-- dump date 20140619_004125 -- class Genbank::CDS -- table cds -- table main -- field 1 id -- field 2 GI -- field 3 GeneID -- field 4 chrom_position -- field 5 chromosome -- field 6 codon_start -- field 7 contig -- field 8 description -- field 9 end_pos -- field 10 gene -- field 11 gene_id -- field 12 name -- field 13 organism -- field 14 product -- field 15 protein_id -- field 16 start_pos -- field 17 strand -- field 18 taxid -- field 19 type -- header -- id GI GeneID chrom_position chromosome codon_start contig description end_pos gene gene_id name organism product protein_id start_pos strand taxid type NP_878920.1 33591276 2664547 1..1920 1 NC_002929.2 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 1920 gidA 2664547 gidA Bordetella pertussis Tohama I tRNA uridine 5-carboxymethylaminomethyl modification protein GidA NP_878920.1 1 D 257313 CDS NP_878921.1 33591277 2664436 1917..2609 1 NC_002929.2 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 2609 gidB 2664436 gidB Bordetella pertussis Tohama I glucose inhibited division protein B NP_878921.1 1917 D 257313 CDS NP_878922.1 33591278 2664446 2606..3403 1 NC_002929.2 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 3403 parA 2664446 parA Bordetella pertussis Tohama I ParA family protein NP_878922.1 2606 D 257313 CDS NP_878923.1 33591279 2664671 3410..4171 1 NC_002929.2 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 4171 2664671 BP0004 Bordetella pertussis Tohama I GNAT family acetyltransferase NP_878923.1 3410 D 257313 CDS NP_878924.1 33591280 2664248 4215..5132 1 NC_002929.2 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 5132 parB 2664248 parB Bordetella pertussis Tohama I chromosome partitioning protein ParB NP_878924.1 4215 D 257313 CDS NP_878925.1 33591281 2664233 6722..7912 1 NC_002929.2 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 7912 tuf 2664233 tuf Bordetella pertussis Tohama I elongation factor Tu NP_878925.1 6722 D 257313 CDS NP_878926.1 33591282 2664451 8151..8531 1 NC_002929.2 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 8531 secE 2664451 secE Bordetella pertussis Tohama I preprotein translocase subunit SecE NP_878926.1 8151 D 257313 CDS NP_878927.1 33591283 2664093 8541..9074 1 NC_002929.2 Modulates Rho-dependent transcription termination; transcription antitermination protein NusG 9074 nusG 2664093 nusG Bordetella pertussis Tohama I transcription antitermination protein NusG NP_878927.1 8541 D 257313 CDS NP_878928.1 33591284 2664721 9138..9569 1 NC_002929.2 binds directly to 23S ribosomal RNA; 50S ribosomal protein L11 9569 rplK 2664721 rplK Bordetella pertussis Tohama I 50S ribosomal protein L11 NP_878928.1 9138 D 257313 CDS NP_878929.1 33591285 2664704 9572..10270 1 NC_002929.2 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 10270 rplA 2664704 rplA Bordetella pertussis Tohama I 50S ribosomal protein L1 NP_878929.1 9572 D 257313 CDS NP_878930.1 33591286 2664459 10513..11037 1 NC_002929.2 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit; 50S ribosomal protein L10 11037 rplJ 2664459 rplJ Bordetella pertussis Tohama I 50S ribosomal protein L10 NP_878930.1 10513 D 257313 CDS NP_878931.1 33591287 2664438 11119..11502 1 NC_002929.2 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 11502 rplL 2664438 rplL Bordetella pertussis Tohama I 50S ribosomal protein L7/L12 NP_878931.1 11119 D 257313 CDS NP_878932.1 33591288 2664688 11662..15774 1 NC_002929.2 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 15774 rpoB 2664688 rpoB Bordetella pertussis Tohama I DNA-directed RNA polymerase subunit beta NP_878932.1 11662 D 257313 CDS NP_878933.1 33591289 2664432 15774..20018 1 NC_002929.2 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' 20018 rpoC 2664432 rpoC Bordetella pertussis Tohama I DNA-directed RNA polymerase subunit beta' NP_878933.1 15774 D 257313 CDS NP_878934.1 33591290 2664480 complement(20127..20531) 1 NC_002929.2 no significant database matches; lipoprotein 20531 2664480 BP0017 Bordetella pertussis Tohama I lipoprotein NP_878934.1 20127 R 257313 CDS NP_878935.1 33591291 2664445 20772..21947 1 NC_002929.2 no significant database matches; hypothetical protein 21947 2664445 BP0018 Bordetella pertussis Tohama I hypothetical protein NP_878935.1 20772 D 257313 CDS NP_878936.1 33591292 2664670 complement(24353..25459) 1 NC_002929.2 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 25459 2664670 BP0020 Bordetella pertussis Tohama I peptidoglycan binding protein NP_878936.1 24353 R 257313 CDS NP_878937.1 33591293 2664013 26471..27286 1 NC_002929.2 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 27286 2664013 BP0022 Bordetella pertussis Tohama I two-component response regulator NP_878937.1 26471 D 257313 CDS NP_878938.1 33591294 2664482 complement(27283..28233) 1 NC_002929.2 transposase for IS481 element; transposase 28233 2664482 BP0023 Bordetella pertussis Tohama I transposase NP_878938.1 27283 R 257313 CDS NP_878939.1 33591295 2664435 complement(28675..29109) 1 NC_002929.2 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 29109 2664435 BP0025 Bordetella pertussis Tohama I hypothetical protein NP_878939.1 28675 R 257313 CDS NP_878940.1 33591296 2664431 complement(29142..30368) 1 NC_002929.2 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 30368 2664431 BP0026 Bordetella pertussis Tohama I thiolase NP_878940.1 29142 R 257313 CDS NP_878941.1 33591297 2664660 complement(30365..30862) 1 NC_002929.2 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 30862 2664660 BP0027 Bordetella pertussis Tohama I MaoC family protein NP_878941.1 30365 R 257313 CDS NP_878942.1 33591298 2664091 complement(31070..31978) 1 NC_002929.2 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 31978 2664091 BP0028 Bordetella pertussis Tohama I transcriptional regulator NP_878942.1 31070 R 257313 CDS NP_878943.1 33591299 2664653 32215..33006 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 33006 2664653 BP0029 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_878943.1 32215 D 257313 CDS NP_878944.1 33591300 2664197 33049..34470 1 NC_002929.2 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 34470 2664197 BP0030 Bordetella pertussis Tohama I hypothetical protein NP_878944.1 33049 D 257313 CDS NP_878945.1 33591301 2664430 34626..35576 1 NC_002929.2 transposase for IS481 element; transposase 35576 2664430 BP0031 Bordetella pertussis Tohama I transposase NP_878945.1 34626 D 257313 CDS NP_878946.1 33591302 2664032 complement(35573..36763) 1 NC_002929.2 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 36763 2664032 BP0032 Bordetella pertussis Tohama I transporter NP_878946.1 35573 R 257313 CDS NP_878947.1 33591303 2664452 37013..37924 1 NC_002929.2 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 37924 glyQ 2664452 glyQ Bordetella pertussis Tohama I glycyl-tRNA synthetase subunit alpha NP_878947.1 37013 D 257313 CDS NP_878948.1 33591304 2664657 37926..40064 1 NC_002929.2 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 40064 glyS 2664657 glyS Bordetella pertussis Tohama I glycyl-tRNA synthetase subunit beta NP_878948.1 37926 D 257313 CDS NP_878949.1 33591305 2664698 40061..40600 1 NC_002929.2 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 40600 2664698 BP0035 Bordetella pertussis Tohama I D,D-heptose 1,7-bisphosphate phosphatase NP_878949.1 40061 D 257313 CDS NP_878950.1 33591306 2664227 40604..41332 1 NC_002929.2 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 41332 2664227 BP0036 Bordetella pertussis Tohama I acyltransferase NP_878950.1 40604 D 257313 CDS NP_878951.1 33591307 2664234 41319..42212 1 NC_002929.2 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 42212 2664234 BP0037 Bordetella pertussis Tohama I hypothetical protein NP_878951.1 41319 D 257313 CDS NP_878952.1 33591308 2664199 42283..42678 1 NC_002929.2 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 42678 gloA 2664199 gloA Bordetella pertussis Tohama I lactoylglutathione lyase NP_878952.1 42283 D 257313 CDS NP_878953.1 33591309 2664217 42688..43218 1 NC_002929.2 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+); peptide deformylase 43218 def 2664217 def Bordetella pertussis Tohama I peptide deformylase NP_878953.1 42688 D 257313 CDS NP_878954.1 33591310 2664075 43664..44614 1 NC_002929.2 transposase for IS481 element; transposase 44614 2664075 BP0041 Bordetella pertussis Tohama I transposase NP_878954.1 43664 D 257313 CDS NP_878955.1 33591311 2664442 45201..45749 1 NC_002929.2 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 45749 2664442 BP0043 Bordetella pertussis Tohama I hypothetical protein NP_878955.1 45201 D 257313 CDS NP_878956.1 33591312 2664057 complement(45721..45957) 1 NC_002929.2 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 45957 2664057 BP0044 Bordetella pertussis Tohama I transcriptional regulator NP_878956.1 45721 R 257313 CDS NP_878957.1 33591313 2664684 46085..46978 1 NC_002929.2 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 46978 2664684 BP0045 Bordetella pertussis Tohama I hypothetical protein NP_878957.1 46085 D 257313 CDS NP_878958.1 33591314 2664206 48148..49395 1 NC_002929.2 Catalyzes the conversion of acetyl-CoA and L-homoserine to CoA and O-acetyl-L-homoserine; homoserine O-acetyltransferase 49395 metX 2664206 metX Bordetella pertussis Tohama I homoserine O-acetyltransferase NP_878958.1 48148 D 257313 CDS NP_878959.1 33591315 2664235 49392..50006 1 NC_002929.2 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 50006 2664235 BP0048 Bordetella pertussis Tohama I hypothetical protein NP_878959.1 49392 D 257313 CDS NP_878960.1 33591316 2664100 50142..51092 1 NC_002929.2 transposase for IS481 element; transposase 51092 2664100 BP0049 Bordetella pertussis Tohama I transposase NP_878960.1 50142 D 257313 CDS NP_878961.1 33591317 2664725 51180..52391 1 NC_002929.2 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 52391 ampG 2664725 ampG Bordetella pertussis Tohama I muropeptide transporter NP_878961.1 51180 D 257313 CDS NP_878962.1 33591318 2664200 complement(53623..54357) 1 NC_002929.2 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 54357 2664200 BP0053 Bordetella pertussis Tohama I aspartate/glutamate racemase NP_878962.1 53623 R 257313 CDS YP_008691071.1 552528637 2664437 complement(54363..54953) 1 NC_002929.2 arginine ABC transporter ATP-binding protein 54953 gltL 2664437 gltL Bordetella pertussis Tohama I arginine ABC transporter ATP-binding protein YP_008691071.1 54363 R 257313 CDS NP_878963.1 33591319 2664664 complement(54978..55667) 1 NC_002929.2 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 55667 gltK 2664664 gltK Bordetella pertussis Tohama I glutamate/aspartate transport system permease NP_878963.1 54978 R 257313 CDS NP_878964.1 33591320 2664434 complement(55664..56458) 1 NC_002929.2 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 56458 gltJ 2664434 gltJ Bordetella pertussis Tohama I glutamate/aspartate transport system permease NP_878964.1 55664 R 257313 CDS NP_878965.1 33591321 2664661 complement(56505..57404) 1 NC_002929.2 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 57404 2664661 BP0057 Bordetella pertussis Tohama I amino acid ABC transporter binding protein NP_878965.1 56505 R 257313 CDS NP_878966.1 33591322 2664679 complement(57498..58448) 1 NC_002929.2 transposase for IS481 element; transposase 58448 2664679 BP0058 Bordetella pertussis Tohama I transposase NP_878966.1 57498 R 257313 CDS NP_878967.1 33591323 2664216 complement(59249..60475) 1 NC_002929.2 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 60475 2664216 BP0060 Bordetella pertussis Tohama I hypothetical protein NP_878967.1 59249 R 257313 CDS NP_878968.1 33591324 2664433 complement(60475..60894) 1 NC_002929.2 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 60894 2664433 BP0061 Bordetella pertussis Tohama I DNA-binding protein NP_878968.1 60475 R 257313 CDS NP_878969.1 33591325 2664371 complement(61078..62019) 1 NC_002929.2 no significant database matches; hypothetical protein 62019 2664371 BP0062 Bordetella pertussis Tohama I hypothetical protein NP_878969.1 61078 R 257313 CDS NP_878971.1 33591327 2664169 complement(62443..63279) 1 NC_002929.2 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 63279 2664169 BP0063 Bordetella pertussis Tohama I hypothetical protein NP_878971.1 62443 R 257313 CDS NP_878972.1 33591328 2664420 complement(63474..64055) 1 NC_002929.2 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 64055 2664420 BP0064 Bordetella pertussis Tohama I hypothetical protein NP_878972.1 63474 R 257313 CDS NP_878973.1 33591329 2666796 complement(64068..64370) 1 NC_002929.2 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 64370 2666796 BP0065 Bordetella pertussis Tohama I ferredoxin NP_878973.1 64068 R 257313 CDS NP_878974.1 33591330 2666609 complement(64489..65550) 1 NC_002929.2 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 65550 2666609 BP0066 Bordetella pertussis Tohama I oxidoreductase NP_878974.1 64489 R 257313 CDS NP_878975.1 33591331 2666249 complement(65582..66775) 1 NC_002929.2 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 66775 2666249 BP0067 Bordetella pertussis Tohama I hypothetical protein NP_878975.1 65582 R 257313 CDS NP_878976.1 33591332 2665580 complement(67483..68664) 1 NC_002929.2 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 68664 2665580 BP0069 Bordetella pertussis Tohama I hypothetical protein NP_878976.1 67483 R 257313 CDS NP_878977.1 33591333 2666679 69086..70036 1 NC_002929.2 transposase for IS481 element; transposase 70036 2666679 BP0071 Bordetella pertussis Tohama I transposase NP_878977.1 69086 D 257313 CDS NP_878978.1 33591334 2666036 70130..70444 1 NC_002929.2 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 70444 2666036 BP0072 Bordetella pertussis Tohama I transposase NP_878978.1 70130 D 257313 CDS NP_878979.1 33591335 2666131 71637..73544 1 NC_002929.2 molecular chaperone; heat shock protein 90 73544 htpG 2666131 htpG Bordetella pertussis Tohama I heat shock protein 90 NP_878979.1 71637 D 257313 CDS NP_878980.1 33591336 2666710 complement(73706..74326) 1 NC_002929.2 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 74326 2666710 BP0075 Bordetella pertussis Tohama I glutathione S-transferase NP_878980.1 73706 R 257313 CDS NP_878981.1 33591337 2666040 complement(74358..74939) 1 NC_002929.2 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 74939 ampD 2666040 ampD Bordetella pertussis Tohama I N-acetyl-anhydromuranmyl-L-alanine amidase NP_878981.1 74358 R 257313 CDS NP_878982.1 33591338 2667278 complement(75028..75279) 1 NC_002929.2 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 75279 2667278 BP0077 Bordetella pertussis Tohama I hypothetical protein NP_878982.1 75028 R 257313 CDS NP_878983.1 33591339 2667279 complement(75281..76123) 1 NC_002929.2 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 76123 2667279 BP0078 Bordetella pertussis Tohama I hypothetical protein NP_878983.1 75281 R 257313 CDS NP_878984.1 33591340 2666039 76229..77638 1 NC_002929.2 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 77638 ffh 2666039 ffh Bordetella pertussis Tohama I signal recognition particle protein NP_878984.1 76229 D 257313 CDS NP_878985.1 33591341 2665519 complement(77635..78585) 1 NC_002929.2 transposase for IS481 element; transposase 78585 2665519 BP0080 Bordetella pertussis Tohama I transposase NP_878985.1 77635 R 257313 CDS NP_878986.1 33591342 2666914 complement(79601..81475) 1 NC_002929.2 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 81475 bplL 2666914 bplL Bordetella pertussis Tohama I lipopolysaccharide biosynthesis protein NP_878986.1 79601 R 257313 CDS NP_878987.1 33591343 2667537 complement(82823..83527) 1 NC_002929.2 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 83527 bplI 2667537 bplI Bordetella pertussis Tohama I lipopolysaccharide biosynthesis protein NP_878987.1 82823 R 257313 CDS NP_878988.1 33591344 2667538 complement(83524..84696) 1 NC_002929.2 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 84696 bplH 2667538 bplH Bordetella pertussis Tohama I glycosyl transferase family protein NP_878988.1 83524 R 257313 CDS NP_878989.1 33591345 2666844 complement(84892..85485) 1 NC_002929.2 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 85485 bplG 2666844 bplG Bordetella pertussis Tohama I sugar transferase NP_878989.1 84892 R 257313 CDS NP_878990.1 33591346 2666035 complement(85482..86714) 1 NC_002929.2 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 86714 bplF 2666035 bplF Bordetella pertussis Tohama I lipopolysaccharide biosynthesis protein NP_878990.1 85482 R 257313 CDS NP_878991.1 33591347 2666750 complement(86732..87991) 1 NC_002929.2 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 87991 bplE 2666750 bplE Bordetella pertussis Tohama I glycosyl transferase family protein NP_878991.1 86732 R 257313 CDS NP_878992.1 33591348 2666775 complement(88015..89103) 1 NC_002929.2 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 89103 bplD 2666775 bplD Bordetella pertussis Tohama I UDP-N-acetylglucosamine 2-epimerase NP_878992.1 88015 R 257313 CDS NP_878993.1 33591349 2664947 complement(89111..90211) 1 NC_002929.2 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 90211 bplC 2664947 bplC Bordetella pertussis Tohama I lipopolysaccharide biosynthesis protein NP_878993.1 89111 R 257313 CDS NP_878994.1 33591350 2665059 complement(90215..90790) 1 NC_002929.2 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 90790 bplB 2665059 bplB Bordetella pertussis Tohama I acetyltransferase NP_878994.1 90215 R 257313 CDS NP_878995.1 33591351 2665129 complement(90794..91846) 1 NC_002929.2 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 91846 bplA 2665129 bplA Bordetella pertussis Tohama I oxidoreductase NP_878995.1 90794 R 257313 CDS NP_878996.1 33591352 2665138 91977..92984 1 NC_002929.2 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 92984 rfaC 2665138 rfaC Bordetella pertussis Tohama I heptosyltransferase NP_878996.1 91977 D 257313 CDS NP_878997.1 33591353 2665158 92986..94272 1 NC_002929.2 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 94272 kdtA 2665158 kdtA Bordetella pertussis Tohama I 3-deoxy-D-manno-octulosonic-acid transferase NP_878997.1 92986 D 257313 CDS NP_878998.1 33591354 2665222 complement(94289..94444) 1 NC_002929.2 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 94444 2665222 BP0096 Bordetella pertussis Tohama I hypothetical protein NP_878998.1 94289 R 257313 CDS NP_878999.1 33591355 2665227 complement(94469..95272) 1 NC_002929.2 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 95272 baf 2665227 baf Bordetella pertussis Tohama I pantothenate kinase NP_878999.1 94469 R 257313 CDS NP_879000.1 33591356 2665228 complement(95269..96135) 1 NC_002929.2 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 96135 birA 2665228 birA Bordetella pertussis Tohama I biotin--protein ligase NP_879000.1 95269 R 257313 CDS NP_879001.1 33591357 2665229 96210..97340 1 NC_002929.2 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 97340 2665229 BP0099 Bordetella pertussis Tohama I hypothetical protein NP_879001.1 96210 D 257313 CDS NP_879002.1 33591358 2665235 97340..98179 1 NC_002929.2 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 98179 2665235 BP0100 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879002.1 97340 D 257313 CDS NP_879003.1 33591359 2665297 99112..99714 1 NC_002929.2 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 99714 2665297 BP0101A Bordetella pertussis Tohama I hypothetical protein NP_879003.1 99112 D 257313 CDS NP_879004.1 33591360 2665302 99744..100397 1 NC_002929.2 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 100397 2665302 BP0101B Bordetella pertussis Tohama I hypothetical protein NP_879004.1 99744 D 257313 CDS NP_879005.1 33591361 2665303 100530..101786 1 NC_002929.2 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 101786 2665303 BP0102 Bordetella pertussis Tohama I penicillin-binding protein NP_879005.1 100530 D 257313 CDS NP_879006.1 33591362 2665309 101834..102733 1 NC_002929.2 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 102733 2665309 BP0103 Bordetella pertussis Tohama I class IV aminotransferase NP_879006.1 101834 D 257313 CDS NP_879007.1 33591363 2665310 102809..103084 1 NC_002929.2 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 103084 2665310 BP0104 Bordetella pertussis Tohama I hypothetical protein NP_879007.1 102809 D 257313 CDS NP_879008.1 33591364 2667428 103092..103754 1 NC_002929.2 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 103754 lipB 2667428 lipB Bordetella pertussis Tohama I lipoate-protein ligase B NP_879008.1 103092 D 257313 CDS NP_879009.1 33591365 2665325 103816..104817 1 NC_002929.2 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 104817 lipA 2665325 lipA Bordetella pertussis Tohama I lipoyl synthase NP_879009.1 103816 D 257313 CDS NP_879010.1 33591366 2665304 complement(104832..105380) 1 NC_002929.2 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 105380 rfbC 2665304 rfbC Bordetella pertussis Tohama I dTDP-4-dehydrorhamnose 3,5-epimerase NP_879010.1 104832 R 257313 CDS NP_879011.1 33591367 2665305 complement(105438..106334) 1 NC_002929.2 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 106334 rfbD 2665305 rfbD Bordetella pertussis Tohama I dTDP-4-dehydrorhamnose reductase NP_879011.1 105438 R 257313 CDS NP_879012.1 33591368 2665329 complement(106331..107392) 1 NC_002929.2 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 107392 rfbB 2665329 rfbB Bordetella pertussis Tohama I dTDP-glucose 4,6-dehydratase NP_879012.1 106331 R 257313 CDS NP_879013.1 33591369 2665337 complement(107428..108378) 1 NC_002929.2 transposase for IS481 element; transposase 108378 2665337 BP0110 Bordetella pertussis Tohama I transposase NP_879013.1 107428 R 257313 CDS NP_879014.1 33591370 2665150 109278..110471 1 NC_002929.2 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 110471 metC 2665150 metC Bordetella pertussis Tohama I cystathionine beta-lyase NP_879014.1 109278 D 257313 CDS NP_879015.1 33591371 2667558 complement(110553..111182) 1 NC_002929.2 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 111182 dsbA 2667558 dsbA Bordetella pertussis Tohama I thiol:disulfide interchange protein DsbA precursor NP_879015.1 110553 R 257313 CDS NP_879016.1 33591372 2667419 complement(111244..111927) 1 NC_002929.2 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 111927 2667419 BP0114 Bordetella pertussis Tohama I hypothetical protein NP_879016.1 111244 R 257313 CDS NP_879017.1 33591373 2667420 complement(111937..113724) 1 NC_002929.2 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 113724 argS 2667420 argS Bordetella pertussis Tohama I arginyl-tRNA synthetase NP_879017.1 111937 R 257313 CDS NP_879018.1 33591374 2664336 113874..114254 1 NC_002929.2 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 114254 2664336 BP0116 Bordetella pertussis Tohama I hypothetical protein NP_879018.1 113874 D 257313 CDS NP_879019.1 33591375 2664337 114303..114662 1 NC_002929.2 no significant database matches; hypothetical protein 114662 2664337 BP0117 Bordetella pertussis Tohama I hypothetical protein NP_879019.1 114303 D 257313 CDS NP_879020.1 33591376 2664726 114945..115961 1 NC_002929.2 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 115961 2664726 BP0118 Bordetella pertussis Tohama I transposase for IS1663 NP_879020.1 114945 D 257313 CDS NP_879021.1 33591377 2664310 complement(116037..116837) 1 NC_002929.2 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 116837 2664310 BP0119 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_879021.1 116037 R 257313 CDS NP_879022.1 33591378 2664359 complement(116834..117709) 1 NC_002929.2 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 117709 2664359 BP0120 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_879022.1 116834 R 257313 CDS NP_879023.1 33591379 2664053 complement(117720..119012) 1 NC_002929.2 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 119012 2664053 BP0121 Bordetella pertussis Tohama I glycerol-3-phosphate ABC transporter substrate-binding protein NP_879023.1 117720 R 257313 CDS NP_879024.1 33591380 2667425 complement(119055..120095) 1 NC_002929.2 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 120095 2667425 BP0122 Bordetella pertussis Tohama I sugar ABC transporter ATP-binding protein NP_879024.1 119055 R 257313 CDS NP_879025.1 33591381 2665353 complement(120201..121022) 1 NC_002929.2 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 121022 2665353 BP0123 Bordetella pertussis Tohama I cAMP phosphodiesterase NP_879025.1 120201 R 257313 CDS NP_879026.1 33591382 2664307 complement(121123..122073) 1 NC_002929.2 transposase for IS481 element; transposase 122073 2664307 BP0124 Bordetella pertussis Tohama I transposase NP_879026.1 121123 R 257313 CDS NP_879027.1 33591383 2664090 complement(123074..123922) 1 NC_002929.2 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 123922 2664090 BP0126 Bordetella pertussis Tohama I ABC transporter permease NP_879027.1 123074 R 257313 CDS NP_879028.1 33591384 2664129 complement(124744..125754) 1 NC_002929.2 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 125754 2664129 BP0128 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_879028.1 124744 R 257313 CDS NP_879029.1 33591385 2664497 127034..128287 1 NC_002929.2 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 128287 2664497 BP0130 Bordetella pertussis Tohama I amidase NP_879029.1 127034 D 257313 CDS NP_879030.1 33591386 2664074 complement(128378..130078) 1 NC_002929.2 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 130078 leuA 2664074 leuA Bordetella pertussis Tohama I 2-isopropylmalate synthase NP_879030.1 128378 R 257313 CDS NP_879031.1 33591387 2664382 complement(130505..131152) 1 NC_002929.2 no significant database matches; hypothetical protein 131152 2664382 BP0132 Bordetella pertussis Tohama I hypothetical protein NP_879031.1 130505 R 257313 CDS NP_879032.1 33591388 2665377 131169..132590 1 NC_002929.2 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 132590 rpoN 2665377 rpoN Bordetella pertussis Tohama I RNA polymerase sigma-54 factor NP_879032.1 131169 D 257313 CDS NP_879033.1 33591389 2664088 132683..132985 1 NC_002929.2 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 132985 2664088 BP0134 Bordetella pertussis Tohama I bacterioferritin-associated ferredoxin NP_879033.1 132683 D 257313 CDS NP_879034.1 33591390 2664089 complement(133013..133933) 1 NC_002929.2 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 133933 2664089 BP0135 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879034.1 133013 R 257313 CDS NP_879035.1 33591391 2664165 complement(135158..136108) 1 NC_002929.2 transposase for IS481 element; transposase 136108 2664165 BP0137 Bordetella pertussis Tohama I transposase NP_879035.1 135158 R 257313 CDS NP_879036.1 33591392 2664284 complement(136527..138035) 1 NC_002929.2 threonine deaminase; threonine dehydratase; in Escherichia coli, IlvA is part of the isoleucine biosynthetic pathway; threonine dehydratase 138035 ilvA 2664284 ilvA Bordetella pertussis Tohama I threonine dehydratase NP_879036.1 136527 R 257313 CDS NP_879037.1 33591393 2664365 138845..142744 1 NC_002929.2 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 142744 2664365 BP0141 Bordetella pertussis Tohama I iron-sulfur binding oxidase NP_879037.1 138845 D 257313 CDS NP_879038.1 33591394 2664031 142797..143579 1 NC_002929.2 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 143579 2664031 BP0142 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879038.1 142797 D 257313 CDS NP_879039.1 33591395 2664124 complement(143667..144890) 1 NC_002929.2 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 144890 2664124 BP0143 Bordetella pertussis Tohama I hypothetical protein NP_879039.1 143667 R 257313 CDS NP_879040.1 33591396 2664023 complement(144874..145806) 1 NC_002929.2 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 145806 2664023 BP0144 Bordetella pertussis Tohama I lipase NP_879040.1 144874 R 257313 CDS NP_879041.1 33591397 2664041 complement(145812..146624) 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 146624 2664041 BP0145 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_879041.1 145812 R 257313 CDS NP_879042.1 33591398 2667584 complement(147937..148908) 1 NC_002929.2 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 148908 2667584 BP0148 Bordetella pertussis Tohama I hypothetical protein NP_879042.1 147937 R 257313 CDS NP_879043.1 33591399 2665215 149027..149809 1 NC_002929.2 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 149809 2665215 BP0149 Bordetella pertussis Tohama I transcriptional regulator NP_879043.1 149027 D 257313 CDS NP_879044.1 33591400 2667407 complement(150576..151556) 1 NC_002929.2 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 151556 2667407 BP0151 Bordetella pertussis Tohama I hypothetical protein NP_879044.1 150576 R 257313 CDS NP_879045.1 33591401 2664142 complement(151553..152281) 1 NC_002929.2 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 