperoxide reductase AhpC SWALL:Q9RN72 (EMBL:AF186371) (184 aa) fasta scores: E(): 9.6e-31, 51.09% id in 182 aa, and to Ralstonia solanacearum alkyl hydroperoxide reductase AhpC2 or rsc1646 or rs04022 SWALL:Q8XYW0 (EMBL:AL646065) (230 aa) fasta scores: E(): 2.4e-63, 85.16% id in 182 aa; alkyl hydroperoxide reductase complement(3763216..3763764) Bordetella pertussis Tohama I 2665171 NP_882067.1 CDS ompR NC_002929.2 3765257 3765991 R part of two-component system EnvZ/OmpR; regulates transcription of outer membrane porin genes ompC/F; under high osmolarity EnvZ functions as kinase/phosphotransferase and phosphorylates OmpR; the result is increased expression of ompC and repression of ompF; also functions in regulation of other genes; forms dimers upon phosphorylation; osmolarity response regulator complement(3765257..3765991) Bordetella pertussis Tohama I 2665173 NP_882068.1 CDS BP3555 NC_002929.2 3766121 3767368 D N-terminal region is similar to Pseudomonas aeruginosa hypothetical protein PA3685 TR:Q9HXV5 (EMBL:AE004788) (226 aa) fasta scores: E(): 3.2e-14, 40% id in 235 aa. C-terminal region is similar to Escherichia coli ribosomal-protein-alanine acetyltransferase RimI SW:RIMI_ECOLI (P09453) (148 aa) fasta scores: E(): 9.7e-10, 36.84% id in 133 aa. Full length CDS is similar to Mycobacterium leprae hypothetical protein ML0378 SW:YY21_MYCLE (Q49857) (359 aa) fasta scores: E(): 1.8e-05, 30.4% id in 375 aa; acetyltransferase 3766121..3767368 Bordetella pertussis Tohama I 2665174 NP_882069.1 CDS BP3556 NC_002929.2 3767355 3768251 D C-terminus is similar to the C-terminal regions of Rhizobium loti MLL7705 TR:Q985F0 (EMBL:AP003012) (291 aa) fasta scores: E(): 9.6e-24, 46.66% id in 255 aa, and Treponema pallidum bacteriophage-type DNA polymerase TP0229 TR:O83257 (EMBL:AE001204) (277 aa) fasta scores: E(): 5e-23, 46.18% id in 223 aa. Possible alternative translational start site; bacteriophage-related DNA polymerase 3767355..3768251 Bordetella pertussis Tohama I 2665175 NP_882070.1 CDS BP3557 NC_002929.2 3768270 3769580 R Similar to Escherichia coli hypothetical protein YgeD SW:YGED_ECOLI (P39196) (397 aa) fasta scores: E(): 4.7e-21, 37.19% id in 414 aa, and to Neisseria meningitidis integral membrane protein NMA1715 TR:Q9JTM1 (EMBL:AL162756) (436 aa) fasta scores: E(): 2.2e-05, 23.38% id in 449 aa; lysophospholipid transporter LplT complement(3768270..3769580) Bordetella pertussis Tohama I 2665176 NP_882071.1 CDS BP3558 NC_002929.2 3769843 3773370 D Similar to Bacillus subtilis chromosome partition protein Smc SW:SMC_BACSU (P51834) (1186 aa) fasta scores: E(): 2.8e-30, 29.01% id in 1213 aa, and to Pseudomonas aeruginosa hypothetical protein PA1527 TR:Q9I3I6 (EMBL:AE004581) (1162 aa) fasta scores: E(): 3.6e-59, 40.7% id in 1199 aa; chromosome partition protein 3769843..3773370 Bordetella pertussis Tohama I 2665177 NP_882072.1 CDS BP3559 NC_002929.2 3773415 3774473 D Poor database matches. C-terminus is similar to the C-terminal region of Neisseria meningitidis hypothetical protein NMB0667 TR:Q9K0E2 (EMBL:AE002421) (428 aa) fasta scores: E(): 0.00024, 24.05% id in 316 aa; hypothetical protein 3773415..3774473 Bordetella pertussis Tohama I 2665178 NP_882073.1 CDS ligA NC_002929.2 3774473 3776563 D Similar to Escherichia coli DNA ligase LigA SW:DNLJ_ECOLI (P15042) (671 aa) fasta scores: E(): 3e-82, 54.4% id in 693 aa, and to Alteromonas haloplanktis DNA ligase TR:Q9RBF2 (EMBL:AF126866) (672 aa) fasta scores: E(): 2.1e-81, 53.92% id in 688 aa; DNA ligase 3774473..3776563 Bordetella pertussis Tohama I 2665183 NP_882074.1 CDS BP3561 NC_002929.2 3776648 3777424 R Similar to Campylobacter jejuni cell binding factor 2 precursor Cbf2 SW:CBF2_CAMJE (Q46105) (273 aa) fasta scores: E(): 8.7e-17, 30.25% id in 271 aa, and to Rhizobium meliloti outer membrane protein SMC02451 TR:CAC47205 (EMBL:AL591791) (284 aa) fasta scores: E(): 3.3e-16, 31.98% id in 272 aa; peptidyl-prolyl cis-trans isomerase complement(3776648..3777424) Bordetella pertussis Tohama I 2665184 NP_882075.1 CDS BP3562 NC_002929.2 3777450 3777734 R Similar to Escherichia coli general stress response protein and possible regulator of murein genes, BolA SW:BOLA_ECOLI (P15298) (105 aa) fasta scores: E(): 0.00043, 36.84% id in 76 aa, and to Neisseria meningitidis hypothetical protein NMA2143 TR:Q9JST5 (EMBL:AL162758) (92 aa) fasta scores: E(): 1.8e-09, 43.9% id in 82 aa; BolA-like protein complement(3777450..3777734) Bordetella pertussis Tohama I 2665185 NP_882076.1 CDS BP3563 NC_002929.2 3777756 3778325 R Similar to Shigella flexneri intracellular septation protein IspZ SW:ISPZ_SHIFL (P95745) (179 aa) fasta scores: E(): 6e-28, 42.85% id in 182 aa, and to Escherichia coli, and probable intracellular septation protein IspZ SW:ISPZ_ECOLI (P21366) (179 aa) fasta scores: E(): 1.4e-29, 44.5% id in 182 aa; intracellular septation protein complement(3777756..3778325) Bordetella pertussis Tohama I 2665186 NP_882077.1 CDS msrB NC_002929.2 3778322 3778723 R this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress; methionine sulfoxide reductase B complement(3778322..3778723) Bordetella pertussis Tohama I 2665187 NP_882078.1 CDS BP3565 NC_002929.2 3778775 3779452 D Similar to Deinococcus radiodurans ABC transporter ATP-binding protein DR2469 TR:Q9RRL9 (EMBL:AE002076) (226 aa) fasta scores: E(): 5.9e-39, 59.72% id in 221 aa, and to Rhizobium meliloti ATP-binding ABC transporter protein SMC00962 TR:CAC45462 (EMBL:AL591785) (226 aa) fasta scores: E(): 1.9e-33, 52.25% id in 222 aa; ABC transporter ATP-binding protein 3778775..3779452 Bordetella pertussis Tohama I 2665188 NP_882079.1 CDS BP3566 NC_002929.2 3779449 3780048 D Similar to Deinococcus radiodurans conserved hypothetical protein DR2468 TR:Q9RRM0 (EMBL:AE002076) (198 aa) fasta scores: E(): 1.1e-21, 46.76% id in 201 aa, and to Rhizobium meliloti hypothetical transmembrane protein SMC00963 TR:CAC45461 (EMBL:AL591785) (201 aa) fasta scores: E(): 2.5e-19, 43.41% id in 205 aa; cobalt transport protein 3779449..3780048 Bordetella pertussis Tohama I 2665189 NP_882080.1 CDS BP3567 NC_002929.2 3780092 3780649 D Similar to Bacillus sphaericus biotin synthase BioY SW:BIOY_BACSH (P22819) (196 aa) fasta scores: E(): 1.1e-08, 33.51% id in 188 aa, and to Rhizobium meliloti hypothetical transmembrane protein SMC00964 TR:CAC45460 (EMBL:AL591785) (187 aa) fasta scores: E(): 2e-28, 54.64% id in 183 aa; BioY family protein 3780092..3780649 Bordetella pertussis Tohama I 2665190 NP_882081.1 CDS BP3568 NC_002929.2 3780882 3782045 D N-terminus is similar to the N-terminal region of Salmonella typhimurium Leu/Ile/Val/Thr-binding protein precursor LivJ SW:LIVJ_SALTY (P17215) (365 aa) fasta scores: E(): 3.1e-06, 23.12% id in 294 aa. Full length CDS is similar to Deinococcus radiodurans branched-chain amino acid ABC transporter periplasmic amino acid- binding protein DRA0263 TR:Q9RYP6 (EMBL:AE001863) (424 aa) fasta scores: E(): 4.5e-83, 57.25% id in 400 aa. Similar to BP1506, 52.926% identity (53.495% ungapped) in 376 aa overlap; hypothetical protein 3780882..3782045 Bordetella pertussis Tohama I 2665191 NP_882082.1 CDS BP3569 NC_002929.2 3782207 3783232 D Similar to Escherichia coli high-affinity branched-chain amino acid transport system permease LivH SW:LIVH_ECOLI (P08340) (308 aa) fasta scores: E(): 2.4e-11, 27.62% id in 333 aa, and to Deinococcus radiodurans branched-chain amino acid ABC transporter permease DRA0262 TR:Q9RYP7 (EMBL:AE001863) (349 aa) fasta scores: E(): 5.4e-63, 59.88% id in 344 aa; branched-chain amino acid ABC transporter permease 3782207..3783232 Bordetella pertussis Tohama I 2665192 NP_882083.1 CDS BP3570 NC_002929.2 3783238 3785034 D Similar to Streptomyces coelicolor branched amino acid transport system permease sco7184 or sc8a11.12 SWALL:Q9FBZ8 (EMBL:AL391041) (349 aa) fasta scores: E(): 9e-21, 32.23% id in 335 aa; Due to a large deletion following codon 519, this CDS may have resulted from the fusion of two adjacent CDSs. N-terminal region is similar to Streptomyces coelicolor branched amino acid transport system permease sco7184 or sc8a11.12 SWALL:Q9FBZ8 (EMBL:AL391041) (349 aa) fasta scores: E(): 9e-21, 32.23% id in 335 aa. C-terminal region is similar to Escherichia coli high-affinity branched-chain amino acid transport ATP-binding protein LivG SW:LIVG_ECOLI (P22730) (255 aa) fasta scores: E(): 2e-23, 40.56% id in 249 aa. Full length CDS is similar to Agrobacterium tumefaciens hypothetical protein AGR_C_2606p TR:AAK87203 (EMBL:AE008066) (595 aa) fasta scores: E(): 2e-94, 54.18% id in 585 aa; branched-chain amino acid ABC transporter 3783238..3785034 Bordetella pertussis Tohama I 2665193 NP_882084.1 CDS BP3571 NC_002929.2 3785081 3785920 R catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids; aminotransferase complement(3785081..3785920) Bordetella pertussis Tohama I 2665194 NP_882085.1 CDS BP3572 NC_002929.2 3785952 3786950 R Similar to Escherichia coli glycine betaine-binding periplasmic protein precursor ProX SW:PROX_ECOLI (P14177) (330 aa) fasta scores: E(): 1.8e-07, 23.07% id in 338 aa, and to Rhizobium meliloti periplasmic binding transmembrane protein SMC02378 TR:CAC45606 (EMBL:AL591785) (332 aa) fasta scores: E(): 5.6e-37, 32.51% id in 326 aa. Also similar to BP2055, 53.012% identity (53.659% ungapped) in 332 aa overlap.; glycine/betaine ABC transporter substrate-binding protein complement(3785952..3786950) Bordetella pertussis Tohama I 2665195 NP_882086.1 CDS BP3573 NC_002929.2 3787046 3788023 R Similar to Agrobacterium tumefaciens hypothetical protein AGR_L_1453p TR:AAK89305 (EMBL:AE008271) (335 aa) fasta scores: E(): 1.2e-57, 58.87% id in 321 aa, and to Rhizobium meliloti permease ABC transporter protein SMC03117 TR:CAC47555 (EMBL:AL591792) (330 aa) fasta scores: E(): 1.3e-56, 60.46% id in 301 aa; branched-chain amino acid ABC transporter permease complement(3787046..3788023) Bordetella pertussis Tohama I 2665196 NP_882087.1 CDS BP3574 NC_002929.2 3788020 3788907 R Similar to Rhizobium meliloti permease ABC transporter protein SMC03118 TR:CAC47554 (EMBL:AL591792) (295 aa) fasta scores: E(): 5.6e-77, 72.1% id in 294 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_L_1455p TR:AAK89306 (EMBL:AE008271) (295 aa) fasta scores: E(): 1.3e-76, 71.42% id in 294 aa; branched-chain amino acid ABC transporter permease complement(3788020..3788907) Bordetella pertussis Tohama I 2665197 NP_882088.1 CDS BP3575 NC_002929.2 3788999 3790213 R Similar to Pseudomonas aeruginosa leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein precursor BraC SW:BRAC_PSEAE (P21175) (373 aa) fasta scores: E(): 0.0012, 20.4% id in 343 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_L_1462p TR:AAK89309 (EMBL:AE008271) (402 aa) fasta scores: E(): 1e-77, 51.25% id in 400 aa; hypothetical protein complement(3788999..3790213) Bordetella pertussis Tohama I 2665198 NP_882089.1 CDS BP3576 NC_002929.2 3790272 3790982 R Similar to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport ATP-binding protein BraG SW:BRAG_PSEAE (P21630) (233 aa) fasta scores: E(): 3.1e-24, 39.91% id in 233 aa, and to Rhizobium meliloti ATP-binding ABC transporter protein SMC03119 TR:CAC47553 (EMBL:AL591792) (233 aa) fasta scores: E(): 3.3e-50, 59.65% id in 233 aa; ABC transporter ATP-binding protein complement(3790272..3790982) Bordetella pertussis Tohama I 2665199 NP_882090.1 CDS BP3577 NC_002929.2 3790979 3791752 R Similar to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport ATP-binding protein BraF SW:BRAF_PSEAE (P21629) (255 aa) fasta scores: E(): 2.7e-27, 39.84% id in 256 aa, and to Rhizobium meliloti ATP-binding ABC transporter protein SMC03120 TR:CAC47552 (EMBL:AL591792) (262 aa) fasta scores: E(): 4.8e-45, 57.61% id in 243 aa; ABC transporter ATP-binding protein complement(3790979..3791752) Bordetella pertussis Tohama I 2665236 NP_882091.1 CDS nth NC_002929.2 3792011 3792646 R Similar to Escherichia coli endonuclease III Nth SW:END3_ECOLI (P20625) (211 aa) fasta scores: E(): 3e-56, 71.15% id in 208 aa, and to Pseudomonas aeruginosa endonuclease III PA3495 TR:Q9HYB4 (EMBL:AE004770) (212 aa) fasta scores: E(): 1.6e-59, 73.68% id in 209 aa; endonuclease III complement(3792011..3792646) Bordetella pertussis Tohama I 2665237 NP_882092.1 CDS BP3579 NC_002929.2 3792643 3793284 R Involved in the electron transport chain; ferredoxin complement(3792643..3793284) Bordetella pertussis Tohama I 2665238 NP_882093.1 CDS BP3580 NC_002929.2 3793340 3794563 R Similar to Alcaligenes eutrophus intracellular poly[D(-)-3-hydroxybutyrate] (PHB) depolymerase PhaZ TR:O87189 (EMBL:AB017612) (419 aa) fasta scores: E(): 1.2e-107, 64.8% id in 412 aa, and to Rhizobium meliloti hypothetical protein SMC02770 TR:CAC41411 (EMBL:AL591782) (424 aa) fasta scores: E(): 6.4e-85, 52.69% id in 408 aa; intracellular PHB depolymerase complement(3793340..3794563) Bordetella pertussis Tohama I 2665239 NP_882094.1 CDS BP3581 NC_002929.2 3794709 3795506 R Similar to Azotobacter vinelandii ferredoxin--NADP reductase Fpr SW:FENR_AZOVI (Q44532) (257 aa) fasta scores: E(): 1.4e-28, 37.59% id in 258 aa, and to Pseudomonas aeruginosa probable oxidoreductase PA4615 TR:Q9HVH6 (EMBL:AE004875) (258 aa) fasta scores: E(): 9.6e-43, 46.81% id in 267 aa. Also similar to BP1606, 40.385% identity (42.276% ungapped) in 260 aa overlap.; ferredoxin--NADP reductase complement(3794709..3795506) Bordetella pertussis Tohama I 2665240 NP_882095.1 CDS BP3582 NC_002929.2 3795552 3795875 R Similar to Pseudomonas stutzeri ferredoxin SW:FER_PSEST (P08811) (106 aa) fasta scores: E(): 3e-28, 67.92% id in 106 aa, and to Azotobacter vinelandii ferredoxin I FdxA SW:FER1_AZOVI (P00214) (106 aa) fasta scores: E(): 2e-27, 67.3% id in 104 aa; ferredoxin complement(3795552..3795875) Bordetella pertussis Tohama I 2665241 NP_882096.1 CDS pncB NC_002929.2 3796000 3797217 D catalyzes the formation of nictonate and 5-phospho-alpha-D-ribose 1-diphosphate from nicotinate D-ribonucleotide and diphosphate; nicotinate phosphoribosyltransferase 3796000..3797217 Bordetella pertussis Tohama I 2665243 NP_882097.1 CDS BP3584 NC_002929.2 3797269 3797619 D Similar to Haemophilus ducreyi hypothetical protein Hypo117 SW:Y117_HAEDU (O30825) (117 aa) fasta scores: E(): 3e-25, 60.17% id in 113 aa, and to Xylella fastidiosa hypothetical protein XF1711 TR:Q9PCR7 (EMBL:AE003995) (117 aa) fasta scores: E(): 6.2e-23, 59.29% id in 113 aa; hypothetical protein 3797269..3797619 Bordetella pertussis Tohama I 2665244 NP_882098.1 CDS BP3585 NC_002929.2 3797778 3798287 R Similar to Streptomyces coelicolor hypothetical protein SCF56.21 TR:Q9RD46 (EMBL:AL133424) (151 aa) fasta scores: E(): 2.6e-12, 40.47% id in 168 aa, and to Mycobacterium leprae hypothetical protein ML1525 TR:Q9CBV8 (EMBL:AL583922) (151 aa) fasta scores: E(): 4.1e-10, 38.78% id in 165 aa; hypothetical protein complement(3797778..3798287) Bordetella pertussis Tohama I 2665245 NP_882099.1 CDS BP3586 NC_002929.2 3798284 3799117 R Similar to Pseudomonas aeruginosa hypothetical protein PA4030 TR:Q9HWZ7 (EMBL:AE004820) (276 aa) fasta scores: E(): 2.8e-06, 40.97% id in 266 aa, and to Escherichia coli hypothetical protein YeeI SW:YEEI_ECOLI (P76346) (265 aa) fasta scores: E(): 0.0081, 32.61% id in 279 aa; hypothetical protein complement(3798284..3799117) Bordetella pertussis Tohama I 2665246 NP_882100.1 CDS relA NC_002929.2 3799201 3801414 D Similar to Escherichia coli GTP pyrophosphokinase RelA SW:RELA_ECOLI (P11585) (744 aa) fasta scores: E(): 5.3e-78, 40.89% id in 719 aa, and to Pseudomonas aeruginosa GTP pyrophosphokinase PA0934 TR:Q9I524 (EMBL:AE004528) (747 aa) fasta scores: E(): 3.2e-112, 43.78% id in 740 aa; GTP pyrophosphokinase 3799201..3801414 Bordetella pertussis Tohama I 2665247 NP_882101.1 CDS BP3588 NC_002929.2 3801470 3802642 D catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine; acetylornithine