152281 2664142 BP0152 Bordetella pertussis Tohama I hypothetical protein NP_879045.1 151553 R 257313 CDS NP_879046.1 33591402 2664153 complement(152306..152737) 1 NC_002929.2 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 152737 2664153 BP0153 Bordetella pertussis Tohama I dioxygenase NP_879046.1 152306 R 257313 CDS NP_879047.1 33591403 2664483 152839..153714 1 NC_002929.2 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 153714 brg1 2664483 brg1 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879047.1 152839 D 257313 CDS NP_879048.1 33591404 2664335 complement(153767..154987) 1 NC_002929.2 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 154987 serA 2664335 serA Bordetella pertussis Tohama I D-3-phosphoglycerate dehydrogenase NP_879048.1 153767 R 257313 CDS NP_879049.1 33591405 2664025 complement(155071..155532) 1 NC_002929.2 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 155532 2664025 BP0156 Bordetella pertussis Tohama I hypothetical protein NP_879049.1 155071 R 257313 CDS NP_879050.1 33591406 2664026 complement(155638..157035) 1 NC_002929.2 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 157035 2664026 BP0157 Bordetella pertussis Tohama I two-component sensor kinase NP_879050.1 155638 R 257313 CDS NP_879051.1 33591407 2664421 complement(157032..157709) 1 NC_002929.2 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 157709 2664421 BP0158 Bordetella pertussis Tohama I two-component response regulator NP_879051.1 157032 R 257313 CDS NP_879052.1 33591408 2664400 complement(157765..159075) 1 NC_002929.2 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 159075 phoR 2664400 phoR Bordetella pertussis Tohama I phosphate regulon sensor protein NP_879052.1 157765 R 257313 CDS NP_879053.1 33591409 2664409 complement(159087..159785) 1 NC_002929.2 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 159785 phoB 2664409 phoB Bordetella pertussis Tohama I phosphate regulon transcriptional regulatory protein NP_879053.1 159087 R 257313 CDS NP_879054.1 33591410 2664411 159949..160725 1 NC_002929.2 Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone; ubiquinone/menaquinone biosynthesis methyltransferase 160725 ubiE 2664411 ubiE Bordetella pertussis Tohama I ubiquinone/menaquinone biosynthesis methyltransferase NP_879054.1 159949 D 257313 CDS NP_879055.1 33591411 2664287 160891..161913 1 NC_002929.2 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 161913 2664287 BP0162 Bordetella pertussis Tohama I hypothetical protein NP_879055.1 160891 D 257313 CDS NP_879056.1 33591412 2664207 162091..162777 1 NC_002929.2 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 162777 2664207 BP0163 Bordetella pertussis Tohama I hypothetical protein NP_879056.1 162091 D 257313 CDS NP_879057.1 33591413 2664208 162774..164336 1 NC_002929.2 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 164336 ubiB 2664208 ubiB Bordetella pertussis Tohama I ubiquinone biosynthesis protein UbiB NP_879057.1 162774 D 257313 CDS NP_879058.1 33591414 2664524 complement(164895..165845) 1 NC_002929.2 transposase for IS481 element; transposase 165845 2664524 BP0166 Bordetella pertussis Tohama I transposase NP_879058.1 164895 R 257313 CDS NP_879059.1 33591415 2664178 complement(167287..168189) 1 NC_002929.2 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 168189 2664178 BP0168 Bordetella pertussis Tohama I hypothetical protein NP_879059.1 167287 R 257313 CDS NP_879060.1 33591416 2664346 complement(168167..168796) 1 NC_002929.2 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 168796 2664346 BP0169 Bordetella pertussis Tohama I hypothetical protein NP_879060.1 168167 R 257313 CDS NP_879061.1 33591417 2667429 169079..170509 1 NC_002929.2 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 170509 rhlE 2667429 rhlE Bordetella pertussis Tohama I ATP-dependent RNA helicase NP_879061.1 169079 D 257313 CDS NP_879062.1 33591418 2664301 170543..171172 1 NC_002929.2 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 171172 2664301 BP0171 Bordetella pertussis Tohama I LysE family efflux protein NP_879062.1 170543 D 257313 CDS NP_879063.1 33591419 2664775 171197..172828 1 NC_002929.2 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 172828 prfC 2664775 prfC Bordetella pertussis Tohama I peptide chain release factor 3 NP_879063.1 171197 D 257313 CDS NP_879064.1 33591420 2664007 172853..173536 1 NC_002929.2 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 173536 2664007 BP0173 Bordetella pertussis Tohama I hypothetical protein NP_879064.1 172853 D 257313 CDS NP_879065.1 33591421 2664291 complement(173618..174094) 1 NC_002929.2 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 174094 bfr 2664291 bfr Bordetella pertussis Tohama I bacterioferritin NP_879065.1 173618 R 257313 CDS NP_879066.1 33591422 2664276 174301..175251 1 NC_002929.2 transposase for IS481 element; transposase 175251 2664276 BP0175 Bordetella pertussis Tohama I transposase NP_879066.1 174301 D 257313 CDS NP_879067.1 33591423 2664356 176367..176894 1 NC_002929.2 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 176894 2664356 BP0177 Bordetella pertussis Tohama I lipoprotein NP_879067.1 176367 D 257313 CDS NP_879068.1 33591424 2664354 176986..177801 1 NC_002929.2 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 177801 2664354 BP0178 Bordetella pertussis Tohama I lipoprotein NP_879068.1 176986 D 257313 CDS NP_879069.1 33591425 2664355 177862..178596 1 NC_002929.2 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 178596 2664355 BP0179 Bordetella pertussis Tohama I rhodanese superfamily protein NP_879069.1 177862 D 257313 CDS NP_879070.1 33591426 2664345 complement(178634..180712) 1 NC_002929.2 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 180712 metG 2664345 metG Bordetella pertussis Tohama I methionyl-tRNA synthetase NP_879070.1 178634 R 257313 CDS NP_879071.1 33591427 2664334 complement(180962..181234) 1 NC_002929.2 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 181234 2664334 BP0181 Bordetella pertussis Tohama I hypothetical protein NP_879071.1 180962 R 257313 CDS NP_879072.1 33591428 2664282 181333..182421 1 NC_002929.2 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 182421 2664282 BP0182 Bordetella pertussis Tohama I iron sulfur binding protein NP_879072.1 181333 D 257313 CDS NP_879073.1 33591429 2664065 182425..184329 1 NC_002929.2 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 184329 2664065 BP0183 Bordetella pertussis Tohama I hypothetical protein NP_879073.1 182425 D 257313 CDS NP_879074.1 33591430 2664179 184326..188024 1 NC_002929.2 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 188024 2664179 BP0184 Bordetella pertussis Tohama I hypothetical protein NP_879074.1 184326 D 257313 CDS NP_879075.1 33591431 2664838 188085..188648 1 NC_002929.2 Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis; deoxycytidine triphosphate deaminase 188648 dcd 2664838 dcd Bordetella pertussis Tohama I deoxycytidine triphosphate deaminase NP_879075.1 188085 D 257313 CDS NP_879076.1 33591432 2665394 complement(188656..189078) 1 NC_002929.2 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 189078 2665394 BP0186 Bordetella pertussis Tohama I hypothetical protein NP_879076.1 188656 R 257313 CDS NP_879077.1 33591433 2667701 complement(189106..189525) 1 NC_002929.2 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 189525 2667701 BP0187 Bordetella pertussis Tohama I lyase NP_879077.1 189106 R 257313 CDS NP_879078.1 33591434 2664018 190127..190624 1 NC_002929.2 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 190624 2664018 BP0189 Bordetella pertussis Tohama I hypothetical protein NP_879078.1 190127 D 257313 CDS NP_879079.1 33591435 2664019 190779..193049 1 NC_002929.2 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 193049 2664019 BP0190 Bordetella pertussis Tohama I Orn/Arg/Lys decarboxylase NP_879079.1 190779 D 257313 CDS NP_879080.1 33591436 2664468 193098..194330 1 NC_002929.2 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 194330 2664468 BP0191 Bordetella pertussis Tohama I hypothetical protein NP_879080.1 193098 D 257313 CDS NP_879081.1 33591437 2664033 194429..195379 1 NC_002929.2 transposase for IS481 element; transposase 195379 2664033 BP0192 Bordetella pertussis Tohama I transposase NP_879081.1 194429 D 257313 CDS NP_879082.1 33591438 2664387 195482..196117 1 NC_002929.2 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 196117 sodA 2664387 sodA Bordetella pertussis Tohama I superoxide dismutase NP_879082.1 195482 D 257313 CDS NP_879083.1 33591439 2664388 196114..197007 1 NC_002929.2 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 197007 2664388 BP0194 Bordetella pertussis Tohama I metal transporter NP_879083.1 196114 D 257313 CDS NP_879084.1 33591440 2664003 197402..198502 1 NC_002929.2 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 198502 gcvT 2664003 gcvT Bordetella pertussis Tohama I glycine cleavage system aminomethyltransferase T NP_879084.1 197402 D 257313 CDS NP_879085.1 33591441 2663988 198584..198958 1 NC_002929.2 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 198958 gcvH 2663988 gcvH Bordetella pertussis Tohama I glycine cleavage system protein H NP_879085.1 198584 D 257313 CDS NP_879086.1 33591442 2664002 199018..201882 1 NC_002929.2 acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; glycine dehydrogenase 201882 gcvP 2664002 gcvP Bordetella pertussis Tohama I glycine dehydrogenase NP_879086.1 199018 D 257313 CDS NP_879087.1 33591443 2667698 complement(202027..202767) 1 NC_002929.2 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 202767 2667698 BP0198 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879087.1 202027 R 257313 CDS NP_879088.1 33591444 2664596 202837..204048 1 NC_002929.2 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 204048 2664596 BP0199 Bordetella pertussis Tohama I hypothetical protein NP_879088.1 202837 D 257313 CDS NP_879089.1 33591445 2664581 204077..205045 1 NC_002929.2 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 205045 2664581 BP0200 Bordetella pertussis Tohama I hypothetical protein NP_879089.1 204077 D 257313 CDS NP_879090.1 33591446 2664149 205659..206609 1 NC_002929.2 transposase for IS481 element; transposase 206609 2664149 BP0202 Bordetella pertussis Tohama I transposase NP_879090.1 205659 D 257313 CDS NP_879091.1 33591447 2665242 complement(206729..207679) 1 NC_002929.2 transposase for IS481 element; transposase 207679 2665242 BP0203 Bordetella pertussis Tohama I transposase NP_879091.1 206729 R 257313 CDS NP_879092.1 33591448 2665762 complement(207794..208795) 1 NC_002929.2 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 208795 2665762 BP0204 Bordetella pertussis Tohama I restriction endonuclease NP_879092.1 207794 R 257313 CDS NP_879093.1 33591449 2665763 complement(208886..209452) 1 NC_002929.2 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 209452 2665763 BP0205 Bordetella pertussis Tohama I hypothetical protein NP_879093.1 208886 R 257313 CDS NP_879094.1 33591450 2665806 209771..211684 1 NC_002929.2 required for the synthesis of the hydromethylpyrimidine moiety of thiamine; thiamine biosynthesis protein ThiC 211684 thiC 2665806 thiC Bordetella pertussis Tohama I thiamine biosynthesis protein ThiC NP_879094.1 209771 D 257313 CDS NP_879095.1 33591451 2667559 complement(211726..213156) 1 NC_002929.2 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 213156 2667559 BP0207 Bordetella pertussis Tohama I aldehyde dehydrogenase NP_879095.1 211726 R 257313 CDS NP_879096.1 33591452 2664737 complement(213269..214681) 1 NC_002929.2 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 214681 2664737 BP0208 Bordetella pertussis Tohama I oxidoreductase NP_879096.1 213269 R 257313 CDS NP_879097.1 33591453 2664753 complement(214698..215393) 1 NC_002929.2 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 215393 2664753 BP0209 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879097.1 214698 R 257313 CDS NP_879098.1 33591454 2664735 215612..216562 1 NC_002929.2 transposase for IS481 element; transposase 216562 2664735 BP0210 Bordetella pertussis Tohama I transposase NP_879098.1 215612 D 257313 CDS NP_879099.1 33591455 2664731 216661..217611 1 NC_002929.2 transposase for IS481 element; transposase 217611 2664731 BP0211 Bordetella pertussis Tohama I transposase NP_879099.1 216661 D 257313 CDS NP_879100.1 33591456 2664730 complement(217636..218535) 1 NC_002929.2 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 218535 2664730 BP0212 Bordetella pertussis Tohama I hydrolase NP_879100.1 217636 R 257313 CDS NP_879101.1 33591457 2664733 218690..219238 1 NC_002929.2 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 219238 2664733 BP0213 Bordetella pertussis Tohama I acetyltransferase NP_879101.1 218690 D 257313 CDS NP_879102.1 33591458 2664734 complement(219277..219996) 1 NC_002929.2 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 219996 2664734 BP0214 Bordetella pertussis Tohama I hypothetical protein NP_879102.1 219277 R 257313 CDS NP_879103.1 33591459 2664728 220068..223010 1 NC_002929.2 catalyzes the formation of oxaloacetate from phosphoenolpyruvate; phosphoenolpyruvate carboxylase 223010 ppc 2664728 ppc Bordetella pertussis Tohama I phosphoenolpyruvate carboxylase NP_879103.1 220068 D 257313 CDS NP_879104.1 33591460 2664729 223601..226399 1 NC_002929.2 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 226399 sphB1 2664729 sphB1 Bordetella pertussis Tohama I autotransporter subtilisin-like protease NP_879104.1 223601 D 257313 CDS NP_879105.1 33591461 2664727 226857..227789 1 NC_002929.2 converts (S)-3-hydroxybutanoyl-CoA to 3-acetoacetyl-CoA; 3-hydroxybutyryl-CoA dehydrogenase 227789 2664727 BP0217 Bordetella pertussis Tohama I 3-hydroxybutyryl-CoA dehydrogenase NP_879105.1 226857 D 257313 CDS NP_879106.1 33591462 2664749 227901..229250 1 NC_002929.2 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 229250 2664749 BP0218 Bordetella pertussis Tohama I short-chain fatty acids transporter NP_879106.1 227901 D 257313 CDS NP_879107.1 33591463 2664739 229282..230007 1 NC_002929.2 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 230007 2664739 BP0219 Bordetella pertussis Tohama I short-chain dehydrogenase NP_879107.1 229282 D 257313 CDS NP_879108.1 33591464 2664738 complement(230058..230909) 1 NC_002929.2 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 230909 2664738 BP0220 Bordetella pertussis Tohama I transcriptional regulator NP_879108.1 230058 R 257313 CDS NP_879109.1 33591465 2664742 231039..231725 1 NC_002929.2 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 231725 catI 2664742 catI Bordetella pertussis Tohama I 3-oxoadipate CoA-transferase subunit A NP_879109.1 231039 D 257313 CDS NP_879110.1 33591466 2664751 231725..232369 1 NC_002929.2 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 232369 catJ 2664751 catJ Bordetella pertussis Tohama I 3-oxoadipate CoA-transferase subunit B NP_879110.1 231725 D 257313 CDS NP_879111.1 33591467 2664752 232426..232701 1 NC_002929.2 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 232701 catC2 2664752 catC2 Bordetella pertussis Tohama I methylmuconolactone isomerase NP_879111.1 232426 D 257313 CDS NP_879112.1 33591468 2664755 232727..233023 1 NC_002929.2 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 233023 2664755 BP0224 Bordetella pertussis Tohama I hypothetical protein NP_879112.1 232727 D 257313 CDS NP_879113.1 33591469 2664747 233069..233848 1 NC_002929.2 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 233848 catD2 2664747 catD2 Bordetella pertussis Tohama I 3-oxoadipate enol-lactone hydrolase NP_879113.1 233069 D 257313 CDS NP_879114.1 33591470 2664748 233845..234894 1 NC_002929.2 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 234894 2664748 BP0226 Bordetella pertussis Tohama I hypothetical protein NP_879114.1 233845 D 257313 CDS NP_879115.1 33591471 2664743 complement(234999..235322) 1 NC_002929.2 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 235322 psiF 2664743 psiF Bordetella pertussis Tohama I phosphate starvation-inducible protein NP_879115.1 234999 R 257313 CDS NP_879116.1 33591472 2664744 complement(235479..236429) 1 NC_002929.2 transposase for IS481 element; transposase 236429 2664744 BP0228 Bordetella pertussis Tohama I transposase NP_879116.1 235479 R 257313 CDS NP_879117.1 33591473 2664750 complement(236528..237325) 1 NC_002929.2 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 237325 2664750 BP0229 Bordetella pertussis Tohama I beta-D-hydroxybutyrate dehydrogenase NP_879117.1 236528 R 257313 CDS NP_879118.1 33591474 2664746 238275..238685 1 NC_002929.2 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 238685 pcaC 2664746 pcaC Bordetella pertussis Tohama I 4-carboxymuconolactone decarboxylase NP_879118.1 238275 D 257313 CDS NP_879119.1 33591475 2664736 complement(239707..240450) 1 NC_002929.2 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 240450 2664736 BP0233 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879119.1 239707 R 257313 CDS NP_879120.1 33591476 2664745 complement(240494..241537) 1 NC_002929.2 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 241537 2664745 BP0234 Bordetella pertussis Tohama I C4-dicarboxylate ABC transporter substrate-binding protein NP_879120.1 240494 R 257313 CDS NP_879121.1 33591477 2664754 241708..243810 1 NC_002929.2 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 243810 2664754 BP0235 Bordetella pertussis Tohama I hypothetical protein NP_879121.1 241708 D 257313 CDS NP_879122.1 33591478 2664117 245221..246177 1 NC_002929.2 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 246177 2664117 BP0237 Bordetella pertussis Tohama I hypothetical protein NP_879122.1 245221 D 257313 CDS NP_879123.1 33591479 2664242 complement(246196..246687) 1 NC_002929.2 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 246687 folK 2664242 folK Bordetella pertussis Tohama I 2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase NP_879123.1 246196 R 257313 CDS NP_879124.1 33591480 2664143 complement(246684..248039) 1 NC_002929.2 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 248039 pcnB 2664143 pcnB Bordetella pertussis Tohama I poly(A) polymerase NP_879124.1 246684 R 257313 CDS NP_879125.1 33591481 2664238 complement(248040..248738) 1 NC_002929.2 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 248738 2664238 BP0240 Bordetella pertussis Tohama I hypothetical protein NP_879125.1 248040 R 257313 CDS NP_879126.1 33591482 2664239 complement(248735..249436) 1 NC_002929.2 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 249436 2664239 BP0241 Bordetella pertussis Tohama I DnaA regulatory inactivator Hda NP_879126.1 248735 R 257313 CDS NP_879127.1 33591483 2663977 249689..250738 1 NC_002929.2 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis; phosphoribosylaminoimidazole synthetase 250738 purM 2663977 purM Bordetella pertussis Tohama I phosphoribosylaminoimidazole synthetase NP_879127.1 249689 D 257313 CDS NP_879128.1 33591484 2663978 complement(250844..251785) 1 NC_002929.2 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 251785 miaA 2663978 miaA Bordetella pertussis Tohama I tRNA delta(2)-isopentenylpyrophosphate transferase NP_879128.1 250844 R 257313 CDS NP_879129.1 33591485 2664116 complement(251782..253671) 1 NC_002929.2 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 253671 mutL 2664116 mutL Bordetella pertussis Tohama I DNA mismatch repair protein NP_879129.1 251782 R 257313 CDS NP_879130.1 33591486 2664127 253758..254396 1 NC_002929.2 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 254396 dedA 2664127 dedA Bordetella pertussis Tohama I hypothetical protein NP_879130.1 253758 D 257313 CDS NP_879131.1 33591487 2664107 complement(254539..255783) 1 NC_002929.2 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 255783 amiC 2664107 amiC Bordetella pertussis Tohama I N-acetylmuramoyl-L-alanine amidase NP_879131.1 254539 R 257313 CDS NP_879132.1 33591488 2664146 complement(255855..256391) 1 NC_002929.2 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 256391 2664146 BP0247 Bordetella pertussis Tohama I hypothetical protein NP_879132.1 255855 R 257313 CDS NP_879133.1 33591489 2664150 256543..257934 1 NC_002929.2 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 257934 fumC 2664150 fumC Bordetella pertussis Tohama I fumarate hydratase NP_879133.1 256543 D 257313 CDS NP_879134.1 33591490 2664135 complement(257951..258931) 1 NC_002929.2 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 258931 2664135 BP0249 Bordetella pertussis Tohama I hypothetical protein NP_879134.1 257951 R 257313 CDS NP_879135.1 33591491 2664520 259067..260050 1 NC_002929.2 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 260050 2664520 BP0250 Bordetella pertussis Tohama I hypothetical protein NP_879135.1 259067 D 257313 CDS NP_879136.1 33591492 2664136 complement(260115..261014) 1 NC_002929.2 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 261014 2664136 BP0251 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879136.1 260115 R 257313 CDS NP_879137.1 33591493 2664101 261121..262875 1 NC_002929.2 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 262875 ggt 2664101 ggt Bordetella pertussis Tohama I gamma-glutamyltranspeptidase NP_879137.1 261121 D 257313 CDS NP_879138.1 33591494 2664140 complement(262883..264007) 1 NC_002929.2 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 264007 2664140 BP0253 Bordetella pertussis Tohama I hypothetical protein NP_879138.1 262883 R 257313 CDS NP_879139.1 33591495 2664141 complement(264021..265001) 1 NC_002929.2 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 265001 2664141 BP0254 Bordetella pertussis Tohama I hypothetical protein NP_879139.1 264021 R 257313 CDS NP_879140.1 33591496 2664144 265732..266682 1 NC_002929.2 transposase for IS481 element; transposase 266682 2664144 BP0256 Bordetella pertussis Tohama I transposase NP_879140.1 265732 D 257313 CDS NP_879141.1 33591497 2664530 267242..267787 1 NC_002929.2 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 267787 2664530 BP0258 Bordetella pertussis Tohama I hypothetical protein NP_879141.1 267242 D 257313 CDS NP_879142.1 33591498 2664035 267871..269490 1 NC_002929.2 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 269490 cydA 2664035 cydA Bordetella pertussis Tohama I cytochrome D ubiquinol oxidase subunit I NP_879142.1 267871 D 257313 CDS NP_879143.1 33591499 2664111 269506..270660 1 NC_002929.2 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 270660 cydB 2664111 cydB Bordetella pertussis Tohama I cytochrome D ubiquinol oxidase subunit II NP_879143.1 269506 D 257313 CDS NP_879144.1 33591500 2664102 270674..270799 1 NC_002929.2 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 270799 2664102 BP0261 Bordetella pertussis Tohama I hypothetical protein NP_879144.1 270674 D 257313 CDS NP_879145.1 33591501 2664103 270796..272547 1 NC_002929.2 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 272547 2664103 BP0262 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879145.1 270796 D 257313 CDS NP_879146.1 33591502 2664240 272544..274223 1 NC_002929.2 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 274223 2664240 BP0263 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879146.1 272544 D 257313 CDS NP_879147.1 33591503 2664110 274286..274834 1 NC_002929.2 catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis; adenine phosphoribosyltransferase 274834 apt 2664110 apt Bordetella pertussis Tohama I adenine phosphoribosyltransferase NP_879147.1 274286 D 257313 CDS NP_879148.1 33591504 2663987 275977..276255 1 NC_002929.2 no significant database matches. Similar to BP1766, BP2719, BP3099, BP3683, and BP3731; hypothetical protein 276255 2663987 BP0266 Bordetella pertussis Tohama I hypothetical protein NP_879148.1 275977 D 257313 CDS NP_879149.1 33591505 2664044 complement(277299..278249) 1 NC_002929.2 transposase for IS481 element; transposase 278249 2664044 BP0268 Bordetella pertussis Tohama I transposase NP_879149.1 277299 R 257313 CDS NP_879150.1 33591506 2664043 278527..278688 1 NC_002929.2 no significant database matches; hypothetical protein 278688 2664043 BP0270 Bordetella pertussis Tohama I hypothetical protein NP_879150.1 278527 D 257313 CDS NP_879151.1 33591507 2664505 278696..278836 1 NC_002929.2 no significant database matches; hypothetical protein 278836 2664505 BP0271 Bordetella pertussis Tohama I hypothetical protein NP_879151.1 278696 D 257313 CDS NP_879153.1 33591509 2664014 complement(279355..279804) 1 NC_002929.2 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 279804 sspB 2664014 sspB Bordetella pertussis Tohama I ClpXP protease specificity-enhancing factor NP_879153.1 279355 R 257313 CDS NP_879154.1 33591510 2664015 complement(279814..280425) 1 NC_002929.2 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 280425 sspA 2664015 sspA Bordetella pertussis Tohama I stringent starvation protein A NP_879154.1 279814 R 257313 CDS NP_879155.1 33591511 2664048 complement(280584..281432) 1 NC_002929.2 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 281432 petC 2664048 petC Bordetella pertussis Tohama I cytochrome C1 precursor NP_879155.1 280584 R 257313 CDS NP_879156.1 33591512 2664496 complement(281458..282840) 1 NC_002929.2 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 282840 petB 2664496 petB Bordetella pertussis Tohama I cytochrome B NP_879156.1 281458 R 257313 CDS NP_879157.1 33591513 2664099 complement(282905..283546) 1 NC_002929.2 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 283546 petA 2664099 petA Bordetella pertussis Tohama I ubiquinol-cytochrome C reductase iron-sulfur subunit NP_879157.1 282905 R 257313 CDS NP_879158.1 33591514 2667692 283686..284144 1 NC_002929.2 homopentamer; channel that opens in response to pressure or hypoosmotic shock; large-conductance mechanosensitive channel 284144 mscL 2667692 mscL Bordetella pertussis Tohama I large-conductance mechanosensitive channel NP_879158.1 283686 D 257313 CDS NP_879159.1 33591515 2664187 complement(284169..284945) 1 NC_002929.2 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 284945 2664187 BP0279 Bordetella pertussis Tohama I hypothetical protein NP_879159.1 284169 R 257313 CDS NP_879160.1 33591516 2664034 284999..286135 1 NC_002929.2 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 286135 degQ 2664034 degQ Bordetella pertussis Tohama I protease NP_879160.1 284999 D 257313 CDS NP_879161.1 33591517 2663976 complement(286132..287082) 1 NC_002929.2 transposase for IS481 element; transposase 287082 2663976 BP0281 Bordetella pertussis Tohama I transposase NP_879161.1 286132 R 257313 CDS NP_879162.1 33591518 2664114 complement(287181..287807) 1 NC_002929.2 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 287807 2664114 BP0282 Bordetella pertussis Tohama I regulatory protein NP_879162.1 287181 R 257313 CDS NP_879163.1 33591519 2664121 complement(287830..288756) 1 NC_002929.2 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 288756 2664121 BP0283 Bordetella pertussis Tohama I 2-hydroxyacid dehydrogenase NP_879163.1 287830 R 257313 CDS NP_879164.1 33591520 2664122 complement(288765..290351) 1 NC_002929.2 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 290351 2664122 BP0284 Bordetella pertussis Tohama I extracellular solute-binding protein NP_879164.1 288765 R 257313 CDS NP_879165.1 33591521 2664137 complement(290348..291352) 1 NC_002929.2 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 291352 2664137 BP0285 Bordetella pertussis Tohama I acetyl esterase NP_879165.1 290348 R 257313 CDS NP_879166.1 33591522 2664138 291552..292412 1 NC_002929.2 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 292412 2664138 BP0286 Bordetella pertussis Tohama I transcriptional regulator NP_879166.1 291552 D 257313 CDS NP_879167.1 33591523 2664237 complement(292444..293445) 1 NC_002929.2 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 293445 leuA 2664237 leuA Bordetella pertussis Tohama I hypothetical protein NP_879167.1 292444 R 257313 CDS NP_879168.1 33591524 2664128 293516..294325 1 NC_002929.2 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 294325 2664128 BP0288 Bordetella pertussis Tohama I transcriptional regulator NP_879168.1 293516 D 257313 CDS NP_879169.1 33591525 2664109 294403..296262 1 NC_002929.2 catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis; dihydroxy-acid dehydratase 296262 ilvD 2664109 ilvD Bordetella pertussis Tohama I dihydroxy-acid dehydratase NP_879169.1 294403 D 257313 CDS NP_879170.1 33591526 2664105 complement(296391..297593) 1 NC_002929.2 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 297593 2664105 BP0290 Bordetella pertussis Tohama I transporter NP_879170.1 296391 R 257313 CDS NP_879171.1 33591527 2664104 297707..298588 1 NC_002929.2 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 298588 2664104 BP0291 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879171.1 297707 D 257313 CDS NP_879172.1 33591528 2664148 complement(300091..300651) 1 NC_002929.2 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 300651 2664148 BP0294 Bordetella pertussis Tohama I 5'(3')-deoxyribonucleotidase NP_879172.1 300091 R 257313 CDS NP_879173.1 33591529 2664502 complement(300711..301661) 1 NC_002929.2 transposase for IS481 element; transposase 301661 2664502 BP0295 Bordetella pertussis Tohama I transposase NP_879173.1 300711 R 257313 CDS NP_879175.1 33591531 2663979 302229..303179 1 NC_002929.2 transposase for IS481 element; transposase 303179 2663979 BP0297 Bordetella pertussis Tohama I transposase NP_879175.1 302229 D 257313 CDS NP_879176.1 33591532 2663962 complement(303176..304174) 1 NC_002929.2 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 304174 2663962 BP0298 Bordetella pertussis Tohama I hypothetical protein NP_879176.1 303176 R 257313 CDS NP_879177.1 33591533 2663963 complement(304217..304720) 1 NC_002929.2 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 304720 2663963 BP0299 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_879177.1 304217 R 257313 CDS NP_879178.1 33591534 2664377 complement(304724..305614) 1 NC_002929.2 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 305614 2664377 BP0300 Bordetella pertussis Tohama I esterase NP_879178.1 304724 R 257313 CDS NP_879179.1 33591535 2664378 305837..307000 1 NC_002929.2 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 307000 2664378 BP0301 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_879179.1 305837 D 257313 CDS NP_879180.1 33591536 2663993 307097..308017 1 NC_002929.2 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 308017 2663993 BP0302 Bordetella pertussis Tohama I branched chain amino acid ABC transporter permease NP_879180.1 307097 D 257313 CDS NP_879181.1 33591537 2663992 308021..308986 1 NC_002929.2 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 308986 2663992 BP0303 Bordetella pertussis Tohama I branched chain amino acid ABC transporter permease NP_879181.1 308021 D 257313 CDS NP_879182.1 33591538 2663991 308983..309777 1 NC_002929.2 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 309777 2663991 BP0304 Bordetella pertussis Tohama I branched-chain amino acid transporter ATP-binding protein NP_879182.1 308983 D 257313 CDS NP_879183.1 33591539 2664463 309771..310475 1 NC_002929.2 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 310475 2664463 BP0305 Bordetella pertussis Tohama I high-affinity branched-chain amino acid transporter ATP-binding protein NP_879183.1 309771 D 257313 CDS NP_879184.1 33591540 2664145 313839..314702 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 314702 2664145 BP0309 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_879184.1 313839 D 257313 CDS NP_879185.1 33591541 2664454 314705..315874 1 NC_002929.2 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 315874 2664454 BP0310 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879185.1 314705 D 257313 CDS NP_879186.1 33591542 2664317 315915..317564 1 NC_002929.2 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 317564 2664317 BP0311 Bordetella pertussis Tohama I acid-coenzyme A ligase NP_879186.1 315915 D 257313 CDS NP_879187.1 33591543 2664176 317566..318000 1 NC_002929.2 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 318000 2664176 BP0312 Bordetella pertussis Tohama I 4-hydroxybenzoyl CoA thioesterase NP_879187.1 317566 D 257313 CDS NP_879188.1 33591544 2664177 318025..318426 1 NC_002929.2 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 318426 2664177 BP0313 Bordetella pertussis Tohama I hypothetical protein NP_879188.1 318025 D 257313 CDS NP_879189.1 33591545 2664167 complement(318520..320145) 1 NC_002929.2 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 320145 2664167 BP0314 Bordetella pertussis Tohama I hypothetical protein NP_879189.1 318520 R 257313 CDS NP_879190.1 33591546 2664168 complement(320385..321668) 1 NC_002929.2 Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway; glutamate-1-semialdehyde aminotransferase 321668 hemL 2664168 hemL Bordetella pertussis Tohama I glutamate-1-semialdehyde aminotransferase NP_879190.1 320385 R 257313 CDS NP_879191.1 33591547 2664389 complement(321685..322338) 1 NC_002929.2 Condenses 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate to form thiamine monophosphate; thiamine-phosphate pyrophosphorylase 322338 thiE 2664389 thiE Bordetella pertussis Tohama I thiamine-phosphate pyrophosphorylase NP_879191.1 321685 R 257313 CDS NP_879192.1 33591548 2664390 complement(322335..323183) 1 NC_002929.2 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 323183 thiD 2664390 thiD Bordetella pertussis Tohama I phosphomethylpyrimidine kinase NP_879192.1 322335 R 257313 CDS NP_879193.1 33591549 2664155 323300..323464 1 NC_002929.2 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 323464 rubA 2664155 rubA Bordetella pertussis Tohama I rubredoxin NP_879193.1 323300 D 257313 CDS NP_879194.1 33591550 2664108 323552..324157 1 NC_002929.2 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 324157 2664108 BP0319 Bordetella pertussis Tohama I hypothetical protein NP_879194.1 323552 D 257313 CDS NP_879195.1 33591551 2664112 324150..324551 1 NC_002929.2 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function; Holliday junction resolvase-like protein 324551 2664112 BP0320 Bordetella pertussis Tohama I Holliday junction resolvase-like protein NP_879195.1 324150 D 257313 CDS NP_879196.1 33591552 2664113 324565..325518 1 NC_002929.2 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis; aspartate carbamoyltransferase 325518 pyrB 2664113 pyrB Bordetella pertussis Tohama I aspartate carbamoyltransferase NP_879196.1 324565 D 257313 CDS NP_879197.1 33591553 2664465 325515..326690 1 NC_002929.2 Catalyzes the reversible hydrolysis of the amide bond within dihydroorotate. This metabolic intermediate is required for the biosynthesis of pyrimidine nucleotides; dihydroorotase 326690 pyrC 2664465 pyrC Bordetella pertussis Tohama I dihydroorotase NP_879197.1 325515 D 257313 CDS NP_879198.1 33591554 2664466 326810..327550 1 NC_002929.2 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 327550 2664466 BP0323 Bordetella pertussis Tohama I acyltransferase NP_879198.1 326810 D 257313 CDS NP_879199.1 33591555 2667709 complement(327587..328420) 1 NC_002929.2 hydrolyzes P(1),P(4)-bis(5'-adenosyl) tetraphosphate to form 2 ADP; diadenosine tetraphosphatase 328420 apaH 2667709 apaH Bordetella pertussis Tohama I diadenosine tetraphosphatase NP_879199.1 327587 R 257313 CDS NP_879200.1 33591556 2667710 complement(328417..329595) 1 NC_002929.2 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 329595 2667710 BP0325 Bordetella pertussis Tohama I hypothetical protein NP_879200.1 328417 R 257313 CDS NP_879201.1 33591557 2667711 complement(329692..330363) 1 NC_002929.2 glycosyltransferase; polymerizes glycan strands in the peptidoglycan; monofunctional biosynthetic peptidoglycan transglycosylase 330363 mtgA 2667711 mtgA Bordetella pertussis Tohama I monofunctional biosynthetic peptidoglycan transglycosylase NP_879201.1 329692 R 257313 CDS NP_879202.1 33591558 2664175 330543..331493 1 NC_002929.2 transposase for IS481 element; transposase 331493 2664175 BP0327 Bordetella pertussis Tohama I transposase NP_879202.1 330543 D 257313 CDS NP_879203.1 33591559 2663964 complement(331490..331864) 1 NC_002929.2 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 331864 2663964 BP0328 Bordetella pertussis Tohama I hypothetical protein NP_879203.1 331490 R 257313 CDS NP_879204.1 33591560 2663965 complement(331861..333540) 1 NC_002929.2 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 333540 2663965 BP0329 Bordetella pertussis Tohama I coenzyme A ligase NP_879204.1 331861 R 257313 CDS NP_879205.1 33591561 2664151 complement(333550..334566) 1 NC_002929.2 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 334566 2664151 BP0330 Bordetella pertussis Tohama I hypothetical protein NP_879205.1 333550 R 257313 CDS NP_879206.1 33591562 2664152 complement(334579..334992) 1 NC_002929.2 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 334992 2664152 BP0331 Bordetella pertussis Tohama I hypothetical protein NP_879206.1 334579 R 257313 CDS NP_879207.1 33591563 2664467 complement(334989..336185) 1 NC_002929.2 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 336185 2664467 BP0332 Bordetella pertussis Tohama I acetyl-CoA acetyltransferase NP_879207.1 334989 R 257313 CDS NP_879208.1 33591564 2664125 complement(336272..337156) 1 NC_002929.2 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 337156 2664125 BP0333 Bordetella pertussis Tohama I metallo-beta-lactamase family protein NP_879208.1 336272 R 257313 CDS NP_879209.1 33591565 2664126 complement(337169..338164) 1 NC_002929.2 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 338164 2664126 BP0334 Bordetella pertussis Tohama I hypothetical protein NP_879209.1 337169 R 257313 CDS NP_879210.1 33591566 2664477 339852..340682 1 NC_002929.2 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 340682 2664477 BP0337 Bordetella pertussis Tohama I hypothetical protein NP_879210.1 339852 D 257313 CDS NP_879211.1 33591567 2667689 complement(340692..341834) 1 NC_002929.2 no significant database matches; hypothetical protein 341834 2667689 BP0338 Bordetella pertussis Tohama I hypothetical protein NP_879211.1 340692 R 257313 CDS NP_879212.1 33591568 2664472 complement(341929..342516) 1 NC_002929.2 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 342516 ogt 2664472 ogt Bordetella pertussis Tohama I methylated-DNA--protein-cysteine methyltransferase NP_879212.1 341929 R 257313 CDS NP_879213.1 33591569 2664473 complement(342537..343187) 1 NC_002929.2 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 343187 alkB 2664473 alkB Bordetella pertussis Tohama I alkylated DNA repair protein NP_879213.1 342537 R 257313 CDS NP_879214.1 33591570 2664474 complement(343199..343921) 1 NC_002929.2 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 343921 2664474 BP0341 Bordetella pertussis Tohama I hypothetical protein NP_879214.1 343199 R 257313 CDS NP_879215.1 33591571 2664475 344066..344566 1 NC_002929.2 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 344566 2664475 BP0342 Bordetella pertussis Tohama I hypothetical protein NP_879215.1 344066 D 257313 CDS NP_879216.1 33591572 2664027 complement(344570..345358) 1 NC_002929.2 with HmuTU is involved in the transport of hemin; hemin importer ATP-binding protein 345358 hmuV 2664027 hmuV Bordetella pertussis Tohama I hemin importer ATP-binding protein NP_879216.1 344570 R 257313 CDS NP_879217.1 33591573 2664478 complement(345373..346308) 1 NC_002929.2 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 346308 bhuU 2664478 bhuU Bordetella pertussis Tohama I hemin permease NP_879217.1 345373 R 257313 CDS NP_879218.1 33591574 2664024 complement(346361..347230) 1 NC_002929.2 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 347230 bhuT 2664024 bhuT Bordetella pertussis Tohama I hemin binding protein NP_879218.1 346361 R 257313 CDS NP_879219.1 33591575 2664029 complement(347227..348273) 1 NC_002929.2 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 348273 bhuS 2664029 bhuS Bordetella pertussis Tohama I hemin transport protein NP_879219.1 347227 R 257313 CDS NP_879220.1 33591576 2664030 complement(348309..350846) 1 NC_002929.2 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 350846 bhuR 2664030 bhuR Bordetella pertussis Tohama I outer membrane heme receptor NP_879220.1 348309 R 257313 CDS NP_879221.1 33591577 2663989 complement(351054..351971) 1 NC_002929.2 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 351971 hurR 2663989 hurR Bordetella pertussis Tohama I heme uptake transmembrane sensor NP_879221.1 351054 R 257313 CDS NP_879222.1 33591578 2663990 complement(352007..352516) 1 NC_002929.2 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 352516 hurI 2663990 hurI Bordetella pertussis Tohama I heme uptake regulator NP_879222.1 352007 R 257313 CDS NP_879223.1 33591579 2664214 complement(352690..352860) 1 NC_002929.2 no significant database matches; hypothetical protein 352860 2664214 BP0350 Bordetella pertussis Tohama I hypothetical protein NP_879223.1 352690 R 257313 CDS NP_879224.1 33591580 2664215 353195..353512 1 NC_002929.2 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 353512 2664215 BP0351 Bordetella pertussis Tohama I ferredoxin NP_879224.1 353195 D 257313 CDS NP_879225.1 33591581 2663966 353514..353813 1 NC_002929.2 no significant database matches; hypothetical protein 353813 2663966 BP0352 Bordetella pertussis Tohama I hypothetical protein NP_879225.1 353514 D 257313 CDS NP_879226.1 33591582 2663967 353832..354137 1 NC_002929.2 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 354137 2663967 BP0353 Bordetella pertussis Tohama I ferredoxin NP_879226.1 353832 D 257313 CDS NP_879227.1 33591583 2664320 354148..355080 1 NC_002929.2 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 355080 2664320 BP0354 Bordetella pertussis Tohama I ornithine cyclodeaminase NP_879227.1 354148 D 257313 CDS NP_879228.1 33591584 2664401 complement(355077..356027) 1 NC_002929.2 transposase for IS481 element; transposase 356027 2664401 BP0355 Bordetella pertussis Tohama I transposase NP_879228.1 355077 R 257313 CDS NP_879229.1 33591585 2664275 complement(356139..356861) 1 NC_002929.2 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 356861 2664275 BP0356 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879229.1 356139 R 257313 CDS NP_879230.1 33591586 2664271 complement(356960..357703) 1 NC_002929.2 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 357703 2664271 BP0357 Bordetella pertussis Tohama I hypothetical protein NP_879230.1 356960 R 257313 CDS NP_879231.1 33591587 2664192 357934..359442 1 NC_002929.2 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 359442 2664192 BP0358 Bordetella pertussis Tohama I hypothetical protein NP_879231.1 357934 D 257313 CDS NP_879232.1 33591588 2664366 359562..360293 1 NC_002929.2 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 360293 2664366 BP0359 Bordetella pertussis Tohama I hypothetical protein NP_879232.1 359562 D 257313 CDS NP_879233.1 33591589 2664361 360338..361798 1 NC_002929.2 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 361798 2664361 BP0360 Bordetella pertussis Tohama I aldehyde dehydrogenase NP_879233.1 360338 D 257313 CDS NP_879234.1 33591590 2667703 361823..362302 1 NC_002929.2 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 362302 2667703 BP0361 Bordetella pertussis Tohama I hypothetical protein NP_879234.1 361823 D 257313 CDS NP_879235.1 33591591 2667704 362321..363331 1 NC_002929.2 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 363331 2667704 BP0362 Bordetella pertussis Tohama I CDP-6-deoxy-delta-3,4-glucoseen reductase NP_879235.1 362321 D 257313 CDS NP_879236.1 33591592 2664094 363546..364286 1 NC_002929.2 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 364286 2664094 BP0363 Bordetella pertussis Tohama I extracellular solute-binding protein NP_879236.1 363546 D 257313 CDS NP_879237.1 33591593 2664095 364493..365467 1 NC_002929.2 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 365467 2664095 BP0364 Bordetella pertussis Tohama I hypothetical protein NP_879237.1 364493 D 257313 CDS NP_879238.1 33591594 2664059 complement(365464..366414) 1 NC_002929.2 transposase for IS481 element; transposase 366414 2664059 BP0365 Bordetella pertussis Tohama I transposase NP_879238.1 365464 R 257313 CDS NP_879239.1 33591595 2664296 367463..368101 1 NC_002929.2 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 368101 2664296 BP0367 Bordetella pertussis Tohama I hypothetical protein NP_879239.1 367463 D 257313 CDS NP_879240.1 33591596 2664297 complement(368138..369481) 1 NC_002929.2 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 369481 gdhA 2664297 gdhA Bordetella pertussis Tohama I glutamate dehydrogenase NP_879240.1 368138 R 257313 CDS NP_879241.1 33591597 2664397 complement(369904..370692) 1 NC_002929.2 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 370692 2664397 BP0369 Bordetella pertussis Tohama I endonuclease NP_879241.1 369904 R 257313 CDS NP_879242.1 33591598 2664399 370830..371504 1 NC_002929.2 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 371504 pyrE 2664399 pyrE Bordetella pertussis Tohama I orotate phosphoribosyltransferase NP_879242.1 370830 D 257313 CDS NP_879243.1 33591599 2664723 complement(371618..373072) 1 NC_002929.2 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 373072 gatB 2664723 gatB Bordetella pertussis Tohama I aspartyl/glutamyl-tRNA amidotransferase subunit B NP_879243.1 371618 R 257313 CDS NP_879244.1 33591600 2664191 complement(373075..374613) 1 NC_002929.2 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 374613 gatA 2664191 gatA Bordetella pertussis Tohama I aspartyl/glutamyl-tRNA amidotransferase subunit A NP_879244.1 373075 R 257313 CDS NP_879245.1 33591601 2663974 complement(374616..374924) 1 NC_002929.2 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 374924 gatC 2663974 gatC Bordetella pertussis Tohama I aspartyl/glutamyl-tRNA amidotransferase subunit C NP_879245.1 374616 R 257313 CDS NP_879246.1 33591602 2663975 375155..376198 1 NC_002929.2 functions in MreBCD complex in some organisms; rod shape-determining protein MreB 376198 mreB 2663975 mreB Bordetella pertussis Tohama I rod shape-determining protein MreB NP_879246.1 375155 D 257313 CDS NP_879247.1 33591603 2664384 376287..377171 1 NC_002929.2 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 377171 mreC 2664384 mreC Bordetella pertussis Tohama I rod shape-determining protein MreC NP_879247.1 376287 D 257313 CDS NP_879248.1 33591604 2664385 377257..377721 1 NC_002929.2 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 377721 mreD 2664385 mreD Bordetella pertussis Tohama I rod shape-determining protein NP_879248.1 377257 D 257313 CDS NP_879249.1 33591605 2664521 377735..379687 1 NC_002929.2 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 379687 mrdA 2664521 mrdA Bordetella pertussis Tohama I penicillin-binding protein 2 NP_879249.1 377735 D 257313 CDS NP_879250.1 33591606 2664417 379684..380820 1 NC_002929.2 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 380820 mrdB 2664417 mrdB Bordetella pertussis Tohama I rod shape-determining protein NP_879250.1 379684 D 257313 CDS NP_879251.1 33591607 2664318 complement(380846..381901) 1 NC_002929.2 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 381901 ldh 2664318 ldh Bordetella pertussis Tohama I L-lactate dehydrogenase NP_879251.1 380846 R 257313 CDS NP_879252.1 33591608 2664319 complement(381912..383405) 1 NC_002929.2 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 383405 2664319 BP0380 Bordetella pertussis Tohama I Sodium:sulfate symportert NP_879252.1 381912 R 257313 CDS NP_879253.1 33591609 2664323 complement(383618..384193) 1 NC_002929.2 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 384193 slmA 2664323 slmA Bordetella pertussis Tohama I nucleoid occlusion protein NP_879253.1 383618 R 257313 CDS NP_879254.1 33591610 2664367 complement(384243..384989) 1 NC_002929.2 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 384989 2664367 BP0382 Bordetella pertussis Tohama I hydrolase NP_879254.1 384243 R 257313 CDS NP_879255.1 33591611 2664344 complement(384989..385891) 1 NC_002929.2 catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate; acetylglutamate kinase 385891 argB 2664344 argB Bordetella pertussis Tohama I acetylglutamate kinase NP_879255.1 384989 R 257313 CDS NP_879256.1 33591612 2664509 386153..386941 1 NC_002929.2 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 386941 2664509 BP0385 Bordetella pertussis Tohama I hypothetical protein NP_879256.1 386153 D 257313 CDS NP_879257.1 33591613 2664510 complement(387082..387573) 1 NC_002929.2 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 387573 2664510 BP0386 Bordetella pertussis Tohama I thioredoxin NP_879257.1 387082 R 257313 CDS NP_879258.1 33591614 2664495 complement(387570..388313) 1 NC_002929.2 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 388313 2664495 BP0387 Bordetella pertussis Tohama I hypothetical protein NP_879258.1 387570 R 257313 CDS NP_879259.1 33591615 2664527 complement(388310..388912) 1 NC_002929.2 catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate; phosphoheptose isomerase 388912 2664527 BP0388 Bordetella pertussis Tohama I phosphoheptose isomerase NP_879259.1 388310 R 257313 CDS NP_879260.1 33591616 2664132 389513..390451 1 NC_002929.2 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 390451 2664132 BP0390 Bordetella pertussis Tohama I tetrapyrrole methylase NP_879260.1 389513 D 257313 CDS NP_879261.1 33591617 2664528 390448..391020 1 NC_002929.2 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 391020 ogt 2664528 ogt Bordetella pertussis Tohama I methylated-DNA--protein-cysteine methyltransferase NP_879261.1 390448 D 257313 CDS NP_879262.1 33591618 2664171 complement(391017..391967) 1 NC_002929.2 transposase for IS481 element; transposase 391967 2664171 BP0392 Bordetella pertussis Tohama I transposase NP_879262.1 391017 R 257313 CDS NP_879263.1 33591619 2663980 392967..393626 1 NC_002929.2 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 393626 2663980 BP0394 Bordetella pertussis Tohama I hypothetical protein NP_879263.1 392967 D 257313 CDS NP_879264.1 33591620 2663981 393716..394639 1 NC_002929.2 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 394639 2663981 BP0395 Bordetella pertussis Tohama I hypothetical protein NP_879264.1 393716 D 257313 CDS NP_879265.1 33591621 2664188 complement(394645..395100) 1 NC_002929.2 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 395100 2664188 BP0396 Bordetella pertussis Tohama I hypothetical protein NP_879265.1 394645 R 257313 CDS NP_879266.1 33591622 2664189 complement(395097..396200) 1 NC_002929.2 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 396200 2664189 BP0397 Bordetella pertussis Tohama I hypothetical protein NP_879266.1 395097 R 257313 CDS NP_879267.1 33591623 2664054 complement(396388..398007) 1 NC_002929.2 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 398007 2664054 BP0398 Bordetella pertussis Tohama I hypothetical protein NP_879267.1 396388 R 257313 CDS NP_879268.1 33591624 2667695 complement(398004..399062) 1 NC_002929.2 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 399062 2667695 BP0399 Bordetella pertussis Tohama I glycosyl transferase family protein NP_879268.1 398004 R 257313 CDS YP_008691072.1 552528638 2664272 399779..400756 1 NC_002929.2 integrase 400756 2664272 BP0401 Bordetella pertussis Tohama I integrase YP_008691072.1 399779 D 257313 CDS NP_879269.1 33591625 2664393 400952..402157 1 NC_002929.2 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 402157 gltS 2664393 gltS Bordetella pertussis Tohama I sodium/glutamate symport carrier protein NP_879269.1 400952 D 257313 CDS NP_879270.1 33591626 2664394 402154..403665 1 NC_002929.2 no significant database matches; hypothetical protein 403665 2664394 BP0403 Bordetella pertussis Tohama I hypothetical protein NP_879270.1 402154 D 257313 CDS NP_879271.1 33591627 2664058 complement(403681..404994) 1 NC_002929.2 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 404994 atoE 2664058 atoE Bordetella pertussis Tohama I short-chain fatty acids transporter NP_879271.1 403681 R 257313 CDS NP_879272.1 33591628 2664522 complement(405185..405364) 1 NC_002929.2 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 405364 2664522 BP0405 Bordetella pertussis Tohama I hypothetical protein NP_879272.1 405185 R 257313 CDS NP_879273.1 33591629 2664004 complement(405774..406508) 1 NC_002929.2 3'-5' exonuclease of DNA polymerase III; DNA polymerase III subunit epsilon 406508 dnaQ 2664004 dnaQ Bordetella pertussis Tohama I DNA polymerase III subunit epsilon NP_879273.1 405774 R 257313 CDS NP_879274.1 33591630 2664264 408953..409903 1 NC_002929.2 transposase for IS481 element; transposase 409903 2664264 BP0408 Bordetella pertussis Tohama I transposase NP_879274.1 408953 D 257313 CDS NP_879275.1 33591631 2664383 complement(410844..411314) 1 NC_002929.2 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 411314 2664383 BP0410 Bordetella pertussis Tohama I universal stress protein NP_879275.1 410844 R 257313 CDS NP_879276.1 33591632 2664285 complement(411403..411747) 1 NC_002929.2 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 411747 2664285 BP0411 Bordetella pertussis Tohama I hypothetical protein NP_879276.1 411403 R 257313 CDS NP_879277.1 33591633 2664286 complement(411847..413247) 1 NC_002929.2 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 413247 2664286 BP0412 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879277.1 411847 R 257313 CDS NP_879278.1 33591634 2664222 complement(415036..415554) 1 NC_002929.2 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 415554 2664222 BP0414 Bordetella pertussis Tohama I Mg(2+) transporter NP_879278.1 415036 R 257313 CDS NP_879279.1 33591635 2664196 415665..416420 1 NC_002929.2 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 416420 2664196 BP0415 Bordetella pertussis Tohama I hypothetical protein NP_879279.1 415665 D 257313 CDS NP_879280.1 33591636 2667694 416616..417848 1 NC_002929.2 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 417848 2667694 BP0416 Bordetella pertussis Tohama I hypothetical protein NP_879280.1 416616 D 257313 CDS NP_879281.1 33591637 2667696 417841..418626 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 418626 2667696 BP0417 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_879281.1 417841 D 257313 CDS NP_879282.1 33591638 2667697 418693..419664 1 NC_002929.2 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 419664 2667697 BP0418 Bordetella pertussis Tohama I hypothetical protein NP_879282.1 418693 D 257313 CDS NP_879283.1 33591639 2664347 complement(419675..420592) 1 NC_002929.2 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 420592 2664347 BP0419 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879283.1 419675 R 257313 CDS NP_879284.1 33591640 2667588 420790..421950 1 NC_002929.2 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 421950 2667588 BP0420 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879284.1 420790 D 257313 CDS NP_879285.1 33591641 2664195 421977..423005 1 NC_002929.2 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 423005 2664195 BP0421 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879285.1 421977 D 257313 CDS NP_879286.1 33591642 2664269 423071..424264 1 NC_002929.2 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 424264 2664269 BP0422 Bordetella pertussis Tohama I thiolase NP_879286.1 423071 D 257313 CDS NP_879287.1 33591643 2664086 complement(426046..426996) 1 NC_002929.2 transposase for IS481 element; transposase 426996 2664086 BP0424 Bordetella pertussis Tohama I transposase NP_879287.1 426046 R 257313 CDS NP_879288.1 33591644 2667691 complement(427095..428000) 1 NC_002929.2 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 428000 2667691 BP0425 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879288.1 427095 R 257313 CDS NP_879289.1 33591645 2664305 complement(428176..428379) 1 NC_002929.2 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 428379 cspA 2664305 cspA Bordetella pertussis Tohama I cold shock protein NP_879289.1 428176 R 257313 CDS NP_879290.1 33591646 2664404 428890..429330 1 NC_002929.2 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 429330 2664404 BP0427 Bordetella pertussis Tohama I hypothetical protein NP_879290.1 428890 D 257313 CDS NP_879291.1 33591647 2664405 complement(429360..430019) 1 NC_002929.2 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 430019 2664405 BP0428 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879291.1 429360 R 257313 CDS NP_879292.1 33591648 2664251 complement(430105..431745) 1 NC_002929.2 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 431745 2664251 BP0429 Bordetella pertussis Tohama I delta-1-pyrroline-5-carboxylate dehydrogenase NP_879292.1 430105 R 257313 CDS NP_879293.1 33591649 2665148 complement(431742..433205) 1 NC_002929.2 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 433205 2665148 BP0430 Bordetella pertussis Tohama I short-chain fatty acids transporter NP_879293.1 431742 R 257313 CDS NP_879294.1 33591650 2665149 complement(433236..436622) 1 NC_002929.2 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 436622 2665149 BP0431 Bordetella pertussis Tohama I molybdopterin oxidoreductase NP_879294.1 433236 R 257313 CDS NP_879295.1 33591651 2667763 complement(436764..437168) 1 NC_002929.2 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 437168 2667763 BP0432 Bordetella pertussis Tohama I hypothetical protein NP_879295.1 436764 R 257313 CDS NP_879296.1 33591652 2664228 437312..438298 1 NC_002929.2 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 438298 2664228 BP0433 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879296.1 437312 D 257313 CDS NP_879297.1 33591653 2664450 complement(439312..440544) 1 NC_002929.2 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 440544 2664450 BP0435 