deacetylase 3801470..3802642 Bordetella pertussis Tohama I 2665248 NP_882102.1 CDS trpB NC_002929.2 3802752 3803951 D catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate; tryptophan synthase subunit beta 3802752..3803951 Bordetella pertussis Tohama I 2665249 NP_882103.1 CDS trpA NC_002929.2 3803955 3804812 D catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis; tryptophan synthase subunit alpha 3803955..3804812 Bordetella pertussis Tohama I 2665250 NP_882104.1 CDS accD NC_002929.2 3804849 3805727 D catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits; acetyl-CoA carboxylase subunit beta 3804849..3805727 Bordetella pertussis Tohama I 2665251 NP_882105.1 CDS BP3593 NC_002929.2 3806721 3807671 D transposase for IS481 element; transposase 3806721..3807671 Bordetella pertussis Tohama I 2667252 NP_882106.1 CDS metH NC_002929.2 3807668 3811441 R one of two methionine synthases in Escherichia coli; MetH catalyzes a methyl transfer reaction from methyltetrahydrofolate to homocysteine to create methionine; requires zinc for activity; B12-dependent methionine synthase complement(3807668..3811441) Bordetella pertussis Tohama I 2667253 NP_882107.1 CDS BP3595 NC_002929.2 3811778 3813667 D Similar to Salmonella typhimurium vitamin B12 receptor precursor BtuB SW:BTUB_SALTY (P37409) (614 aa) fasta scores: E(): 5.4e-37, 28.33% id in 614 aa, and to Pseudomonas aeruginosa probable tonb-dependent receptor PA1271 TR:Q9I473 (EMBL:AE004557) (616 aa) fasta scores: E(): 3.2e-39, 35.2% id in 625 aa; outer membrane protein 3811778..3813667 Bordetella pertussis Tohama I 2667254 NP_882108.1 CDS BP3596 NC_002929.2 3813679 3814572 D Similar to Salmonella typhimurium cobalamin periplasmic binding protein BtuF TR:Q9ZFP9 (EMBL:AF096877) (266 aa) fasta scores: E(): 2.9e-15, 34.66% id in 251 aa, and to Vibrio cholerae hypothetical protein VC2381 TR:Q9KPI6 (EMBL:AE004308) (276 aa) fasta scores: E(): 4e-24, 38.82% id in 255 aa; cobalmin ABC transporter substrate-binding protein 3813679..3814572 Bordetella pertussis Tohama I 2667255 NP_882109.1 CDS thiG NC_002929.2 3814676 3815473 D functions in thiamine (vitamin B1) biosynthesis; in Bacillus subtilis this enzyme catalyzes the formation of thiazole from dehydroxyglycine and 1-deoxy-D-xylulose-5-phosphate and ThiS-thiocarboxylate; thiazole synthase 3814676..3815473 Bordetella pertussis Tohama I 2667256 NP_882110.1 CDS thiD NC_002929.2 3815470 3816321 D Similar to Escherichia coli phosphomethylpyrimidine kinase ThiD SW:THID_ECOLI (P76422) (266 aa) fasta scores: E(): 3e-44, 51.47% id in 272 aa, and to Rhizobium meliloti phosphomethylpyrimidine kinase SMB20962 TR:CAC49487 (EMBL:AF070520) (266 aa) fasta scores: E(): 2.1e-43, 52.07% id in 265 aa. CDS contains extra residues at the N-terminus in comparison to orthologues; phosphomethylpyrimidine kinase 3815470..3816321 Bordetella pertussis Tohama I 2667257 NP_882111.1 CDS BP3599 NC_002929.2 3816383 3817063 D Similar to Escherichia coli protein-L-isoaspartate O-methyltransferase Pcm SW:PIMT_ECOLI (P24206) (207 aa) fasta scores: E(): 2.9e-16, 39.42% id in 175 aa, and to Neisseria meningitidis protein-L-isoaspartate O-methyltransferase NMB1885 TR:Q9JXU0 (EMBL:AE002538) (218 aa) fasta scores: E(): 8e-28, 46.81% id in 220 aa; protein-L-isoaspartate O-methyltransferase 3816383..3817063 Bordetella pertussis Tohama I 2667258 NP_882112.1 CDS BP3602 NC_002929.2 3818407 3818895 R Similar to the C-terminal region of Escherichia coli ADP-heptose synthase RfaE SW:RFAE_ECOLI (P76658) (477 aa) fasta scores: E(): 2.8e-20, 48.36% id in 153 aa, and to the full length Alcaligenes eutrophus Aut TR:Q43999 (EMBL:U07639) (164 aa) fasta scores: E(): 2.6e-35, 65.45% id in 165 aa; cytidylyltransferase complement(3818407..3818895) Bordetella pertussis Tohama I 2667260 NP_882113.1 CDS BP3603 NC_002929.2 3819177 3820193 D Similar to Neisseria meningitidis invertase/transposase Nma1800 TR:Q9JTF3 (EMBL:AL162757) (318 aa) fasta scores: E(): 3.3e-17, 28.165% id in 316 aa and Acinetobacter spSE19. pilin inverting protein ChnY TR:Q9F7E1 (EMBL:AF282240) (324 aa) fasta scores: E(): 7.4e-50, 47.205% id in 322 aa; transposase for IS1663 3819177..3820193 Bordetella pertussis Tohama I 2667261 NP_882114.1 CDS BP3604 NC_002929.2 3820385 3821488 D Similar to Rhizobium meliloti hypothetical protein SMA0447 TR:AAK64892 (EMBL:AE007216) (373 aa) fasta scores: E(): 1.4e-29, 33.61% id in 357 aa, and to Pseudomonas aeruginosa hypothetical protein PA1625 TR:Q9I397 (EMBL:AE004590) (355 aa) fasta scores: E(): 2.7e-22, 29.22% id in 349 aa; hypothetical protein 3820385..3821488 Bordetella pertussis Tohama I 2667262 NP_882115.1 CDS BP3605 NC_002929.2 3821575 3822339 D Poor database matches. Weakly similar to Homo sapiens peroxisomal phytanoyl-CoA dioxygenase PHYH SW:PAHX_HUMAN (O14832) (338 aa) fasta scores: E(): 1.4e-08, 24.08% id in 245 aa, and to Caenorhabditis elegans probable phytanoyl-CoA dioxygenase ZK550.6 SW:PAHX_CAEEL (O62515) (312 aa) fasta scores: E(): 3.7e-06, 21.81% id in 243 aa; hypothetical protein 3821575..3822339 Bordetella pertussis Tohama I 2667263 NP_882116.1 CDS BP3606 NC_002929.2 3822461 3823651 D Similar to Escherichia coli potassium channel protein Kch SW:KCH_ECOLI (P31069) (417 aa) fasta scores: E(): 5.6e-43, 39.73% id in 375 aa, and to Halobacterium sp potassium channel homologue VNG1847G TR:Q9HP16 (EMBL:AE005085) (411 aa) fasta scores: E(): 2.2e-19, 29.42% id in 333 aa. Possibly truncated at the C-terminus by the insertion of the downstream IS element; voltage-gated potassium channel 3822461..3823651 Bordetella pertussis Tohama I 2667264 NP_882117.1 CDS BP3607 NC_002929.2 3823648 3824598 R transposase for IS481 element; transposase complement(3823648..3824598) Bordetella pertussis Tohama I 2667265 NP_882118.1 CDS rpsL NC_002929.2 3825356 3825733 D interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone; located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side; mutations in the S12 gene confer streptomycin resistance; 30S ribosomal protein S12 3825356..3825733 Bordetella pertussis Tohama I 2667266 NP_882119.1 CDS rpsG NC_002929.2 3825897 3826367 D binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit; 30S ribosomal protein S7 3825897..3826367 Bordetella pertussis Tohama I 2667267 NP_882120.1 CDS fusA NC_002929.2 3826385 3828487 D EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene; elongation factor G 3826385..3828487 Bordetella pertussis Tohama I 2667268 NP_882121.1 CDS tuf NC_002929.2 3828564 3829754 D EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu; elongation factor Tu 3828564..3829754 Bordetella pertussis Tohama I 2667269 NP_882122.1 CDS rpsJ NC_002929.2 3829818 3830129 D NusE; involved in assembly of the 30S subunit; in the ribosome, this protein is involved in the binding of tRNA; in Escherichia coli this protein was also found to be involved in transcription antitermination; NusB/S10 heterodimers bind boxA sequences in the leader RNA of rrn operons which is required for antitermination; binding of NusB/S10 to boxA nucleates assembly of the antitermination complex; 30S ribosomal protein S10 3829818..3830129 Bordetella pertussis Tohama I 2665255 NP_882123.2 CDS rplC NC_002929.2 3830487 3831176 D binds directly near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit; essential for peptidyltransferase activity; mutations in this gene confer resistance to tiamulin; 50S ribosomal protein L3 3830487..3831176 Bordetella pertussis Tohama I 2665256 NP_882124.1 CDS rplD NC_002929.2 3831181 3831798 D L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA; 50S ribosomal protein L4 3831181..3831798 Bordetella pertussis Tohama I 2665257 NP_882125.1 CDS rplW NC_002929.2 3831795 3832091 D binds third domain of 23S rRNA and protein L29; part of exit tunnel; 50S ribosomal protein L23 3831795..3832091 Bordetella pertussis Tohama I 2665258 NP_882126.1 CDS rplB NC_002929.2 3832092 3832919 D one of the primary rRNA-binding proteins; required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation; 50S ribosomal protein L2 3832092..3832919 Bordetella pertussis Tohama I 2665259 NP_882127.1 CDS rpsS NC_002929.2 3832932 3833207 D protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA; 30S ribosomal protein S19 3832932..3833207 Bordetella pertussis Tohama I 2665260 NP_882128.1 CDS rplV NC_002929.2 3833211 3833540 D binds specifically to 23S rRNA during the early stages of 50S assembly; makes contact with all 6 domains of the 23S rRNA in the assembled 50S subunit and ribosome; mutations in this gene result in erythromycin resistance; located near peptidyl-transferase center; 50S ribosomal protein L22 3833211..3833540 Bordetella pertussis Tohama I 2665261 NP_882129.1 CDS rpsC NC_002929.2 3833550 3834341 D forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation; 30S ribosomal protein S3 3833550..3834341 Bordetella pertussis Tohama I 2665262 NP_882130.1 CDS rplP NC_002929.2 3834344 3834760 D located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e; 50S ribosomal protein L16 3834344..3834760 Bordetella pertussis Tohama I 2665263 NP_882131.1 CDS rpmC NC_002929.2 3834771 3834962 D one of the stabilizing components for the large ribosomal subunit; 50S ribosomal protein L29 3834771..3834962 Bordetella pertussis Tohama I 2665264 NP_882132.1 CDS rpsQ NC_002929.2 3834964 3835245 D primary binding protein; helps mediate assembly; involved in translation fidelity; 30S ribosomal protein S17 3834964..3835245 Bordetella pertussis Tohama I 2665265 NP_882133.1 CDS BP3623 NC_002929.2 3835412 3836275 R Similar to Acidovorax sp. SA1 D-(-)-3-hydroxybutyrate oligomer hydrolase TR:Q9F1T8 (EMBL:AB044565) (291 aa) fasta scores: E(): 1.3e-65, 58.8% id in 284 aa, and to Rickettsia conorii hypothetical protein RC0617 TR:AAL03155 (EMBL:AE008622) (290 aa) fasta scores: E(): 3e-15, 27.44% id in 266 aa; hydrolase complement(3835412..3836275) Bordetella pertussis Tohama I 2665266 NP_882134.1 CDS BP3624 NC_002929.2 3836362 3837789 R Similar to Escherichia coli succinate-semialdehyde dehydrogenase [NADP+] GabD SW:GABD_ECOLI (P25526) (482 aa) fasta scores: E(): 3.4e-75, 43.12% id in 473 aa, and to Acinetobacter sp. 6-oxohexanoate dehydrogenase ChnE TR:BAB61739 (EMBL:AB006902) (477 aa) fasta scores: E(): 1.2e-117, 60.75% id in 474 aa; aldehyde dehydrogenase complement(3836362..3837789) Bordetella pertussis Tohama I 2665267 NP_882135.1 CDS rplN NC_002929.2 3838682 3839050 D binds to the 23S rRNA between the centers for peptidyl transferase and GTPase; 50S ribosomal protein L14 3838682..3839050 Bordetella pertussis Tohama I 2665268 NP_882136.1 CDS rplX NC_002929.2 3839061 3839381 D assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel; 50S ribosomal protein L24 3839061..3839381 Bordetella pertussis Tohama I 2664867 NP_882137.1 CDS rplE NC_002929.2 3839394 3839933 D part of 50S and 5S/L5/L18/L25 subcomplex; contacts 5S rRNA and P site tRNA; forms a bridge to the 30S subunit in the ribosome by binding to S13; 50S ribosomal protein L5 3839394..3839933 Bordetella pertussis Tohama I 2664868 NP_882138.1 CDS rpsN NC_002929.2 3839946 3840251 D located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif; 30S ribosomal protein S14 3839946..3840251 Bordetella pertussis Tohama I 2664872 NP_882139.1 CDS rpsH NC_002929.2 3840262 3840657 D binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; 30S ribosomal protein S8 3840262..3840657 Bordetella pertussis Tohama I 2664873 NP_882140.1 CDS rplF NC_002929.2 3840668 3841201 D ribosomal protein L6 appears to have arisen as a result of an ancient gene duplication as based on structural comparison of the Bacillus stearothermophilus protein; RNA-binding appears to be in the C-terminal domain; mutations in the L6 gene confer resistance to aminoglycoside antibiotics such as gentamicin and these occur in truncations of the C-terminal domain; it has been localized to a region between the base of the L7/L12 stalk and the central protuberance; 50S ribosomal protein L6 3840668..3841201 Bordetella pertussis Tohama I 2664874 NP_882141.1 CDS rplR NC_002929.2 3841223 3841585 D binds 5S rRNA along with protein L5 and L25; 50S ribosomal protein L18 3841223..3841585 Bordetella pertussis Tohama I 2664875 NP_882142.1 CDS rpsE NC_002929.2 3841601 3842125 D located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body; contacts S4 and S8; with S4 and S12 plays a role in translational accuracy; mutations in this gene result in spectinomycin resistance; 30S ribosomal protein S5 3841601..3842125 Bordetella pertussis Tohama I 2664876 NP_882143.1 CDS rpmD NC_002929.2 3842129 3842314 D L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7; 50S ribosomal protein L30 3842129..3842314 Bordetella pertussis Tohama I 2664877 NP_882144.1 CDS rplO NC_002929.2 3842324 3842764 D late assembly protein; 50S ribosomal protein L15 3842324..3842764 Bordetella pertussis Tohama I 2664878 NP_882145.1 CDS secY NC_002929.2 3842779 3844104 D forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase; preprotein translocase subunit SecY 3842779..3844104 Bordetella pertussis Tohama I 2664879 NP_882146.1 CDS infA NC_002929.2 3844114 3844332 D stimulates the activities of the other two initiation factors, IF-2 and IF-3; translation initiation factor IF-1 3844114..3844332 Bordetella pertussis Tohama I 2664880 NP_882147.1 CDS rpmJ NC_002929.2 3844367 3844480 D smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group have the motif; 50S ribosomal protein L36 3844367..3844480 Bordetella pertussis Tohama I 2664881 NP_882148.1 CDS rpsM NC_002929.2 3844522 3844887 D located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA; makes contact with the large subunit via RNA-protein interactions and via protein-protein interactions with L5; contacts P-site tRNA; 30S ribosomal protein S13 3844522..3844887 Bordetella pertussis Tohama I 2664882 NP_882149.1 CDS rpsK NC_002929.2 3844903 3845304 D located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3; 30S ribosomal protein S11 3844903..3845304 Bordetella pertussis Tohama I 2664883 NP_882150.1 CDS rpsD NC_002929.2 3845316 3845939 D primary rRNA binding protein; nucleates 30S assembly; involved in translational accuracy with proteins S5 and S12; interacts with protein S5; involved in autogeneously regulating ribosomal proteins by binding to pseudoknot structures in the polycistronic mRNA; interacts with transcription complex and functions similar to protein NusA in antitermination; 30S ribosomal protein S4 3845316..3845939 Bordetella pertussis Tohama I 2664884 NP_882151.1 CDS rpoA NC_002929.2 3846153 3847139 D catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Dimerization of the alpha subunit is the first step in the sequential assembly of subunits to form the holoenzyme; DNA-directed RNA polymerase subunit alpha 3846153..3847139 Bordetella pertussis Tohama I 2664869 NP_882152.1 CDS rplQ NC_002929.2 3847298 3847693 D is a component of the macrolide binding site in the peptidyl transferase center; 50S ribosomal protein L17 3847298..3847693 Bordetella pertussis Tohama I 2664870 NP_882153.1 CDS cutA NC_002929.2 3848279 3848620 D Similar to Escherichia coli, and Escherichia coli O157:H7 periplasmic divalent cation tolerance protein CutA or CycY or CutA1 or b4137 or z5742 or ecs5118 SWALL:CUTA_ECOLI (SWALL:P36654) (112 aa) fasta scores: E(): 1.3e-10, 38.54% id in 96 aa, and to Methanopyrus kandleri uncharacterized protein implicated in tolerance to divalent cations CutA or mk1492 SWALL:Q8TVA0 (EMBL:AE010440) (102 aa) fasta scores: E(): 2.1e-15, 50% id in 100 aa; divalent cation tolerance protein 3848279..3848620 Bordetella pertussis Tohama I 2664885 NP_882154.1 CDS BP3646 NC_002929.2 3848631 3850568 D Similar to Pseudomonas aeruginosa thiol:disulfide interchange protein DipZ SW:DSD1_PSEAE (Q9HUW5) (591 aa) fasta scores: E(): 6.8e-53, 41.54% id in 609 aa, and to Neisseria meningitidis thiol:disulfide interchange protein NMA1719 SW:DSBD_NEIMA (Q9JTL9) (601 aa) fasta scores: E(): 2.5e-63, 37.76% id in 617 aa; thiol:disulfide interchange protein 3848631..3850568 Bordetella pertussis Tohama I 2664886 NP_882155.1 CDS BP3647 NC_002929.2 3850690 3851646 D Similar to Bacillus halodurans hypothetical protein BH1741 TR:Q9KC33 (EMBL:AP001513) (306 aa) fasta scores: E(): 3.1e-22, 33.21% id in 283 aa, and to Pseudomonas aeruginosa hypothetical protein PA4287 TR:Q9HWB3 (EMBL:AE004845) (296 aa) fasta scores: E(): 2e-16, 31.59% id in 307 aa; hypothetical protein 3850690..3851646 Bordetella pertussis Tohama I 2664887 NP_882156.1 CDS hemB NC_002929.2 3851643 3852659 R catalyzes the formation of porphobilinogen from 5-aminolevulinate; delta-aminolevulinic acid dehydratase complement(3851643..3852659) Bordetella pertussis Tohama I 2664888 NP_882157.1 CDS engB NC_002929.2 3852656 3853279 R binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential; ribosome biogenesis GTP-binding protein YsxC complement(3852656..3853279) Bordetella pertussis Tohama I 2664889 NP_882158.1 CDS BP3650 NC_002929.2 3853503 3854204 D Similar to Azotobacter vinelandii cytochrome c4 precursor CycA SW:CYC4_AZOVI (P43302) (210 aa) fasta scores: E(): 2.2e-18, 39.89% id in 193 aa, and to Pseudomonas stutzeri cytochrome c4 precursor CC4 SW:CYC4_PSEST (Q52369) (210 aa) fasta scores: E(): 9.6e-18, 37.82% id in 193 aa. Possible alternative translational start sites; cytochrome C 3853503..3854204 Bordetella pertussis Tohama I 2664890 NP_882159.1 CDS BP3651 NC_002929.2 3854325 3856418 D Similar to Neisseria meningitidis cytochrome c-type biogenesis protein NMB1804 TR:Q9JY04 (EMBL:AE002530) (671 aa) fasta scores: E(): 3.1e-46, 37.75% id in 694 aa, and to Thiobacillus ferrooxidans cytochrome c-type maturation protein ResB TR:Q9ZG10 (EMBL:AF220499) (591 aa) fasta scores: E(): 2.1e-39, 31.79% id in 673 aa; hypothetical protein 3854325..3856418 Bordetella pertussis Tohama I 2664953 NP_882160.1 CDS BP3652 NC_002929.2 3856428 3857762 D C-terminus is similar to the C-terminal region of Chlamydomonas reinhardtii cytochrome c biogenesis protein CcsA SW:CCSA_CHLRE (P48269) (353 aa) fasta scores: E(): 1.4e-16, 32.75% id in 287 aa. Similar to Neisseria meningitidis cytochrome c-type biogenesis protein NMB1803 TR:Q9JY05 (EMBL:AE002530) (395 aa) fasta scores: E(): 1.3e-41, 48.81% id in 422 aa; cytochrome c asssembly protein 3856428..3857762 Bordetella pertussis Tohama I 2664954 NP_882161.1 CDS lysA NC_002929.2 3857833 3859122 R Similar to Pseudomonas aeruginosa diaminopimelate decarboxylase LysA SW:DCDA_PSEAE (P19572) (415 aa) fasta scores: E(): 4.3e-93, 62.31% id in 414 aa, and to Vibrio cholerae diaminopimelate decarboxylase VC0125 SW:DCDA_VIBCH (Q9KVL7) (417 aa) fasta scores: E(): 7.7e-93, 59.28% id in 420 aa; diaminopimelate decarboxylase complement(3857833..3859122) Bordetella pertussis Tohama I 2664955 NP_882162.1 CDS cyaY NC_002929.2 3859336 3859665 D Similar to hypothetical protein Escherichia coli CyaY SW:CYAY_ECOLI (P27838) (106 aa) fasta scores: E(): 7.7e-13, 37.03% id in 108 aa, and to Vibrio cholerae hypothetical protein VC0123 SW:CYAY_VIBCH (Q9KVL8) (104 aa) fasta scores: E(): 2.2e-13, 44.34% id in 106 aa; hypothetical protein 3859336..3859665 Bordetella pertussis Tohama I 2664956 NP_882163.1 CDS BP3655 NC_002929.2 3859722 3862166 R Similar to Escherichia coli penicillin-binding protein 1A MrcA SW:PBPA_ECOLI (P02918) (850 aa) fasta scores: E(): 2.2e-84, 37.45% id in 841 aa, and to Pseudomonas aeruginosa penicillin-binding protein 1A PA5045 SW:PBPA_PSEAE (Q07806) (822 aa) fasta scores: E(): 2.6e-85, 40.69% id in 774 aa. Similar to BP0905, 67.640% identity (68.473% ungapped) in 822 aa overlap; penicillin-binding protein 1A complement(3859722..3862166) Bordetella pertussis Tohama I 2664957 NP_882164.1 CDS aroK NC_002929.2 3862280 3862915 D catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis; shikimate kinase 3862280..3862915 Bordetella pertussis Tohama I 2664958 NP_882165.1 CDS aroB NC_002929.2 3862915 3863991 D catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis; 3-dehydroquinate synthase 3862915..3863991 Bordetella pertussis Tohama I 2664959 NP_882166.1 CDS BP3658 NC_002929.2 3863988 3865142 D dGTPase family type 2 subfamily; presumably hydrolyzes dGTP to deoxyguanosine and triphosphate; deoxyguanosinetriphosphate triphosphohydrolase-like protein 3863988..3865142 Bordetella pertussis Tohama I 2664960 NP_882167.1 CDS BP3659 NC_002929.2 3865316 3865975 R Similar to Dianthus caryophyllus glutathione S-transferase 1 Gst1 SW:GTZ1_DIACA (P28342) (221 aa) fasta scores: E(): 2.2e-07, 31.6% id in 174 aa, and to Rhizobium meliloti glutathione S-transferase TR:CAC47844 (EMBL:AL591793) (215 aa) fasta scores: E(): 1.3e-35, 50.23% id in 211 aa; glutathione S-transferase complement(3865316..3865975) Bordetella pertussis Tohama I 2664961 NP_882168.1 CDS uvrA NC_002929.2 3866031 3868889 R Similar to Haemophilus influenzae excinuclease ABC subunit A UvrA SW:UVRA_HAEIN (P44410) (943 aa) fasta scores: E(): 0, 65.01% id in 949 aa, and to Salmonella typhimurium excinuclease ABC subunit A UvrA SW:UVRA_SALTY (P37434) (941 aa) fasta scores: E(): 0, 65.15% id in 950 aa; excinuclease ABC subunit A complement(3866031..3868889) Bordetella pertussis Tohama I 2664962 NP_882169.1 CDS BP3661 NC_002929.2 3869045 3870229 D Weakly similar to Escherichia coli tetracycline resistance protein TetA SW:TCR3_ECOLI (P02981) (396 aa) fasta scores: E(): 5.4e-10, 26.78% id in 392 aa. Similar to the N-terminal region of Pseudomonas aeruginosa probable MFS transporter PA4233 TR:Q9HWG1 (EMBL:AE004840) (462 aa) fasta scores: E(): 2.2e-58, 48.07% id in 389 aa; transporter 3869045..3870229 Bordetella pertussis Tohama I 2664963 NP_882170.1 CDS ssb NC_002929.2 3870462 3870962 D Similar to Proteus mirabilis single-strand binding protein Ssb SW:SSB_PROMI (P28046) (173 aa) fasta scores: E(): 2.4e-27, 56.72% id in 171 aa, and to Serratia marcescens single-strand binding protein Ssb SW:SSB_SERMA (P25762) (175 aa) fasta scores: E(): 3.9e-27, 56.32% id in 174 aa; single-strand binding protein 3870462..3870962 Bordetella pertussis Tohama I 2664964 NP_882171.1 CDS bfrC NC_002929.2 3871135 3873324 D Similar to Vibrio anguillarum ferric anguibactin receptor precursor FatA SW:FATA_VIBAN (P11461) (726 aa) fasta scores: E(): 1.9e-33, 24.84% id in 664 aa, and to Pseudomonas aeruginosa probable TonB-dependent receptor protein PA1910 TR:Q9I2J4 (EMBL:AE004617) (804 aa) fasta scores: E(): 6.2e-37, 28.2% id in 741 aa. Highly similar to Bordetella bronchiseptica unidentified ferric siderophore receptor BfrC TR:P94274 (EMBL:U79564) (724 aa) fasta scores: E(): 0, 98.61% id in 724 aa; ferric siderophore receptor 3871135..3873324 Bordetella pertussis Tohama I 2664965 NP_882172.1 CDS BP3664 NC_002929.2 3873340 3873858 D Similar to Pseudomonas aeruginosa hypothetical protein PA4095 TR:Q9HWT3 (EMBL:AE004825) (177 aa) fasta scores: E(): 2e-14, 32.23% id in 152 aa, and to Alcaligenes sp. 2,4'-dihydroxyacetophenone dioxygenase Dad TR:Q9REI7 (EMBL:AJ133820) (176 aa) fasta scores: E(): 3.3e-12, 31.69% id in 142 aa; hypothetical protein 3873340..3873858 Bordetella pertussis Tohama I 2664966 NP_882173.1 CDS BP3666 NC_002929.2 3874594 3875610 D Similar to Pseudomonas chlororaphis hypothetical protein TR:Q9L3W5 (EMBL:AJ271325) (336 aa) fasta scores: E(): 5.5e-29, 35.42% id in 319 aa, and to Alcaligenes eutrophus plasmid pENH91 hypothetical protein TR:Q9WXD0 (EMBL:AB019032) (336 aa) fasta scores: E(): 7.2e-29, 35.42% id in 319 aa; hypothetical protein 3874594..3875610 Bordetella pertussis Tohama I 2664973 NP_882174.1 CDS BP3667 NC_002929.2 3875664 3876458 D Similar to Streptomyces coelicolor GntR-family regulatory protein SC6F7.27c TR:Q9KZB5 (EMBL:AL353870) (261 aa) fasta scores: E(): 3e-05, 28% id in 250 aa, and to Deinococcus radiodurans GntR family transcriptional regulator DRA0211 TR:Q9RYU6 (EMBL:AE001863) (279 aa) fasta scores: E(): 2.3e-07, 28.38% id in 229 aa; GntR family transcriptional regulator 3875664..3876458 Bordetella pertussis Tohama I 2664974 NP_882175.1 CDS BP3668 NC_002929.2 3876563 3877396 R Similar to Pseudomonas putida plasmid NAH7 transcriptional activator protein NahR SW:NAHR_PSEPU (P10183) (300 aa) fasta scores: E(): 3.5e-26, 33.09% id in 278 aa, and to Ralstonia sp. U2 plasmid pWWU2 LysR-like regulator protein NagR TR:Q9EXL7 (EMBL:AF036940) (301 aa) fasta scores: E(): 2.2e-26, 35.12% id in 279 aa; transcriptional regulator complement(3876563..3877396) Bordetella pertussis Tohama I 2664975 NP_882176.1 CDS BP3669 NC_002929.2 3877676 3879166 D Catalyzes the hydrolytic cleavage of a carbon-halogen bond in N-ethylammeline; N-ethylammeline chlorohydrolase 3877676..3879166 Bordetella pertussis Tohama I 2664976 NP_882177.1 CDS BP3670 NC_002929.2 3879205 3880191 D Similar to Rhizobium meliloti hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 3.6e-35, 36.84% id in 323 aa, and to Comamonas testosteroni hypothetical protein OrfJ TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 3e-34, 36.19% id in 326 aa; hypothetical protein 3879205..3880191 Bordetella pertussis Tohama I 2664968 NP_882178.1 CDS BP3671 NC_002929.2 3880344 3881489 D Similar to Xylella fastidiosa hypothetical protein XF1470 TR:Q9PDA9 (EMBL:AE003977) (376 aa) fasta scores: E(): 4e-28, 43.31% id in 374 aa. Weak similarity to Rhizobium meliloti lipopolysaccharide core biosynthesis glycosyl transferase LpsE SW:LPSE_RHIME (Q9R9N1) (340 aa) fasta scores: E(): 1.1e-11, 29.49% id in 339 aa. Similar to BP2331, 69.315% identity (69.315% ungapped) in 365 aa overlap; glycosyl transferase family protein 3880344..3881489 Bordetella pertussis Tohama I 2664969 NP_882179.1 CDS BP3672 NC_002929.2 3881496 3882314 D Poor database matches. Weakly similar to Escherichia coli hypothetical protein YrbL SW:YRBL_ECOLI (P46021) (210 aa) fasta scores: E(): 0.024, 25.88% id in 197 aa. Also similar to BP2342, 45.673% identity (47.500% ungapped) in 208 aa overlap.; hypothetical protein 3881496..3882314 Bordetella pertussis Tohama I 2664970 NP_882180.1 CDS BP3673 NC_002929.2 3882473 3883444 D Similar to Salmonella typhimurium transcriptional activator protein MetR SW:METR_SALTY (P05984) (317 aa) fasta scores: E(): 1.9e-09, 25.67% id in 296 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA0816 TR:Q9I5C3 (EMBL:AE004516) (294 aa) fasta scores: E(): 4e-11, 27.39% id in 303 aa; LysR family transcriptional regulator 3882473..3883444 Bordetella pertussis Tohama I 2664971 NP_882181.1 CDS BP3674 NC_002929.2 3883503 3884471 D Similar to Escherichia coli taurine-binding periplasmic protein precursor TauA SW:TAUA_ECOLI (Q47537) (320 aa) fasta scores: E(): 5.4e-18, 31.84% id in 292 aa, and to Rhizobium meliloti taurine uptake ABC transporter periplasmic solute-binding protein TR:CAC49365 (EMBL:AL603645) (339 aa) fasta scores: E(): 1.7e-17, 31.02% id in 332 aa; taurine ABC transporter substrate-binding protein 3883503..3884471 Bordetella pertussis Tohama I 2664972 NP_882182.1 CDS BP3675 NC_002929.2 3884535 3885305 D Similar to Escherichia coli taurine transport system permease TauC SW:TAUC_ECOLI (Q47539) (275 aa) fasta scores: E(): 3.3e-34, 37.34% id in 241 aa, and to Pseudomonas aeruginosa probable permease of ABC taurine transporter PA3936 TR:Q9HX80 (EMBL:AE004811) (272 aa) fasta scores: E(): 1e-37, 39.5% id in 243 aa; ABC transporter permease 3884535..3885305 Bordetella pertussis Tohama I 2664977 NP_882183.1 CDS BP3676 NC_002929.2 3885314 3886084 D Similar to Escherichia coli taurine transport ATP-binding protein TauB SW:TAUB_ECOLI (Q47538) (255 aa) fasta scores: E(): 3.2e-30, 41.5% id in 253 aa, and to Rhizobium loti ATP-binding protein of ABC transporter MLL1253 TR:Q98KZ4 (EMBL:AP002997) (267 aa) fasta scores: E(): 8.4e-44, 47.65% id in 256 aa; ABC transporter ATP-binding protein 3885314..3886084 Bordetella pertussis Tohama I 2664978 NP_882184.1 CDS BP3677 NC_002929.2 3886112 3887428 D Similar to Pseudomonas aeruginosa hypothetical protein PA4186 TR:Q9HWJ5 (EMBL:AE004835) (439 aa) fasta scores: E(): 9.9e-53, 37.26% id in 432 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_L_1791p TR:AAK89468 (EMBL:AE008288) (468 aa) fasta scores: E(): 2.6e-27, 33.18% id in 446 aa; hypothetical protein 3886112..3887428 Bordetella pertussis Tohama I 2664979 NP_882186.1 CDS BP3679 NC_002929.2 3887750 3888394 R Similar to Streptomyces coelicolor positive regulator of secondary metabolite formation and sporulation CprA TR:O66121 (EMBL:AB000384) (215 aa) fasta scores: E(): 0.0019, 25% id in 164 aa, and to Streptomyces coelicolor TetR-family transcriptional regulator SCK13.32 TR:Q9AD73 (EMBL:AL512667) (200 aa) fasta scores: E(): 9.3e-12, 30.61% id in 196 aa. Possible alternative translational start sites; TetR family transcriptional regulator complement(3887750..3888394) Bordetella pertussis Tohama I 2664981 NP_882187.1 CDS glcB NC_002929.2 3888430 3890607 R catalyzes the formation of malate from glyoxylate and acetyl-CoA; malate synthase G complement(3888430..3890607) Bordetella pertussis Tohama I 2664982 NP_882188.1 CDS BP3682 NC_002929.2 3891613 3892740 R Similar to Agrobacterium tumefaciens conserved hypothetical protein AGR_C_1727p TR:AAK86751 (EMBL:AE008025) (366 aa) fasta scores: E(): 3e-75, 54.59% id in 359 aa, and to Bacillus stearothermophilus L-lysine dehydrogenase LysDH TR:Q9AJC6 (EMBL:AB052732) (385 aa) fasta scores: E(): 7.2e-15, 29.25% id in 376 aa; dehydrogenase complement(3891613..3892740) Bordetella pertussis Tohama I 2664984 NP_882189.1 CDS BP3683 NC_002929.2 3892966 3893139 R No significant database matches. Similar to N-terminal region of Ralstonia solanacearum probable flagellar hook-length control protein FliK TR:CAD17546 (EMBL:AL646078) (516 aa) fasta scores: E(): 9.2, 43.59% id in 39 aa. Similar to BP0266, BP1766, BP2719, BP3090, and BP3731; hypothetical protein complement(3892966..3893139) Bordetella pertussis Tohama I 2664985 NP_882190.1 CDS ubiA NC_002929.2 3893405 3894331 R catalyzes the conversion of 4-Hydroxybenzoate into 3-octaprenyl-4-hydroxybenzoate, as part of the ubiquinone biosynthesis pathway; 4-hydroxybenzoate octaprenyltransferase complement(3893405..3894331) Bordetella pertussis Tohama I 2664986 NP_882191.1 CDS BP3685 NC_002929.2 3894418 3895617 R Similar to Thermococcus litoralis alanine glyoxylate transaminase Agt TR:Q9C4M4 (EMBL:AB033996) (407 aa) fasta scores: E(): 5.7e-34, 34.76% id in 397 aa, and to Pyrococcus abyssi aminotransferase PAB2227 TR:Q9V282 (EMBL:AJ248283) (410 aa) fasta scores: E(): 5.1e-68, 47.44% id in 392 aa; aminotransferase complement(3894418..3895617) Bordetella pertussis Tohama I 2664987 NP_882192.1 CDS BP3686 NC_002929.2 3895756 3896250 D Similar to Xylella fastidiosa hypothetical protein XF1230 TR:Q9PDZ8 (EMBL:AE003957) (162 aa) fasta scores: E(): 6.4e-38, 60.39% id in 154 aa. N-terminal region is weakly similar to N-terminus of Escherichia coli xanthosine phosphorylase XapA SW:XAPA_ECOLI (P45563) (277 aa) fasta scores: E(): 2.1, 29.32% id in 133 aa; hypothetical protein 3895756..3896250 Bordetella pertussis Tohama I 2664988 NP_882193.1 CDS BP3687 NC_002929.2 3896532 3897365 D Similar to Nicotiana sylvestris dihydrodipicolinate synthase DHDPS-R1 TR:Q42940 (EMBL:X79060) (308 aa) fasta scores: E(): 4e-07, 26.61% id in 263 aa, and to Neisseria meningitidis dihydrodipicolinate synthase NMA1124 SW:DAPA_NEIMA (Q9JUU9) (291 aa) fasta scores: E(): 3.2e-13, 32.39% id in 284 aa; dihydrodipicolinate synthase 3896532..3897365 Bordetella pertussis Tohama I 2664989 NP_882194.1 CDS BP3689 NC_002929.2 3898820 3899371 R Similar to Escherichia coli hypothetical protein YgaU SW:UP04_ECOLI (P39169) (148 aa) fasta scores: E(): 1.3e-18, 49.32% id in 148 aa, and to Pseudomonas aeruginosa hypothetical protein PA5178 TR:Q9HU11 (EMBL:AE004930) (145 aa) fasta scores: E(): 6e-22, 54.11% id in 146 aa. Contains LysM (lysin motif) found in bacterial cell wall degradation enzymes; LysM domain/BON superfamily protein complement(3898820..3899371) Bordetella pertussis Tohama I 2664991 NP_882195.1 CDS BP3690 NC_002929.2 3899411 3899611 R Weakly similar to Pseudomonas aeruginosa hypothetical protein PA0380 TR:Q9I6B5 (EMBL:AE004475) (66 aa) fasta scores: E(): 9.2e-10, 54.54% id in 66 aa, and to Caulobacter crescentus hypothetical protein CC1881 TR:Q9A745 (EMBL:AE005862) (66 aa) fasta scores: E(): 4.8e-09, 50% id in 66 aa; hypothetical protein complement(3899411..3899611) Bordetella pertussis Tohama I 2664992 NP_882196.1 CDS BP3691 NC_002929.2 3899622 3900569 R Similar to Serratia marcescens proline iminopeptidase Pip SW:PIP_SERMA (O32449) (317 aa) fasta scores: E(): 3.1e-81, 63.34% id in 311 aa, and to Rhizobium meliloti proline iminopeptidase TR:CAC45694 (EMBL:AL591786) (316 aa) fasta scores: E(): 1.8e-86, 66.77% id in 310 aa; prolyl iminopeptidase complement(3899622..3900569) Bordetella pertussis Tohama I 2664935 NP_882197.1 CDS trmB NC_002929.2 3900570 3901334 R tRNA (guanine-N(7)-)-methyltransferase; catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA by transferring the methyl residue from S-adenosyl-L-methionine; tRNA (guanine-N(7)-)-methyltransferase complement(3900570..3901334) Bordetella pertussis Tohama I 2664936 NP_882198.1 CDS BP3693 NC_002929.2 3901428 3902327 D Similar to Rhodobacter capsulatus LysR-type transcriptional activator CbbRI TR:O34014 (EMBL:U87283) (298 aa) fasta scores: E(): 1.1e-17, 31.89% id in 301 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA0877 TR:Q9I568 (EMBL:AE004522) (298 aa) fasta scores: E(): 3.7e-42, 42.21% id in 289 aa; LysR family transcriptional regulator 3901428..3902327 Bordetella pertussis Tohama I 2664937 NP_882199.1 CDS BP3695 NC_002929.2 3903635 3904582 D Similar to Rattus norvegicus hydroxymethylglutaryl-CoA lyase, mitochondrial precursor HMGCL SW:HMGL_RAT (P97519) (325 aa) fasta scores: E(): 5.1e-38, 41.17% id in 272 aa, and to Bacillus subtilis hypothetical protein YngG TR:O34873 (EMBL:Z99113) (299 aa) fasta scores: E(): 2.6e-44, 48.17% id in 274 aa; hydroxymethylglutaryl-CoA lyase 3903635..3904582 Bordetella pertussis Tohama I 2664939 NP_882200.1 CDS BP3696 NC_002929.2 3904630 3905469 D Similar to Rhizobium meliloti hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.7e-36, 43.35% id in 256 aa, and to Agrobacterium tumefaciens AGR_L_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 2e-33, 39.4% id in 269 aa; hypothetical protein 3904630..3905469 Bordetella pertussis Tohama I 2664940 NP_882201.1 CDS BP3698 NC_002929.2 3906183 3907133 R transposase for IS481 element; transposase complement(3906183..3907133) Bordetella pertussis Tohama I 2664942 NP_882202.1 CDS BP3699 NC_002929.2 3907272 3908102 D Weakly similar to Rhizobium loti transcriptional regulator MLL4768 TR:Q98DC1 (EMBL:AP003004) (260 aa) fasta scores: E(): 1.1e-06, 24.49% id in 245 aa, and to Agrobacterium tumefaciens AGR_L_2068p agr_l_2068 TR:AAK89608 (EMBL:AE008303) (327 aa) fasta scores: E(): 1.2e-06, 26.31% id in 228 aa. Possible alternative translational start sites. Also similar to BP3702, 45.353% identity (46.743% ungapped) in 269 aa overlap.; GntR family transcriptional regulator 3907272..3908102 Bordetella pertussis Tohama I 2664943 NP_882203.1 CDS BP3700 NC_002929.2 3908115 3909107 R Similar to Rhizobium meliloti hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 3.7e-37, 37.23% id in 325 aa, and to Agrobacterium tumefaciens AGR_L_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 2.9e-35, 35.86% id in 329 aa; hypothetical protein complement(3908115..3909107) Bordetella pertussis Tohama I 2664924 NP_882204.1 CDS BP3701 NC_002929.2 3909288 3910337 R Similar to Bacillus subtilis aliphatic sulfonates binding protein precursor SsuA SW:SSUA_BACSU (P40400) (332 aa) fasta scores: E(): 2.1e-12, 28.88% id in 270 aa, and to Rhizobium loti taurine transport system periplasmic protein MLR4517 TR:Q98DW7 (EMBL:AP003004) (337 aa) fasta scores: E(): 2.5e-10, 25.07% id in 351 aa. Also similar to BP3704, 53.666% identity (54.464% ungapped) in 341 aa overlap; taurine ABC transporter substrate-binding protein complement(3909288..3910337) Bordetella pertussis Tohama I 2664925 NP_882205.1 CDS BP3702 NC_002929.2 3910391 3911182 R Similar to Pseudomonas putida histidine utilization repressor HutC SW:HUTC_PSEPU (P22773) (248 aa) fasta scores: E(): 3.5e-06, 27.38% id in 252 aa, and to Pseudomonas syringae HutC-like protein TR:Q9AGU6 (EMBL:AF326719) (249 aa) fasta scores: E(): 2.8e-07, 26.64% id in 274 aa. Also similar to BP3699, 45.353% identity (46.743% ungapped) in 269 aa overlap.; GntR family transcriptional regulator complement(3910391..3911182) Bordetella pertussis Tohama I 2664926 NP_882206.1 CDS BP3703 NC_002929.2 3911244 3912041 R Similar to Escherichia coli taurine transport system permease TauC SW:TAUC_ECOLI (Q47539) (275 aa) fasta scores: E(): 1.9e-33, 36.32% id in 256 aa, and to Pseudomonas aeruginosa probable permease of ABC taurine transporter PA3936 TR:Q9HX80 (EMBL:AE004811) (272 aa) fasta scores: E(): 1.4e-30, 37.34% id in 241 aa; transport system permease complement(3911244..3912041) Bordetella pertussis Tohama I 2664927 NP_882207.1 CDS BP3704 NC_002929.2 3912038 3913090 R Similar to Rhizobium loti taurine transport system periplasmic protein MLR4517 TR:Q98DW7 (EMBL:AP003004) (337 aa) fasta scores: E(): 7e-07, 25.44% id in 334 aa> N-terminus is similar to the N-terminal region of Bacillus subtilis aliphatic sulfonates binding protein precursor SsuA SW:SSUA_BACSU (P40400) (332 aa) fasta scores: E(): 1.1e-09, 28.33% id in 240 aa. Also similar to BP3701, 54.227% identity (55.689% ungapped) in 343 aa overlap; taurine ABC transporter substrate-binding protein complement(3912038..3913090) Bordetella pertussis Tohama I 2664944 NP_882208.1 CDS BP3705 NC_002929.2 3913118 3913987 R Similar to Escherichia coli taurine transport ATP-binding protein TauB SW:TAUB_ECOLI (Q47538) (255 aa) fasta scores: E(): 4.8e-33, 44.04% id in 252 aa, and to Rhizobium loti ATP-binding protein of ABC transporter MLL1253 TR:Q98KZ4 (EMBL:AP002997) (267 aa) fasta scores: E(): 2.1e-43, 49.07% id in 271 aa; taurine ABC transporter ATP-binding protein complement(3913118..3913987) Bordetella pertussis Tohama I 2664945 NP_882209.1 CDS BP3706 NC_002929.2 3914507 3915280 R Similar to Clostridium acetobutylicum 3-hydroxybutyryl-CoA dehydratase Crt SW:CRT_CLOAB (P52046) (261 aa) fasta scores: E(): 6.5e-26, 38.95% id in 249 aa, and to Thauera aromatica E-phenylitaconyl-CoA hydratase BbsH TR:Q9KJE7 (EMBL:AF173961) (256 aa) fasta scores: E(): 9e-28, 39.84% id in 256 aa; enoyl-CoA hydratase/isomerase family protein complement(3914507..3915280) Bordetella pertussis Tohama I 2664946 NP_882210.1 CDS BP3707 NC_002929.2 3915282 3916247 R Similar to Comamonas testosteroni hypothetical protein Orf4 TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 4.6e-34, 36.36% id in 319 aa, and to Rhizobium meliloti hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 8.8e-36, 36.65% id in 311 aa; hypothetical protein complement(3915282..3916247) Bordetella pertussis Tohama I 2664948 NP_882211.1 CDS BP3708 NC_002929.2 3916300 3917304 R Similar to Caulobacter crescentus zinc-containing alcohol dehydrogenase CC0770 TR:Q9AA38 (EMBL:AE005752) (325 aa) fasta scores: E(): 8.5e-43, 43.71% id in 334 aa, and to Rhodocyclus gelatinosus hypothetical protein TR:Q9JP93 (EMBL:AB034704) (326 aa) fasta scores: E(): 1.7e-42, 42.9% id in 331 aa; zinc-binding dehydrogenase complement(3916300..3917304) Bordetella pertussis Tohama I 2664949 NP_882212.1 CDS BP3709 NC_002929.2 3917301 3918494 R Similar to Rhodococcus sp. AD45 racemase IsoG TR:Q9RBP6 (EMBL:AJ249207) (405 aa) fasta scores: E(): 1.1e-50, 38% id in 400 aa, and to Streptomyces coelicolor racemase SCF41.21 TR:Q9RJU8 (EMBL:AL117387) (403 aa) fasta scores: E(): 4.8e-41, 37.56% id in 402 aa. Similar to BP0416, 52.525% identity (53.061% ungapped) in 396 aa overlap; racemase complement(3917301..3918494) Bordetella pertussis Tohama I 2664950 NP_882213.1 CDS BP3710 NC_002929.2 3918785 3919498 D Similar to Mycobacterium tuberculosis hypothetical protein MTV032.01 TR:O53641 (EMBL:AL021927) (214 aa) fasta scores: E(): 1.4e-07, 30.39% id in 204 aa, and to Streptomyces coelicolor TetR transcriptional regulator SCI30A.12c TR:Q9S261 (EMBL:AL096811) (251 aa) fasta scores: E(): 3.3e-05, 29.26% id in 205 aa; TetR family transcriptional regulator 3918785..3919498 Bordetella pertussis Tohama I 2664951 NP_882214.1 CDS nudC NC_002929.2 3919523 3920290 R Similar to Escherichia coli NADH pyrophosphatase NudC SW:NUDC_ECOLI (P32664) (257 aa) fasta scores: E(): 2.8e-27, 46.98% id in 166 aa. Similar to Pasteurella multocida NADH pyrophosphatase PM1735 SW:NUDC_PASMU (P57965) (264 aa) fasta scores: E(): 5e-31, 39.18% id in 245 aa; NADH pyrophosphatase complement(3919523..3920290) Bordetella pertussis Tohama I 2664952 NP_882215.1 CDS BP3712 NC_002929.2 3920371 3921315 R Similar to Pseudomonas pseudoalcaligenes phenoxybenzoate dioxygenase beta subunit PobB SW:POBB_PSEPS (Q52186) (319 aa) fasta scores: E(): 4.9e-32, 40.88% id in 318 aa, and to Pseudomonas sp CA10 reductase component TR:Q9AQN2 (EMBL:AB047548) (315 aa) fasta scores: E(): 2.9e-44, 49.13% id in 289 aa; oxidoreductase complement(3920371..3921315) Bordetella pertussis Tohama I 2665017 NP_882216.1 CDS BP3713 NC_002929.2 3921312 3922616 R Similar to Pseudomonas putida amidase SW:AMID_PSEPU (O69768) (466 aa) fasta scores: E(): 1.1e-18, 32.71% id in 434 aa, and to Bradyrhizobium japonicum malonamidase E2 TR:Q9ZIV5 (EMBL:AF012735) (432 aa) fasta scores: E(): 1.1e-39, 39.53% id in 387 aa. Also similar toBP0130, 45.679% identity (47.804% ungapped) in 405 aa overlap.; amidase complement(3921312..3922616) Bordetella pertussis Tohama I 2665018 NP_882217.1 CDS BP3714 NC_002929.2 3922613 3923458 R No significant database matches to the full length CDS. C-terminal region is similar to an internal region of Pseudomonas aeruginosa probable oxidoreductase PA5234 TR:Q9HTV6 (EMBL:AE004936) (325 aa) fasta scores: E(): 2.8e-05, 27.45% id in 204 aa, and Pseudomonas aeruginosa probable oxidoreductase PA3256 TR:Q9HYY4 (EMBL:AE004748) (320 aa) fasta scores: E(): 9.5e-05, 26.75% id in 228 aa; zinc-binding dehydrogenase complement(3922613..3923458) Bordetella pertussis Tohama I 2665019 NP_882218.1 CDS BP3715 NC_002929.2 3923527 3924441 D Similar to Erwinia chrysanthemi hydrogen peroxide-inducible genes activator OxyR SW:OXYR_ERWCH (Q9X725) (305 aa) fasta scores: E(): 2.9e-15, 27.92% id in 308 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA0218 TR:Q9I6S0 (EMBL:AE004459) (306 aa) fasta scores: E(): 1.6e-29, 34.42% id in 305 aa; LysR family transcriptional regulator 3923527..3924441 Bordetella pertussis Tohama I 2665020 NP_882219.1 CDS BP3716 NC_002929.2 3924457 3925602 R Similar to Salmonella typhimurium Leu/Ile/Val/Thr-binding protein precursor LivJ SW:LIVJ_SALTY (P17215) (365 aa) fasta scores: E(): 6.8e-10, 24.49% id in 343 aa, and to Streptomyces coelicolor branched amino acid binding secreted protein SC8A11.13 TR:Q9FBZ7 (EMBL:AL391041) (396 aa) fasta scores: E(): 6.9e-25, 29.91% id in 361 aa; hypothetical protein complement(3924457..3925602) Bordetella pertussis Tohama I 2665021 NP_882220.1 CDS BP3717 NC_002929.2 3925599 3926822 R Similar to Escherichia coli hypothetical protein YlbE SW:YLBE_ECOLI (P77129) (419 aa) fasta scores: E(): 2.8e-27, 32.27% id in 409 aa, and to Streptomyces coelicolor hypothetical protein SC3F9.09 TR:O69949 (EMBL:AL023862) (363 aa) fasta scores: E(): 0.11, 29.28% id in 379 aa; hypothetical protein complement(3925599..3926822) Bordetella pertussis Tohama I 2665022 NP_882221.1 CDS BP3718 NC_002929.2 3926819 3928417 R N-terminal region is similar to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport ATP-binding protein BraF SW:BRAF_PSEAE (P21629) (255 aa) fasta scores: E(): 7.3e-23, 38.15% id in 249 aa. Full length CDS is similar to Agrobacterium tumefaciens hypothetical protein AGR_pTi_138p TR:AAK91029 (EMBL:AE007933) (528 aa) fasta scores: E(): 1.6e-23, 29.79% id in 527 aa. CDS appears to contain two similar domains, N-terminal half of the protein is similar to the C-terminal half; branched-chain amino acid ABC transporter ATP-binding protein complement(3926819..3928417) Bordetella pertussis Tohama I 2665023 NP_882222.1 CDS BP3719 NC_002929.2 3928414 3929376 R Similar to the C-terminal region of Escherichia coli high-affinity branched-chain amino acid transport system permease LivM SW:LIVM_ECOLI (P22729) (425 aa) fasta scores: E(): 8.4e-09, 29.73% id in 333 aa, and to the full length Streptomyces coelicolor branched amino acid transport system permease SC8A11.12 TR:Q9FBZ8 (EMBL:AL391041) (349 aa) fasta scores: E(): 7.1e-26, 32.09% id in 324 aa; branched-chain amino acid ABC transporter permease complement(3928414..3929376) Bordetella pertussis Tohama I 2665024 NP_882223.1 CDS BP3720 NC_002929.2 3929373 3930242 R Similar to Pseudomonas aeruginosa high-affinity branched-chain amino acid transport system permease BraD SW:BRAD_PSEAE (P21627) (307 aa) fasta scores: E(): 1.3e-18, 34.88% id in 301 aa, and to Streptomyces coelicolor branched amino acid transport system permease SC8A11.11 TR:Q9FBZ9 (EMBL:AL391041) (290 aa) fasta scores: E(): 4.4e-34, 40.78% id in 282 aa; branched-chain amino acid ABC transporter permease complement(3929373..3930242) Bordetella pertussis Tohama I 2665025 NP_882224.1 CDS BP3721 NC_002929.2 3930242 3930880 R hypothetical protein complement(3930242..3930880) Bordetella pertussis Tohama I 2665026 NP_882225.1 CDS BP3722 NC_002929.2 3930939 3932300 R N-terminal region is similar to Pseudomonas pseudoalcaligenes phenoxybenzoate dioxygenase alpha subunit PobA SW:POBA_PSEPS (Q52185) (409 aa) fasta scores: E(): 6.4e-32, 36.9% id in 401 aa, and Pseudomonas putida phthalate 4,5-dioxygenase oxygenase subunit Pht3 SW:PHT3_PSEPU (Q05183) (439 aa) fasta scores: E(): 1.5e-24, 31.07% id in 399 aa; (Fe-S)-binding protein complement(3930939..3932300) Bordetella pertussis Tohama I 2665027 NP_882226.1 CDS BP3723 NC_002929.2 3932541 3932774 R hypothetical protein complement(3932541..3932774) Bordetella pertussis Tohama I 2665028 NP_882227.1 CDS BP3724 NC_002929.2 3933117 3934085 D Similar to Agrobacterium tumefaciens conserved hypothetical protein AGR_L_1509p TR:AAK89332 (EMBL:AE008274) (315 aa) fasta scores: E(): 1.8e-71, 60.81% id in 319 aa, and to Rhizobium loti hypothetical protein MLL5836 TR:Q98AV6 (EMBL:AP003007) (319 aa) fasta scores: E(): 8.1e-71, 63.15% id in 304 aa; hypothetical protein 3933117..3934085 Bordetella pertussis Tohama I 2665029 NP_882228.1 CDS nadC NC_002929.2 3934187 3935092 D catalyzes the formation of pyridine-2,3-dicarboxylate and 5-phospho-alpha-D-ribose 1-diphosphate from nictinate D-ribonucleotide; nicotinate-nucleotide pyrophosphorylase 3934187..3935092 Bordetella pertussis Tohama I 2665030 NP_882229.1 CDS BP3726 NC_002929.2 3935191 3936141 D transposase for IS481 element; transposase 3935191..3936141 Bordetella pertussis Tohama I 2665031 NP_882230.1 CDS BP3727 NC_002929.2 3936138 3937199 R Weakly similar to Rhizobium meliloti lipopolysaccharide core biosynthesis glycosyl transferase LpsD SW:LPSD_RHIME (Q9R9N0) (343 aa) fasta scores: E(): 0.0003, 23.14% id in 363 aa, and to Rhizobium meliloti glycosyltransferase SMB21242 TR:CAC49146 (EMBL:AL603644) (374 aa) fasta scores: E(): 3.9e-10, 27.92% id in 351 aa; glycosyl transferase family protein complement(3936138..3937199) Bordetella pertussis Tohama I 2665032 NP_882231.1 CDS rkpK NC_002929.2 3937196 3938518 R Similar to Rhizobium meliloti udp-glucose 6-dehydrogenase RkpK SW:UDG_RHIME (O54068) (437 aa) fasta scores: E(): 1e-76, 48.19% id