Bordetella pertussis Tohama I dehydratase/racemase NP_879297.1 439312 R 257313 CDS NP_879298.1 33591654 2664799 complement(440544..441038) 1 NC_002929.2 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 441038 2664799 BP0436 Bordetella pertussis Tohama I hypothetical protein NP_879298.1 440544 R 257313 CDS NP_879299.1 33591655 2664330 441170..442132 1 NC_002929.2 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 442132 2664330 BP0437 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879299.1 441170 D 257313 CDS NP_879300.1 33591656 2663958 complement(442110..443363) 1 NC_002929.2 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 443363 2663958 BP0438 Bordetella pertussis Tohama I hypothetical protein NP_879300.1 442110 R 257313 CDS NP_879301.1 33591657 2664716 443485..444435 1 NC_002929.2 transposase for IS481 element; transposase 444435 2664716 BP0439 Bordetella pertussis Tohama I transposase NP_879301.1 443485 D 257313 CDS NP_879302.1 33591658 2667708 complement(444990..445364) 1 NC_002929.2 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 445364 2667708 BP0441 Bordetella pertussis Tohama I MerR family transcriptional regulator NP_879302.1 444990 R 257313 CDS NP_879303.1 33591659 2664498 445439..446497 1 NC_002929.2 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 446497 2664498 BP0442 Bordetella pertussis Tohama I metallo-beta-lactamase family protein NP_879303.1 445439 D 257313 CDS NP_879304.1 33591660 2664499 complement(446521..447471) 1 NC_002929.2 transposase for IS481 element; transposase 447471 2664499 BP0443 Bordetella pertussis Tohama I transposase NP_879304.1 446521 R 257313 CDS NP_879305.1 33591661 2664694 450353..451522 1 NC_002929.2 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 451522 2664694 BP0447 Bordetella pertussis Tohama I acetyl-CoA acetyltransferase NP_879305.1 450353 D 257313 CDS NP_879306.1 33591662 2664106 451617..453230 1 NC_002929.2 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 453230 accB 2664106 accB Bordetella pertussis Tohama I carboxyltransferase subunit of acetyl-CoA carboxylase NP_879306.1 451617 D 257313 CDS NP_879307.1 33591663 2664232 453277..455298 1 NC_002929.2 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 455298 accA 2664232 accA Bordetella pertussis Tohama I biotin carboxylase NP_879307.1 453277 D 257313 CDS NP_879308.1 33591664 2664229 complement(455327..455572) 1 NC_002929.2 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 455572 2664229 BP0450 Bordetella pertussis Tohama I hypothetical protein NP_879308.1 455327 R 257313 CDS NP_879309.1 33591665 2664230 complement(455586..456776) 1 NC_002929.2 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 456776 argD 2664230 argD Bordetella pertussis Tohama I acetylornithine transaminase NP_879309.1 455586 R 257313 CDS NP_879310.1 33591666 2664236 456972..457937 1 NC_002929.2 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 457937 2664236 BP0452 Bordetella pertussis Tohama I hypothetical protein NP_879310.1 456972 D 257313 CDS NP_879311.1 33591667 2664447 complement(457960..459099) 1 NC_002929.2 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 459099 2664447 BP0453 Bordetella pertussis Tohama I low-specificity D-threonine aldolase NP_879311.1 457960 R 257313 CDS NP_879312.1 33591668 2664448 459311..460273 1 NC_002929.2 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 460273 2664448 BP0454 Bordetella pertussis Tohama I hypothetical protein NP_879312.1 459311 D 257313 CDS NP_879313.1 33591669 2664449 460397..462421 1 NC_002929.2 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 462421 2664449 BP0455 Bordetella pertussis Tohama I hypothetical protein NP_879313.1 460397 D 257313 CDS NP_879314.1 33591670 2664098 462618..464861 1 NC_002929.2 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 464861 hemC 2664098 hemC Bordetella pertussis Tohama I heme receptor NP_879314.1 462618 D 257313 CDS NP_879315.1 33591671 2664055 465140..465598 1 NC_002929.2 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 465598 2664055 BP0457 Bordetella pertussis Tohama I hypothetical protein NP_879315.1 465140 D 257313 CDS NP_879316.1 33591672 2664489 complement(466526..469147) 1 NC_002929.2 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 469147 2664489 BP0459 Bordetella pertussis Tohama I hypothetical protein NP_879316.1 466526 R 257313 CDS NP_879317.1 33591673 2664490 469211..471838 1 NC_002929.2 decatenates replicating daughter chromosomes; DNA topoisomerase III 471838 topB 2664490 topB Bordetella pertussis Tohama I DNA topoisomerase III NP_879317.1 469211 D 257313 CDS NP_879318.1 33591674 2664455 471990..473054 1 NC_002929.2 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 473054 2664455 BP0461 Bordetella pertussis Tohama I hypothetical protein NP_879318.1 471990 D 257313 CDS NP_879319.1 33591675 2664456 473051..473824 1 NC_002929.2 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 473824 2664456 BP0462 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879319.1 473051 D 257313 CDS NP_879320.1 33591676 2664457 473833..474666 1 NC_002929.2 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 474666 2664457 BP0463 Bordetella pertussis Tohama I ABC transporter permease NP_879320.1 473833 D 257313 CDS NP_879321.1 33591677 2664198 474679..475458 1 NC_002929.2 Involved in the nonphosphorylative, ketogenic oxidation of glucose and oxidizes gluconate to 5-ketogluconate; gluconate 5-dehydrogenase 475458 idnO 2664198 idnO Bordetella pertussis Tohama I gluconate 5-dehydrogenase NP_879321.1 474679 D 257313 CDS NP_879322.1 33591678 2664488 475532..476965 1 NC_002929.2 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 476965 2664488 BP0465 Bordetella pertussis Tohama I aldehyde dehydrogenase NP_879322.1 475532 D 257313 CDS NP_879323.1 33591679 2664481 476993..477751 1 NC_002929.2 Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 477751 fabG 2664481 fabG Bordetella pertussis Tohama I 3-ketoacyl-ACP reductase NP_879323.1 476993 D 257313 CDS NP_879324.1 33591680 2664487 complement(477807..479657) 1 NC_002929.2 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 479657 2664487 BP0467 Bordetella pertussis Tohama I acetolactate synthase large subunit NP_879324.1 477807 R 257313 CDS NP_879325.1 33591681 2664484 479751..480227 1 NC_002929.2 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 480227 2664484 BP0468 Bordetella pertussis Tohama I transcription regulator AsnC NP_879325.1 479751 D 257313 CDS NP_879326.1 33591682 2664485 complement(480244..481200) 1 NC_002929.2 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 481200 2664485 BP0469 Bordetella pertussis Tohama I hypothetical protein NP_879326.1 480244 R 257313 CDS NP_879327.1 33591683 2664649 481262..481771 1 NC_002929.2 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 481771 2664649 BP0470 Bordetella pertussis Tohama I hypothetical protein NP_879327.1 481262 D 257313 CDS NP_879328.1 33591684 2664648 482145..482837 1 NC_002929.2 DHBP synthase; functions during riboflavin biosynthesis; 3,4-dihydroxy-2-butanone 4-phosphate synthase 482837 ribB 2664648 ribB Bordetella pertussis Tohama I 3,4-dihydroxy-2-butanone 4-phosphate synthase NP_879328.1 482145 D 257313 CDS NP_879329.1 33591685 2664486 483146..484096 1 NC_002929.2 transposase for IS481 element; transposase 484096 2664486 BP0473 Bordetella pertussis Tohama I transposase NP_879329.1 483146 D 257313 CDS NP_879330.1 33591686 2664651 484213..485280 1 NC_002929.2 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 485280 2664651 BP0474 Bordetella pertussis Tohama I choloylglycine hydrolase NP_879330.1 484213 D 257313 CDS NP_879331.1 33591687 2664654 complement(485356..488484) 1 NC_002929.2 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 488484 rne 2664654 rne Bordetella pertussis Tohama I ribonuclease E NP_879331.1 485356 R 257313 CDS NP_879332.1 33591688 2664656 489007..489957 1 NC_002929.2 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 489957 rluC 2664656 rluC Bordetella pertussis Tohama I ribosomal large subunit pseudouridine synthase C NP_879332.1 489007 D 257313 CDS NP_879333.1 33591689 2664210 489960..490631 1 NC_002929.2 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 490631 2664210 BP0478 Bordetella pertussis Tohama I hydrolase NP_879333.1 489960 D 257313 CDS NP_879334.1 33591690 2664658 490788..491747 1 NC_002929.2 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 491747 2664658 BP0479 Bordetella pertussis Tohama I sulfite oxidase subunit YedY NP_879334.1 490788 D 257313 CDS NP_879335.1 33591691 2664659 491797..492417 1 NC_002929.2 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 492417 2664659 BP0480 Bordetella pertussis Tohama I sulfite oxidase subunit YedZ NP_879335.1 491797 D 257313 CDS NP_879336.1 33591692 2664662 complement(492414..493364) 1 NC_002929.2 transposase for IS481 element; transposase 493364 2664662 BP0481 Bordetella pertussis Tohama I transposase NP_879336.1 492414 R 257313 CDS NP_879337.1 33591693 2664667 complement(494921..495766) 1 NC_002929.2 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 495766 2664667 BP0483 Bordetella pertussis Tohama I AraC family transcriptional regulator NP_879337.1 494921 R 257313 CDS NP_879338.1 33591694 2664668 complement(495854..497017) 1 NC_002929.2 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 497017 lldD 2664668 lldD Bordetella pertussis Tohama I L-lactate dehydrogenase NP_879338.1 495854 R 257313 CDS NP_879339.1 33591695 2664673 complement(497436..498407) 1 NC_002929.2 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 498407 2664673 BP0486 Bordetella pertussis Tohama I hypothetical protein NP_879339.1 497436 R 257313 CDS NP_879340.1 33591696 2664674 complement(498446..499873) 1 NC_002929.2 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 499873 2664674 BP0487 Bordetella pertussis Tohama I amidase NP_879340.1 498446 R 257313 CDS NP_879341.1 33591697 2664675 499948..500784 1 NC_002929.2 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 500784 2664675 BP0488 Bordetella pertussis Tohama I transcriptional regulator NP_879341.1 499948 D 257313 CDS NP_879342.1 33591698 2664676 complement(500903..503356) 1 NC_002929.2 negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit B 503356 gyrB 2664676 gyrB Bordetella pertussis Tohama I DNA gyrase subunit B NP_879342.1 500903 R 257313 CDS NP_879343.1 33591699 2664677 complement(503451..504560) 1 NC_002929.2 binds the polymerase to DNA and acts as a sliding clamp; DNA polymerase III subunit beta 504560 dnaN 2664677 dnaN Bordetella pertussis Tohama I DNA polymerase III subunit beta NP_879343.1 503451 R 257313 CDS NP_879344.1 33591700 2664678 complement(504563..505972) 1 NC_002929.2 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 505972 dnaA 2664678 dnaA Bordetella pertussis Tohama I chromosomal replication initiation protein NP_879344.1 504563 R 257313 CDS NP_879345.1 33591701 2664682 506378..506512 1 NC_002929.2 in Escherichia coli transcription of this gene is enhanced by polyamines; 50S ribosomal protein L34 506512 rpmH 2664682 rpmH Bordetella pertussis Tohama I 50S ribosomal protein L34 NP_879345.1 506378 D 257313 CDS NP_879346.1 33591702 2664680 506608..506979 1 NC_002929.2 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 506979 rnpA 2664680 rnpA Bordetella pertussis Tohama I ribonuclease P NP_879346.1 506608 D 257313 CDS NP_879347.1 33591703 2664685 506976..507248 1 NC_002929.2 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 507248 2664685 BP0494 Bordetella pertussis Tohama I hypothetical protein NP_879347.1 506976 D 257313 CDS NP_879348.1 33591704 2664686 507297..508988 1 NC_002929.2 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 508988 2664686 BP0495 Bordetella pertussis Tohama I inner membrane protein translocase component YidC NP_879348.1 507297 D 257313 CDS NP_879349.1 33591705 2664687 complement(509219..510169) 1 NC_002929.2 transposase for IS481 element; transposase 510169 2664687 BP0496 Bordetella pertussis Tohama I transposase NP_879349.1 509219 R 257313 CDS NP_879350.1 33591706 2664690 510627..511550 1 NC_002929.2 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 511550 2664690 BP0498 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879350.1 510627 D 257313 CDS NP_879351.1 33591707 2664691 complement(511559..511957) 1 NC_002929.2 no significant database matches; hypothetical protein 511957 2664691 BP0499 Bordetella pertussis Tohama I hypothetical protein NP_879351.1 511559 R 257313 CDS NP_879352.1 33591708 2664714 512199..514169 1 NC_002929.2 no significant database matches; hypothetical protein 514169 2664714 BP0500 Bordetella pertussis Tohama I hypothetical protein NP_879352.1 512199 D 257313 CDS NP_879354.1 33591710 2664717 515656..516645 1 NC_002929.2 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 516645 2664717 BP0502 Bordetella pertussis Tohama I integrase NP_879354.1 515656 D 257313 CDS NP_879355.1 33591711 2664225 complement(516642..516842) 1 NC_002929.2 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 516842 2664225 BP0503 Bordetella pertussis Tohama I hypothetical protein NP_879355.1 516642 R 257313 CDS NP_879356.1 33591712 2664226 complement(516843..516962) 1 NC_002929.2 no significant database matches; hypothetical protein 516962 2664226 BP0504 Bordetella pertussis Tohama I hypothetical protein NP_879356.1 516843 R 257313 CDS NP_879357.1 33591713 2664439 complement(516955..517296) 1 NC_002929.2 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 517296 2664439 BP0505 Bordetella pertussis Tohama I hypothetical protein NP_879357.1 516955 R 257313 CDS NP_879358.1 33591714 2664440 complement(517307..518494) 1 NC_002929.2 no significant database matches; hypothetical protein 518494 2664440 BP0506 Bordetella pertussis Tohama I hypothetical protein NP_879358.1 517307 R 257313 CDS NP_879359.1 33591715 2664441 complement(518528..519055) 1 NC_002929.2 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 519055 2664441 BP0507 Bordetella pertussis Tohama I hypothetical protein NP_879359.1 518528 R 257313 CDS NP_879360.1 33591716 2664695 complement(519113..519760) 1 NC_002929.2 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 519760 2664695 BP0508 Bordetella pertussis Tohama I phage-related exonuclease NP_879360.1 519113 R 257313 CDS NP_879361.1 33591717 2664696 complement(519757..520743) 1 NC_002929.2 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 520743 2664696 BP0509 Bordetella pertussis Tohama I phage-related DNA recombination protein NP_879361.1 519757 R 257313 CDS NP_879362.1 33591718 2664697 complement(520747..520929) 1 NC_002929.2 no significant database matches; phage-related membrane protein 520929 2664697 BP0510 Bordetella pertussis Tohama I phage-related membrane protein NP_879362.1 520747 R 257313 CDS NP_879363.1 33591719 2664705 complement(520926..521303) 1 NC_002929.2 no significant database matches; hypothetical protein 521303 2664705 BP0511 Bordetella pertussis Tohama I hypothetical protein NP_879363.1 520926 R 257313 CDS NP_879364.1 33591720 2664700 complement(521537..522004) 1 NC_002929.2 no significant database matches; hypothetical protein 522004 2664700 BP0513 Bordetella pertussis Tohama I hypothetical protein NP_879364.1 521537 R 257313 CDS NP_879365.1 33591721 2664701 complement(522040..522990) 1 NC_002929.2 transposase for IS481 element; transposase 522990 2664701 BP0514 Bordetella pertussis Tohama I transposase NP_879365.1 522040 R 257313 CDS NP_879366.1 33591722 2664719 complement(523089..523331) 1 NC_002929.2 no significant database matches; hypothetical protein 523331 2664719 BP0515 Bordetella pertussis Tohama I hypothetical protein NP_879366.1 523089 R 257313 CDS NP_879368.1 33591724 2664706 complement(524150..525100) 1 NC_002929.2 transposase for IS481 element; transposase 525100 2664706 BP0517 Bordetella pertussis Tohama I transposase NP_879368.1 524150 R 257313 CDS NP_879369.1 33591725 2664252 complement(525210..525605) 1 NC_002929.2 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 525605 2664252 BP0518 Bordetella pertussis Tohama I hypothetical protein NP_879369.1 525210 R 257313 CDS NP_879370.1 33591726 2664253 525775..526476 1 NC_002929.2 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 526476 2664253 BP0519 Bordetella pertussis Tohama I glutathione S-transferase NP_879370.1 525775 D 257313 CDS NP_879371.1 33591727 2664722 526740..527600 1 NC_002929.2 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 527600 2664722 BP0520 Bordetella pertussis Tohama I hypothetical protein NP_879371.1 526740 D 257313 CDS NP_879372.1 33591728 2664709 complement(527675..528010) 1 NC_002929.2 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 528010 2664709 BP0521 Bordetella pertussis Tohama I hypothetical protein NP_879372.1 527675 R 257313 CDS NP_879373.1 33591729 2664710 complement(528151..529296) 1 NC_002929.2 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 529296 2664710 BP0522 Bordetella pertussis Tohama I metal-activated pyridoxal enzyme NP_879373.1 528151 R 257313 CDS NP_879374.1 33591730 2664711 complement(529324..529983) 1 NC_002929.2 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 529983 2664711 BP0523 Bordetella pertussis Tohama I haloacid dehalogenase NP_879374.1 529324 R 257313 CDS NP_879375.1 33591731 2664692 530988..531194 1 NC_002929.2 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) 531194 2664692 BP0525 Bordetella pertussis Tohama I integrase (remnant) NP_879375.1 530988 D 257313 CDS NP_879376.2 552528636 2664707 531267..531428 1 NC_002929.2 no significant database matches; hypothetical protein 531428 2664707 BP0526 Bordetella pertussis Tohama I hypothetical protein NP_879376.2 531267 D 257313 CDS NP_879377.1 33591733 2664708 531460..531591 1 NC_002929.2 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 531591 ecnA1 2664708 ecnA1 Bordetella pertussis Tohama I entericidin A anti-toxin NP_879377.1 531460 D 257313 CDS NP_879378.1 33591734 2664183 532218..538940 1 NC_002929.2 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 538940 2664183 BP0529 Bordetella pertussis Tohama I autotransporter NP_879378.1 532218 D 257313 CDS NP_879379.1 33591735 2664060 538974..539573 1 NC_002929.2 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 539573 2664060 BP0530 Bordetella pertussis Tohama I hypothetical protein NP_879379.1 538974 D 257313 CDS NP_879380.1 33591736 2664061 539846..540823 1 NC_002929.2 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 540823 2664061 BP0531 Bordetella pertussis Tohama I hypothetical protein NP_879380.1 539846 D 257313 CDS NP_879381.1 33591737 2664062 540858..542411 1 NC_002929.2 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 542411 2664062 BP0532 Bordetella pertussis Tohama I substrate-CoA ligase NP_879381.1 540858 D 257313 CDS NP_879382.1 33591738 2664028 542419..543159 1 NC_002929.2 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 543159 2664028 BP0533 Bordetella pertussis Tohama I transcriptional regulator NP_879382.1 542419 D 257313 CDS NP_879383.1 33591739 2664396 543183..543947 1 NC_002929.2 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 543947 2664396 BP0534 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase NP_879383.1 543183 D 257313 CDS NP_879384.1 33591740 2664064 543992..544327 1 NC_002929.2 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 544327 2664064 BP0535 Bordetella pertussis Tohama I carboxymuconolactone decarboxylase NP_879384.1 543992 D 257313 CDS NP_879385.1 33591741 2664333 complement(545270..546220) 1 NC_002929.2 transposase for IS481 element; transposase 546220 2664333 BP0537 Bordetella pertussis Tohama I transposase NP_879385.1 545270 R 257313 CDS NP_879386.1 33591742 2664092 complement(546339..547283) 1 NC_002929.2 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 547283 2664092 BP0538 Bordetella pertussis Tohama I arginase NP_879386.1 546339 R 257313 CDS NP_879387.1 33591743 2664241 complement(547280..548521) 1 NC_002929.2 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 548521 rocD 2664241 rocD Bordetella pertussis Tohama I ornithine--oxo-acid transaminase NP_879387.1 547280 R 257313 CDS NP_879388.1 33591744 2664683 548683..549633 1 NC_002929.2 transposase for IS481 element; transposase 549633 2664683 BP0540 Bordetella pertussis Tohama I transposase NP_879388.1 548683 D 257313 CDS NP_879389.1 33591745 2664470 complement(549630..550304) 1 NC_002929.2 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 550304 2664470 BP0541 Bordetella pertussis Tohama I transcriptional regulator NP_879389.1 549630 R 257313 CDS NP_879390.1 33591746 2664471 complement(550389..551384) 1 NC_002929.2 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 551384 2664471 BP0542 Bordetella pertussis Tohama I hypothetical protein NP_879390.1 550389 R 257313 CDS NP_879391.1 33591747 2664338 complement(551539..552828) 1 NC_002929.2 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 552828 2664338 BP0543 Bordetella pertussis Tohama I hypothetical protein NP_879391.1 551539 R 257313 CDS NP_879392.1 33591748 2664339 553080..553271 1 NC_002929.2 4-OT; member of subfamily 5; forms a dimer; the function in the Escherichia coli cell is unknown; 4-oxalocrotonate tautomerase 553271 2664339 BP0544 Bordetella pertussis Tohama I 4-oxalocrotonate tautomerase NP_879392.1 553080 D 257313 CDS NP_879393.1 33591749 2664340 553378..554697 1 NC_002929.2 catalyzes the methylthiolation of an aspartic acid residue of the S12 protein of the 30S ribosomal subunit; ribosomal protein S12 methylthiotransferase 554697 rimO 2664340 rimO Bordetella pertussis Tohama I ribosomal protein S12 methylthiotransferase NP_879393.1 553378 D 257313 CDS NP_879394.1 33591750 2664460 complement(554768..555337) 1 NC_002929.2 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 555337 2664460 BP0546 Bordetella pertussis Tohama I bacterioferritin NP_879394.1 554768 R 257313 CDS NP_879395.1 33591751 2664172 555518..556105 1 NC_002929.2 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 556105 2664172 BP0547 Bordetella pertussis Tohama I lysine decarboxylase NP_879395.1 555518 D 257313 CDS NP_879396.1 33591752 2664173 556112..556714 1 NC_002929.2 no significant database matches; hypothetical protein 556714 2664173 BP0548 Bordetella pertussis Tohama I hypothetical protein NP_879396.1 556112 D 257313 CDS NP_879397.1 33591753 2664174 556711..557367 1 NC_002929.2 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 557367 2664174 BP0549 Bordetella pertussis Tohama I haloacid dehalogenase NP_879397.1 556711 D 257313 CDS NP_879398.1 33591754 2664702 557364..557990 1 NC_002929.2 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 557990 2664702 BP0550 Bordetella pertussis Tohama I hypothetical protein NP_879398.1 557364 D 257313 CDS NP_879399.1 33591755 2664703 complement(558013..558951) 1 NC_002929.2 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 558951 fmt 2664703 fmt Bordetella pertussis Tohama I methionyl-tRNA formyltransferase NP_879399.1 558013 R 257313 CDS NP_879400.1 33591756 2664170 complement(559017..559529) 1 NC_002929.2 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+); peptide deformylase 559529 def 2664170 def Bordetella pertussis Tohama I peptide deformylase NP_879400.1 559017 R 257313 CDS NP_879401.1 33591757 2664262 complement(559631..560881) 1 NC_002929.2 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 560881 2664262 BP0553 Bordetella pertussis Tohama I hypothetical protein NP_879401.1 559631 R 257313 CDS NP_879402.1 33591758 2664263 560970..561503 1 NC_002929.2 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 561503 lrp 2664263 lrp Bordetella pertussis Tohama I leucine-responsive regulatory protein NP_879402.1 560970 D 257313 CDS NP_879403.1 33591759 2664256 561604..562716 1 NC_002929.2 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 562716 smf 2664256 smf Bordetella pertussis Tohama I hypothetical protein NP_879403.1 561604 D 257313 CDS NP_879404.1 33591760 2664257 562830..563738 1 NC_002929.2 catalyzes the formation of acetoacetate and acetyl-CoA from 3-hydroxy-3-methylglutaryl-CoA; hydroxymethylglutaryl-CoA lyase 563738 hmgcL 2664257 hmgcL Bordetella pertussis Tohama I hydroxymethylglutaryl-CoA lyase NP_879404.1 562830 D 257313 CDS NP_879405.1 33591761 2664084 563881..564357 1 NC_002929.2 no significant database matches; hypothetical protein 564357 2664084 BP0557 Bordetella pertussis Tohama I hypothetical protein NP_879405.1 563881 D 257313 CDS NP_879406.1 33591762 2664085 complement(564392..565408) 1 NC_002929.2 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 565408 2664085 BP0558 Bordetella pertussis Tohama I amino acid ABC transporter substrate-binding protein NP_879406.1 564392 R 257313 CDS NP_879407.1 33591763 2664650 complement(565522..566763) 1 NC_002929.2 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 566763 2664650 BP0559 Bordetella pertussis Tohama I aminotransferase NP_879407.1 565522 R 257313 CDS NP_879408.1 33591764 2664298 567897..568862 1 NC_002929.2 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 568862 2664298 BP0561 Bordetella pertussis Tohama I hypothetical protein NP_879408.1 567897 D 257313 CDS NP_879409.1 33591765 2664299 complement(568909..569400) 1 NC_002929.2 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 569400 2664299 BP0562 Bordetella pertussis Tohama I hypothetical protein NP_879409.1 568909 R 257313 CDS NP_879410.1 33591766 2664300 complement(569496..570395) 1 NC_002929.2 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 570395 2664300 BP0563 Bordetella pertussis Tohama I chromosome replication initiation inhibitor protein NP_879410.1 569496 R 257313 CDS NP_879411.1 33591767 2664261 570525..571160 1 NC_002929.2 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 571160 2664261 BP0564 Bordetella pertussis Tohama I transporter NP_879411.1 570525 D 257313 CDS NP_879412.1 33591768 2664458 complement(571157..572107) 1 NC_002929.2 transposase for IS481 element; transposase 572107 2664458 BP0565 Bordetella pertussis Tohama I transposase NP_879412.1 571157 R 257313 CDS NP_879413.1 33591769 2664386 complement(572242..573090) 1 NC_002929.2 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 573090 2664386 BP0566 Bordetella pertussis Tohama I dioxygenase NP_879413.1 572242 R 257313 CDS NP_879414.1 33591770 2664063 573224..574000 1 NC_002929.2 catalyzes the formation of L-aspartate to iminoaspartate in NAD(+) biosynthesis; L-aspartate dehydrogenase 574000 2664063 BP0567 Bordetella pertussis Tohama I L-aspartate dehydrogenase NP_879414.1 573224 D 257313 CDS NP_879415.1 33591771 2663971 complement(574046..574675) 1 NC_002929.2 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 574675 2663971 BP0568 Bordetella pertussis Tohama I amino acid efflux protein NP_879415.1 574046 R 257313 CDS NP_879416.1 33591772 2664511 574783..576117 1 NC_002929.2 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 576117 2664511 BP0569 Bordetella pertussis Tohama I hypothetical protein NP_879416.1 574783 D 257313 CDS NP_879417.1 33591773 2664380 576136..576747 1 NC_002929.2 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 576747 2664380 BP0570 Bordetella pertussis Tohama I hypothetical protein NP_879417.1 576136 D 257313 CDS NP_879418.1 33591774 2664381 576744..579053 1 NC_002929.2 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 579053 2664381 BP0571 Bordetella pertussis Tohama I two-component sensor kinase NP_879418.1 576744 D 257313 CDS NP_879419.1 33591775 2664756 579064..579753 1 NC_002929.2 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 579753 2664756 BP0572 Bordetella pertussis Tohama I two-component response regulator NP_879419.1 579064 D 257313 CDS NP_879420.1 33591776 2664757 579750..581129 1 NC_002929.2 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 581129 trkA 2664757 trkA Bordetella pertussis Tohama I potassium transporter peripheral membrane protein NP_879420.1 579750 D 257313 CDS NP_879421.1 33591777 2664758 581178..582647 1 NC_002929.2 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 582647 trkH 2664758 trkH Bordetella pertussis Tohama I Trk system potassium uptake protein NP_879421.1 581178 D 257313 CDS NP_879422.1 33591778 2664762 582793..583260 1 NC_002929.2 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 583260 2664762 BP0575 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_879422.1 582793 D 257313 CDS NP_879423.1 33591779 2664759 complement(583268..584263) 1 NC_002929.2 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 584263 2664759 BP0576 Bordetella pertussis Tohama I hypothetical protein NP_879423.1 583268 R 257313 CDS NP_879424.1 33591780 2664760 584397..584996 1 NC_002929.2 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 584996 2664760 BP0577 Bordetella pertussis Tohama I hypothetical protein NP_879424.1 584397 D 257313 CDS NP_879425.1 33591781 2664761 585320..586282 1 NC_002929.2 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 586282 2664761 BP0578 Bordetella pertussis Tohama I hypothetical protein NP_879425.1 585320 D 257313 CDS NP_879426.1 33591782 2664763 586308..587060 1 NC_002929.2 