in 442 aa, and to Burkholderia pseudomallei UDP-glucose dehydrogenase Udg TR:Q9WWX8 (EMBL:AF159428) (466 aa) fasta scores: E(): 8.3e-108, 63.07% id in 455 aa; UDP-glucose 6-dehydrogenase complement(3937196..3938518) Bordetella pertussis Tohama I 2664999 NP_882232.1 CDS BP3729 NC_002929.2 3938630 3940015 R Similar to Streptomyces coelicolor methylenomycin A resistance protein Mmr SW:MMR_STRCO (P11545) (475 aa) fasta scores: E(): 1e-23, 28.69% id in 453 aa, and to Escherichia coli hypothetical transport protein YebQ SW:YEBQ_ECOLI (P76269) (457 aa) fasta scores: E(): 6.1e-68, 44.69% id in 443 aa; hypothetical protein complement(3938630..3940015) Bordetella pertussis Tohama I 2665000 NP_882233.1 CDS glmU NC_002929.2 3940012 3941385 R Similar to Escherichia coli bifunctional protein [includes: UDP-N-acetylglucosamine pyrophosphorylase; glucosamine-1-phosphate N-acyltransferase] GlmU SW:GLMU_ECOLI (P17114) (456 aa) fasta scores: E(): 8.5e-84, 54.38% id in 456 aa, and to Pseudomonas aeruginosa glucosamine-1-phosphate acetyltransferase/N-acetylglucosamine-1-phosphate uridyltransferase PA5552 TR:Q9HT22 (EMBL:AE004967) (454 aa) fasta scores: E(): 4.4e-93, 59.34% id in 455 aa; UDP-N-acetylglucosamine synthesis bifunctional protein complement(3940012..3941385) Bordetella pertussis Tohama I 2665001 NP_882234.1 CDS BP3731 NC_002929.2 3941460 3942173 R Similar to Ralstonia solanacearum hypothetical protein rsc0305 rsc0305 or rs03272 SWALL:Q8Y2N0 (EMBL:AL646058) (294 aa) fasta scores: E(): 4e-07, 39.76% id in 259 aa; hypothetical protein complement(3941460..3942173) Bordetella pertussis Tohama I 2664994 NP_882235.1 CDS BP3732 NC_002929.2 3942389 3943033 R C-terminus is weakly similar to the C-terminal region of Salmonella typhimurium outer membrane lipoprotein precursor SlyB SW:SLYB_SALTY (Q53549) (155 aa) fasta scores: E(): 0.00012, 40% id in 105 aa, and to the full length Escherichia coli hypothetical protein YcfJ SW:YCFJ_ECOLI (P37796) (179 aa) fasta scores: E(): 1.3e-05, 31.48% id in 162 aa; hypothetical protein complement(3942389..3943033) Bordetella pertussis Tohama I 2664995 NP_882236.1 CDS BP3733 NC_002929.2 3943161 3943382 D Similar to Ralstonia solanacearum hypothetical protein Rsc3357 or Rs02632 SWALL:Q8XU37 (EMBL:AL646074) (75 aa) fasta scores: E(): 6.7e-14, 61.19% id in 67 aa; hypothetical protein 3943161..3943382 Bordetella pertussis Tohama I 2664996 NP_882237.1 CDS BP3734 NC_002929.2 3943554 3944156 R Similar to Caulobacter crescentus SCO1/2 family protein CC3503 TR:Q9A2Q3 (EMBL:AE006008) (190 aa) fasta scores: E(): 3.9e-28, 50% id in 170 aa, and to Rhizobium meliloti cytochrome c oxidase assembly factor transmembrane protein TR:CAC46733 (EMBL:AL591789) (199 aa) fasta scores: E(): 3e-20, 38.37% id in 172 aa; SCO1/SenC family protein complement(3943554..3944156) Bordetella pertussis Tohama I 2664997 NP_882238.1 CDS BP3735 NC_002929.2 3944176 3945069 R converts protoheme IX and farnesyl diphosphate to heme O; protoheme IX farnesyltransferase complement(3944176..3945069) Bordetella pertussis Tohama I 2664998 NP_882239.1 CDS BP3736 NC_002929.2 3945080 3946111 R Similar to Pseudomonas aeruginosa hypothetical protein PA0112 TR:Q9I720 (EMBL:AE004449) (357 aa) fasta scores: E(): 5.1e-44, 44% id in 325 aa, and to Xylella fastidiosa hypothetical protein XF1359 TR:Q9PDM0 (EMBL:AE003967) (387 aa) fasta scores: E(): 2.6e-27, 33.77% id in 382 aa; cytochrome oxidase assembly protein complement(3945080..3946111) Bordetella pertussis Tohama I 2665002 NP_882240.1 CDS BP3737 NC_002929.2 3946114 3946734 R Similar to Pseudomonas stutzeri hypothetical protein SW:YAPT_PSEST (P47206) (193 aa) fasta scores: E(): 0.061, 28.57% id in 182 aa, and to Pseudomonas aeruginosa hypothetical protein PA0111 TR:Q9I721 (EMBL:AE004449) (192 aa) fasta scores: E(): 3.2e-05, 27.88% id in 208 aa; hypothetical protein complement(3946114..3946734) Bordetella pertussis Tohama I 2665003 NP_882241.1 CDS BP3738 NC_002929.2 3946760 3947500 R Similar to the C-terminal regions of Streptomyces coelicolor membrane protein SCI8.14 TR:Q9RJ39 (EMBL:AL132644) (290 aa) fasta scores: E(): 2.5e-06, 30.31% id in 254 aa, and Schizosaccharomyces pombe surf-family protein SPBC1215.01 TR:Q9Y810 (EMBL:AL096846) (290 aa) fasta scores: E(): 1.6e-05, 24.38% id in 242 aa. Possible alternative translational start sites; hypothetical protein complement(3946760..3947500) Bordetella pertussis Tohama I 2665004 NP_882242.1 CDS BP3739 NC_002929.2 3947567 3947767 D Poor database matches. Similar to Pseudomonas aeruginosa hypothetical protein PA0109 TR:Q9I723 (EMBL:AE004449) (69 aa) fasta scores: E(): 0.0016, 35.48% id in 62 aa; hypothetical protein 3947567..3947767 Bordetella pertussis Tohama I 2665005 NP_882243.1 CDS coIII NC_002929.2 3947877 3948752 R Similar to Pseudomonas aeruginosa cytochrome c oxidase, subunit III PA0108 TR:Q9I724 (EMBL:AE004449) (295 aa) fasta scores: E(): 1.4e-52, 50.34% id in 288 aa, and to Dinornis giganteus cytochrome c oxidase subunit III TR:Q9B6W4 (EMBL:AY016013) (261 aa) fasta scores: E(): 1.4e-27, 40.42% id in 282 aa; cytochrome c oxidase subunit III complement(3947877..3948752) Bordetella pertussis Tohama I 2665006 NP_882244.1 CDS BP3741 NC_002929.2 3948789 3949013 R hypothetical protein complement(3948789..3949013) Bordetella pertussis Tohama I 2665007 NP_882245.1 CDS BP3742 NC_002929.2 3949027 3949149 R Poor database matches. Similar to Rhizobium meliloti hypothetical transmembrane protein SMC00130 TR:CAC45479 (EMBL:AL591785) (46 aa) fasta scores: E(): 7.9, 44.82% id in 29 aa, and to Paracoccus denitrificans cox locus hypothetical protein 2 SW:YCO2_PARDE (P08302) (89 aa) fasta scores: E(): 8.7, 46.42% id in 28 aa; hypothetical protein complement(3949027..3949149) Bordetella pertussis Tohama I 2665008 NP_882246.1 CDS ctaD NC_002929.2 3949184 3950791 R Similar to Bradyrhizobium japonicum cytochrome c oxidase polypeptide I CtaD SW:COX1_BRAJA (P31833) (541 aa) fasta scores: E(): 2.9e-117, 55.69% id in 544 aa, and to Pseudomonas aeruginosa cytochrome c oxidase, subunit I PA0106 TR:Q9I726 (EMBL:AE004449) (530 aa) fasta scores: E(): 3.8e-148, 68.65% id in 536 aa; cytochrome c oxidase polypeptide I complement(3949184..3950791) Bordetella pertussis Tohama I 2665009 NP_882247.1 CDS BP3744 NC_002929.2 3950902 3952080 R N-terminal region is similar to Paracoccus denitrificans cytochrome c oxidase polypeptide II precursor CtaC SW:COX2_PARDE (P08306) (298 aa) fasta scores: E(): 7.9e-29, 35.08% id in 285 aa. Similar to Pseudomonas aeruginosa cytochrome c oxidase, subunit II PA0105 TR:Q9I727 (EMBL:AE004449) (374 aa) fasta scores: E(): 6.2e-73, 53.16% id in 348 aa. C-terminal region contains cytochrome c domain; bifunctional N-acetyl glucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyl transferase GlmU complement(3950902..3952080) Bordetella pertussis Tohama I 2665010 NP_882248.1 CDS BP3745 NC_002929.2 3952328 3953161 D Similar to the N-terminal region of Schizosaccharomyces pombe thiamine pyrophosphokinase TNR3 SW:TNR3_SCHPO (P41888) (569 aa) fasta scores: E(): 2.8e-05, 23.9% id in 251 aa, and to the full length Neisseria meningitidis hypothetical protein NMA0394 TR:Q9JWF6 (EMBL:AL162753) (291 aa) fasta scores: E(): 7.8e-16, 32.63% id in 239 aa; hypothetical protein 3952328..3953161 Bordetella pertussis Tohama I 2665011 NP_882249.1 CDS BP3746 NC_002929.2 3953265 3955808 R N-terminus is similar to the N-terminal region of Oncorhynchus mykiss sodium-hydrogen exchange protein-beta SW:NAHB_ONCMY (Q01345) (759 aa) fasta scores: E(): 2.6e-22, 25.95% id in 447 aa, and to the full length Synechocystis sp. eukaryotic Na+/H+ exchanger SLR1727 TR:P73863 (EMBL:D90910) (527 aa) fasta scores: E(): 9e-32, 29.15% id in 511 aa. C-terminal region conatains a cyclic nucleotide-binding domain; sodium/hydrogen exchanger family protein complement(3953265..3955808) Bordetella pertussis Tohama I 2665012 NP_882250.1 CDS BP3747 NC_002929.2 3955986 3956798 D Similar to Pseudomonas aeruginosa hypothetical protein PA4969 TR:Q9HUJ6 (EMBL:AE004910) (272 aa) fasta scores: E(): 2.8e-42, 48.82% id in 256 aa, and to Anabaena sp. 3',5'-cyclic-nucleotide phosphodiesterase ALR5338 TR:BAB77037 (EMBL:AP003599) (266 aa) fasta scores: E(): 4.2e-30, 37.75% id in 249 aa; hypothetical protein 3955986..3956798 Bordetella pertussis Tohama I 2665013 NP_882251.1 CDS rpoH NC_002929.2 3957192 3958115 R binds with the catalytic core of RNA polymerase to produce the holoenzyme; this sigma factor is responsible for the expression of heat shock promoters; RNA polymerase factor sigma-32 complement(3957192..3958115) Bordetella pertussis Tohama I 2665014 NP_882252.1 CDS BP3749 NC_002929.2 3958223 3958861 R Poor database matches. Similar to Pseudomonas aeruginosa hypothetical protein PA1825 TR:Q9I2S0 (EMBL:AE004609) (214 aa) fasta scores: E(): 1.1e-07, 28.64% id in 199 aa; hypothetical protein complement(3958223..3958861) Bordetella pertussis Tohama I 2665015 NP_882253.1 CDS BP3750 NC_002929.2 3958972 3959820 R Similar to Homo sapiens esterase D ESD SW:ESTD_HUMAN (P10768) (282 aa) fasta scores: E(): 4.5e-60, 51.77% id in 282 aa, and to Pseudomonas aeruginosa probable esterase PA3628 TR:Q9HY02 (EMBL:AE004783) (283 aa) fasta scores: E(): 1.9e-60, 55.79% id in 276 aa; esterase complement(3958972..3959820) Bordetella pertussis Tohama I 2665016 NP_882254.1 CDS adhI NC_002929.2 3959822 3960928 R Similar to Rhodobacter sphaeroides alcohol dehydrogenase class III AdhI SW:ADHI_RHOSH (P72324) (376 aa) fasta scores: E(): 3.6e-113, 75.79% id in 376 aa, and to Anabaena azollae glutathione dependent formaldehyde dehydrogenase GDFALDH TR:O24687 (EMBL:U89767) (369 aa) fasta scores: E(): 5.2e-112, 75.33% id in 369 aa; alcohol dehydrogenase complement(3959822..3960928) Bordetella pertussis Tohama I 2665033 NP_882255.1 CDS BP3752 NC_002929.2 3961112 3961876 D Similar to Ralstonia solanacearum hypothetical protein Rsc2966 or Rs01331 SWALL:Q8XV65 (EMBL:AL646072) (241 aa) fasta scores: E(): 1.6e-25, 40.16% id in 249 aa, and to Rhizobium loti hypothetical protein MLL6832 TR:Q988A1 (EMBL:AP003010) (220 aa) fasta scores: E(): 7.7e-07, 30.3% id in 231 aa, and to Caulobacter crescentus hypothetical protein CC1445 TR:Q9A8A9 (EMBL:AE005819) (221 aa) fasta scores: E(): 0.00026, 25.53% id in 235 aa; hypothetical protein 3961112..3961876 Bordetella pertussis Tohama I 2665034 NP_882256.1 CDS gltB NC_002929.2 3962221 3966960 D Similar to Escherichia coli glutamate synthase [NADPH] large chain precursor GltB SW:GLTB_ECOLI (P09831) (1517 aa) fasta scores: E(): 8.3e-106, 44.45% id in 1597 aa, and to Deinococcus radiodurans glutamate synthase, large subunit DR0183 TR:Q9RXX2 (EMBL:AE001880) (1615 aa) fasta scores: E(): 0, 70.42% id in 1579 aa; glutamate synthase 3962221..3966960 Bordetella pertussis Tohama I 2665035 NP_882257.2 CDS gltD NC_002929.2 3966969 3968435 D 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; glutamate synthase 3966969..3968435 Bordetella pertussis Tohama I 2665036 NP_882258.1 CDS BP3755 NC_002929.2 3968727 3969365 D Similar to Vibrio cholerae outer membrane protein OmpW SW:OMPW_VIBCH (P17266) (217 aa) fasta scores: E(): 2.3e-18, 44.6% id in 213 aa, and to Escherichia coli outer membrane protein OmpW SW:OMPW_ECOLI (P21364) (212 aa) fasta scores: E(): 6.9e-32, 46.6% id in 206 aa; outer membrane protein 3968727..3969365 Bordetella pertussis Tohama I 2665037 NP_882259.1 CDS BP3756 NC_002929.2 3969447 3970430 D Similar to Rhizobium meliloti hypothetical protein SMA1927 TR:AAK65716 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.5e-48, 42.18% id in 320 aa, and to Pseudomonas chlororaphis hypothetical protein TR:Q9L3W5 (EMBL:AJ271325) (336 aa) fasta scores: E(): 3.1e-45, 42.94% id in 312 aa; hypothetical protein 3969447..3970430 Bordetella pertussis Tohama I 2665038 NP_882260.1 CDS BP3757 NC_002929.2 3970585 3971421 D Similar to Vibrio cholerae ABC transporter ATP-binding protein VC2520 TR:Q9KP56 (EMBL:AE004321) (267 aa) fasta scores: E(): 4.6e-41, 51.16% id in 258 aa, and to Neisseria meningitidis ABC transporter ATP-binding protein NMB1966 TR:Q9JXN0 (EMBL:AE002544) (266 aa) fasta scores: E(): 2.4e-40, 51.4% id in 249 aa; ABC transporter ATP-binding protein 3970585..3971421 Bordetella pertussis Tohama I 2665039 NP_882261.1 CDS BP3758 NC_002929.2 3971418 3972203 D Similar to Pseudomonas putida toluene tolerance protein Ttg2B TR:Q9Z401 (EMBL:AF106002) (265 aa) fasta scores: E(): 6.1e-45, 57.02% id in 242 aa, and to Pasteurella multocida hypothetical protein PM0175 TR:Q9CP79 (EMBL:AE006052) (261 aa) fasta scores: E(): 2.6e-48, 60.9% id in 243 aa; hypothetical protein 3971418..3972203 Bordetella pertussis Tohama I 2665040 NP_882262.1 CDS BP3759 NC_002929.2 3972216 3972722 D Similar to Pseudomonas putida toluene tolerance protein Ttg2C TR:Q9Z400 (EMBL:AF106002) (161 aa) fasta scores: E(): 4.7e-22, 46.54% id in 159 aa, and to Neisseria meningitidis outer membrane transport protein NMA0487 TR:Q9JR43 (EMBL:AL162753) (164 aa) fasta scores: E(): 3.3e-28, 53.04% id in 164 aa; mce related protein 3972216..3972722 Bordetella pertussis Tohama I 2665041 NP_882263.1 CDS BP3760 NC_002929.2 3972822 3973613 D Similar to Shigella flexneri lipoprotein required for intercellular spreading, VacJ SW:VACJ_SHIFL (P43262) (251 aa) fasta scores: E(): 2e-22, 35.77% id in 246 aa, and to Pseudomonas aeruginosa hypothetical protein PA2800 TR:Q9I043 (EMBL:AE004707) (234 aa) fasta scores: E(): 1.7e-27, 40.26% id in 231 aa; lipoprotein 3972822..3973613 Bordetella pertussis Tohama I 2665042 NP_882264.1 CDS BP3761 NC_002929.2 3973647 3974270 D Similar to Neisseria meningitidis periplasmic transport protein NMA0488 TR:Q9JW92 (EMBL:AL162753) (196 aa) fasta scores: E(): 4.3e-16, 33.82% id in 204 aa, and to Escherichia coli hypothetical protein YrbC SW:YRBC_ECOLI (P45390) (211 aa) fasta scores: E(): 1.8e-12, 29.41% id in 204 aa; hypothetical protein 3973647..3974270 Bordetella pertussis Tohama I 2665043 NP_882265.1 CDS BP3764 NC_002929.2 3975186 3976001 D Similar to Neisseria meningitidis capsule polysaccharide export inner-membrane protein CtrC SW:CTRC_NEIMB (P32015) (265 aa) fasta scores: E(): 7e-06, 27.23% id in 257 aa, and to Caulobacter crescentus ABC-2 type transporter CC2244 TR:Q9A651 (EMBL:AE005895) (273 aa) fasta scores: E(): 9.4e-38, 47.81% id in 274 aa; polysaccharide ABC transporter permease 3975186..3976001 Bordetella pertussis Tohama I 2665045 NP_882266.1 CDS BP3765 NC_002929.2 3976001 3976252 D Similar to Escherichia coli general stress response and morphology regulator BolA SW:BOLA_ECOLI (P15298) (105 aa) fasta scores: E(): 0.00069, 38.46% id in 52 aa, and to Neisseria meningitidis hypothetical protein NMA0256 TR:Q9JWS9 (EMBL:AL162752) (82 aa) fasta scores: E(): 3.3e-10, 52.63% id in 76 aa; BolA-like protein 3976001..3976252 Bordetella pertussis Tohama I 2665048 NP_882267.1 CDS murA NC_002929.2 3976252 3977520 D adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active; UDP-N-acetylglucosamine 1-carboxyvinyltransferase 3976252..3977520 Bordetella pertussis Tohama I 2665049 NP_882268.1 CDS hisG NC_002929.2 3977517 3978188 D short form of enzyme; requires HisZ for function; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms heteromultimer of HisG and HisZ; ATP phosphoribosyltransferase 3977517..3978188 Bordetella pertussis Tohama I 2665050 NP_882269.1 CDS hisD NC_002929.2 3978239 3979543 D catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer; histidinol dehydrogenase 3978239..3979543 Bordetella pertussis Tohama I 2665051 NP_882270.1 CDS hisC NC_002929.2 3979540 3980637 D catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis; histidinol-phosphate aminotransferase 3979540..3980637 Bordetella pertussis Tohama I 2665052 NP_882271.1 CDS hisB NC_002929.2 3980630 3981226 D catalyzes the dehydration of D-erythro-1-(imidazol-4-yl)glycerol 3-phosphate to 3-(imidazol-4-yl)-2-oxopropyl phosphate in histidine biosynthesis; imidazoleglycerol-phosphate dehydratase 3980630..3981226 Bordetella pertussis Tohama I 2665053 NP_882272.1 CDS hisH NC_002929.2 3981258 3981935 D with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide; imidazole glycerol phosphate synthase subunit HisH 3981258..3981935 Bordetella pertussis Tohama I 2665054 NP_882273.1 CDS hisA NC_002929.2 3981999 3982739 D catalyzes the formation of 5-(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino-l- (5-phosphoribosyl)imidazole-4-carboxamide from 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide; 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase 3981999..3982739 Bordetella pertussis Tohama I 2665055 NP_882274.1 CDS hisF NC_002929.2 3982736 3983545 D catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamideand glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase; imidazole glycerol phosphate synthase subunit HisF 3982736..3983545 Bordetella pertussis Tohama I 2665056 NP_882275.1 CDS hisI NC_002929.2 3983542 3983946 D PR-AMP cyclohydrolase; functions in histidine biosynthesis from PRPP; converts 1-(5-phosphoribosyl)-AMP to 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino]imidazole-4- carboxyamide during the histidine biosynthesis pathway; binds zinc and magnesium; forms homodimers; phosphoribosyl-AMP cyclohydrolase 3983542..3983946 Bordetella pertussis Tohama I 2665060 NP_882276.1 CDS hisE NC_002929.2 3983943 3984290 D catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribolsyl)-ATP in histidine biosynthesis; phosphoribosyl-ATP pyrophosphatase 3983943..3984290 Bordetella pertussis Tohama I 2665061 NP_882277.1 CDS BP3776 NC_002929.2 3984305 3984673 D Similar to Homo sapiens protein kinase C interacting protein 1, PKCI-1 SW:HINT_HUMAN (P49773) (125 aa) fasta scores: E(): 3.1e-16, 44.86% id in 107 aa, and to Neisseria gonorrhoeae histidine triad containing protein HitA SW:HITA_NEIGO (O07817) (107 aa) fasta scores: E(): 6.5e-18, 52.29% id in 109 aa; MttA/Hcf106 family protein 3984305..3984673 Bordetella pertussis Tohama I 2665062 NP_882278.1 CDS tatA NC_002929.2 3984689 3984916 D TatA; similar to TatE that is found in some proteobacteria; part of system that translocates proteins with a conserved twin arginine motif across the inner membrane; capable of translocating folded substrates typically those with bound cofactors; similar to a protein import system in thylakoid membranes; twin arginine translocase A 3984689..3984916 Bordetella pertussis Tohama I 2665063 NP_882279.1 CDS tatB NC_002929.2 3984989 3985432 D Similar to the N-terminal regions of Escherichia coli Sec-independent protein translocase tatb tatb or mtta2 or b3838 or z5359 or ecs4767 SW:TATB_ECOLI (O69415) (171 aa) fasta scores: E(): 0.0003, 27.97% id in 143 aa, and Neisseria meningitidis Sec-independent protein translocase TatB homologue NMB0600 SW:TATB_NEIMB (Q9K0J6) (228 aa) fasta scores: E(): 1.6e-09, 39.43% id in 142 aa; Sec-independent protein translocase 3984989..3985432 Bordetella pertussis Tohama I 2665064 NP_882280.1 CDS tatC NC_002929.2 3985429 3986229 D Similar to Escherichia coli Sec-independent protein translocase TatC SW:TATC_ECOLI (P27857) (258 aa) fasta scores: E(): 5.5e-47, 49.39% id in 249 aa, and to Neisseria meningitidis hypothetical protein NMB0599 TR:Q9K0J7 (EMBL:AE002415) (256 aa) fasta scores: E(): 2.6e-49, 54.25% id in 247 aa; Sec-independent protein translocase 3985429..3986229 Bordetella pertussis Tohama I 2665065 NP_882281.1 CDS BP3782 NC_002929.2 3987011 3987991 D Similar to Comamonas testosteroni hypothetical protein OrfJ TR:Q9RHM9 (EMBL:AB029044) (326 aa) fasta scores: E(): 4.3e-43, 41.71% id in 326 aa, and to Agrobacterium tumefaciens hypothetical protein AGR_L_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 1.5e-38, 39.81% id in 319 aa; hypothetical protein 3987011..3987991 Bordetella pertussis Tohama I 2665067 NP_882282.1 CDS ptxA NC_002929.2 3988258 3989067 D Previously sequenced as Bordetella pertussis pertussis toxin subunit 1 precursor, NAD-dependent ADP-ribosyltransferase, PtxA SW:TOX1_BORPE (P04977) (269 aa) fasta scores: E(): 1.5e-110, 100% id in 269 aa; toxin subunit 1 3988258..3989067 Bordetella pertussis Tohama I 2665068 NP_882283.1 CDS ptxB NC_002929.2 3989107 3989787 D Previously sequenced as Bordetella pertussis pertussis toxin subunit 2 precursor PtxB SW:TOX2_BORPE (P04978) (226 aa) fasta scores: E(): 5.2e-95, 99.55% id in 226 aa. Similar to Bordetella pertussis pertussis toxin subunit 3 precursor PtxC SW:TOX3_BORPE (P04979) (227 aa) fasta scores: E(): 1.7e-64, 68.61% id in 223 aa. Similar to BP3787, 67.544% identity (67.544% ungapped) in 228 aa overlap; toxin subunit 2 3989107..3989787 Bordetella pertussis Tohama I 2665069 NP_882284.1 CDS ptxD NC_002929.2 3989781 3990239 D Previously sequenced as Bordetella pertussis pertussis toxin subunit 4 precursor PtxD SW:TOX4_BORPE (P04980) (152 aa) fasta scores: E(): 9.8e-60, 100% id in 152 aa; toxin subunit 4 3989781..3990239 Bordetella pertussis Tohama I 2665406 NP_882285.1 CDS ptxE NC_002929.2 3990212 3990613 D Previously sequenced as Bordetella pertussis pertussis toxin subunit 5 precursor PtxE SW:TOX5_BORPE (P04981) (133 aa) fasta scores: E(): 2.7e-50, 100% id in 120 aa; toxin subunit 5 3990212..3990613 Bordetella pertussis Tohama I 2665407 NP_882286.1 CDS ptxC NC_002929.2 3990696 3991379 D Previously sequenced as Bordetella pertussis pertussis toxin subunit 3 precursor PtxC SW:TOX3_BORPE (P04979) (227 aa) fasta scores: E(): 4.4e-92, 100% id in 227 aa. Similar to Bordetella pertussis pertussis toxin subunit 2 precursor PtxB SW:TOX2_BORPE (P04978) (226 aa) fasta scores: E(): 3.2e-62, 68.16% id in 223 aa. Similar to BP3784, 67.544% identity (67.544% ungapped) in 228 aa overlap; toxin subunit 3 3990696..3991379 Bordetella pertussis Tohama I 2665408 NP_882287.1 CDS ptlA NC_002929.2 3991435 3991743 D Previously sequenced as Bordetella pertussis pertussis toxin transport protein PtlA TR:Q45390 (EMBL:M14378) (102 aa) fasta scores: E(): 5.8e-38, 100% id in 102 aa. Similar to Brucella suis and Brucella abortus type IV secretion system protein VirB2 TR:Q9RPY3 (EMBL:AF141604) (105 aa) fasta scores: E(): 2e-13, 49.48% id in 97 aa; toxin transport protein 3991435..3991743 Bordetella pertussis Tohama I 2665409 NP_882288.1 CDS ptlB NC_002929.2 3991762 3992076 D Previously sequenced as Bordetella pertussis pertussis toxin transport protein PtlB TR:Q45391 (EMBL:M14378) (104 aa) fasta scores: E(): 1.4e-43, 100% id in 104 aa. Similar to Brucella suis and Brucella abortus type IV secretion system protein VirB3 TR:Q9RPY2 (EMBL:AF141604) (116 aa) fasta scores: E(): 3.7e-16, 45.36% id in 97 aa; toxin transport protein 3991762..3992076 Bordetella pertussis Tohama I 2665410 NP_882289.1 CDS BP3790 NC_002929.2 3992073 3994547 D Similar to Agrobacterium tumefaciens (plasmid pTiC58) T-DNA transport apparatus protein VirB4 SW:VIB4_AGRT9 (P05353) (789 aa) fasta scores: E(): 2.9e-40, 32.68% id in 817 aa, and to Brucella abortus type IV secretion system protein VirB4 TR:Q9KIS9 (EMBL:AF226278) (831 aa) fasta scores: E(): 1.2e-176, 52.61% id in 823 aa; secretion system protein 3992073..3994547 Bordetella pertussis Tohama I 2665411 NP_882290.1 CDS BP3791 NC_002929.2 3994555 3995946 D Poor database matches. C-terminal region is similar to Caulobacter crescentus hypothetical protein CC2420 TR:Q9A5M7 (EMBL:AE005911) (386 aa) fasta scores: E(): 0.019, 26.98% id in 352 aa, and Escherichia coli plasmid pKM101 conjugal transfer protein TR:O50333 (EMBL:X81123) (342 aa) fasta scores: E(): 0.002, 22.22% id in 315 aa; hypothetical protein 3994555..3995946 Bordetella pertussis Tohama I 2665412 NP_882291.1 CDS BP3792 NC_002929.2 3995943 3996128 D Similar to Brucella suis and Brucella abortus type IV secretion system protein VirB7 TR:Q9RPX8 (EMBL:AF141604) (57 aa) fasta scores: E(): 0.51, 37.2% id in 43 aa; secretion system protein 3995943..3996128 Bordetella pertussis Tohama I 2665413 NP_882292.1 CDS BP3793 NC_002929.2 3996107 3996808 D Similar to Agrobacterium tumefaciens (plasmid pTiC58) T-DNA transport apparatus protein Virb8 SW:VIB8_AGRT5 (P17798) (237 aa) fasta scores: E(): 6.4e-11, 31.96% id in 219 aa, and to Brucella suis and Brucella abortus type IV secretion system protein VirB8 TR:Q9RPX7 (EMBL:AF141604) (239 aa) fasta scores: E(): 8e-38, 40.77% id in 233 aa; secretion system protein 3996107..3996808 Bordetella pertussis Tohama I 2665414 NP_882293.1 CDS BP3794 NC_002929.2 3996805 3997626 D Similar to Agrobacterium tumefaciens (plasmid pTiC58) T-DNA transport apparatus protein VirB9 SW:VIB9_AGRT5 (P17799) (293 aa) fasta scores: E(): 0.15, 27.88% id in 269 aa, and to Brucella suis and Brucella abortus type IV secretion system protein VirB9 TR:Q9RPX6 (EMBL:AF141604) (289 aa) fasta scores: E(): 7.4e-34, 43.66% id in 284 aa; secretion system protein 3996805..3997626 Bordetella pertussis Tohama I 2665402 NP_882294.1 CDS BP3795 NC_002929.2 3997607 3998731 D Similar to Agrobacterium tumefaciens (plasmids pTi15955 and pTiA6) T-DNA transport apparatus protein VirB10 SW:VIBX_AGRT5 (P17800) (377 aa) fasta scores: E(): 7.1e-18, 38.01% id in 313 aa, and to Brucella abortus type IV secretion system protein VirB10 TR:Q9KIS6 (EMBL:AF226278) (388 aa) fasta scores: E(): 5e-22, 36.36% id in 363 aa; secretion system protein 3997607..3998731 Bordetella pertussis Tohama I 2665403 NP_882295.1 CDS BP3796 NC_002929.2 3998724 3999743 D Similar to Agrobacterium tumefaciens (plasmids pTi15955 and pTiA6) T-DNA transport apparatus protein VirB11 SW:VIBY_AGRT9 (P05360) (343 aa) fasta scores: E(): 1.4e-25, 35.91% id in 323 aa, and to Brucella abortus type IV secretion system protein VirB11 TR:Q9KIS5 (EMBL:AF226278) (362 aa) fasta scores: E(): 1e-48, 47.91% id in 336 aa; secretion system protein 3998724..3999743 Bordetella pertussis Tohama I 2665404 NP_882296.1 CDS BP3797 NC_002929.2 3999949 4000839 R Similar to Escherichia coli probable amino acid metabolite efflux pump EamA SW:EAMA_ECOLI (P31125) (299 aa) fasta scores: E(): 2.9e-09, 27.39% id in 303 aa, and to Pseudomonas aeruginosa hypothetical protein PA3897 TR:Q9HXB6 (EMBL:AE004807) (300 aa) fasta scores: E(): 9.8e-78, 73.44% id in 290 aa; hypothetical protein complement(3999949..4000839) Bordetella pertussis Tohama I 2665405 NP_882297.1 CDS BP3798 NC_002929.2 4000982 4001875 D Similar to Pseudomonas aeruginosa probable transcriptional regulator PA3898 TR:Q9HXB5 (EMBL:AE004807) (293 aa) fasta scores: E(): 1.4e-56, 53.1% id in 290 aa, and to Pantoea citrea regulatory protein GdhBR TR:Q9Z676 (EMBL:AF102513) (288 aa) fasta scores: E(): 2.5e-29, 36.95% id in 276 aa; AraC family transcriptional regulator 4000982..4001875 Bordetella pertussis Tohama I 2665070 NP_882298.1 CDS BP3799 NC_002929.2 4001958 4002332 D Similar to Rhizobium meliloti hypothetical protein SMC03833 TR:CAC47795 (EMBL:AL591793) (125 aa) fasta scores: E(): 8.8e-09, 40.18% id in 107 aa, and to Rhizobium loti hypothetical protein MLR4351 TR:Q98E91 (EMBL:AP003003) (120 aa) fasta scores: E(): 1.6e-07, 39.78% id in 93 aa; hypothetical protein 4001958..4002332 Bordetella pertussis Tohama I 2665071 NP_882299.1 CDS BP3800 NC_002929.2 4002310 4003719 D Similar to Pseudomonas aeruginosa hypothetical protein PA0345 TR:Q9I6E8 (EMBL:AE004472) (461 aa) fasta scores: E(): 1.1e-68, 49.78% id in 460 aa, and to Neisseria meningitidis integral membrane protein NMA1899 TR:Q9JTB3 (EMBL:AL162757) (449 aa) fasta scores: E(): 9.2e-20, 31.6% id in 443 aa; hypothetical protein 4002310..4003719 Bordetella pertussis Tohama I 2665072 NP_882300.1 CDS BP3801 NC_002929.2 4003712 4005094 D Similar to Pseudomonas aeruginosa hypothetical protein PA0344 TR:Q9I6E9 (EMBL:AE004472) (459 aa) fasta scores: E(): 6.6e-91, 58.07% id in 458 aa, and to Neisseria meningitidis hypothetical protein NMB1644 TR:Q9JYD1 (EMBL:AE002515) (446 aa) fasta scores: E(): 5.1e-40, 39.78% id in 465 aa; hypothetical protein 4003712..4005094 Bordetella pertussis Tohama I 2665073 NP_882301.1 CDS BP3802 NC_002929.2 4005429 4007033 D Similar to Rhodobacter sphaeroides f. sp. denitrificans dipeptide transport protein DppA TR:Q9F1X4 (EMBL:AB036425) (533 aa) fasta scores: E(): 7.6e-14, 28.18% id in 550 aa, and to Rhizobium meliloti peptide-binding periplasmic ABC transporter protein SMC02417 TR:CAC47172 (EMBL:AL591791) (520 aa) fasta scores: E(): 1.3e-53, 37.81% id in 521 aa; peptide ABC transporter substrate-binding protein 4005429..4007033 Bordetella pertussis Tohama I 2665074 NP_882302.1 CDS BP3803 NC_002929.2 4007111 4008082 D Similar to Bacillus subtilis oligopeptide transport system permease AppB SW:APPB_BACSU (P42062) (317 aa) fasta scores: E(): 3.4e-37, 38% id in 321 aa, and to Agrobacterium tumefaciens AGR_L_368p TR:AAK88754 (EMBL:AE008216) (332 aa) fasta scores: E(): 6.1e-73, 59.69% id in 325 aa. Similar to BP3236, 70.533% identity (70.533% ungapped) in 319 aa overlap; transport system permease 4007111..4008082 Bordetella pertussis Tohama I 2665075 NP_882303.1 CDS BP3804 NC_002929.2 4008093 4009019 D Similar to Escherichia coli dipeptide transport system permease DppC SW:DPPC_ECOLI (P37315) (300 aa) fasta scores: E(): 6.7e-20, 39.79% id in 294 aa, and to Agrobacterium tumefaciens AGR_L_366p TR:AAK88753 (EMBL:AE008216) (315 aa) fasta scores: E(): 1.3e-63, 56% id in 300 aa; transport system permease 4008093..4009019 Bordetella pertussis Tohama I 2665076 NP_882304.1 CDS BP3806 NC_002929.2 4009410 4010360 R transposase for IS481 element; transposase complement(4009410..4010360) Bordetella pertussis Tohama I 2665078 NP_882305.1 CDS argJ NC_002929.2 4010530 4011756 D bifunctional arginine biosynthesis protein ArgJ; functions at the 1st and 5th steps in arginine biosynthesis; involved in synthesis of acetylglutamate from glutamate and acetyl-CoA and ornithine by transacetylation between acetylornithine and glutmate; bifunctional ornithine acetyltransferase/N-acetylglutamate synthase 4010530..4011756 Bordetella pertussis Tohama I 2665079 NP_882306.1 CDS BP3808 NC_002929.2 4011956 4012822 D Similar to Neisseria meningitidis hypothetical protein NMA1415 TR:Q9JUA7 (EMBL:AL162755) (287 aa) fasta scores: E(): 6.7e-54, 56.38% id in 282 aa, and to Pseudomonas aeruginosa hypothetical protein PA2823 TR:Q9I020 (EMBL:AE004709) (296 aa) fasta scores: E(): 1.3e-48, 50% id in 288 aa; hypothetical protein 4011956..4012822 Bordetella pertussis Tohama I 2665080 NP_882307.1 CDS BP3809 NC_002929.2 4012815 4013777 D N-terminus is similar to Proteus vulgaris mutator protein MutT SW:MUTT_PROVU (P32090) (112 aa) fasta scores: E(): 6.6e-08, 43.15% id in 95 aa, and to Xylella fastidiosa bifunctional dGTP-pyrophosphohydrolase/thiamine phosphate synthase XF1120 TR:Q9PEA8 (EMBL:AE003948) (320 aa) fasta scores: E(): 3.5e-29, 38.75% id in 320 aa; hypothetical protein 4012815..4013777 Bordetella pertussis Tohama I 2665081 NP_882308.1 CDS BP3810 NC_002929.2 4013878 4014828 D transposase for IS1002 element; transposase 4013878..4014828 Bordetella pertussis Tohama I 2665082 NP_882309.1 CDS BP3811 NC_002929.2 4014927 4015877 D transposase for IS481 element; transposase 4014927..4015877 Bordetella pertussis Tohama I 2665083 NP_882310.1 CDS BP3812 NC_002929.2 4015874 4017358 R Similar to Pseudomonas aeruginosa outer membrane protein precursor OprM SW:OPRM_PSEAE (Q51487) (485 aa) fasta scores: E(): 2.1e-35, 32.58% id in 488 aa, and to Pseudomonas aeruginosa probable outer membrane lipoprotein precursor PA2525 TR:Q9I0V8 (EMBL:AE004680) (498 aa) fasta scores: E(): 2e-79, 57.41% id in 479 aa; outer membrane efflux protein complement(4015874..4017358) Bordetella pertussis Tohama I 2665087 NP_882311.1 CDS BP3813 NC_002929.2 4017364 4020471 R Similar to Escherichia coli hypothetical protein YegO SW:YEGO_ECOLI (P76399) (1025 aa) fasta scores: E(): 0, 60.8% id in 1023 aa, and to Pseudomonas aeruginosa