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 587060 maiA 2664763 maiA Bordetella pertussis Tohama I maleate cis-trans isomerase NP_879426.1 586308 D 257313 CDS NP_879427.1 33591783 2664765 587927..588958 1 NC_002929.2 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 588958 2664765 BP0581 Bordetella pertussis Tohama I hypothetical protein NP_879427.1 587927 D 257313 CDS NP_879428.1 33591784 2664766 588974..589591 1 NC_002929.2 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 589591 2664766 BP0582 Bordetella pertussis Tohama I isochorismatase NP_879428.1 588974 D 257313 CDS NP_879429.1 33591785 2664767 complement(589662..590177) 1 NC_002929.2 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 590177 2664767 BP0583 Bordetella pertussis Tohama I ring hydroxylating subunit beta NP_879429.1 589662 R 257313 CDS NP_879430.1 33591786 2664768 complement(590192..591481) 1 NC_002929.2 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 591481 2664768 BP0584 Bordetella pertussis Tohama I ring hydroxylating subunit alpha NP_879430.1 590192 R 257313 CDS NP_879431.1 33591787 2664769 complement(591517..592779) 1 NC_002929.2 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 592779 2664769 BP0585 Bordetella pertussis Tohama I ferredoxin reductase NP_879431.1 591517 R 257313 CDS NP_879432.1 33591788 2664770 complement(592782..593093) 1 NC_002929.2 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 593093 2664770 BP0586 Bordetella pertussis Tohama I ferredoxin NP_879432.1 592782 R 257313 CDS NP_879433.1 33591789 2664771 593563..594666 1 NC_002929.2 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 594666 2664771 BP0589 Bordetella pertussis Tohama I hypothetical protein NP_879433.1 593563 D 257313 CDS NP_879434.1 33591790 2664772 594696..597068 1 NC_002929.2 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 597068 2664772 BP0590 Bordetella pertussis Tohama I oxidoreductase large subunit NP_879434.1 594696 D 257313 CDS NP_879435.1 33591791 2664773 597065..597901 1 NC_002929.2 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 597901 2664773 BP0591 Bordetella pertussis Tohama I oxidoreductase medium subunit NP_879435.1 597065 D 257313 CDS NP_879436.1 33591792 2664774 597898..599085 1 NC_002929.2 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 599085 2664774 BP0592 Bordetella pertussis Tohama I iron-sulfur binding protein NP_879436.1 597898 D 257313 CDS NP_879437.1 33591793 2664776 599120..600148 1 NC_002929.2 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 600148 2664776 BP0593 Bordetella pertussis Tohama I hypothetical protein NP_879437.1 599120 D 257313 CDS NP_879438.1 33591794 2664777 600145..600933 1 NC_002929.2 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 600933 2664777 BP0594 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879438.1 600145 D 257313 CDS NP_879439.1 33591795 2664778 600930..601703 1 NC_002929.2 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 601703 2664778 BP0595 Bordetella pertussis Tohama I ABC transporter permease NP_879439.1 600930 D 257313 CDS NP_879440.1 33591796 2664779 601743..602372 1 NC_002929.2 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 602372 2664779 BP0596 Bordetella pertussis Tohama I hypothetical protein NP_879440.1 601743 D 257313 CDS NP_879441.1 33591797 2664780 602375..604033 1 NC_002929.2 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 604033 2664780 BP0597 Bordetella pertussis Tohama I hypothetical protein NP_879441.1 602375 D 257313 CDS NP_879442.1 33591798 2664781 604382..605623 1 NC_002929.2 ATP-dependent; carboxylate-amine ligase with weak glutamate--cysteine ligase activity; carboxylate-amine ligase 605623 2664781 BP0598 Bordetella pertussis Tohama I carboxylate-amine ligase NP_879442.1 604382 D 257313 CDS NP_879443.1 33591799 2664782 complement(605639..606562) 1 NC_002929.2 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 606562 2664782 BP0599 Bordetella pertussis Tohama I hypothetical protein NP_879443.1 605639 R 257313 CDS NP_879444.1 33591800 2664783 606770..607384 1 NC_002929.2 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 607384 2664783 BP0600 Bordetella pertussis Tohama I hypothetical protein NP_879444.1 606770 D 257313 CDS NP_879445.1 33591801 2664784 607459..607929 1 NC_002929.2 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 607929 2664784 BP0601 Bordetella pertussis Tohama I rRNA methylase NP_879445.1 607459 D 257313 CDS NP_879446.1 33591802 2664786 complement(609000..610055) 1 NC_002929.2 catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate; NAD(P)H-dependent glycerol-3-phosphate dehydrogenase 610055 gpsA 2664786 gpsA Bordetella pertussis Tohama I NAD(P)H-dependent glycerol-3-phosphate dehydrogenase NP_879446.1 609000 R 257313 CDS NP_879447.1 33591803 2664787 complement(610071..610598) 1 NC_002929.2 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 610598 secB 2664787 secB Bordetella pertussis Tohama I preprotein translocase subunit SecB NP_879447.1 610071 R 257313 CDS NP_879448.1 33591804 2664788 complement(610652..610912) 1 NC_002929.2 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 610912 grxC 2664788 grxC Bordetella pertussis Tohama I glutaredoxin 3 NP_879448.1 610652 R 257313 CDS NP_879449.1 33591805 2664789 complement(610946..611368) 1 NC_002929.2 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 611368 2664789 BP0606 Bordetella pertussis Tohama I hypothetical protein NP_879449.1 610946 R 257313 CDS NP_879450.1 33591806 2664790 611521..612273 1 NC_002929.2 2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate; phosphoglyceromutase 612273 gpmA 2664790 gpmA Bordetella pertussis Tohama I phosphoglyceromutase NP_879450.1 611521 D 257313 CDS NP_879451.1 33591807 2664791 612277..613842 1 NC_002929.2 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 613842 2664791 BP0608 Bordetella pertussis Tohama I peptidase NP_879451.1 612277 D 257313 CDS NP_879452.1 33591808 2664792 613869..615314 1 NC_002929.2 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 615314 ctpA 2664792 ctpA Bordetella pertussis Tohama I carboxy-terminal processing protease NP_879452.1 613869 D 257313 CDS NP_879453.1 33591809 2664793 615311..616105 1 NC_002929.2 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 616105 thiF 2664793 thiF Bordetella pertussis Tohama I adenylyltransferase NP_879453.1 615311 D 257313 CDS NP_879454.1 33591810 2664794 complement(616102..617052) 1 NC_002929.2 transposase for IS481 element; transposase 617052 2664794 BP0611 Bordetella pertussis Tohama I transposase NP_879454.1 616102 R 257313 CDS NP_879455.1 33591811 2664796 617222..618193 1 NC_002929.2 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 618193 2664796 BP0612 Bordetella pertussis Tohama I hypothetical protein NP_879455.1 617222 D 257313 CDS NP_879456.1 33591812 2664797 complement(618253..619059) 1 NC_002929.2 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 619059 2664797 BP0613 Bordetella pertussis Tohama I transcriptional regulator NP_879456.1 618253 R 257313 CDS NP_879457.1 33591813 2664531 621022..621981 1 NC_002929.2 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 621981 2664531 BP0615 Bordetella pertussis Tohama I hypothetical protein NP_879457.1 621022 D 257313 CDS NP_879458.1 33591814 2664532 622035..622880 1 NC_002929.2 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 622880 2664532 BP0616 Bordetella pertussis Tohama I hypothetical protein NP_879458.1 622035 D 257313 CDS NP_879459.1 33591815 2664494 complement(622934..623548) 1 NC_002929.2 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 623548 2664494 BP0617 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_879459.1 622934 R 257313 CDS NP_879460.1 33591816 2664372 complement(623630..625039) 1 NC_002929.2 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 625039 lpdA 2664372 lpdA Bordetella pertussis Tohama I dihydrolipoamide dehydrogenase NP_879460.1 623630 R 257313 CDS NP_879461.1 33591817 2664795 complement(625056..625796) 1 NC_002929.2 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 625796 2664795 BP0619 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter ATP-binding protein NP_879461.1 625056 R 257313 CDS NP_879462.1 33591818 2664067 complement(625789..627612) 1 NC_002929.2 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 627612 2664067 BP0620 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_879462.1 625789 R 257313 CDS NP_879463.1 33591819 2664083 complement(627609..628493) 1 NC_002929.2 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 628493 2664083 BP0621 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_879463.1 627609 R 257313 CDS NP_879464.1 33591820 2664724 complement(628563..629771) 1 NC_002929.2 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 629771 2664724 BP0622 Bordetella pertussis Tohama I leu/Ile/val-binding protein NP_879464.1 628563 R 257313 CDS NP_879465.1 33591821 2667762 complement(631264..632757) 1 NC_002929.2 activates fatty acids by binding to coenzyme A; acyl-CoA synthetase 632757 2667762 BP0624 Bordetella pertussis Tohama I acyl-CoA synthetase NP_879465.1 631264 R 257313 CDS NP_879466.1 33591822 2664804 complement(632837..634012) 1 NC_002929.2 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 634012 2664804 BP0625 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879466.1 632837 R 257313 CDS NP_879467.1 33591823 2665121 complement(634843..635628) 1 NC_002929.2 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 635628 2665121 BP0627 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase NP_879467.1 634843 R 257313 CDS NP_879468.1 33591824 2665368 complement(635643..636617) 1 NC_002929.2 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 636617 2665368 BP0628 Bordetella pertussis Tohama I pyruvate dehydrogenase E1 subunit beta NP_879468.1 635643 R 257313 CDS NP_879469.1 33591825 2665369 complement(636619..637590) 1 NC_002929.2 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 637590 pdhA 2665369 pdhA Bordetella pertussis Tohama I pyruvate dehydrogenase E1 component subunit alpha NP_879469.1 636619 R 257313 CDS NP_879470.1 33591826 2664712 complement(637904..638737) 1 NC_002929.2 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 638737 2664712 BP0630 Bordetella pertussis Tohama I transcriptional regulator NP_879470.1 637904 R 257313 CDS NP_879471.1 33591827 2664268 complement(641252..642244) 1 NC_002929.2 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 642244 2664268 BP0633 Bordetella pertussis Tohama I hypothetical protein NP_879471.1 641252 R 257313 CDS NP_879472.1 33591828 2664424 642492..643640 1 NC_002929.2 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 643640 2664424 BP0634 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879472.1 642492 D 257313 CDS NP_879473.1 33591829 2664425 643637..644443 1 NC_002929.2 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 644443 2664425 BP0635 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_879473.1 643637 D 257313 CDS NP_879474.1 33591830 2663986 644440..645594 1 NC_002929.2 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 645594 2663986 BP0636 Bordetella pertussis Tohama I hypothetical protein NP_879474.1 644440 D 257313 CDS NP_879475.1 33591831 2664500 645596..645997 1 NC_002929.2 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 645997 2664500 BP0637 Bordetella pertussis Tohama I hypothetical protein NP_879475.1 645596 D 257313 CDS NP_879476.1 33591832 2664501 645994..646389 1 NC_002929.2 no significant database matches; hypothetical protein 646389 2664501 BP0638 Bordetella pertussis Tohama I hypothetical protein NP_879476.1 645994 D 257313 CDS NP_879477.1 33591833 2664402 646386..646778 1 NC_002929.2 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 646778 2664402 BP0639 Bordetella pertussis Tohama I hypothetical protein NP_879477.1 646386 D 257313 CDS NP_879478.1 33591834 2664403 646789..647949 1 NC_002929.2 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 647949 2664403 BP0640 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879478.1 646789 D 257313 CDS NP_879479.1 33591835 2664513 647987..648958 1 NC_002929.2 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 648958 2664513 BP0641 Bordetella pertussis Tohama I hypothetical protein NP_879479.1 647987 D 257313 CDS NP_879480.1 33591836 2664514 648966..650114 1 NC_002929.2 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 650114 2664514 BP0642 Bordetella pertussis Tohama I hypothetical protein NP_879480.1 648966 D 257313 CDS NP_879481.1 33591837 2664515 complement(650111..651001) 1 NC_002929.2 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 651001 2664515 BP0643 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879481.1 650111 R 257313 CDS NP_879482.1 33591838 2664350 651208..652155 1 NC_002929.2 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 652155 2664350 BP0644 Bordetella pertussis Tohama I dihydrodipicolinate synthase NP_879482.1 651208 D 257313 CDS NP_879483.1 33591839 2664351 652254..653204 1 NC_002929.2 transposase for IS481 element; transposase 653204 2664351 BP0645 Bordetella pertussis Tohama I transposase NP_879483.1 652254 D 257313 CDS NP_879484.1 33591840 2667714 653303..654253 1 NC_002929.2 transposase for IS481 element; transposase 654253 2667714 BP0646 Bordetella pertussis Tohama I transposase NP_879484.1 653303 D 257313 CDS NP_879485.1 33591841 2664156 complement(654250..654657) 1 NC_002929.2 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 654657 2664156 BP0647 Bordetella pertussis Tohama I hypothetical protein NP_879485.1 654250 R 257313 CDS NP_879486.1 33591842 2664158 complement(655941..656912) 1 NC_002929.2 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 656912 2664158 BP0649 Bordetella pertussis Tohama I hypothetical protein NP_879486.1 655941 R 257313 CDS NP_879487.1 33591843 2667716 657019..657981 1 NC_002929.2 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 657981 2667716 BP0650 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879487.1 657019 D 257313 CDS NP_879488.1 33591844 2667686 658100..659821 1 NC_002929.2 component of the membrane-bound D-lactate oxidase, FAD-binding, NADH independent; D-lactate dehydrogenase 659821 dld 2667686 dld Bordetella pertussis Tohama I D-lactate dehydrogenase NP_879488.1 658100 D 257313 CDS NP_879489.1 33591845 2667715 complement(659865..660995) 1 NC_002929.2 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 660995 2667715 BP0652 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879489.1 659865 R 257313 CDS NP_879490.1 33591846 2664805 complement(661009..662199) 1 NC_002929.2 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 662199 2664805 BP0653 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879490.1 661009 R 257313 CDS NP_879491.1 33591847 2667684 complement(662380..663399) 1 NC_002929.2 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 663399 2667684 BP0654 Bordetella pertussis Tohama I hypothetical protein NP_879491.1 662380 R 257313 CDS NP_879492.1 33591848 2667685 complement(663532..664704) 1 NC_002929.2 catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine; acetylornithine deacetylase 664704 2667685 BP0655 Bordetella pertussis Tohama I acetylornithine deacetylase NP_879492.1 663532 R 257313 CDS NP_879493.1 33591849 2667723 complement(664697..665371) 1 NC_002929.2 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 665371 2667723 BP0656 Bordetella pertussis Tohama I hypothetical protein NP_879493.1 664697 R 257313 CDS NP_879494.1 33591850 2667724 complement(665382..665810) 1 NC_002929.2 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 665810 2667724 BP0657 Bordetella pertussis Tohama I endoribonuclease NP_879494.1 665382 R 257313 CDS NP_879495.1 33591851 2667725 complement(665841..667115) 1 NC_002929.2 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 667115 2667725 BP0658 Bordetella pertussis Tohama I hypothetical protein NP_879495.1 665841 R 257313 CDS NP_879496.1 33591852 2667726 667480..668463 1 NC_002929.2 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 668463 2667726 BP0659 Bordetella pertussis Tohama I zinc-binding dehydrogenase NP_879496.1 667480 D 257313 CDS NP_879497.1 33591853 2667727 complement(668547..669491) 1 NC_002929.2 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 669491 2667727 BP0660 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879497.1 668547 R 257313 CDS NP_879498.1 33591854 2667729 complement(669639..671780) 1 NC_002929.2 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 671780 2667729 BP0661 Bordetella pertussis Tohama I acetyl-CoA synthetase NP_879498.1 669639 R 257313 CDS NP_879499.1 33591855 2667730 complement(671780..672559) 1 NC_002929.2 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 672559 2667730 BP0662 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_879499.1 671780 R 257313 CDS NP_879500.1 33591856 2667731 672958..673851 1 NC_002929.2 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 673851 2667731 BP0663 Bordetella pertussis Tohama I hypothetical protein NP_879500.1 672958 D 257313 CDS NP_879501.1 33591857 2667732 673915..674934 1 NC_002929.2 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 674934 2667732 BP0664 Bordetella pertussis Tohama I hypothetical protein NP_879501.1 673915 D 257313 CDS NP_879502.1 33591858 2667733 674991..675971 1 NC_002929.2 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 675971 2667733 BP0665 Bordetella pertussis Tohama I thymidine diphosphoglucose 4,6-dehydratase NP_879502.1 674991 D 257313 CDS NP_879503.1 33591859 2667728 complement(676169..678001) 1 NC_002929.2 Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source; glucosamine--fructose-6-phosphate aminotransferase 678001 glmS 2667728 glmS Bordetella pertussis Tohama I glucosamine--fructose-6-phosphate aminotransferase NP_879503.1 676169 R 257313 CDS NP_879504.1 33591860 2667734 678151..678639 1 NC_002929.2 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 678639 2667734 BP0667 Bordetella pertussis Tohama I transcription regulator AsnC NP_879504.1 678151 D 257313 CDS NP_879505.1 33591861 2667735 complement(678661..679845) 1 NC_002929.2 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 679845 2667735 BP0668 Bordetella pertussis Tohama I thiolase NP_879505.1 678661 R 257313 CDS NP_879506.1 33591862 2667736 complement(679875..681992) 1 NC_002929.2 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 681992 2667736 BP0669 Bordetella pertussis Tohama I bifunctional enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase NP_879506.1 679875 R 257313 CDS NP_879507.1 33591863 2667737 682250..684052 1 NC_002929.2 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 684052 2667737 BP0670 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879507.1 682250 D 257313 CDS NP_879508.1 33591864 2667738 684134..685120 1 NC_002929.2 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 685120 2667738 BP0671 Bordetella pertussis Tohama I hypothetical protein NP_879508.1 684134 D 257313 CDS NP_879509.1 33591865 2667739 685172..687361 1 NC_002929.2 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 687361 2667739 BP0672 Bordetella pertussis Tohama I acetyl-CoA synthetase NP_879509.1 685172 D 257313 CDS NP_879510.1 33591866 2667740 687358..688155 1 NC_002929.2 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 688155 2667740 BP0673 Bordetella pertussis Tohama I citrate synthase NP_879510.1 687358 D 257313 CDS NP_879511.1 33591867 2667741 688152..688988 1 NC_002929.2 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 688988 2667741 BP0674 Bordetella pertussis Tohama I transcriptional regulator NP_879511.1 688152 D 257313 CDS NP_879512.1 33591868 2667742 689008..691383 1 NC_002929.2 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 691383 2667742 BP0675 Bordetella pertussis Tohama I molybdopterin oxidoreductase NP_879512.1 689008 D 257313 CDS NP_879513.1 33591869 2667743 691482..692432 1 NC_002929.2 transposase for IS481 element; transposase 692432 2667743 BP0676 Bordetella pertussis Tohama I transposase NP_879513.1 691482 D 257313 CDS NP_879514.1 33591870 2667744 693155..694429 1 NC_002929.2 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 694429 hemA 2667744 hemA Bordetella pertussis Tohama I glutamyl-tRNA reductase NP_879514.1 693155 D 257313 CDS NP_879515.1 33591871 2667745 694516..695598 1 NC_002929.2 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 695598 prfA 2667745 prfA Bordetella pertussis Tohama I peptide chain release factor 1 NP_879515.1 694516 D 257313 CDS NP_879516.1 33591872 2667746 695609..696421 1 NC_002929.2 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 696421 hemK 2667746 hemK Bordetella pertussis Tohama I heme biosynthesis protein NP_879516.1 695609 D 257313 CDS NP_879517.1 33591873 2667747 696458..696784 1 NC_002929.2 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 696784 2667747 BP0680 Bordetella pertussis Tohama I hypothetical protein NP_879517.1 696458 D 257313 CDS NP_879518.1 33591874 2667748 696789..697349 1 NC_002929.2 catalyzes the formation of 2-octaprenylphenol from 3-octaprenyl-4-hydroxybenzoate; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase 697349 2667748 BP0681 Bordetella pertussis Tohama I 3-octaprenyl-4-hydroxybenzoate carboxy-lyase NP_879518.1 696789 D 257313 CDS NP_879519.1 33591875 2667749 697590..698582 1 NC_002929.2 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 698582 2667749 BP0682 Bordetella pertussis Tohama I hypothetical protein NP_879519.1 697590 D 257313 CDS NP_879520.1 33591876 2667750 698601..699596 1 NC_002929.2 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 699596 2667750 BP0683 Bordetella pertussis Tohama I 4,5-dihydroxyphthalate decarboxylase NP_879520.1 698601 D 257313 CDS NP_879521.1 33591877 2667752 700479..700988 1 NC_002929.2 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 700988 2667752 BP0684A Bordetella pertussis Tohama I 2Fe-2S ferredoxin NP_879521.1 700479 D 257313 CDS NP_879522.1 33591878 2667753 700981..703362 1 NC_002929.2 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 703362 2667753 BP0685 Bordetella pertussis Tohama I dehydrogenase/oxidase NP_879522.1 700981 D 257313 CDS NP_879523.1 33591879 2667755 complement(704230..705180) 1 NC_002929.2 transposase for IS481 element; transposase 705180 2667755 BP0688 Bordetella pertussis Tohama I transposase NP_879523.1 704230 R 257313 CDS NP_879524.1 33591880 2667756 complement(705279..706229) 1 NC_002929.2 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 706229 2667756 BP0689 Bordetella pertussis Tohama I lipoprotein NP_879524.1 705279 R 257313 CDS NP_879525.1 33591881 2667757 complement(706226..707098) 1 NC_002929.2 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 707098 2667757 BP0690 Bordetella pertussis Tohama I hypothetical protein NP_879525.1 706226 R 257313 CDS NP_879526.1 33591882 2667759 708029..709315 1 NC_002929.2 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 709315 2667759 BP0692 Bordetella pertussis Tohama I cytochrome C NP_879526.1 708029 D 257313 CDS NP_879527.1 33591883 2667760 complement(709369..710295) 1 NC_002929.2 catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system; HPr kinase/phosphorylase 710295 2667760 BP0693 Bordetella pertussis Tohama I HPr kinase/phosphorylase NP_879527.1 709369 R 257313 CDS NP_879528.1 33591884 2664273 complement(710314..710769) 1 NC_002929.2 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 710769 rpoP 2664273 rpoP Bordetella pertussis Tohama I nitrogen regulatory IIA protein NP_879528.1 710314 R 257313 CDS NP_879529.1 33591885 2664398 complement(711621..712412) 1 NC_002929.2 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 712412 2664398 BP0697 Bordetella pertussis Tohama I ABC transporter permease NP_879529.1 711621 R 257313 CDS NP_879530.1 33591886 2663959 complement(712444..713064) 1 NC_002929.2 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 713064 2663959 BP0698 Bordetella pertussis Tohama I hypothetical protein NP_879530.1 712444 R 257313 CDS NP_879531.1 33591887 2663960 complement(713061..713690) 1 NC_002929.2 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 713690 2663960 BP0699 Bordetella pertussis Tohama I hypothetical protein NP_879531.1 713061 R 257313 CDS NP_879532.1 33591888 2663961 complement(713703..714311) 1 NC_002929.2 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 714311 2663961 BP0700 Bordetella pertussis Tohama I hydrolase NP_879532.1 713703 R 257313 CDS NP_879533.1 33591889 2664069 complement(714308..715297) 1 NC_002929.2 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 715297 2664069 BP0701 Bordetella pertussis Tohama I hypothetical protein NP_879533.1 714308 R 257313 CDS NP_879534.1 33591890 2664246 715403..716617 1 NC_002929.2 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 716617 purT 2664246 purT Bordetella pertussis Tohama I phosphoribosylglycinamide formyltransferase 2 NP_879534.1 715403 D 257313 CDS NP_879535.1 33591891 2666132 718569..719519 1 NC_002929.2 transposase for IS481 element; transposase 719519 2666132 BP0704 Bordetella pertussis Tohama I transposase NP_879535.1 718569 D 257313 CDS NP_879536.1 33591892 2666850 720953..722239 1 NC_002929.2 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 722239 2666850 BP0706 Bordetella pertussis Tohama I hypothetical protein NP_879536.1 720953 D 257313 CDS NP_879537.1 33591893 2667607 722405..722713 1 NC_002929.2 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 722713 2667607 BP0707 Bordetella pertussis Tohama I hypothetical protein NP_879537.1 722405 D 257313 CDS NP_879538.1 33591894 2667608 722714..723379 1 NC_002929.2 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 723379 2667608 BP0708 Bordetella pertussis Tohama I hypothetical protein NP_879538.1 722714 D 257313 CDS NP_879539.1 33591895 2667609 723420..725210 1 NC_002929.2 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 725210 aspS 2667609 aspS Bordetella pertussis Tohama I aspartyl-tRNA synthetase NP_879539.1 723420 D 257313 CDS NP_879540.1 33591896 2667029 725323..726183 1 NC_002929.2 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 726183 2667029 BP0710 Bordetella pertussis Tohama I endonuclease/exonuclease/phosphatase family protein NP_879540.1 725323 D 257313 CDS NP_879541.1 33591897 2667030 726180..727385 1 NC_002929.2 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 727385 2667030 BP0711 Bordetella pertussis Tohama I phospholipase NP_879541.1 726180 D 257313 CDS NP_879542.1 33591898 2666521 complement(727382..728266) 1 NC_002929.2 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 728266 2666521 BP0712 Bordetella pertussis Tohama I hypothetical protein NP_879542.1 727382 R 257313 CDS YP_008691073.1 552528639 2665921 complement(730180..731178) 1 NC_002929.2 integrase 731178 2665921 BP0716 Bordetella pertussis Tohama I integrase YP_008691073.1 730180 R 257313 CDS NP_879543.1 33591899 2666338 complement(731338..732210) 1 NC_002929.2 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 732210 2666338 BP0718 Bordetella pertussis Tohama I carboxyvinyl-carboxyphosphonate phosphorylmutase NP_879543.1 731338 R 257313 CDS NP_879544.1 33591900 2667349 732551..732769 1 NC_002929.2 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 732769 2667349 BP0720 Bordetella pertussis Tohama I hypothetical protein NP_879544.1 732551 D 257313 CDS NP_879545.1 33591901 2667350 complement(732809..734188) 1 NC_002929.2 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 734188 2667350 BP0721 Bordetella pertussis Tohama I aminotransferase NP_879545.1 732809 R 257313 CDS NP_879546.1 33591902 2667351 complement(734230..735627) 1 NC_002929.2 catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia; amidase 735627 2667351 BP0722 Bordetella pertussis Tohama I amidase NP_879546.1 734230 R 257313 CDS NP_879547.1 33591903 2666778 complement(735667..737319) 1 NC_002929.2 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 737319 2666778 BP0723 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879547.1 735667 R 257313 CDS NP_879548.1 33591904 2665086 complement(737323..738207) 1 NC_002929.2 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 738207 2665086 BP0724 Bordetella pertussis Tohama I ABC transporter permease NP_879548.1 737323 R 257313 CDS NP_879549.1 33591905 2665125 complement(738207..739148) 1 NC_002929.2 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 739148 2665125 BP0725 Bordetella pertussis Tohama I ABC transporter permease NP_879549.1 738207 R 257313 CDS NP_879550.1 33591906 2665144 complement(739227..740846) 1 NC_002929.2 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 740846 2665144 BP0726 Bordetella pertussis Tohama I peptide ABC transporter substrate-binding protein NP_879550.1 739227 R 257313 CDS NP_879551.1 33591907 2665145 741013..741828 1 NC_002929.2 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 741828 2665145 BP0727 Bordetella pertussis Tohama I transcriptional regulator NP_879551.1 741013 D 257313 CDS NP_879552.1 33591908 2665211 complement(741896..742465) 1 NC_002929.2 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 742465 2665211 BP0728 Bordetella pertussis Tohama I transcriptional regulator NP_879552.1 741896 R 257313 CDS NP_879553.1 33591909 2665334 complement(742466..743416) 1 NC_002929.2 transposase for IS481 element; transposase 743416 2665334 BP0729 Bordetella pertussis Tohama I transposase NP_879553.1 742466 R 257313 CDS NP_879554.1 33591910 2663994 744071..745168 1 NC_002929.2 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 745168 nspC 2663994 nspC Bordetella pertussis Tohama I carboxynorspermidine decarboxylase NP_879554.1 744071 D 257313 CDS NP_879555.1 33591911 2663995 745202..746467 1 NC_002929.2 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 746467 2663995 BP0732 Bordetella pertussis Tohama I hypothetical protein NP_879555.1 745202 D 257313 CDS NP_879556.1 33591912 2664357 746625..747575 1 NC_002929.2 transposase for IS481 element; transposase 747575 2664357 BP0733 Bordetella pertussis Tohama I transposase NP_879556.1 746625 D 257313 CDS NP_879558.1 33591914 2664051 747819..748409 1 NC_002929.2 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 748409 2664051 BP0735 Bordetella pertussis Tohama I hypothetical protein NP_879558.1 747819 D 257313 CDS NP_879559.1 33591915 2664052 complement(748425..750869) 1 NC_002929.2 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 750869 bfrF 2664052 bfrF Bordetella pertussis Tohama I ferric siderophore receptor NP_879559.1 748425 R 257313 CDS NP_879560.1 33591916 2663984 complement(750989..751960) 1 NC_002929.2 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 751960 2663984 BP0737 Bordetella pertussis Tohama I inner membrane sensor for iron transport NP_879560.1 750989 R 257313 CDS NP_879561.1 33591917 2664087 complement(752576..753526) 1 NC_002929.2 transposase for IS481 element; transposase 753526 2664087 BP0739 Bordetella pertussis Tohama I transposase NP_879561.1 752576 R 257313 CDS NP_879562.1 33591918 2664369 complement(753748..755943) 1 NC_002929.2 no significant database matches; DNA methylase 755943 2664369 BP0740 Bordetella pertussis Tohama I DNA methylase NP_879562.1 753748 R 257313 CDS NP_879563.1 33591919 2664370 complement(756016..756444) 1 NC_002929.2 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 756444 2664370 BP0741 Bordetella pertussis Tohama I transcriptional regulator NP_879563.1 756016 R 257313 CDS NP_879564.1 33591920 2664220 complement(757609..758052) 1 NC_002929.2 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 758052 2664220 BP0744 Bordetella pertussis Tohama I transcriptional regulator NP_879564.1 757609 R 257313 CDS NP_879565.1 33591921 2664218 758160..758909 1 NC_002929.2 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 758909 2664218 BP0745 Bordetella pertussis Tohama I transcriptional regulator NP_879565.1 758160 D 257313 CDS NP_879566.2 161610762 2664219 complement(759075..760211) 1 NC_002929.2 catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis; gamma-glutamyl kinase 760211 proB 2664219 proB Bordetella pertussis Tohama I gamma-glutamyl kinase NP_879566.2 759075 R 257313 CDS NP_879567.1 33591923 2664049 complement(760282..761415) 1 NC_002929.2 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication; GTPase ObgE 761415 obgE 2664049 obgE Bordetella pertussis Tohama I GTPase ObgE NP_879567.1 760282 R 257313 CDS NP_879568.1 33591924 2664507 complement(761565..761825) 1 NC_002929.2 involved in the peptidyltransferase reaction during translation; 50S ribosomal protein L27 761825 rpmA 2664507 rpmA Bordetella pertussis Tohama I 50S ribosomal protein L27 NP_879568.1 761565 R 257313 CDS NP_879569.1 33591925 2664508 complement(761859..762170) 1 NC_002929.2 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 762170 rplU 2664508 rplU Bordetella pertussis Tohama I 50S ribosomal protein L21 NP_879569.1 761859 R 257313 CDS NP_879570.1 33591926 2664352 762595..763743 1 NC_002929.2 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 763743 2664352 BP0750 Bordetella pertussis Tohama I hypothetical protein NP_879570.1 762595 D 257313 CDS NP_879571.1 33591927 2664353 763858..764823 1 NC_002929.2 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 764823 ispB 2664353 ispB Bordetella pertussis Tohama I octaprenyl-diphosphate synthase NP_879571.1 763858 D 257313 CDS NP_879572.1 33591928 2664292 complement(765092..765958) 1 NC_002929.2 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 765958 2664292 BP0752 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879572.1 765092 R 257313 CDS NP_879573.1 33591929 2664039 766089..768137 1 NC_002929.2 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 768137 hyuA 2664039 hyuA Bordetella pertussis Tohama I hydantoin utilization protein A NP_879573.1 766089 D 257313 CDS NP_879574.1 33591930 2664040 768155..770152 1 NC_002929.2 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 770152 hyuB 2664040 hyuB Bordetella pertussis Tohama I hydantoin utilization protein B NP_879574.1 768155 D 257313 CDS NP_879575.1 33591931 2667712 770187..771524 1 NC_002929.2 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 771524 2667712 BP0755 Bordetella pertussis Tohama I amino acid deaminase NP_879575.1 770187 D 257313 CDS NP_879576.1 33591932 2664529 773695..775176 1 NC_002929.2 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 775176 gabD 2664529 gabD Bordetella pertussis Tohama I succinate-semialdehyde dehydrogenase NP_879576.1 773695 D 257313 CDS NP_879577.1 33591933 2664491 complement(775192..775749) 1 NC_002929.2 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 775749 cyaC 2664491 cyaC Bordetella pertussis Tohama I cyclolysin-activating lysine-acyltransferase NP_879577.1 775192 R 257313 CDS NP_879578.1 33591934 2664492 776228..781348 1 NC_002929.2 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 781348 cyaA 2664492 cyaA Bordetella pertussis Tohama I bifunctional hemolysin-adenylate cyclase NP_879578.1 776228 D 257313 CDS NP_879579.1 33591935 2664566 781426..783564 1 NC_002929.2 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 783564 cyaB 2664566 cyaB Bordetella pertussis Tohama I cyclolysin secretion ATP-binding protein NP_879579.1 781426 D 257313 CDS NP_879580.1 33591936 2664600 783561..784883 1 NC_002929.2 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 784883 cyaD 2664600 cyaD Bordetella pertussis Tohama I cyclolysin secretion protein NP_879580.1 783561 D 257313 CDS NP_879581.1 33591937 2664625 784885..786309 1 NC_002929.2 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 786309 cyaE 2664625 cyaE Bordetella pertussis Tohama I cyclolysin secretion protein NP_879581.1 784885 D 257313 CDS NP_879582.1 33591938 2664626 786400..787308 1 NC_002929.2 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 787308 cyaX 2664626 cyaX Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879582.1 786400 D 257313 CDS NP_879583.1 33591939 2664578 787373..788287 1 NC_002929.2 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 788287 2664578 BP0765 Bordetella pertussis Tohama I extracellular solute-binding protein NP_879583.1 787373 D 257313 CDS NP_879584.1 33591940 2664418 789125..789808 1 NC_002929.2 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 789808 gltK 2664418 gltK Bordetella pertussis Tohama I glutamate/aspartate transport system permease NP_879584.1 789125 D 257313 CDS NP_879585.1 33591941 2664419 789825..790568 1 NC_002929.2 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 790568 gltL 2664419 gltL Bordetella pertussis Tohama I glutamate/aspartate transport ATP-binding protein NP_879585.1 789825 D 257313 CDS NP_879586.1 33591942 2664428 790598..791458 1 NC_002929.2 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 791458 2664428 BP0769 Bordetella pertussis Tohama I aminotransferase NP_879586.1 790598 D 257313 CDS NP_879587.1 33591943 2664429 complement(791466..792032) 1 NC_002929.2 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 792032 2664429 BP0770 Bordetella pertussis Tohama I hypothetical protein NP_879587.1 791466 R 257313 CDS NP_879588.1 33591944 2664071 complement(792121..793077) 1 NC_002929.2 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 793077 2664071 BP0771 Bordetella pertussis Tohama I hypothetical protein NP_879588.1 792121 R 257313 CDS NP_879589.1 33591945 2664072 complement(793122..793874) 1 NC_002929.2 catalyzes the conversion of 3-hydroxyacyl-CoA to 3-oxyacyl-CoA; acetoacetyl-CoA reductase 793874 fabG 2664072 fabG Bordetella pertussis Tohama I acetoacetyl-CoA reductase NP_879589.1 793122 R 257313 CDS NP_879590.1 33591946 2664279 complement(793871..795616) 1 NC_002929.2 catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; catalytic; acetolactate synthase catalytic subunit 795616 2664279 BP0773 Bordetella pertussis Tohama I acetolactate synthase catalytic subunit NP_879590.1 793871 R 257313 CDS NP_879591.1 33591947 2664280 795701..796435 1 NC_002929.2 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 796435 2664280 BP0774 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879591.1 795701 D 257313 CDS NP_879592.1 33591948 2667560 796752..797774 1 NC_002929.2 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 797774 2667560 BP0775 Bordetella pertussis Tohama I hypothetical protein NP_879592.1 796752 D 257313 CDS NP_879593.1 33591949 2667561 complement(797790..798500) 1 NC_002929.2 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 798500 2667561 BP0776 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879593.1 797790 R 257313 CDS NP_879594.1 33591950 2664623 complement(798657..799664) 1 NC_002929.2 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 799664 2664623 BP0777 Bordetella pertussis Tohama I Zinc-binding dehydrogenase NP_879594.1 798657 R 257313 CDS NP_879595.1 33591951 2664624 complement(799705..801237) 1 NC_002929.2 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 801237 2664624 BP0778 Bordetella pertussis Tohama I acetyl-CoA synthetase NP_879595.1 799705 R 257313 CDS NP_879596.1 33591952 2664533 complement(801234..802352) 1 NC_002929.2 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 802352 2664533 BP0779 Bordetella pertussis Tohama I hypothetical protein NP_879596.1 801234 R 257313 CDS NP_879597.1 33591953 2664534 complement(802349..803131) 1 NC_002929.2 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 803131 2664534 BP0780 Bordetella pertussis Tohama I hypothetical protein NP_879597.1 802349 R 257313 CDS NP_879598.1 33591954 2664535 complement(803143..804006) 1 NC_002929.2 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 804006 2664535 BP0781 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879598.1 803143 R 257313 CDS NP_879599.1 33591955 2664552 complement(804025..805122) 1 NC_002929.2 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 805122 2664552 BP0782 Bordetella pertussis Tohama I hypothetical protein NP_879599.1 804025 R 257313 CDS NP_879600.1 33591956 2664553 complement(805191..806117) 1 NC_002929.2 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 806117 2664553 BP0783 Bordetella pertussis Tohama I dioxygenase NP_879600.1 805191 R 257313 CDS NP_879601.1 33591957 2664541 complement(806152..807846) 1 NC_002929.2 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 807846 ilvB 2664541 ilvB Bordetella pertussis Tohama I acetolactate synthase large subunit NP_879601.1 806152 R 257313 CDS NP_879602.1 33591958 2664616 complement(808046..808981) 1 NC_002929.2 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 808981 2664616 BP0785 Bordetella pertussis Tohama I mechanosensitive channel protein NP_879602.1 808046 R 257313 CDS NP_879603.1 33591959 2664617 complement(809087..810037) 1 NC_002929.2 transposase for IS481 element; transposase 810037 2664617 BP0786 Bordetella pertussis Tohama I transposase NP_879603.1 809087 R 257313 CDS NP_879604.1 33591960 2664081 811201..812916 1 NC_002929.2 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 812916 ilvI 2664081 ilvI Bordetella pertussis Tohama I acetolactate synthase large subunit NP_879604.1 811201 D 257313 CDS NP_879605.1 33591961 2664082 812927..813418 1 NC_002929.2 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 813418 ilvH 2664082 ilvH Bordetella pertussis Tohama I acetolactate synthase 3 regulatory subunit NP_879605.1 812927 D 257313 CDS NP_879606.1 33591962 2664321 813491..814507 1 NC_002929.2 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 814507 ilvC 2664321 ilvC Bordetella pertussis Tohama I ketol-acid reductoisomerase NP_879606.1 813491 D 257313 CDS NP_879607.1 33591963 2664322 814675..815454 1 NC_002929.2 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 815454 pssA 2664322 pssA Bordetella pertussis Tohama I CDP-diacylglycerol--serine O-phosphatidyltransferase NP_879607.1 814675 D 257313 CDS NP_879608.1 33591964 2664607 complement(815473..816000) 1 NC_002929.2 no significant database matches; lipoprotein 816000 2664607 BP0793 Bordetella pertussis Tohama I lipoprotein NP_879608.1 815473 R 257313 CDS NP_879609.1 33591965 2664608 816294..816563 1 NC_002929.2 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 816563 rpsO 2664608 rpsO Bordetella pertussis Tohama I 30S ribosomal protein S15 NP_879609.1 816294 D 257313 CDS NP_879610.1 33591966 2664379 816654..818813 1 NC_002929.2 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 818813 pnp 2664379 pnp Bordetella pertussis Tohama I polynucleotide phosphorylase NP_879610.1 816654 D 257313 CDS NP_879611.1 33591967 2664358 818934..819653 1 NC_002929.2 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 819653 2664358 BP0796 Bordetella pertussis Tohama I lipoprotein NP_879611.1 818934 D 257313 CDS NP_879612.1 33591968 2664610 complement(819650..820600) 1 NC_002929.2 transposase for IS481 element; transposase 820600 2664610 BP0797 Bordetella pertussis Tohama I transposase NP_879612.1 819650 R 257313 CDS NP_879613.1 33591969 2664324 820741..821958 1 NC_002929.2 catalyzes the formation of 2-oxobutanoate from L-threonine; threonine dehydratase 821958 tdcB 2664324 tdcB Bordetella pertussis Tohama I threonine dehydratase NP_879613.1 820741 D 257313 CDS NP_879614.1 33591970 2664325 complement(821952..822563) 1 NC_002929.2 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 822563 2664325 BP0799 Bordetella pertussis Tohama I hypothetical protein NP_879614.1 821952 R 257313 CDS NP_879615.1 33591971 2664443 823197..824174 1 NC_002929.2 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 824174 2664443 BP0800 Bordetella pertussis Tohama I zinc-binding dehydrogenase NP_879615.1 823197 D 257313 CDS NP_879616.1 33591972 2664444 824318..825064 1 NC_002929.2 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate; triosephosphate isomerase 825064 tpiA 2664444 tpiA Bordetella pertussis Tohama I triosephosphate isomerase NP_879616.1 824318 D 257313 CDS NP_879617.1 33591973 2664605 825086..825532 1 NC_002929.2 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 825532 secG 2664605 secG Bordetella pertussis Tohama I preprotein translocase subunit SecG NP_879617.1 825086 D 257313 CDS NP_879618.1 33591974 2664606 826320..828551 1 NC_002929.2 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 828551 betT 2664606 betT Bordetella pertussis Tohama I high-affinity choline transport protein NP_879618.1 826320 D 257313 CDS NP_879619.1 33591975 2664595 complement(828574..829374) 1 NC_002929.2 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 829374 2664595 BP0805 Bordetella pertussis Tohama I transcriptional regulator NP_879619.1 828574 R 257313 CDS NP_879620.1 33591976 2664644 829656..830888 1 NC_002929.2 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 830888 2664644 BP0806 Bordetella pertussis Tohama I methylaspartate ammonia-lyase NP_879620.1 829656 D 257313 CDS NP_879621.1 33591977 2664645 830999..831988 1 NC_002929.2 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 831988 2664645 BP0807 Bordetella pertussis Tohama I hypothetical protein NP_879621.1 830999 D 257313 CDS NP_879622.1 33591978 2664646 832019..833407 1 NC_002929.2 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 833407 2664646 BP0808 Bordetella pertussis Tohama I hypothetical protein NP_879622.1 832019 D 257313 CDS NP_879623.1 33591979 2664560 835006..835989 1 NC_002929.2 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 835989 2664560 BP0810 Bordetella pertussis Tohama I hypothetical protein NP_879623.1 835006 D 257313 CDS NP_879624.1 33591980 2664593 836186..837202 1 NC_002929.2 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 837202 2664593 BP0812 Bordetella pertussis Tohama I transposase for IS1663 NP_879624.1 836186 D 257313 CDS NP_879625.1 33591981 2664594 complement(837399..838223) 1 NC_002929.2 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 838223 2664594 BP0813 Bordetella pertussis Tohama I short-chain dehydrogenase NP_879625.1 837399 R 257313 CDS NP_879626.1 33591982 2663969 complement(838301..839191) 1 NC_002929.2 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 839191 2663969 BP0814 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879626.1 838301 R 257313 CDS NP_879627.1 33591983 2663970 839395..840546 1 NC_002929.2 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 840546 metC 2663970 metC Bordetella pertussis Tohama I cystathionine beta-lyase NP_879627.1 839395 D 257313 CDS NP_879628.1 33591984 2664184 840550..841581 1 NC_002929.2 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 841581 2664184 BP0816 Bordetella pertussis Tohama I hypothetical protein NP_879628.1 840550 D 257313 CDS NP_879629.1 33591985 2664185 841710..842681 1 NC_002929.2 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 842681 2664185 BP0817 Bordetella pertussis Tohama I hypothetical protein NP_879629.1 841710 D 257313 CDS NP_879630.1 33591986 2664186 842706..844790 1 NC_002929.2 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 844790 2664186 BP0818 Bordetella pertussis Tohama I hypothetical protein NP_879630.1 842706 D 257313 CDS NP_879631.1 33591987 2664567 complement(844857..845849) 1 NC_002929.2 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 845849 2664567 BP0819 Bordetella pertussis Tohama I hypothetical protein NP_879631.1 844857 R 257313 CDS NP_879632.1 33591988 2664568 complement(845958..847292) 1 NC_002929.2 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 847292 2664568 BP0820 Bordetella pertussis Tohama I hypothetical protein NP_879632.1 845958 R 257313 CDS NP_879633.1 33591989 2664569 complement(847318..849330) 1 NC_002929.2 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 849330 hyuB 2664569 hyuB Bordetella pertussis Tohama I hydantoin utilization protein B NP_879633.1 847318 R 257313 CDS NP_879634.1 33591990 2664341 complement(849327..851399) 1 NC_002929.2 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 851399 hyuA 2664341 hyuA Bordetella pertussis Tohama I hydantoin utilization protein A NP_879634.1 849327 R 257313 CDS NP_879635.1 33591991 2664342 851479..852126 1 NC_002929.2 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 852126 2664342 BP0823 Bordetella pertussis Tohama I transcriptional regulator NP_879635.1 851479 D 257313 CDS NP_879636.1 33591992 2664343 852309..852761 1 NC_002929.2 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 852761 2664343 BP0824 Bordetella pertussis Tohama I azurin NP_879636.1 852309 D 257313 CDS NP_879637.1 33591993 2664618 complement(852805..853476) 1 NC_002929.2 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 853476 2664618 BP0825 Bordetella pertussis Tohama I hypothetical protein NP_879637.1 852805 R 257313 CDS NP_879638.1 33591994 2664619 complement(853491..854984) 1 NC_002929.2 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 854984 2664619 BP0826 Bordetella pertussis Tohama I multidrug efflux system outer membrane protein NP_879638.1 853491 R 257313 CDS NP_879639.1 33591995 2664249 complement(854981..858094) 1 NC_002929.2 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 858094 2664249 BP0827 Bordetella pertussis Tohama I multidrug efflux system membrane protein NP_879639.1 854981 R 257313 CDS NP_879640.1 33591996 2664373 complement(858107..859213) 1 NC_002929.2 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 859213 2664373 BP0828 Bordetella pertussis Tohama I HlyD family secretion protein NP_879640.1 858107 R 257313 CDS NP_879641.1 33591997 2664374 complement(859337..860005) 1 NC_002929.2 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 860005 2664374 BP0829 Bordetella pertussis Tohama I transcriptional regulator NP_879641.1 859337 R 257313 CDS NP_879642.1 33591998 2664453 860226..861176 1 NC_002929.2 transposase for IS481 element; transposase 861176 2664453 BP0830 Bordetella pertussis Tohama I transposase NP_879642.1 860226 D 257313 CDS NP_879643.1 33591999 2664250 861259..863217 1 NC_002929.2 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 863217 betT 2664250 betT Bordetella pertussis Tohama I high-affinity choline transport protein NP_879643.1 861259 D 257313 CDS NP_879644.1 33592000 2664633 863245..863946 1 NC_002929.2 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 863946 2664633 BP0832 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879644.1 863245 D 257313 CDS NP_879645.1 33592001 2664562 864905..865720 1 NC_002929.2 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 865720 2664562 BP0834 Bordetella pertussis Tohama I DNA repair exonuclease NP_879645.1 864905 D 257313 CDS NP_879646.1 33592002 2664563 865737..866540 1 NC_002929.2 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 866540 2664563 BP0835 Bordetella pertussis Tohama I hypothetical protein NP_879646.1 865737 D 257313 CDS NP_879647.1 33592003 2664597 complement(866524..866958) 1 NC_002929.2 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 866958 2664597 BP0836 Bordetella pertussis Tohama I hypothetical protein NP_879647.1 866524 R 257313 CDS NP_879648.1 33592004 2664598 complement(866955..867389) 1 NC_002929.2 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 867389 2664598 BP0837 Bordetella pertussis Tohama I hypothetical protein NP_879648.1 866955 R 257313 CDS YP_008691074.1 552528640 2664599 complement(867391..868128) 1 NC_002929.2 TetR family transcriptional regulator 868128 2664599 BP0838 Bordetella pertussis Tohama I TetR family transcriptional regulator YP_008691074.1 867391 R 257313 CDS NP_879649.1 33592005 2664609 complement(867963..868913) 1 NC_002929.2 transposase for IS481 element; transposase 868913 2664609 BP0839 Bordetella pertussis Tohama I transposase NP_879649.1 867963 R 257313 CDS NP_879650.1 33592006 2664642 869226..870383 1 NC_002929.2 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 870383 2664642 BP0840 Bordetella pertussis Tohama I outer membrane porin protein NP_879650.1 869226 D 257313 CDS NP_879651.1 33592007 2667693 870572..870931 1 NC_002929.2 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 870931 nuoA 2667693 nuoA Bordetella pertussis Tohama I NADH-ubiquinone oxidoreductase chain 3 NP_879651.1 870572 D 257313 CDS NP_879652.1 33592008 2664576 870968..871444 1 NC_002929.2 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 871444 nuoB 2664576 nuoB Bordetella pertussis Tohama I NADH dehydrogenase subunit B NP_879652.1 870968 D 257313 CDS NP_879653.1 33592009 2664577 871519..872142 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit C 872142 nuoC 2664577 nuoC Bordetella pertussis Tohama I NADH dehydrogenase subunit C NP_879653.1 871519 D 257313 CDS NP_879654.1 33592010 2664628 872145..873401 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit D 873401 nuoD 2664628 nuoD Bordetella pertussis Tohama I NADH dehydrogenase subunit D NP_879654.1 872145 D 257313 CDS NP_879655.1 33592011 2667687 873447..873941 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit E 873941 nuoE 2667687 nuoE Bordetella pertussis Tohama I NADH dehydrogenase subunit E NP_879655.1 873447 D 257313 CDS NP_879656.1 33592012 2667688 873938..875305 1 NC_002929.2 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 875305 nuoF 2667688 nuoF Bordetella pertussis Tohama I respiratory-chain NADH dehydrogenase, 51 kDa subunit NP_879656.1 873938 D 257313 CDS NP_879657.1 33592013 2664266 875321..877648 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to ubiquinone; NADH dehydrogenase subunit G 877648 nuoG 2664266 nuoG Bordetella pertussis Tohama I NADH dehydrogenase subunit G NP_879657.1 875321 D 257313 CDS NP_879658.1 33592014 2664413 877648..878721 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit H 878721 nuoH 2664413 nuoH Bordetella pertussis Tohama I NADH dehydrogenase subunit H NP_879658.1 877648 D 257313 CDS NP_879659.1 33592015 2664166 878743..879231 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit I 879231 nuoI 2664166 nuoI Bordetella pertussis Tohama I NADH dehydrogenase subunit I NP_879659.1 878743 D 257313 CDS NP_879660.1 33592016 2665216 879249..879896 1 NC_002929.2 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 879896 nuoJ 2665216 nuoJ Bordetella pertussis Tohama I NADH-ubiquinone oxidoreductase subunit J NP_879660.1 879249 D 257313 CDS NP_879661.1 33592017 2664406 879893..880201 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit K 880201 nuoK 2664406 nuoK Bordetella pertussis Tohama I NADH dehydrogenase subunit K NP_879661.1 879893 D 257313 CDS NP_879662.1 33592018 2664407 880219..882231 1 NC_002929.2 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 882231 nuoL 2664407 nuoL Bordetella pertussis Tohama I NADH-ubiquinone oxidoreductase subunit L NP_879662.1 880219 D 257313 CDS NP_879663.1 33592019 2664408 882231..883730 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit M 883730 nuoM 2664408 nuoM Bordetella pertussis Tohama I NADH dehydrogenase subunit M NP_879663.1 882231 D 257313 CDS NP_879664.1 33592020 2664414 883741..885225 1 NC_002929.2 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit N 885225 nuoN 2664414 nuoN Bordetella pertussis Tohama I NADH dehydrogenase subunit N NP_879664.1 883741 D 257313 CDS NP_879665.1 33592021 2664415 885242..885571 1 NC_002929.2 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 885571 2664415 BP0855 Bordetella pertussis Tohama I hypothetical protein NP_879665.1 885242 D 257313 CDS NP_879666.1 33592022 2664308 885872..888103 1 NC_002929.2 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 888103 bfrD 2664308 bfrD Bordetella pertussis Tohama I TonB-dependent receptor for iron transport NP_879666.1 885872 D 257313 CDS NP_879667.1 33592023 2664309 888327..890585 1 NC_002929.2 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 890585 bfrE 2664309 bfrE Bordetella pertussis Tohama I TonB-dependent receptor for iron transport NP_879667.1 888327 D 257313 CDS NP_879668.1 33592024 2664426 890698..891216 1 NC_002929.2 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 891216 2664426 BP0858 Bordetella pertussis Tohama I GnaT-family acetyltransferase NP_879668.1 890698 D 257313 CDS NP_879669.1 33592025 2664427 complement(891226..892002) 1 NC_002929.2 catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 892002 fabG 2664427 fabG Bordetella pertussis Tohama I 3-ketoacyl-ACP reductase NP_879669.1 891226 R 257313 CDS NP_879670.1 33592026 2664066 complement(891999..893687) 1 NC_002929.2 catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; catalytic; acetolactate synthase catalytic subunit 893687 2664066 BP0860 Bordetella pertussis Tohama I acetolactate synthase catalytic subunit NP_879670.1 891999 R 257313 CDS NP_879671.1 33592027 2664078 complement(893849..894829) 1 NC_002929.2 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 894829 2664078 BP0861 Bordetella pertussis Tohama I hypothetical protein NP_879671.1 893849 R 257313 CDS NP_879672.1 33592028 2664079 894967..895884 1 NC_002929.2 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 895884 2664079 BP0862 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879672.1 894967 D 257313 CDS NP_879673.1 33592029 2664525 complement(896013..896873) 1 NC_002929.2 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 896873 serB 2664525 serB Bordetella pertussis Tohama I phosphoserine phosphatase NP_879673.1 896013 R 257313 CDS NP_879674.1 33592030 2664526 complement(896909..900340) 1 NC_002929.2 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 900340 mfd 2664526 mfd Bordetella pertussis Tohama I transcription-repair coupling factor NP_879674.1 896909 R 257313 CDS NP_879675.1 33592031 2664493 900394..901077 1 NC_002929.2 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 901077 ispD 2664493 ispD Bordetella pertussis Tohama I 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase NP_879675.1 900394 D 257313 CDS NP_879676.1 33592032 2664205 901074..901562 1 NC_002929.2 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 901562 ispF 2664205 ispF Bordetella pertussis Tohama I 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase NP_879676.1 901074 D 257313 CDS NP_879677.1 33592033 2664277 901661..902611 1 NC_002929.2 transposase for IS481 element; transposase 902611 2664277 BP0867 Bordetella pertussis Tohama I transposase NP_879677.1 901661 D 257313 CDS NP_879678.1 33592034 2664278 complement(902608..903627) 1 NC_002929.2 catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate; fructose-1,6-bisphosphatase 903627 fbp 2664278 fbp Bordetella pertussis Tohama I fructose-1,6-bisphosphatase NP_879678.1 902608 R 257313 CDS NP_879679.1 33592035 2664070 complement(903637..906345) 1 NC_002929.2 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 906345 pepN 2664070 pepN Bordetella pertussis Tohama I aminopeptidase NP_879679.1 903637 R 257313 CDS NP_879680.1 33592036 2664016 906493..907149 1 NC_002929.2 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 907149 2664016 BP0870 Bordetella pertussis Tohama I hypothetical protein NP_879680.1 906493 D 257313 CDS NP_879681.1 33592037 2664017 907248..908198 1 NC_002929.2 transposase for IS481 element; transposase 908198 2664017 BP0871 Bordetella pertussis Tohama I transposase NP_879681.1 907248 D 257313 CDS NP_879682.1 33592038 2664512 complement(908195..910027) 1 NC_002929.2 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 910027 2664512 BP0872 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879682.1 908195 R 257313 CDS NP_879683.1 33592039 2664211 910426..911085 1 NC_002929.2 catalyzes the S-adenosylmethionine-dependent transmethylation of thiopurine compounds; may be involved in selenium cycling by forming dimethylselenide and/or dimethyldiselenide; thiopurine S-methyltransferase 911085 tpm 2664211 tpm Bordetella pertussis Tohama I thiopurine S-methyltransferase NP_879683.1 910426 D 257313 CDS NP_879684.1 33592040 2664212 911173..911325 1 NC_002929.2 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 911325 vir-18 2664212 vir-18 Bordetella pertussis Tohama I vir-repressed protein NP_879684.1 911173 D 257313 CDS NP_879685.1 33592041 2664213 911434..911601 1 NC_002929.2 no significant database matches; hypothetical protein 911601 2664213 BP0875 Bordetella pertussis Tohama I hypothetical protein NP_879685.1 911434 D 257313 CDS NP_879686.1 33592042 2664311 complement(911613..912293) 1 NC_002929.2 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 912293 2664311 BP0876 Bordetella pertussis Tohama I polysaccharide ABC transporter substrate-binding protein NP_879686.1 911613 R 257313 CDS NP_879687.1 33592043 2664312 912575..913291 1 NC_002929.2 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 913291 2664312 BP0877 Bordetella pertussis Tohama I hypothetical protein NP_879687.1 912575 D 257313 CDS NP_879688.1 33592044 2664313 complement(913306..914607) 1 NC_002929.2 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 914607 2664313 BP0878 Bordetella pertussis Tohama I phospholipase NP_879688.1 913306 R 257313 CDS NP_879689.1 33592045 2664614 919872..921224 1 NC_002929.2 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 921224 2664614 BP0882 Bordetella pertussis Tohama I hypothetical protein NP_879689.1 919872 D 257313 CDS NP_879690.1 33592046 2664615 921253..921774 1 NC_002929.2 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 921774 2664615 BP0883 Bordetella pertussis Tohama I biotin carboxyl carrier protein NP_879690.1 921253 D 257313 CDS NP_879691.1 33592047 2667690 921771..923225 1 NC_002929.2 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 923225 2667690 BP0884 Bordetella pertussis Tohama I carboxylase NP_879691.1 921771 D 257313 CDS NP_879693.1 33592049 2664009 923680..924489 1 NC_002929.2 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 924489 2664009 BP0886 Bordetella pertussis Tohama I hypothetical protein NP_879693.1 923680 D 257313 CDS NP_879694.1 33592050 2664010 924515..925570 1 NC_002929.2 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 925570 2664010 BP0887 Bordetella pertussis Tohama I hypothetical protein NP_879694.1 924515 D 257313 CDS NP_879695.1 33592051 2664011 925583..926374 1 NC_002929.2 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 926374 2664011 BP0888 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_879695.1 925583 D 257313 CDS NP_879696.1 33592052 2664012 926407..927777 1 NC_002929.2 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 927777 accC 2664012 accC Bordetella pertussis Tohama I biotin carboxylase NP_879696.1 926407 D 257313 CDS NP_879697.1 33592053 2664046 928954..929904 1 NC_002929.2 transposase for IS481 element; transposase 929904 2664046 BP0891 Bordetella pertussis Tohama I transposase NP_879697.1 928954 D 257313 CDS NP_879698.1 33592054 2667700 929957..930178 1 NC_002929.2 no significant database matches; hypothetical protein 930178 2667700 BP0892 Bordetella pertussis Tohama I hypothetical protein NP_879698.1 929957 D 257313 CDS NP_879699.1 33592055 2663996 930338..930550 1 NC_002929.2 no significant database matches; hypothetical protein 930550 2663996 BP0893 Bordetella pertussis Tohama I hypothetical protein NP_879699.1 930338 D 257313 CDS NP_879700.1 33592056 2663997 930649..931788 1 NC_002929.2 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 931788 pmi 2663997 pmi Bordetella pertussis Tohama I mannose-6-phosphate isomerase NP_879700.1 930649 D 257313 CDS NP_879701.1 33592057 2663998 931885..932100 1 NC_002929.2 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 932100 2663998 BP0895 Bordetella pertussis Tohama I hypothetical protein NP_879701.1 931885 D 257313 CDS NP_879702.1 33592058 2663999 932294..932545 1 NC_002929.2 no significant database matches; hypothetical protein 932545 2663999 BP0896 Bordetella pertussis Tohama I hypothetical protein NP_879702.1 932294 D 257313 CDS NP_879703.1 33592059 2664115 932658..933608 1 NC_002929.2 transposase for IS481 element; transposase 933608 2664115 BP0897 Bordetella pertussis Tohama I transposase NP_879703.1 932658 D 257313 CDS NP_879704.1 33592060 2664193 complement(933605..933988) 1 NC_002929.2 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 933988 2664193 BP0898 Bordetella pertussis Tohama I ferredoxin NP_879704.1 933605 R 257313 CDS NP_879705.1 33592061 2664194 complement(934043..935860) 1 NC_002929.2 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 935860 2664194 BP0899 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879705.1 934043 R 257313 CDS NP_879706.1 33592062 2664254 936007..936834 1 NC_002929.2 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 936834 2664254 BP0900 Bordetella pertussis Tohama I oxidoreductase NP_879706.1 936007 D 257313 CDS NP_879707.1 33592063 2664326 936880..937860 1 NC_002929.2 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 937860 2664326 BP0901 Bordetella pertussis Tohama I oxidoreductase NP_879707.1 936880 D 257313 CDS NP_879708.1 33592064 2664422 complement(937857..938069) 1 NC_002929.2 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 938069 2664422 BP0902 Bordetella pertussis Tohama I hypothetical protein NP_879708.1 937857 R 257313 CDS NP_879709.1 33592065 2664423 complement(938066..939247) 1 NC_002929.2 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 939247 2664423 BP0903 Bordetella pertussis Tohama I hypothetical protein NP_879709.1 938066 R 257313 CDS NP_879710.1 33592066 2664315 939411..940145 1 NC_002929.2 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 940145 pphA 2664315 pphA Bordetella pertussis Tohama I serine/threonine protein phosphatase 1 NP_879710.1 939411 D 257313 CDS NP_879711.1 33592067 2664316 complement(940147..942759) 1 NC_002929.2 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 942759 mrcA 2664316 mrcA Bordetella pertussis Tohama I penicillin-binding protein 1A NP_879711.1 940147 R 257313 CDS NP_879712.1 33592068 2663972 complement(942895..944808) 1 NC_002929.2 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 944808 2663972 BP0906 Bordetella pertussis Tohama I peptidase NP_879712.1 942895 R 257313 CDS NP_879713.1 33592069 2664601 complement(945424..945834) 1 NC_002929.2 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 945834 2664601 BP0908 Bordetella pertussis Tohama I hypothetical protein NP_879713.1 945424 R 257313 CDS NP_879714.1 33592070 2664602 945932..947017 1 NC_002929.2 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 947017 dinP 2664602 dinP Bordetella pertussis Tohama I DNA polymerase IV NP_879714.1 945932 D 257313 CDS NP_879715.1 33592071 2664571 947116..948066 1 NC_002929.2 transposase for IS481 element; transposase 948066 2664571 BP0910 Bordetella pertussis Tohama I transposase NP_879715.1 947116 D 257313 CDS NP_879716.1 33592072 2664517 complement(948154..948705) 1 NC_002929.2 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 948705 2664517 BP0911 Bordetella pertussis Tohama I decarboxylase NP_879716.1 948154 R 257313 CDS NP_879717.1 33592073 2664375 949983..950957 1 NC_002929.2 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 950957 2664375 BP0913 Bordetella pertussis Tohama I hypothetical protein NP_879717.1 949983 D 257313 CDS NP_879718.1 33592074 2664376 950977..951849 1 NC_002929.2 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 951849 2664376 BP0914 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_879718.1 950977 D 257313 CDS NP_879719.1 33592075 2663968 951846..952673 1 NC_002929.2 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 952673 2663968 BP0915 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_879719.1 951846 D 257313 CDS NP_879720.1 33592076 2664637 953576..954997 1 NC_002929.2 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 954997 2664637 BP0918 Bordetella pertussis Tohama I hypothetical protein NP_879720.1 953576 D 257313 CDS NP_879721.1 33592077 2664638 955102..956556 1 NC_002929.2 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 956556 gabD 2664638 gabD Bordetella pertussis Tohama I succinate-semialdehyde dehydrogenase NP_879721.1 955102 D 257313 CDS NP_879722.1 33592078 2664611 complement(956606..958009) 1 NC_002929.2 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 958009 2664611 BP0920 Bordetella pertussis Tohama I tricarballylate dehydrogenase NP_879722.1 956606 R 257313 CDS NP_879723.1 33592079 2664612 complement(958030..959214) 1 NC_002929.2 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 959214 citB 2664612 citB Bordetella pertussis Tohama I citrate utilization protein B NP_879723.1 958030 R 257313 CDS NP_879724.1 33592080 2664243 complement(959257..960432) 1 NC_002929.2 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 960432 2664243 BP0922 Bordetella pertussis Tohama I hypothetical protein NP_879724.1 959257 R 257313 CDS NP_879725.1 33592081 2664244 960603..961418 1 NC_002929.2 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 961418 2664244 BP0923 Bordetella pertussis Tohama I hypothetical protein NP_879725.1 960603 D 257313 CDS NP_879726.1 33592082 2664245 961460..962356 1 NC_002929.2 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 962356 2664245 BP0924 Bordetella pertussis Tohama I transcriptional regulator NP_879726.1 961460 D 257313 CDS NP_879727.1 33592083 2664548 complement(962411..963271) 1 NC_002929.2 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 963271 2664548 BP0925 Bordetella pertussis Tohama I fumarylacetoacetate family hydrolase NP_879727.1 962411 R 257313 CDS NP_879728.1 33592084 2664549 complement(963349..964422) 1 NC_002929.2 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 964422 2664549 BP0926 Bordetella pertussis Tohama I hypothetical protein NP_879728.1 963349 R 257313 CDS NP_879729.1 33592085 2664550 complement(964548..965522) 1 NC_002929.2 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 965522 2664550 BP0927 Bordetella pertussis Tohama I hypothetical protein NP_879729.1 964548 R 257313 CDS NP_879730.1 33592086 2664551 965661..966650 1 NC_002929.2 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 966650 2664551 BP0928 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879730.1 965661 D 257313 CDS NP_879731.1 33592087 2664629 complement(966675..967250) 1 NC_002929.2 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 967250 2664629 BP0929 Bordetella pertussis Tohama I hypothetical protein NP_879731.1 966675 R 257313 CDS NP_879732.1 33592088 2664586 complement(967344..969002) 1 NC_002929.2 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 969002 2664586 BP0930 Bordetella pertussis Tohama I CoA ligase NP_879732.1 967344 R 257313 CDS NP_879733.1 33592089 2664587 complement(969014..969997) 1 NC_002929.2 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 969997 2664587 BP0931 Bordetella pertussis Tohama I hypothetical protein NP_879733.1 969014 R 257313 CDS NP_879734.1 33592090 2664588 complement(970002..970424) 1 NC_002929.2 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 970424 2664588 BP0932 Bordetella pertussis Tohama I hypothetical protein NP_879734.1 970002 R 257313 CDS NP_879735.1 33592091 2664631 complement(971671..972030) 1 NC_002929.2 no significant database matches. Similar to BP0328, 48.598% identity (48.598% ungapped) in 107 aa overlap.; hypothetical protein 972030 2664631 BP0934 Bordetella pertussis Tohama I hypothetical protein NP_879735.1 971671 R 257313 CDS NP_879736.1 33592092 2664632 complement(972065..973039) 1 NC_002929.2 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 973039 2664632 BP0935 Bordetella pertussis Tohama I hypothetical protein NP_879736.1 972065 R 257313 CDS NP_879737.1 33592093 2664579 973185..974075 1 NC_002929.2 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 974075 2664579 BP0936 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879737.1 973185 D 257313 CDS NP_879738.1 33592094 2664580 complement(974352..974744) 1 NC_002929.2 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 974744 2664580 BP0937 Bordetella pertussis Tohama I hypothetical protein NP_879738.1 974352 R 257313 CDS NP_879739.1 33592095 2664589 974874..975824 1 NC_002929.2 transposase for IS481 element; transposase 975824 2664589 BP0938 Bordetella pertussis Tohama I transposase NP_879739.1 974874 D 257313 CDS NP_879740.1 33592096 2664258 complement(975854..976036) 1 NC_002929.2 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 976036 2664258 BP0939 Bordetella pertussis Tohama I hypothetical protein NP_879740.1 975854 R 257313 CDS NP_879741.1 33592097 2664260 complement(976809..977990) 1 NC_002929.2 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 977990 2664260 BP0940 Bordetella pertussis Tohama I sugar efflux transporter NP_879741.1 976809 R 257313 CDS NP_879742.1 33592098 2664180 complement(978206..978883) 1 NC_002929.2 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 978883 2664180 BP0941 Bordetella pertussis Tohama I phosphoglycolate phosphatase NP_879742.1 978206 R 257313 CDS NP_879743.1 33592099 2664181 complement(978880..979605) 1 NC_002929.2 Involved in ubiquinone biosynthesis; 3-demethylubiquinone-9 3-methyltransferase 979605 ubiG 2664181 ubiG Bordetella pertussis Tohama I 3-demethylubiquinone-9 3-methyltransferase NP_879743.1 978880 R 257313 CDS NP_879744.1 33592100 2664182 complement(979731..980312) 1 NC_002929.2 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 980312 ompA 2664182 ompA Bordetella pertussis Tohama I outer membrane protein A NP_879744.1 979731 R 257313 CDS NP_879745.1 33592101 2664163 980683..983364 1 NC_002929.2 negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit A 983364 gyrA 2664163 gyrA Bordetella pertussis Tohama I DNA gyrase subunit A NP_879745.1 980683 D 257313 CDS NP_879746.1 33592102 2664164 983364..984497 1 NC_002929.2 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 984497 serC 2664164 serC Bordetella pertussis Tohama I phosphoserine aminotransferase NP_879746.1 983364 D 257313 CDS NP_879747.1 33592103 2664331 984490..985575 1 NC_002929.2 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 985575 pheA 2664331 pheA Bordetella pertussis Tohama I bifunctional chorismate mutase/prephenate dehydratase NP_879747.1 984490 D 257313 CDS NP_879748.1 33592104 2664332 985662..986561 1 NC_002929.2 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 986561 tyrA 2664332 tyrA Bordetella pertussis Tohama I prephenate dehydrogenase NP_879748.1 985662 D 257313 CDS NP_879749.1 33592105 2664265 986558..987886 1 NC_002929.2 catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis; 3-phosphoshikimate 1-carboxyvinyltransferase 987886 aroA 2664265 aroA Bordetella pertussis Tohama I 3-phosphoshikimate 1-carboxyvinyltransferase NP_879749.1 986558 D 257313 CDS NP_879750.1 33592106 2664293 987901..988572 1 NC_002929.2 Catalyzes the formation of (d)CDP from ATP and (d)CMP; cytidylate kinase 988572 cmk 2664293 cmk Bordetella pertussis Tohama I cytidylate kinase NP_879750.1 987901 D 257313 CDS NP_879751.2 161610761 2664294 988760..990475 1 NC_002929.2 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 990475 rpsA 2664294 rpsA Bordetella pertussis Tohama I 30S ribosomal protein S1 NP_879751.2 988760 D 257313 CDS NP_879752.1 33592108 2667705 990477..990836 1 NC_002929.2 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 990836 ihfB 2667705 ihfB Bordetella pertussis Tohama I integration host factor beta-subunit NP_879752.1 990477 D 257313 CDS NP_879753.1 33592109 2667706 991028..991342 1 NC_002929.2 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 991342 2667706 BP0952 Bordetella pertussis Tohama I hypothetical protein NP_879753.1 991028 D 257313 CDS NP_879754.1 33592110 2664005 991385..992605 1 NC_002929.2 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 992605 2664005 BP0953 Bordetella pertussis Tohama I tetratricopeptide repeat protein NP_879754.1 991385 D 257313 CDS NP_879755.1 33592111 2664006 992602..993543 1 NC_002929.2 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 993543 rfaE 2664006 rfaE Bordetella pertussis Tohama I ADP-heptose synthase NP_879755.1 992602 D 257313 CDS NP_879756.1 33592112 2664603 993540..994529 1 NC_002929.2 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 994529 rfaD 2664603 rfaD Bordetella pertussis Tohama I ADP-L-glycero-D-manno-heptose-6-epimerase NP_879756.1 993540 D 257313 CDS NP_879757.1 33592113 2664604 994660..995148 1 NC_002929.2 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 995148 2664604 BP0956 Bordetella pertussis Tohama I hypothetical protein NP_879757.1 994660 D 257313 CDS NP_879758.1 33592114 2664627 995247..996197 1 NC_002929.2 transposase for IS481 element; transposase 996197 2664627 BP0957 Bordetella pertussis Tohama I transposase NP_879758.1 995247 D 257313 CDS NP_879759.1 33592115 2664554 996278..997189 1 NC_002929.2 catalyzes the formation of cysteine from 3-O-acetyl-L-serine and hydrogen sulfide; cysteine synthase B 997189 cysM 2664554 cysM Bordetella pertussis Tohama I cysteine synthase B NP_879759.1 996278 D 257313 CDS NP_879760.1 33592116 2664555 complement(997250..998395) 1 NC_002929.2 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 998395 mltB 2664555 mltB Bordetella pertussis Tohama I membrane-bound lytic murein transglycosylase B NP_879760.1 997250 R 257313 CDS NP_879761.1 33592117 2667582 998406..999329 1 NC_002929.2 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 999329 2667582 BP0960 Bordetella pertussis Tohama I histone deacetylase family protein NP_879761.1 998406 D 257313 CDS NP_879762.1 33592118 2667583 999401..1000150 1 NC_002929.2 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 1000150 etfB 2667583 etfB Bordetella pertussis Tohama I electron transfer flavoprotein subunit beta NP_879762.1 999401 D 257313 CDS NP_879763.1 33592119 2665046 1000150..1001079 1 NC_002929.2 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 1001079 etfA 2665046 etfA Bordetella pertussis Tohama I electron transfer flavoprotein subunit alpha NP_879763.1 1000150 D 257313 CDS NP_879764.1 33592120 2665047 1001323..1003149 1 NC_002929.2 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 1003149 2665047 BP0964 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_879764.1 1001323 D 257313 CDS NP_879765.1 33592121 2665253 1003232..1003873 1 NC_002929.2 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 1003873 2665253 BP0965 Bordetella pertussis Tohama I antioxidant protein NP_879765.1 1003232 D 257313 CDS NP_879766.1 33592122 2665254 1004063..1005097 1 NC_002929.2 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 1005097 sbp 2665254 sbp Bordetella pertussis Tohama I sulfate-binding protein NP_879766.1 1004063 D 257313 CDS NP_879767.1 33592123 2665382 1006940..1008004 1 NC_002929.2 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 1008004 cysA 2665382 cysA Bordetella pertussis Tohama I sulfate transport ATP-binding protein NP_879767.1 1006940 D 257313 CDS NP_879768.1 33592124 2664461 1008802..1009710 1 NC_002929.2 with CysN catalyzes the formation of adenylylsulfate from sulfate and ATP; sulfate adenylyltransferase subunit 2 1009710 cysD 2664461 cysD Bordetella pertussis Tohama I sulfate adenylyltransferase subunit 2 NP_879768.1 1008802 D 257313 CDS NP_879769.1 33592125 2666711 1011261..1012472 1 NC_002929.2 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 1012472 2666711 BP0972 Bordetella pertussis Tohama I hypothetical protein NP_879769.1 1011261 D 257313 CDS NP_879770.1 33592126 2664159 1012674..1013006 1 NC_002929.2 no significant database matches; hypothetical protein 1013006 2664159 BP0973 Bordetella pertussis Tohama I hypothetical protein NP_879770.1 1012674 D 257313 CDS NP_879771.1 33592127 2664160 complement(1013014..1013886) 1 NC_002929.2 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 1013886 2664160 BP0974 Bordetella pertussis Tohama I hypothetical protein NP_879771.1 1013014 R 257313 CDS NP_879772.1 33592128 2664161 1014192..1014572 1 NC_002929.2 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 1014572 rplS 2664161 rplS Bordetella pertussis Tohama I 50S ribosomal protein L19 NP_879772.1 1014192 D 257313 CDS NP_879773.1 33592129 2666992 1014843..1015508 1 NC_002929.2 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 1015508 2666992 BP0976 Bordetella pertussis Tohama I hypothetical protein NP_879773.1 1014843 D 257313 CDS NP_879774.1 33592130 2666993 1015610..1016659 1 NC_002929.2 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 1016659 2666993 BP0977 Bordetella pertussis Tohama I oxidoreductase NP_879774.1 1015610 D 257313 CDS YP_008691075.1 552528641 2664536 complement(1016797..1017822) 1 NC_002929.2 transposase 1017822 2664536 BP0978 Bordetella pertussis Tohama I transposase YP_008691075.1 1016797 R 257313 CDS NP_879776.1 33592132 2664583 complement(1019322..1019894) 1 NC_002929.2 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 1019894 2664583 BP0981 Bordetella pertussis Tohama I hypothetical protein NP_879776.1 1019322 R 257313 CDS NP_879777.1 33592133 2664584 1019954..1020685 1 NC_002929.2 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 1020685 2664584 BP0982 Bordetella pertussis Tohama I RNA pseudouridylate synthase NP_879777.1 1019954 D 257313 CDS NP_879778.1 33592134 2664585 complement(1020737..1021672) 1 NC_002929.2 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 1021672 2664585 BP0983 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879778.1 1020737 R 257313 CDS NP_879779.1 33592135 2663982 1022462..1025641 1 NC_002929.2 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 1025641 acrB 2663982 acrB Bordetella pertussis Tohama I acriflavine resistance protein B NP_879779.1 1022462 D 257313 CDS NP_879780.1 33592136 2663983 1025638..1027020 1 NC_002929.2 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 1027020 cusC 2663983 cusC Bordetella pertussis Tohama I outer membrane lipoprotein NP_879780.1 1025638 D 257313 CDS NP_879781.1 33592137 2664328 complement(1027090..1027341) 1 NC_002929.2 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 1027341 2664328 BP0987 Bordetella pertussis Tohama I hypothetical protein NP_879781.1 1027090 R 257313 CDS NP_879782.1 33592138 2664329 complement(1027487..1028101) 1 NC_002929.2 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 1028101 2664329 BP0988 Bordetella pertussis Tohama I hypothetical protein NP_879782.1 1027487 R 257313 CDS NP_879783.1 33592139 2664076 complement(1028288..1030348) 1 NC_002929.2 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 1030348 prlC 2664076 prlC Bordetella pertussis Tohama I oligopeptidase A NP_879783.1 1028288 R 257313 CDS NP_879784.1 33592140 2664077 complement(1030478..1031329) 1 NC_002929.2 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 1031329 folD 2664077 folD Bordetella pertussis Tohama I bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase NP_879784.1 1030478 R 257313 CDS NP_879785.1 33592141 2664139 complement(1031326..1031952) 1 NC_002929.2 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 1031952 2664139 BP0991 Bordetella pertussis Tohama I two-component response regulator NP_879785.1 1031326 R 257313 CDS NP_879786.1 33592142 2664395 complement(1031949..1033703) 1 NC_002929.2 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 1033703 2664395 BP0992 Bordetella pertussis Tohama I tw-component sensor kinase NP_879786.1 1031949 R 257313 CDS NP_879787.1 33592143 2664545 1033996..1036701 1 NC_002929.2 E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC; pyruvate dehydrogenase subunit E1 1036701 aceE 2664545 aceE Bordetella pertussis Tohama I pyruvate dehydrogenase subunit E1 NP_879787.1 1033996 D 257313 CDS NP_879788.1 33592144 2664546 1036714..1038375 1 NC_002929.2 Catalyzes the transfer of acetyl from acetyldihydrolipoamide to coenzyme A to form acetyl CoA; dihydrolipoamide acetyltransferase 1038375 aceF 2664546 aceF Bordetella pertussis Tohama I dihydrolipoamide acetyltransferase NP_879788.1 1036714 D 257313 CDS NP_879789.1 33592145 2667717 1038388..1040178 1 NC_002929.2 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 1040178 lpdA 2667717 lpdA Bordetella pertussis Tohama I dihydrolipoamide dehydrogenase NP_879789.1 1038388 D 257313 CDS NP_879790.1 33592146 2667718 complement(1040400..1041575) 1 NC_002929.2 structural flagella protein; flagellin 1041575 flaA 2667718 flaA Bordetella pertussis Tohama I flagellin NP_879790.1 1040400 R 257313 CDS NP_879791.1 33592147 2667719 complement(1041618..1042568) 1 NC_002929.2 transposase for IS481 element; transposase 1042568 2667719 BP0997 Bordetella pertussis Tohama I transposase NP_879791.1 1041618 R 257313 CDS NP_879792.1 33592148 2667720 complement(1042667..1043407) 1 NC_002929.2 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 1043407 2667720 BP0998 Bordetella pertussis Tohama I 16S ribosomal RNA methyltransferase RsmE NP_879792.1 1042667 R 257313 CDS NP_879793.1 33592149 2667721 1043602..1045638 1 NC_002929.2 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 1045638 tktA 2667721 tktA Bordetella pertussis Tohama I transketolase NP_879793.1 1043602 D 257313 CDS NP_879794.1 33592150 2667722 1045656..1046666 1 NC_002929.2 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 1046666 gap 2667722 gap Bordetella pertussis Tohama I glyceraldehyde-3-phosphate dehydrogenase NP_879794.1 1045656 D 257313 CDS NP_879795.1 33592151 2664281 1046784..1047977 1 NC_002929.2 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway; phosphoglycerate kinase 1047977 pgk 2664281 pgk Bordetella pertussis Tohama I phosphoglycerate kinase NP_879795.1 1046784 D 257313 CDS NP_879796.1 33592152 2664542 complement(1048007..1048780) 1 NC_002929.2 Catalyzes a key regulatory step in fatty acid biosynthesis; enoyl-(acyl carrier protein) reductase 1048780 fabI 2664542 fabI Bordetella pertussis Tohama I enoyl-(acyl carrier protein) reductase NP_879796.1 1048007 R 257313 CDS NP_879797.1 33592153 2664543 complement(1048777..1049967) 1 NC_002929.2 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 1049967 ackA 2664543 ackA Bordetella pertussis Tohama I acetate kinase NP_879797.1 1048777 R 257313 CDS NP_879798.1 33592154 2664544 complement(1049993..1050931) 1 NC_002929.2 catalyzes the formation of acetyl phosphate from acetyl-CoA and phosphate; can also act with other short-chain acyl-CoAs; phosphate acetyltransferase 1050931 2664544 BP1004 Bordetella pertussis Tohama I phosphate acetyltransferase NP_879798.1 1049993 R 257313 CDS NP_879799.1 33592155 2664556 complement(1050928..1053276) 1 NC_002929.2 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 1053276 2664556 BP1005 Bordetella pertussis Tohama I hypothetical protein NP_879799.1 1050928 R 257313 CDS NP_879800.1 33592156 2664557 complement(1053431..1054072) 1 NC_002929.2 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 1054072 2664557 BP1006 Bordetella pertussis Tohama I glutathione S-transferase NP_879800.1 1053431 R 257313 CDS NP_879801.1 33592157 2664590 complement(1055586..1056134) 1 NC_002929.2 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 1056134 2664590 BP1009 Bordetella pertussis Tohama I hypothetical protein NP_879801.1 1055586 R 257313 CDS NP_879802.1 33592158 2664591 complement(1056153..1056638) 1 NC_002929.2 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 1056638 2664591 BP1010 Bordetella pertussis Tohama I acetyltransferase NP_879802.1 1056153 R 257313 CDS NP_879803.1 33592159 2664592 1056816..1057754 1 NC_002929.2 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 1057754 cbpA 2664592 cbpA Bordetella pertussis Tohama I curved DNA-binding protein NP_879803.1 1056816 D 257313 CDS NP_879804.1 33592160 2664118 1057757..1058074 1 NC_002929.2 