probable RND efflux transporter PA2526 TR:Q9I0V7 (EMBL:AE004680) (1036 aa) fasta scores: E(): 0, 61.08% id in 1033 aa. Similar to BP3814, 50.193% identity (51.590% ungapped) in 1034 aa overlap; AcrB/AcrD/AcrF family protein complement(4017364..4020471) Bordetella pertussis Tohama I 2665088 NP_882312.1 CDS BP3814 NC_002929.2 4020468 4023536 R Similar to Pseudomonas aeruginosa probable RND efflux transporter PA1436 TR:Q9I3R1 (EMBL:AE004573) (1036 aa) fasta scores: E(): 1.2e-171, 50.49% id in 1016 aa, and to Rhizobium loti RND efflux transporter MLL5779 TR:Q98B06 (EMBL:AP003007) (1038 aa) fasta scores: E(): 2.3e-168, 52.25% id in 1020 aa. Similar to BP3813, 50.193% identity (51.590% ungapped) in 1034 aa overlap; AcrB/AcrD/AcrF family protein complement(4020468..4023536) Bordetella pertussis Tohama I 2665084 NP_882313.1 CDS BP3815 NC_002929.2 4023533 4024783 R Similar to Pseudomonas aeruginosa probable RND efflux membrane fusion protein precursor PA2528 TR:Q9I0V5 (EMBL:AE004680) (426 aa) fasta scores: E(): 1.6e-64, 51.74% id in 402 aa, and to Burkholderia solanacearum resistance transmembrane protein RSP1197 TR:CAD18348 (EMBL:AL646083) (449 aa) fasta scores: E(): 1.6e-69, 51.71% id in 408 aa; HlyD family secretion protein complement(4023533..4024783) Bordetella pertussis Tohama I 2665085 NP_882314.1 CDS BP3816 NC_002929.2 4024964 4025725 R Similar to Vibrio cholerae hypothetical protein VC2428 TR:Q9KPE2 (EMBL:AE004312) (246 aa) fasta scores: E(): 1.1e-22, 31.3% id in 246 aa, and to Escherichia coli hypothetical protein YacF SW:YACF_ECOLI (P36680) (247 aa) fasta scores: E(): 1.7e-20, 31.72% id in 249 aa; hypothetical protein complement(4024964..4025725) Bordetella pertussis Tohama I 2667572 NP_882315.1 CDS coaE NC_002929.2 4025758 4026402 R catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis; dephospho-CoA kinase complement(4025758..4026402) Bordetella pertussis Tohama I 2667573 NP_882316.1 CDS BP3818 NC_002929.2 4026411 4027391 R Similar to Pseudomonas aeruginosa type 4 prepilin-like proteins leader peptide processing enzyme [includes: prepilin peptidase; and N-methyltransferase] PilD SW:LEP4_PSEAE (P22610) (290 aa) fasta scores: E(): 1.3e-38, 46.57% id in 277 aa, and to Burkholderia pseudomallei type 4 prepilin-like proteins leader peptide processing enzyme GspO SW:LEP4_BURPS (Q9ZF70) (275 aa) fasta scores: E(): 2.5e-42, 50.36% id in 272 aa; type 4 prepilin-like proteins leader peptide processing enzyme complement(4026411..4027391) Bordetella pertussis Tohama I 2667574 NP_882317.1 CDS BP3819 NC_002929.2 4027491 4028234 D Poor database matches. Weakly similar to Vibrio cholerae lipoprotein VC1962 TR:Q9KQN6 (EMBL:AE004271) (163 aa) fasta scores: E(): 0.065, 28.36% id in 141 aa; hypothetical protein 4027491..4028234 Bordetella pertussis Tohama I 2667575 NP_882318.1 CDS BP3820 NC_002929.2 4028317 4028664 R Similar to the C-terminal regions of Salmonella typhimurium transcriptional regulatory protein UhpA SW:UHPA_SALTY (P27667) (196 aa) fasta scores: E(): 2.6e-05, 47.29% id in 74 aa, and Escherichia coli transcriptional regulatory protein UhpA SW:UHPA_ECOLI (P10940) (196 aa) fasta scores: E(): 6.3e-05, 45.94% id in 74 aa; regulatory protein complement(4028317..4028664) Bordetella pertussis Tohama I 2667576 NP_882319.1 CDS panC NC_002929.2 4028762 4029604 R catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine; pantoate--beta-alanine ligase complement(4028762..4029604) Bordetella pertussis Tohama I 2667577 NP_882320.1 CDS BP3822 NC_002929.2 4029649 4030536 R Similar to Neisseria meningitidis hypothetical protein NMB1504 TR:Q9JYN0 (EMBL:AE002500) (284 aa) fasta scores: E(): 5.5e-48, 54.41% id in 272 aa, and to Xylella fastidiosa hypothetical protein XF2451 TR:Q9PAP4 (EMBL:AE004054) (338 aa) fasta scores: E(): 1.1e-45, 50.53% id in 283 aa. Possible alternative translational start site; hypothetical protein complement(4029649..4030536) Bordetella pertussis Tohama I 2667562 NP_882321.1 CDS BP3823 NC_002929.2 4030563 4030751 R Similar to Burkholderia solanacearum conserved hypothetical protein RSC2385 TR:CAD16092 (EMBL:AL646069) (62 aa) fasta scores: E(): 3.7e-09, 58.33% id in 60 aa, and to Neisseria meningitidis hypothetical protein NMA1654 TR:Q9JTS3 (EMBL:AL162756) (61 aa) fasta scores: E(): 6e-06, 44.06% id in 59 aa; hypothetical protein complement(4030563..4030751) Bordetella pertussis Tohama I 2667563 NP_882322.1 CDS BP3824 NC_002929.2 4030849 4032306 D Similar to Escherichia coli multidrug resistance protein B EmrB SW:EMRB_ECOLI (P27304) (512 aa) fasta scores: E(): 1.5e-26, 28.46% id in 411 aa, and to Rhizobium loti probable transporter MLL1728 TR:Q98JY3 (EMBL:AP002998) (477 aa) fasta scores: E(): 1.7e-75, 46.96% id in 477 aa. Possible alternative translational start site; hypothetical protein 4030849..4032306 Bordetella pertussis Tohama I 2667564 NP_882323.1 CDS glpK NC_002929.2 4032293 4033819 D Converts glycerol and ADP to glycerol-3-phosphate and ADP; glycerol kinase 4032293..4033819 Bordetella pertussis Tohama I 2667565 NP_882324.1 CDS BP3826 NC_002929.2 4033838 4034305 R Similar to Pseudomonas aeruginosa hypothetical protein PA0661 TR:Q9I5R0 (EMBL:AE004501) (140 aa) fasta scores: E(): 1.7e-05, 31.46% id in 143 aa, and to Rhizobium loti hypothetical protein MLL4486 TR:Q98DY7 (EMBL:AP003004) (162 aa) fasta scores: E(): 2.2e-05, 31.91% id in 141 aa. Possible alternative translational start site; hypothetical protein complement(4033838..4034305) Bordetella pertussis Tohama I 2665089 NP_882325.1 CDS BP3827 NC_002929.2 4034305 4035327 R Similar to Rhizobium meliloti hypothetical protein SMA1927 TR:Q92Y30 (EMBL:AE007292) (330 aa) fasta scores: E(): 1.7e-48, 44.61% id in 334 aa, and to Agrobacterium tumefaciens AGR_L_312p TR:AAK88723 (EMBL:AE008213) (329 aa) fasta scores: E(): 2.2e-45, 43.28% id in 335 aa; hypothetical protein complement(4034305..4035327) Bordetella pertussis Tohama I 2665090 NP_882326.1 CDS BP3828 NC_002929.2 4035448 4036188 R Similar to Rhizobium leguminosarum general L-amino acid transport ATP-binding protein AapP SW:AAPP_RHILV (Q52815) (257 aa) fasta scores: E(): 1.7e-67, 77.95% id in 245 aa, and to Pseudomonas marginalis pv. alfalfae hypothetical protein TR:O68330 (EMBL:AF033673) (254 aa) fasta scores: E(): 2.9e-69, 80.32% id in 244 aa. . Similar to several B. pertussis CDSs: BP1181, BP0054, BP1534, BP1855, BP1575, BP1362, P0768, and BP1510.; amino acid ABC transporter ATP-binding protein complement(4035448..4036188) Bordetella pertussis Tohama I 2665091 NP_882327.1 CDS BP3829 NC_002929.2 4036243 4037343 R Similar to Rhizobium leguminosarum general L-amino acid transport system permease AapM SW:AAPM_RHILV (Q52814) (384 aa) fasta scores: E(): 1.8e-59, 49.32% id in 369 aa, and to Pseudomonas marginalis pv. alfalfae hypothetical protein TR:O68329 (EMBL:AF033673) (365 aa) fasta scores: E(): 1.7e-71, 53.26% id in 368 aa; amino acid ABC transporter permease complement(4036243..4037343) Bordetella pertussis Tohama I 2665092 NP_882328.1 CDS BP3830 NC_002929.2 4037345 4038535 R Similar to Rhizobium leguminosarum general L-amino acid transport system permease AapQ SW:AAPQ_RHILV (Q52813) (400 aa) fasta scores: E(): 5.1e-67, 50.52% id in 378 aa, and to Vibrio cholerae amino acid ABC transporter permease VC1361 TR:Q9KS98 (EMBL:AE004215) (401 aa) fasta scores: E(): 9.4e-70, 49.75% id in 402 aa; amino acid ABC transporter permease complement(4037345..4038535) Bordetella pertussis Tohama I 2665093 NP_882329.1 CDS BP3831 NC_002929.2 4038655 4039671 R Similar to Rhizobium leguminosarum general L-amino acid-binding periplasmic protein precursor AapJ SW:AAPJ_RHILV (Q52812) (341 aa) fasta scores: E(): 1.1e-74, 55.75% id in 339 aa, and to Vibrio cholerae amino acid ABC transporter periplasmic amino acid-binding protein VC1362 TR:Q9KS97 (EMBL:AE004216) (342 aa) fasta scores: E(): 4.7e-79, 58.63% id in 336 aa. Similar to BP1529, 67.059% identity (67.456% ungapped) in 340 aa overlap, and to BP0558, 66.471% identity (67.262% ungapped) in 340 aa overlap; amino acid ABC transporter substrate-binding protein complement(4038655..4039671) Bordetella pertussis Tohama I 2665094 NP_882330.1 CDS ftsE NC_002929.2 4039990 4040661 D Similar to Escherichia coli cell division ATP-binding protein FtsE SW:FTSE_ECOLI (P10115) (222 aa) fasta scores: E(): 9e-36, 50.9% id in 220 aa, and to Neisseria meningitidis ABC transporter ATP-binding protein NMA0254 TR:Q9JWT1 (EMBL:AL162752) (216 aa) fasta scores: E(): 1.6e-34, 48.83% id in 215 aa; cell division ATP-binding protein 4039990..4040661 Bordetella pertussis Tohama I 2664844 NP_882331.1 CDS BP3833 NC_002929.2 4040658 4041566 D Similar to Neisseria gonorrhoeae cell division protein FtsX SW:FTSX_NEIGO (P95357) (305 aa) fasta scores: E(): 1e-20, 32.31% id in 294 aa, and to the C-terminal region of Escherichia coli cell division protein FtsX SW:FTSX_ECOLI (P10122) (352 aa) fasta scores: E(): 9.4e-18, 30.53% id in 298 aa; permease 4040658..4041566 Bordetella pertussis Tohama I 2664845 NP_882332.1 CDS BP3834 NC_002929.2 4041778 4042425 D catalyzes the conversion of glutamine residues to glutamate on methyl-accepting chemotaxis receptors; chemoreceptor glutamine deamidase CheD 4041778..4042425 Bordetella pertussis Tohama I 2664846 NP_882333.1 CDS mutY NC_002929.2 4046277 4047353 D Similar to Escherichia coli A/G-specific adenine glycosylase MutY SW:MUTY_ECOLI (P17802) (350 aa) fasta scores: E(): 4.8e-56, 42.04% id in 352 aa, and to Pseudomonas aeruginosa A/G specific adenine glycosylase PA5147 TR:Q9HU37 (EMBL:AE004927) (355 aa) fasta scores: E(): 6.3e-63, 49.56% id in 347 aa; A/G-specific adenine glycosylase 4046277..4047353 Bordetella pertussis Tohama I 2664848 NP_882334.1 CDS BP3837 NC_002929.2 4047364 4048173 R Similar to Rhizobium loti hypothetical protein MLL1636 TR:Q98K51 (EMBL:AP002997) (290 aa) fasta scores: E(): 5.6e-33, 36.12% id in 263 aa, and to Streptomyces coelicolor DNA-binding protein 2SCK31.04c TR:Q9ADL0 (EMBL:AL451182) (291 aa) fasta scores: E(): 4.5e-31, 42.58% id in 263 aa. Possible alternative translational start site; hypothetical protein complement(4047364..4048173) Bordetella pertussis Tohama I 2664849 NP_882335.1 CDS BP3838 NC_002929.2 4048263 4049036 D Similar to Erwinia herbicola biotin synthesis protein BioC SW:BIOC_ERWHE (O06898) (251 aa) fasta scores: E(): 9.1e-07, 31.4% id in 207 aa. C-terminal region is similar to Pseudomonas aeruginosa hypothetical protein PA3119 TR:O87011 (EMBL:U93274) (187 aa) fasta scores: E(): 1.1e-39, 62.08% id in 182 aa; ubiE/COQ5 methyltransferase family protein 4048263..4049036 Bordetella pertussis Tohama I 2664850 NP_882336.1 CDS BP3839 NC_002929.2 4049219 4050169 D transposase for IS481 element; transposase 4049219..4050169 Bordetella pertussis Tohama I 2664851 NP_882337.1 CDS BP3841 NC_002929.2 4051070 4052224 D Similar to Escherichia coli hypothetical protein YfdE SW:YFDE_ECOLI (P76518) (381 aa) fasta scores: E(): 1.5e-39, 32.62% id in 377 aa, and to Drosophila melanogaster hypothetical protein CG10877 TR:Q9VDL4 (EMBL:AE003731) (441 aa) fasta scores: E(): 5.1e-44, 36.53% id in 375 aa; CAIB/BAIF family protein 4051070..4052224 Bordetella pertussis Tohama I 2664853 NP_882338.1 CDS BP3842 NC_002929.2 4052264 4053676 D Similar to Salmonella typhimurium 2-methylcitrate dehydratase PrpD SW:PRPD_SALTY (P74840) (483 aa) fasta scores: E(): 1.3e-07, 24.77% id in 436 aa, and to Agrobacterium tumefaciens AGR_L_2924p TR:AAK90029 (EMBL:AE008346) (448 aa) fasta scores: E(): 4e-23, 27.89% id in 441 aa; hypothetical protein 4052264..4053676 Bordetella pertussis Tohama I 2664854 NP_882339.1 CDS BP3843 NC_002929.2 4053699 4054667 D Similar to Comamonas testosteroni hypothetical protein Orf4 TR:Q9S155 (EMBL:AB024335) (325 aa) fasta scores: E(): 1.6e-32, 35.87% id in 315 aa, and to Pseudomonas putida hypothetical protein SW:YCLC_PSEPU (Q47100) (329 aa) fasta scores: E(): 1.5e-28, 34.7% id in 317 aa; lipoprotein 4053699..4054667 Bordetella pertussis Tohama I 2664855 NP_882340.1 CDS BP3844 NC_002929.2 4054669 4055493 D Similar to Archaeoglobus fulgidus enoyl-CoA hydratase AF0963 TR:O29299 (EMBL:AE001038) (259 aa) fasta scores: E(): 1.4e-25, 36.51% id in 241 aa, and to Bacillus subtilis hydroxybutyryl-dehydratase FenO TR:Q9L7W1 (EMBL:AF218939) (260 aa) fasta scores: E(): 1.6e-25, 35.84% id in 265 aa; enoyl-CoA hydratase/isomerase 4054669..4055493 Bordetella pertussis Tohama I 2664856 NP_882341.1 CDS BP3845 NC_002929.2 4055517 4056251 D Similar to Burkholderia solanacearum probable oxidoreductase RSC1608 TR:CAD15310 (EMBL:AL646065) (235 aa) fasta scores: E(): 1.5e-35, 44.73% id in 228 aa, and to Rhizobium loti nitroreductase MLL1278 TR:Q98KX3 (EMBL:AP002997) (234 aa) fasta scores: E(): 9.1e-33, 44.14% id in 222 aa; nitroreductase family protein 4055517..4056251 Bordetella pertussis Tohama I 2664857 NP_882342.1 CDS BP3846 NC_002929.2 4056332 4057018 R Similar to Mycobacterium tuberculosis CDC1551 TetR family transcriptional regulator MT2581 TR:AAK46885 (EMBL:AE007094) (231 aa) fasta scores: E(): 1.1e-05, 28.77% id in 212 aa, and to Pseudomonas fluorescens transcriptional regulator Pfi2 TR:Q9RFR4 (EMBL:AF173683) (207 aa) fasta scores: E(): 3.7e-10, 27.58% id in 203 aa; TetR family transcriptional regulator complement(4056332..4057018) Bordetella pertussis Tohama I 2664858 NP_882343.1 CDS BP3847 NC_002929.2 4057192 4058199 D Similar to Homo sapiens mitochondrial hydroxymethylglutaryl-CoA lyase precursor HMGCL SW:HMGL_HUMAN (P35914) (325 aa) fasta scores: E(): 4.7e-18, 35.94% id in 306 aa, and to Pseudomonas mevalonii hydroxymethylglutaryl-CoA lyase MvaB SW:HMGL_PSEMV (P13703) (301 aa) fasta scores: E(): 7.2e-17, 36.03% id in 308 aa; hydroxymethylglutaryl-CoA lyase 4057192..4058199 Bordetella pertussis Tohama I 2664859 NP_882344.1 CDS BP3848 NC_002929.2 4058196 4058975 D Similar to Mus musculus AU-binding enoyl-CoA hydratase AUH TR:Q9JLZ3 (EMBL:AF118386) (314 aa) fasta scores: E(): 4.3e-15, 30.15% id in 262 aa, and to Mycobacterium tuberculosis hypothetical protein MTCY08D5.17 TR:P96404 (EMBL:Z92669) (262 aa) fasta scores: E(): 4.3e-23, 39.6% id in 250 aa; enoyl-CoA hydratase/isomerase 4058196..4058975 Bordetella pertussis Tohama I 2664860 NP_882345.1 CDS BP3849 NC_002929.2 4059033 4060295 D Similar to Agrobacterium tumefaciens AGR_C_3858p TR:AAK87874 (EMBL:AE008129) (419 aa) fasta scores: E(): 8.2e-40, 34.09% id in 393 aa, and to Rhizobium meliloti conserved membrane-anchored protein SMB21182 TR:CAC49248 (EMBL:AL603645) (394 aa) fasta scores: E(): 1.5e-37, 33.58% id in 396 aa. Possible alternative translational start site; hypothetical protein 4059033..4060295 Bordetella pertussis Tohama I 2664861 NP_882346.1 CDS BP3851 NC_002929.2 4060842 4061792 R transposase for IS481 element; transposase complement(4060842..4061792) Bordetella pertussis Tohama I 2664863 NP_882347.1 CDS katA NC_002929.2 4061915 4063363 D Similar to Vibrio fischeri catalase KatA SW:CATA_VIBFI (O68146) (482 aa) fasta scores: E(): 1.5e-147, 70.58% id in 476 aa. Previously sequenced as Bordetella pertussis catalase KatA SW:CATA_BORPE (P48062) (482 aa) fasta scores: E(): 8.2e-207, 100% id in 482 aa. Possible alternative translational start site at residue 4; catalase 4061915..4063363 Bordetella pertussis Tohama I 2664864 NP_882348.1 CDS BP3853 NC_002929.2 4063424 4064305 R Similar to Escherichia coli aliphatic sulfonates transport permease SsuC SW:SSUC_ECOLI (P75851) (263 aa) fasta scores: E(): 2.5e-17, 29.48% id in 251 aa, and to Pseudomonas aeruginosa probable permease of ABC transporter PA2307 TR:Q9I1G8 (EMBL:AE004657) (288 aa) fasta scores: E(): 1.1e-78, 74.46% id in 282 aa; ABC transporter permease complement(4063424..4064305) Bordetella pertussis Tohama I 2664865 NP_882349.1 CDS BP3854 NC_002929.2 4064302 4065117 R Similar to Klebsiella pneumoniae nitrate transport protein NasD SW:NASD_KLEPN (P39459) (262 aa) fasta scores: E(): 2.4e-27, 42.15% id in 223 aa, and to Pseudomonas aeruginosa probable ATP-binding component of ABC transporter PA2308 TR:Q9I1G7 (EMBL:AE004657) (282 aa) fasta scores: E(): 4.8e-62, 72.76% id in 257 aa; ABC transporter ATP-binding protein complement(4064302..4065117) Bordetella pertussis Tohama I 2664866 NP_882350.1 CDS BP3855 NC_002929.2 4065119 4066162 R Similar to Escherichia coli taurine-binding periplasmic protein precursor TauA SW:TAUA_ECOLI (Q47537) (320 aa) fasta scores: E(): 7.6, 23.31% id in 296 aa, and to Pseudomonas aeruginosa hypothetical protein PA2309 TR:Q9I1G6 (EMBL:AE004657) (340 aa) fasta scores: E(): 2.5e-86, 67.75% id in 338 aa; taurine ABC transporter substrate-binding protein complement(4065119..4066162) Bordetella pertussis Tohama I 2665104 NP_882351.1 CDS BP3856 NC_002929.2 4066206 4067129 R Similar to Escherichia coli alpha-ketoglutarate-dependent taurine dioxygenase TauD SW:TAUD_ECOLI (P37610) (282 aa) fasta scores: E(): 4.2e-34, 40.2% id in 291 aa, and to Pseudomonas aeruginosa hypothetical protein PA2310 TR:Q9I1G5 (EMBL:AE004657) (295 aa) fasta scores: E(): 1.6e-84, 69.36% id in 297 aa. Possible alternative translational start site; taurine catabolism dioxygenase complement(4066206..4067129) Bordetella pertussis Tohama I 2665105 NP_882352.1 CDS BP3857 NC_002929.2 4067259 4068458 R Similar to Campylobacter jejuni hippurate hydrolase HipO SW:HIPO_CAMJE (P45493) (383 aa) fasta scores: E(): 9.4e-51, 42.17% id in 396 aa, and to Pseudomonas aeruginosa probable hydrolase PA4344 TR:Q9HW57 (EMBL:AE004850) (406 aa) fasta scores: E(): 2e-72, 52.15% id in 395 aa. Similar to BP2810, 57.179% identity (57.614% ungapped) in 397 aa overlap, and to BP3036, 50.000% identity (51.813% ungapped) in 400 aa overlap; hydrolase complement(4067259..4068458) Bordetella pertussis Tohama I 2665106 NP_882353.1 CDS BP3858 NC_002929.2 4068516 4069532 R Similar to Bacillus subtilis oligopeptide transport ATP-binding protein AppF SW:APPF_BACSU (P42065) (329 aa) fasta scores: E(): 6.9e-50, 51.86% id in 295 aa, and to Agrobacterium tumefaciens AGR_pAT_367p TR:AAK90631 (EMBL:AE007895) (329 aa) fasta scores: E(): 1.5e-64, 59.07% id in 325 aa. Similar to the C-terminal region of BP3297, 60.927% identity (61.130% ungapped) in 302 aa overlap; transport ATP-binding protein complement(4068516..4069532) Bordetella pertussis Tohama I 2665107 NP_882354.1 CDS BP3859 NC_002929.2 4069529 4070530 R Similar to Salmonella typhimurium oligopeptide transport ATP-binding protein OppD SW:OPPD_SALTY (P04285) (335 aa) fasta scores: E(): 1.8e-49, 47.44% id in 333 aa, and to Agrobacterium tumefaciens AGR_pAT_366p TR:AAK90630 (EMBL:AE007895) (324 aa) fasta scores: E(): 8.3e-63, 59.81% id in 316 aa. Similar to the N-terminal region of BP3297, 63.273% identity (63.273% ungapped) in 275 aa overlap; transport system ATP-binding protein complement(4069529..4070530) Bordetella pertussis Tohama I 2665108 NP_882355.1 CDS BP3860 NC_002929.2 4070557 4071477 R Similar to Escherichia coli dipeptide transport system permease DppC SW:DPPC_ECOLI (P37315) (300 aa) fasta scores: E(): 5.4e-40, 40.33% id in 295 aa, and to Agrobacterium tumefaciens AGR_pAT_365p TR:AAK90629 (EMBL:AE007895) (318 aa) fasta scores: E(): 2.4e-61, 57.24% id in 283 aa. Similar to BP3298, 60.000% identity (60.417% ungapped) in 290 aa overlap; transport system permease complement(4070557..4071477) Bordetella pertussis Tohama I 2665109 NP_882356.1 CDS BP3861 NC_002929.2 4071474 4072448 R Similar to Bacillus subtilis oligopeptide transport system permease AppB SW:APPB_BACSU (P42062) (317 aa) fasta scores: E(): 1.6e-38, 37.18% id in 320 aa, and to Agrobacterium tumefaciens AGR_pAT_363p TR:AAK90628 (EMBL:AE007895) (323 aa) fasta scores: E(): 1.5e-65, 51.58% id in 316 aa. Similar to BP3299, 54.430% identity (54.430% ungapped) in 316 aa overlap; transport system permease complement(4071474..4072448) Bordetella pertussis Tohama I 2665110 NP_882357.1 CDS BP3862 NC_002929.2 4072468 4074054 R Similar to Escherichia coli nickel-binding periplasmic protein precursor NikA SW:NIKA_ECOLI (P33590) (524 aa) fasta scores: E(): 1.2e-24, 26.8% id in 526 aa, and to Rhizobium meliloti oligopeptidemurein peptide ABC transporter periplasmic solute-binding protein SMB21037 TR:CAC49009 (EMBL:AL603644) (531 aa) fasta scores: E(): 5.8e-55, 37.34% id in 498 aa; peptide ABC transporter substrate-binding protein complement(4072468..4074054) Bordetella pertussis Tohama I 2665111 NP_882358.1 CDS trmE NC_002929.2 4074171 4075523 D in Escherichia coli this protein is involved in the biosynthesis of the hypermodified nucleoside 5-methylaminomethyl-2-thiouridine, which is found in the wobble position of some tRNAs and affects ribosomal frameshifting; shows potassium-dependent dimerization and GTP hydrolysis; also involved in regulation of glutamate-dependent acid resistance and activation of gadE; tRNA modification GTPase TrmE 4074171..4075523 Bordetella pertussis Tohama I 2665112 NP_882359.1 CDS BP3864 NC_002929.2 4075468 4076706 R Similar to an internal region of Rattus norvegicus monocarboxylate transporter 4 MCT4 SW:MOT4_RAT (O35910) (471 aa) fasta scores: E(): 0.002, 24.23% id in 425 aa, and to the full length Pseudomonas aeruginosa hypothetical protein PA2589 TR:Q9I0P8 (EMBL:AE004687) (404 aa) fasta scores: E(): 4.2e-07, 26.05% id in 403 aa. Possible alternative translational start site; hypothetical protein complement(4075468..4076706) Bordetella pertussis Tohama I 2665113 NP_882360.1 CDS BP3865 NC_002929.2 4077300 4077980 D Two-component regulatory system family, response regulator protein. Similar to Salmonella typhimurium transcriptional regulatory protein TctD SW:TCTD_SALTY (P22104) (224 aa) fasta scores: E(): 2.4e-35, 48.18% id in 220 aa, and to Rhizobium loti two-component response regulator MLL7953 TR:Q984L3 (EMBL:AP003013) (223 aa) fasta scores: E(): 2.4e-34, 47.96% id in 221 aa. Similar to BP3350, 53.302% identity (53.555% ungapped) in 212 aa overlap, and to BP2547, 50.455% identity (50.685% ungapped) in 220 aa overlap; response regulator protein 4077300..4077980 Bordetella pertussis Tohama I 2665114 NP_882361.1 CDS BP3866 NC_002929.2 4077967 4079430 D Two-component regulatory system family, sensor kinase. Similar to Burkholderia solanacearum transmembrane sensor kinase transcription regulator protein RSC2936 TR:CAD16643 (EMBL:AL646072) (500 aa) fasta scores: E(): 2e-59, 45.27% id in 466 aa, and to Pseudomonas aeruginosa probable two-component sensor PA0757 TR:Q9I5H2 (EMBL:AE004510) (460 aa) fasta scores: E(): 2.8e-41, 36.2% id in 453 aa; sensor kinase 4077967..4079430 Bordetella pertussis Tohama I 2665115 NP_882362.1 CDS BP3867 NC_002929.2 4079551 4080555 D Similar to Salmonella enterica hypothetical protein TctC TR:Q9FA46 (EMBL:AF020810) (325 aa) fasta scores: E(): 3.2e-76, 63.93% id in 305 aa, and to Pseudomonas aeruginosa hypothetical protein PA0754 TR:Q9I5H5 (EMBL:AE004510) (327 aa) fasta scores: E(): 2e-73, 58.84% id in 328 aa; hypothetical protein 4079551..4080555 Bordetella pertussis Tohama I 2665116 NP_882363.1 CDS BP3868 NC_002929.2 4080606 4081097 D Similar to Salmonella enterica hypothetical protein TctB TR:Q9FA45 (EMBL:AF020810) (144 aa) fasta scores: E(): 2.2e-15, 37.14% id in 140 aa, and to Pseudomonas aeruginosa hypothetical protein PA0753 TR:Q9I5H6 (EMBL:AE004510) (156 aa) fasta scores: E(): 7.7e-11, 31.54% id in 149 aa. Possible alternative translational start site; hypothetical protein 4080606..4081097 Bordetella pertussis Tohama I 2665117 NP_882364.1 CDS BP3869 NC_002929.2 4081094 4082617 D Similar to Pseudomonas aeruginosa hypothetical protein PA0752 TR:Q9I5H7 (EMBL:AE004510) (505 aa) fasta scores: E(): 1.9e-113, 62.72% id in 499 aa, and to Salmonella enterica hypothetical protein TctA TR:Q9FA44 (EMBL:AF020810) (504 aa) fasta scores: E(): 6.9e-112, 60.56% id in 497 aa; hypothetical protein 4081094..4082617 Bordetella pertussis Tohama I 2665118 NP_882365.1 CDS BP3870 NC_002929.2 4082693 4083859 R catalyzes the transfer of an amino moiety; aminotransferase complement(4082693..4083859) Bordetella pertussis Tohama I 2665119 NP_882366.1 CDS BP3871 NC_002929.2 4084259 4084465 D Similar to Escherichia coli cold shock-like protein CspC SW:CSPC_ECOLI (P36996) (68 aa) fasta scores: E(): 1.1e-14, 62.9% id in 62 aa, and to Salmonella typhimurium cold shock protein CspA SW:CSPA_SALTY (P37410) (69 aa) fasta scores: E(): 1.1e-14, 64.06% id in 64 aa. Similar to BP1770, 60.606% identity (60.606% ungapped) in 66 aa overlap, BP2757, 62.295% identity (62.295% ungapped) in 61 aa overlap, BP1772, 59.677% identity (59.677% ungapped) in 62 aa overlap, and to BP0426, 54.545% identity (54.545% ungapped) in 66 aa overlap; cold shock-like protein 4084259..4084465 Bordetella pertussis Tohama I 2665120 BPt01 tRNA BPt01 NC_002929.2 6236 6322 D tRNA-Tyr 6236..6322 Bordetella pertussis Tohama I 3131279 BPt02 tRNA BPt02 NC_002929.2 6511 6584 D tRNA-Gly 6511..6584 Bordetella pertussis Tohama I 3131306 BPt03 tRNA BPt03 NC_002929.2 6591 6665 D tRNA-Thr 6591..6665 Bordetella pertussis Tohama I 3131324 BPt04 tRNA BPt04 NC_002929.2 8023 8098 D tRNA-Trp 8023..8098 Bordetella pertussis Tohama I 3131316 BPt05 tRNA BPt05 NC_002929.2 71391 71475 R tRNA-Leu complement(71391..71475) Bordetella pertussis Tohama I 3131319 BPt06 tRNA BPt06 NC_002929.2 279202 279277 R tRNA-Thr complement(279202..279277) Bordetella pertussis Tohama I 3131285 BPt07 tRNA BPt07 NC_002929.2 405640 405714 R tRNA-Val complement(405640..405714) Bordetella pertussis Tohama I 3131334 BPt08 tRNA BPt08 NC_002929.2 692825 692900 R tRNA-Phe complement(692825..692900) Bordetella pertussis Tohama I 3131300 BPt09 tRNA BPt09 NC_002929.2 764870 764946 D tRNA-Pro 764870..764946 Bordetella pertussis Tohama I 3131323 BPt10 tRNA BPt10 NC_002929.2 822623 822707 R tRNA-Leu complement(822623..822707) Bordetella pertussis Tohama I 3131321 BPt11 tRNA BPt11 NC_002929.2 825583 825667 D tRNA-Leu 825583..825667 Bordetella pertussis Tohama I 3131295 BPt12 tRNA BPt12 NC_002929.2 916416 916492 D tRNA-Arg 916416..916492 Bordetella pertussis Tohama I 3131302 BPt13 tRNA BPt13 NC_002929.2 1077941 1078017 R tRNA-Asp complement(1077941..1078017) Bordetella pertussis Tohama I 3131310 BPt14 tRNA BPt14 NC_002929.2 1078053 1078128 R tRNA-Glu complement(1078053..1078128) Bordetella pertussis Tohama I 3131287 BPt15 tRNA BPt15 NC_002929.2 1078160 1078235 R tRNA-Ala complement(1078160..1078235) Bordetella pertussis Tohama I 3131330 BPt16 tRNA BPt16 NC_002929.2 1114417 1114493 R tRNA-Pro complement(1114417..1114493) Bordetella pertussis Tohama I 3131333 BPt17 tRNA BPt17 NC_002929.2 1301002 1301077 R tRNA-Thr complement(1301002..1301077) Bordetella pertussis Tohama I 3131317 BPt18 tRNA BPt18 NC_002929.2 1301250 1301325 D tRNA-Asn 1301250..1301325 Bordetella pertussis Tohama I 3131318 BPt19 tRNA BPt19 NC_002929.2 1305454 1305530 R tRNA-Met complement(1305454..1305530) Bordetella pertussis Tohama I 3131281 BPt20 tRNA BPt20 NC_002929.2 1569314 1569390 D tRNA-Val 1569314..1569390 Bordetella pertussis Tohama I 3131299 BPt21 tRNA BPt21 NC_002929.2 1618827 1618901 R tRNA-Arg complement(1618827..1618901) Bordetella pertussis Tohama I 3131304 BPt22 tRNA BPt22 NC_002929.2 1857742 1857828 D tRNA-Leu 1857742..1857828 Bordetella pertussis Tohama I 3131293 BPt23 tRNA BPt23 NC_002929.2 2017236 2017328 D tRNA-Ser 2017236..2017328 Bordetella pertussis Tohama I 3131312 BPt24 tRNA BPt24 NC_002929.2 2033259 2033335 D tRNA-Arg 2033259..2033335 Bordetella pertussis Tohama I 3131308 BPt25 tRNA BPt25 NC_002929.2 2048459 2048535 D tRNA-Arg 2048459..2048535 Bordetella pertussis Tohama I 3131297 BPt26 tRNA BPt26 NC_002929.2 2150672 2150748 D tRNA-Ile 2150672..2150748 Bordetella pertussis Tohama I 3131335 BPt27 tRNA BPt27 NC_002929.2 2150769 2150844 D tRNA-Ala 2150769..2150844 Bordetella pertussis Tohama I 3131301 BPt28 tRNA BPt28 NC_002929.2 2235156 2235231 D tRNA-Ala 2235156..2235231 Bordetella pertussis Tohama I 3131315 BPt29 tRNA BPt29 NC_002929.2 2302366 2302444 R tRNA-Met complement(2302366..2302444) Bordetella pertussis Tohama I 3131313 BPt30 tRNA BPt30 NC_002929.2 2351070 2351145 R tRNA-His complement(2351070..2351145) Bordetella pertussis Tohama I 3131322 BPt31 tRNA BPt31 NC_002929.2 2445403 2445478 R tRNA-Ala complement(2445403..2445478) Bordetella pertussis Tohama I 3131276 BPt32 tRNA BPt32 NC_002929.2 2445499 2445575 R tRNA-Ile complement(2445499..2445575) Bordetella pertussis Tohama I 3131278 BPt33 tRNA BPt33 NC_002929.2 2597285 2597374 D tRNA-Ser 2597285..2597374 Bordetella pertussis Tohama I 3131296 BPt34 tRNA BPt34 NC_002929.2 2659402 2659477 D tRNA-Gly 2659402..2659477 Bordetella pertussis Tohama I 3131277 BPt35 tRNA BPt35 NC_002929.2 2719331 2719407 R tRNA-Met complement(2719331..2719407) Bordetella pertussis Tohama I 3131286 BPt36 tRNA BPt36 NC_002929.2 2723384 2723460 R tRNA-Pro complement(2723384..2723460) Bordetella pertussis Tohama I 3131307 BPt37 tRNA BPt37 NC_002929.2 2996473 2996548 D tRNA-Lys 2996473..2996548 Bordetella pertussis Tohama I 3131327 BPt38 tRNA BPt38 NC_002929.2 3018642 3018717 D tRNA-Lys 3018642..3018717 Bordetella pertussis Tohama I 3131311 BPt39 tRNA BPt39 NC_002929.2 3236955 3237030 R tRNA-Ala complement(3236955..3237030) Bordetella pertussis Tohama I 3131298 BPt40 tRNA BPt40 NC_002929.2 3237051 3237127 R tRNA-Ile complement(3237051..3237127) Bordetella pertussis Tohama I 3131292 BPt41 tRNA BPt41 NC_002929.2 3330517 3330593 R tRNA-Gln complement(3330517..3330593) Bordetella pertussis Tohama I 3131328 BPt42 tRNA BPt42 NC_002929.2 3386646 3386736 R tRNA-Ser complement(3386646..3386736) Bordetella pertussis Tohama I 3131294 BPt43 tRNA BPt43 NC_002929.2 3531905 3531979 D tRNA-Arg 3531905..3531979 Bordetella pertussis Tohama I 3131309 BPt44 tRNA BPt44 NC_002929.2 3659461 3659534 R tRNA-Cys complement(3659461..3659534) Bordetella pertussis Tohama I 3131290 BPt45 tRNA BPt45 NC_002929.2 3659595 3659670 R tRNA-Gly complement(3659595..3659670) Bordetella pertussis Tohama I 3131288 BPt46 tRNA BPt46 NC_002929.2 3723442 3723518 R tRNA-Met complement(3723442..3723518) Bordetella pertussis Tohama I 3131314 BPt47 tRNA BPt47 NC_002929.2 3735096 3735180 R tRNA-Leu complement(3735096..3735180) Bordetella pertussis Tohama I 3131291 BPt48 tRNA BPt48 NC_002929.2 3736041 3736125 R tRNA-Leu complement(3736041..3736125) Bordetella pertussis Tohama I 3131282 BPt49 tRNA BPt49 NC_002929.2 3742518 3742593 D tRNA-Val 3742518..3742593 Bordetella pertussis Tohama I 3131303 BPt50 tRNA BPt50 NC_002929.2 3905567 3905640 D tRNA-Gly 3905567..3905640 Bordetella pertussis Tohama I 3131284 BPt51 tRNA BPt51 NC_002929.2 3999800 3999875 D tRNA-Asn 3999800..3999875 Bordetella pertussis Tohama I 3131289 BPr01 rRNA BPr01 NC_002929.2 2149043 2150574 D 16S ribosomal RNA 2149043..2150574 Bordetella pertussis Tohama I 3131280 BPr02 rRNA BPr02 NC_002929.2 2151159 2154040 D 23S ribosomal RNA 2151159..2154040 Bordetella pertussis Tohama I 3131331 BPr03 rRNA BPr03 NC_002929.2 2154215 2154329 D 5S ribosomal RNA 2154215..2154329 Bordetella pertussis Tohama I 3131320 BPr04 rRNA BPr04 NC_002929.2 2441918 2442032 R 5S ribosomal RNA complement(2441918..2442032) Bordetella pertussis Tohama I 3131283 BPr05 rRNA BPr05 NC_002929.2 2442207 2445088 R 23S ribosomal RNA complement(2442207..2445088) Bordetella pertussis Tohama I 3131305 BPr06 rRNA BPr06 NC_002929.2 2445673 2447204 R 16S ribosomal RNA complement(2445673..2447204) Bordetella pertussis Tohama I 3131275 BPr07 rRNA BPr07 NC_002929.2 3233470 3233584 R 5S ribosomal RNA complement(3233470..3233584) Bordetella pertussis Tohama I 3131329 BPr08 rRNA BPr08 NC_002929.2 3233759 3236640 R 23S ribosomal RNA complement(3233759..3236640) Bordetella pertussis Tohama I 3131326 BPr09 rRNA BPr09 NC_002929.2 3237225 3238756 R 16S ribosomal RNA complement(3237225..3238756) Bordetella pertussis Tohama I 3131325