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 1058074 2664118 BP1012 Bordetella pertussis Tohama I hypothetical protein NP_879804.1 1057757 D 257313 CDS NP_879805.1 33592161 2664120 complement(1059085..1060560) 1 NC_002929.2 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 1060560 pitA 2664120 pitA Bordetella pertussis Tohama I phosphate transporter NP_879805.1 1059085 R 257313 CDS NP_879806.1 33592162 2664564 1060745..1061395 1 NC_002929.2 forms a trimer; related to eukaryotic protein gephyrin; functions during molybdenum cofactor biosynthesis; molybdenum cofactor biosynthesis protein MogA 1061395 mogA 2664564 mogA Bordetella pertussis Tohama I molybdenum cofactor biosynthesis protein MogA NP_879806.1 1060745 D 257313 CDS NP_879807.1 33592163 2664565 1061449..1061784 1 NC_002929.2 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 1061784 2664565 BP1016 Bordetella pertussis Tohama I hypothetical protein NP_879807.1 1061449 D 257313 CDS NP_879808.1 33592164 2664620 1061781..1062641 1 NC_002929.2 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 1062641 2664620 BP1017 Bordetella pertussis Tohama I peptidase NP_879808.1 1061781 D 257313 CDS NP_879809.1 33592165 2664621 complement(1062658..1062939) 1 NC_002929.2 no significant database matches; hypothetical protein 1062939 2664621 BP1018 Bordetella pertussis Tohama I hypothetical protein NP_879809.1 1062658 R 257313 CDS NP_879810.1 33592166 2664622 complement(1063013..1063276) 1 NC_002929.2 stimulates the activities of the other two initiation factors, IF-2 and IF-3; translation initiation factor IF-1 1063276 infA 2664622 infA Bordetella pertussis Tohama I translation initiation factor IF-1 NP_879810.1 1063013 R 257313 CDS NP_879811.1 33592167 2664574 1063520..1064470 1 NC_002929.2 transposase for IS481 element; transposase 1064470 2664574 BP1020 Bordetella pertussis Tohama I transposase NP_879811.1 1063520 D 257313 CDS NP_879812.1 33592168 2664575 complement(1064769..1065506) 1 NC_002929.2 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 1065506 fliA 2664575 fliA Bordetella pertussis Tohama I RNA polymerase sigma factor for flagellar operon NP_879812.1 1064769 R 257313 CDS NP_879813.1 33592169 2664538 1065942..1066265 1 NC_002929.2 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 1066265 flhD 2664538 flhD Bordetella pertussis Tohama I transcriptional activator FlhD NP_879813.1 1065942 D 257313 CDS NP_879814.1 33592170 2664539 1066300..1066860 1 NC_002929.2 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 1066860 flhC 2664539 flhC Bordetella pertussis Tohama I transcriptional activator FlhC NP_879814.1 1066300 D 257313 CDS NP_879815.1 33592171 2664540 1066981..1067856 1 NC_002929.2 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 1067856 motA 2664540 motA Bordetella pertussis Tohama I flagellar motor protein MotA NP_879815.1 1066981 D 257313 CDS NP_879816.1 33592172 2664572 1067869..1068816 1 NC_002929.2 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 1068816 motB 2664572 motB Bordetella pertussis Tohama I flagellar motor protein MotB NP_879816.1 1067869 D 257313 CDS NP_879817.1 33592173 2664634 1069238..1071295 1 NC_002929.2 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 1071295 cheA 2664634 cheA Bordetella pertussis Tohama I chemotaxis protein CheA NP_879817.1 1069238 D 257313 CDS NP_879818.1 33592174 2664635 1071310..1071810 1 NC_002929.2 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 1071810 cheW 2664635 cheW Bordetella pertussis Tohama I chemotaxis protein CheW NP_879818.1 1071310 D 257313 CDS NP_879819.1 33592175 2664643 1071884..1073590 1 NC_002929.2 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 1073590 tsr 2664643 tsr Bordetella pertussis Tohama I methyl-accepting chemotaxis protein I NP_879819.1 1071884 D 257313 CDS NP_879820.1 33592176 2664640 1074454..1075506 1 NC_002929.2 regulates chemotaxis by demethylation of methyl-accepting chemotaxis proteins; chemotaxis-specific methylesterase 1075506 cheB 2664640 cheB Bordetella pertussis Tohama I chemotaxis-specific methylesterase NP_879820.1 1074454 D 257313 CDS NP_879821.1 33592177 2664641 1075559..1075948 1 NC_002929.2 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 1075948 cheY 2664641 cheY Bordetella pertussis Tohama I chemotaxis protein CheY NP_879821.1 1075559 D 257313 CDS NP_879822.1 33592178 2664000 1075957..1076589 1 NC_002929.2 cytosolic phosphatase which functions in the chemotaxis signal transduction complex by controlling the level of phosphorylated CheY through dephosphorylation; chemotaxis regulator CheZ 1076589 cheZ 2664000 cheZ Bordetella pertussis Tohama I chemotaxis regulator CheZ NP_879822.1 1075957 D 257313 CDS NP_879823.1 33592179 2664001 complement(1076689..1077705) 1 NC_002929.2 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 1077705 2664001 BP1035 Bordetella pertussis Tohama I transposase for IS1663 NP_879823.1 1076689 R 257313 CDS NP_879824.1 33592180 2664202 1078494..1079543 1 NC_002929.2 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 1079543 2664202 BP1036 Bordetella pertussis Tohama I aldo/keto reductase NP_879824.1 1078494 D 257313 CDS NP_879825.1 33592181 2664204 complement(1081181..1082068) 1 NC_002929.2 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 1082068 corC 2664204 corC Bordetella pertussis Tohama I magnesium and cobalt efflux protein NP_879825.1 1081181 R 257313 CDS NP_879826.1 33592182 2664133 complement(1082209..1082658) 1 NC_002929.2 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 1082658 2664133 BP1039 Bordetella pertussis Tohama I metalloprotease NP_879826.1 1082209 R 257313 CDS NP_879827.1 33592183 2664134 complement(1082672..1083694) 1 NC_002929.2 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 1083694 2664134 BP1040 Bordetella pertussis Tohama I PhoH-like protein NP_879827.1 1082672 R 257313 CDS NP_879828.1 33592184 2664503 complement(1083691..1085034) 1 NC_002929.2 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 1085034 2664503 BP1041 Bordetella pertussis Tohama I (dimethylallyl)adenosine tRNA methylthiotransferase NP_879828.1 1083691 R 257313 CDS NP_879829.1 33592185 2664348 complement(1086056..1087072) 1 NC_002929.2 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 1087072 2664348 BP1044 Bordetella pertussis Tohama I transposase for IS1663 NP_879829.1 1086056 R 257313 CDS NP_879830.1 33592186 2664349 complement(1087404..1088339) 1 NC_002929.2 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 1088339 secF 2664349 secF Bordetella pertussis Tohama I preprotein translocase subunit SecF NP_879830.1 1087404 R 257313 CDS NP_879831.1 33592187 2664391 complement(1088389..1090269) 1 NC_002929.2 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 1090269 secD 2664391 secD Bordetella pertussis Tohama I preprotein translocase subunit SecD NP_879831.1 1088389 R 257313 CDS NP_879832.1 33592188 2664392 complement(1090336..1090680) 1 NC_002929.2 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 1090680 2664392 BP1047 Bordetella pertussis Tohama I secreted protein NP_879832.1 1090336 R 257313 CDS NP_879833.1 33592189 2664123 complement(1090825..1091775) 1 NC_002929.2 transposase for IS481 element; transposase 1091775 2664123 BP1048 Bordetella pertussis Tohama I transposase NP_879833.1 1090825 R 257313 CDS NP_879834.1 33592190 2664036 complement(1091874..1093010) 1 NC_002929.2 Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr); queuine tRNA-ribosyltransferase 1093010 tgt 2664036 tgt Bordetella pertussis Tohama I queuine tRNA-ribosyltransferase NP_879834.1 1091874 R 257313 CDS NP_879835.1 33592191 2664037 complement(1093007..1094050) 1 NC_002929.2 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step; S-adenosylmethionine--tRNA ribosyltransferase-isomerase 1094050 queA 2664037 queA Bordetella pertussis Tohama I S-adenosylmethionine--tRNA ribosyltransferase-isomerase NP_879835.1 1093007 R 257313 CDS NP_879836.1 33592192 2664038 1094238..1095674 1 NC_002929.2 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 1095674 2664038 BP1051 Bordetella pertussis Tohama I D-alanyl-D-alanine carboxypeptidase NP_879836.1 1094238 D 257313 CDS NP_879837.1 33592193 2664288 1095765..1096406 1 NC_002929.2 Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate; uracil phosphoribosyltransferase 1096406 upp 2664288 upp Bordetella pertussis Tohama I uracil phosphoribosyltransferase NP_879837.1 1095765 D 257313 CDS NP_879838.1 33592194 2664289 1096742..1097758 1 NC_002929.2 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 1097758 2664289 BP1053 Bordetella pertussis Tohama I transposase for IS1663 NP_879838.1 1096742 D 257313 CDS NP_879839.1 33592195 2664290 1098091..1100823 1 NC_002929.2 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 1100823 prn 2664290 prn Bordetella pertussis Tohama I pertactin NP_879839.1 1098091 D 257313 CDS NP_879840.1 33592196 2664362 complement(1100890..1102311) 1 NC_002929.2 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 1102311 cysG 2664362 cysG Bordetella pertussis Tohama I siroheme synthase NP_879840.1 1100890 R 257313 CDS NP_879841.1 33592197 2664363 1102575..1103291 1 NC_002929.2 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 1103291 2664363 BP1056 Bordetella pertussis Tohama I hypothetical protein NP_879841.1 1102575 D 257313 CDS NP_879842.1 33592198 2665217 1103376..1103693 1 NC_002929.2 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 1103693 2665217 BP1057 Bordetella pertussis Tohama I hypothetical protein NP_879842.1 1103376 D 257313 CDS NP_879843.1 33592199 2665218 1103734..1104147 1 NC_002929.2 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 1104147 2665218 BP1058 Bordetella pertussis Tohama I hypothetical protein NP_879843.1 1103734 D 257313 CDS NP_879844.1 33592200 2665219 1104149..1104508 1 NC_002929.2 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 1104508 2665219 BP1059 Bordetella pertussis Tohama I hypothetical protein NP_879844.1 1104149 D 257313 CDS NP_879845.1 33592201 2665220 complement(1104551..1106110) 1 NC_002929.2 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 1106110 ubiD 2665220 ubiD Bordetella pertussis Tohama I 3-octaprenyl-4-hydroxybenzoate carboxy-lyase NP_879845.1 1104551 R 257313 CDS NP_879846.1 33592202 2665221 1106179..1107009 1 NC_002929.2 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 1107009 2665221 BP1061 Bordetella pertussis Tohama I transglycosylase NP_879846.1 1106179 D 257313 CDS NP_879847.1 33592203 2664800 complement(1107044..1108198) 1 NC_002929.2 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 1108198 2664800 BP1062 Bordetella pertussis Tohama I aminotransferase NP_879847.1 1107044 R 257313 CDS NP_879848.1 33592204 2664801 1108241..1109113 1 NC_002929.2 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 1109113 2664801 BP1063 Bordetella pertussis Tohama I hypothetical protein NP_879848.1 1108241 D 257313 CDS NP_879849.1 33592205 2664802 1109230..1111518 1 NC_002929.2 NAD-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; does not decarboxylate oxaloacetate; malic enzyme 1111518 maeB 2664802 maeB Bordetella pertussis Tohama I malic enzyme NP_879849.1 1109230 D 257313 CDS NP_879850.1 33592206 2664021 1112725..1113189 1 NC_002929.2 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 1113189 2664021 BP1066 Bordetella pertussis Tohama I hypothetical protein NP_879850.1 1112725 D 257313 CDS NP_879851.1 33592207 2664022 complement(1113216..1114166) 1 NC_002929.2 transposase for IS481 element; transposase 1114166 2664022 BP1067 Bordetella pertussis Tohama I transposase NP_879851.1 1113216 R 257313 CDS NP_879852.1 33592208 2666694 complement(1114534..1115310) 1 NC_002929.2 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 1115310 pstB 2666694 pstB Bordetella pertussis Tohama I phosphate transporter ATP-binding protein NP_879852.1 1114534 R 257313 CDS NP_879853.1 33592209 2666695 complement(1115355..1116191) 1 NC_002929.2 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 1116191 pstA 2666695 pstA Bordetella pertussis Tohama I phosphate ABC transporter permease NP_879853.1 1115355 R 257313 CDS NP_879854.1 33592210 2667489 complement(1116234..1117250) 1 NC_002929.2 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 1117250 pstC 2667489 pstC Bordetella pertussis Tohama I phosphate ABC transporter permease NP_879854.1 1116234 R 257313 CDS NP_879855.1 33592211 2667490 complement(1117385..1118425) 1 NC_002929.2 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 1118425 pstS 2667490 pstS Bordetella pertussis Tohama I phosphate ABC transporter substrate-binding protein NP_879855.1 1117385 R 257313 CDS NP_879856.1 33592212 2667491 complement(1118620..1120701) 1 NC_002929.2 catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate; polyphosphate kinase 1120701 ppk 2667491 ppk Bordetella pertussis Tohama I polyphosphate kinase NP_879856.1 1118620 R 257313 CDS NP_879857.1 33592213 2666028 1120937..1122430 1 NC_002929.2 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 1122430 ppx 2666028 ppx Bordetella pertussis Tohama I exopolyphosphatase NP_879857.1 1120937 D 257313 CDS NP_879858.1 33592214 2666029 complement(1122661..1123455) 1 NC_002929.2 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 1123455 2666029 BP1074 Bordetella pertussis Tohama I hypothetical protein NP_879858.1 1122661 R 257313 CDS NP_879859.1 33592215 2666030 complement(1123676..1125034) 1 NC_002929.2 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate; phosphoglucosamine mutase 1125034 glmM 2666030 glmM Bordetella pertussis Tohama I phosphoglucosamine mutase NP_879859.1 1123676 R 257313 CDS NP_879860.1 33592216 2666031 complement(1125031..1125873) 1 NC_002929.2 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 1125873 folP 2666031 folP Bordetella pertussis Tohama I dihydropteroate synthase NP_879860.1 1125031 R 257313 CDS NP_879861.1 33592217 2667031 complement(1125892..1127778) 1 NC_002929.2 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 1127778 ftsH 2667031 ftsH Bordetella pertussis Tohama I cell division protein NP_879861.1 1125892 R 257313 CDS NP_879862.1 33592218 2665633 complement(1128016..1128648) 1 NC_002929.2 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 1128648 rrmJ 2665633 rrmJ Bordetella pertussis Tohama I ribosomal RNA large subunit methyltransferase j NP_879862.1 1128016 R 257313 CDS NP_879863.1 33592219 2665634 1128667..1129269 1 NC_002929.2 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 1129269 2665634 BP1079 Bordetella pertussis Tohama I hypothetical protein NP_879863.1 1128667 D 257313 CDS NP_879864.1 33592220 2665322 1129421..1130371 1 NC_002929.2 transposase for IS481 element; transposase 1130371 2665322 BP1080 Bordetella pertussis Tohama I transposase NP_879864.1 1129421 D 257313 CDS NP_879865.1 33592221 2665324 complement(1131174..1131974) 1 NC_002929.2 no significant database matches; hypothetical protein 1131974 2665324 BP1083 Bordetella pertussis Tohama I hypothetical protein NP_879865.1 1131174 R 257313 CDS NP_879866.1 33592222 2666606 complement(1132018..1133004) 1 NC_002929.2 catalyzes the formation of O-phospho-L-homoserine from L-homoserine; homoserine kinase 1133004 thrB 2666606 thrB Bordetella pertussis Tohama I homoserine kinase NP_879866.1 1132018 R 257313 CDS NP_879867.1 33592223 2666607 1133144..1134157 1 NC_002929.2 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 1134157 2666607 BP1085 Bordetella pertussis Tohama I tRNA-dihydrouridine synthase A NP_879867.1 1133144 D 257313 CDS NP_879868.1 33592224 2666608 complement(1134154..1135104) 1 NC_002929.2 transposase for IS481 element; transposase 1135104 2666608 BP1086 Bordetella pertussis Tohama I transposase NP_879868.1 1134154 R 257313 CDS NP_879869.1 33592225 2665577 complement(1135217..1135675) 1 NC_002929.2 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 1135675 2665577 BP1087 Bordetella pertussis Tohama I hypothetical protein NP_879869.1 1135217 R 257313 CDS NP_879870.1 33592226 2665578 complement(1135712..1137025) 1 NC_002929.2 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 1137025 2665578 BP1088 Bordetella pertussis Tohama I hypothetical protein NP_879870.1 1135712 R 257313 CDS NP_879871.1 33592227 2665579 1137043..1137414 1 NC_002929.2 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 1137414 2665579 BP1089 Bordetella pertussis Tohama I hypothetical protein NP_879871.1 1137043 D 257313 CDS NP_879872.1 33592228 2665316 1137411..1138874 1 NC_002929.2 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 1138874 2665316 BP1090 Bordetella pertussis Tohama I hypothetical protein NP_879872.1 1137411 D 257313 CDS NP_879873.1 33592229 2665317 1139015..1139743 1 NC_002929.2 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 1139743 2665317 BP1091 Bordetella pertussis Tohama I two-component response regulator NP_879873.1 1139015 D 257313 CDS NP_879874.1 33592230 2665318 complement(1139725..1142574) 1 NC_002929.2 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 1142574 2665318 BP1092 Bordetella pertussis Tohama I two-component histidine kinase NP_879874.1 1139725 R 257313 CDS NP_879875.1 33592231 2666194 1142787..1143737 1 NC_002929.2 transposase for IS481 element; transposase 1143737 2666194 BP1093 Bordetella pertussis Tohama I transposase NP_879875.1 1142787 D 257313 CDS NP_879876.1 33592232 2665341 1143905..1144729 1 NC_002929.2 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 1144729 livG 2665341 livG Bordetella pertussis Tohama I high-affinity branched-chain amino acid transport ATP-binding protein NP_879876.1 1143905 D 257313 CDS NP_879877.1 33592233 2665342 1144729..1145607 1 NC_002929.2 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 1145607 livH 2665342 livH Bordetella pertussis Tohama I high-affinity branched-chain amino acid transport system permease NP_879877.1 1144729 D 257313 CDS NP_879878.1 33592234 2665319 1146512..1147627 1 NC_002929.2 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 1147627 livK 2665319 livK Bordetella pertussis Tohama I amino acids binding protein NP_879878.1 1146512 D 257313 CDS NP_879879.1 33592235 2665320 1147635..1148450 1 NC_002929.2 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 1148450 livF 2665320 livF Bordetella pertussis Tohama I high-affinity branched-chain amino acid transport ATP-binding protein NP_879879.1 1147635 D 257313 CDS NP_879880.1 33592236 2665321 1148447..1150312 1 NC_002929.2 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 1150312 2665321 BP1099 Bordetella pertussis Tohama I long-chain fatty-acid--CoA ligase NP_879880.1 1148447 D 257313 CDS NP_879881.1 33592237 2667679 1150391..1151023 1 NC_002929.2 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 1151023 2667679 BP1100 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_879881.1 1150391 D 257313 CDS NP_879882.1 33592238 2667680 complement(1151020..1151322) 1 NC_002929.2 no significant database matches; hypothetical protein 1151322 2667680 BP1101 Bordetella pertussis Tohama I hypothetical protein NP_879882.1 1151020 R 257313 CDS NP_879883.1 33592239 2665344 complement(1151365..1152885) 1 NC_002929.2 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 1152885 lysS 2665344 lysS Bordetella pertussis Tohama I lysyl-tRNA synthetase NP_879883.1 1151365 R 257313 CDS NP_879884.1 33592240 2665345 complement(1152892..1153647) 1 NC_002929.2 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 1153647 2665345 BP1103 Bordetella pertussis Tohama I short chain dehydrogenase NP_879884.1 1152892 R 257313 CDS NP_879885.1 33592241 2665346 complement(join(1153677..1154699,1154701..1154781)) 1 NC_002929.2 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 1154781 prfB 2665346 prfB Bordetella pertussis Tohama I peptide chain release factor 2 NP_879885.1 1153677 R 257313 CDS NP_879886.1 33592242 2667578 complement(1154884..1156584) 1 NC_002929.2 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 1156584 recJ 2667578 recJ Bordetella pertussis Tohama I single-stranded-DNA-specific exonuclease NP_879886.1 1154884 R 257313 CDS NP_879887.1 33592243 2667579 complement(1156566..1157543) 1 NC_002929.2 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 1157543 2667579 BP1106 Bordetella pertussis Tohama I hypothetical protein NP_879887.1 1156566 R 257313 CDS NP_879888.1 33592244 2667580 1157601..1158833 1 NC_002929.2 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 1158833 lolC 2667580 lolC Bordetella pertussis Tohama I lipoprotein releasing system transmembrane protein NP_879888.1 1157601 D 257313 CDS NP_879889.1 33592245 2667581 1158826..1159521 1 NC_002929.2 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 1159521 lolD 2667581 lolD Bordetella pertussis Tohama I lipoprotein releasing system ATP-binding protein NP_879889.1 1158826 D 257313 CDS NP_879890.1 33592246 2667421 1159555..1160382 1 NC_002929.2 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 1160382 2667421 BP1109 Bordetella pertussis Tohama I deoxyribonuclease NP_879890.1 1159555 D 257313 CDS NP_879891.1 33592247 2667422 1160664..1163894 1 NC_002929.2 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 1163894 sphB3 2667422 sphB3 Bordetella pertussis Tohama I serine protease NP_879891.1 1160664 D 257313 CDS NP_879892.1 33592248 2667423 1164163..1164339 1 NC_002929.2 no significant database matches; hypothetical protein 1164339 2667423 BP1111 Bordetella pertussis Tohama I hypothetical protein NP_879892.1 1164163 D 257313 CDS NP_879893.1 33592249 2666188 1164630..1168556 1 NC_002929.2 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 1168556 bipA 2666188 bipA Bordetella pertussis Tohama I outer membrane ligand binding protein NP_879893.1 1164630 D 257313 CDS NP_879894.1 33592250 2666324 1172294..1173220 1 NC_002929.2 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 1173220 2666324 BP1115 Bordetella pertussis Tohama I hydrolase NP_879894.1 1172294 D 257313 CDS NP_879895.1 33592251 2666325 1173290..1174135 1 NC_002929.2 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 1174135 2666325 BP1116 Bordetella pertussis Tohama I hypothetical protein NP_879895.1 1173290 D 257313 CDS NP_879896.1 33592252 2665395 1174203..1174757 1 NC_002929.2 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 1174757 greB 2665395 greB Bordetella pertussis Tohama I transcription elongation factor GreB NP_879896.1 1174203 D 257313 CDS NP_879897.1 33592253 2665396 complement(1174804..1175754) 1 NC_002929.2 transposase for IS481 element; transposase 1175754 2665396 BP1118 Bordetella pertussis Tohama I transposase NP_879897.1 1174804 R 257313 CDS NP_879898.1 33592254 2665370 complement(1175853..1176485) 1 NC_002929.2 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 1176485 fim2 2665370 fim2 Bordetella pertussis Tohama I serotype 2 fimbrial subunit NP_879898.1 1175853 R 257313 CDS NP_879899.1 33592255 2665371 complement(1176656..1178938) 1 NC_002929.2 NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate; malic enzyme 1178938 maeB 2665371 maeB Bordetella pertussis Tohama I malic enzyme NP_879899.1 1176656 R 257313 CDS NP_879900.1 33592256 2665372 complement(1179093..1181789) 1 NC_002929.2 paralogs to the E1 component of pyruvate dehydrogenase subunit E1; 2-oxoacid dehydrogenase subunit E1 1181789 aceE 2665372 aceE Bordetella pertussis Tohama I 2-oxoacid dehydrogenase subunit E1 NP_879900.1 1179093 R 257313 CDS NP_879901.1 33592257 2665326 1181915..1182403 1 NC_002929.2 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 1182403 2665326 BP1122 Bordetella pertussis Tohama I transcription regulator AsnC NP_879901.1 1181915 D 257313 CDS NP_879902.1 33592258 2665327 1182439..1184487 1 NC_002929.2 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 1184487 2665327 BP1123 Bordetella pertussis Tohama I hypothetical protein NP_879902.1 1182439 D 257313 CDS NP_879903.1 33592259 2665328 1184812..1187682 1 NC_002929.2 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 1187682 sucA 2665328 sucA Bordetella pertussis Tohama I 2-oxoglutarate dehydrogenase E1 NP_879903.1 1184812 D 257313 CDS NP_879904.1 33592260 2666676 1187728..1188942 1 NC_002929.2 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 1188942 odhB 2666676 odhB Bordetella pertussis Tohama I dihydrolipoamide succinyltransferase NP_879904.1 1187728 D 257313 CDS NP_879905.1 33592261 2666677 1189172..1190599 1 NC_002929.2 E3 component of 2-oxoglutarate dehydrogenase complex; catalyzes the oxidation of dihydrolipoamide to lipoamide; dihydrolipoamide dehydrogenase 1190599 odhL 2666677 odhL Bordetella pertussis Tohama I dihydrolipoamide dehydrogenase NP_879905.1 1189172 D 257313 CDS NP_879906.1 33592262 2666678 1190655..1191788 1 NC_002929.2 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 1191788 2666678 BP1127 Bordetella pertussis Tohama I hypothetical protein NP_879906.1 1190655 D 257313 CDS NP_879907.1 33592263 2665516 complement(1191801..1192559) 1 NC_002929.2 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 1192559 fabG 2665516 fabG Bordetella pertussis Tohama I 3-oxoacyl-ACP reductase NP_879907.1 1191801 R 257313 CDS NP_879908.1 33592264 2665517 1192647..1193549 1 NC_002929.2 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 1193549 2665517 BP1129 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879908.1 1192647 D 257313 CDS NP_879909.1 33592265 2665518 complement(1193546..1194496) 1 NC_002929.2 transposase for IS481 element; transposase 1194496 2665518 BP1130 Bordetella pertussis Tohama I transposase NP_879909.1 1193546 R 257313 CDS NP_879910.1 33592266 2667605 complement(1194626..1195609) 1 NC_002929.2 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 1195609 2667605 BP1131 Bordetella pertussis Tohama I hypothetical protein NP_879910.1 1194626 R 257313 CDS NP_879911.1 33592267 2667606 complement(1195664..1196386) 1 NC_002929.2 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 1196386 2667606 BP1132 Bordetella pertussis Tohama I short-chain dehydrogenase NP_879911.1 1195664 R 257313 CDS NP_879912.1 33592268 2665363 1196854..1197804 1 NC_002929.2 transposase for IS481 element; transposase 1197804 2665363 BP1134 Bordetella pertussis Tohama I transposase NP_879912.1 1196854 D 257313 CDS NP_879913.1 33592269 2665306 1198526..1199059 1 NC_002929.2 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 1199059 fecI 2665306 fecI Bordetella pertussis Tohama I ECF family RNA polymerase sigma factor NP_879913.1 1198526 D 257313 CDS NP_879914.1 33592270 2665307 1199052..1200014 1 NC_002929.2 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 1200014 fecR 2665307 fecR Bordetella pertussis Tohama I signal transduction protein NP_879914.1 1199052 D 257313 CDS NP_879915.1 33592271 2665308 1200108..1202585 1 NC_002929.2 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 1202585 bfrH 2665308 bfrH Bordetella pertussis Tohama I ferric siderophore receptor NP_879915.1 1200108 D 257313 CDS NP_879916.1 33592272 2667408 1202702..1203010 1 NC_002929.2 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 1203010 2667408 BP1139 Bordetella pertussis Tohama I iron uptake protein NP_879916.1 1202702 D 257313 CDS NP_879917.1 33592273 2667410 1204655..1204981 1 NC_002929.2 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 1204981 2667410 BP1141 Bordetella pertussis Tohama I iron uptake protein NP_879917.1 1204655 D 257313 CDS NP_879918.1 33592274 2667411 1205130..1206080 1 NC_002929.2 transposase for IS481 element; transposase 1206080 2667411 BP1142 Bordetella pertussis Tohama I transposase NP_879918.1 1205130 D 257313 CDS NP_879919.1 33592275 2667412 1206090..1207445 1 NC_002929.2 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 1207445 trpS 2667412 trpS Bordetella pertussis Tohama I tryptophanyl-tRNA synthetase NP_879919.1 1206090 D 257313 CDS NP_879920.1 33592276 2667413 complement(1207526..1209901) 1 NC_002929.2 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 1209901 tex 2667413 tex Bordetella pertussis Tohama I transcription accessory protein NP_879920.1 1207526 R 257313 CDS NP_879921.1 33592277 2665390 1210066..1212141 1 NC_002929.2 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 1212141 2665390 BP1145 Bordetella pertussis Tohama I ATP-dependent helicase NP_879921.1 1210066 D 257313 CDS NP_879922.1 33592278 2665391 complement(1212203..1213003) 1 NC_002929.2 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 1213003 comL 2665391 comL Bordetella pertussis Tohama I competence lipoprotein NP_879922.1 1212203 R 257313 CDS NP_879923.1 33592279 2665392 1213105..1214067 1 NC_002929.2 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 1214067 rluD 2665392 rluD Bordetella pertussis Tohama I ribosomal large subunit pseudouridine synthase D NP_879923.1 1213105 D 257313 CDS NP_879924.1 33592280 2665393 1214109..1214810 1 NC_002929.2 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 1214810 2665393 BP1148 Bordetella pertussis Tohama I hypothetical protein NP_879924.1 1214109 D 257313 CDS NP_879925.1 33592281 2667600 1214918..1216555 1 NC_002929.2 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 1216555 phbC 2667600 phbC Bordetella pertussis Tohama I poly-beta-hydroxybutyrate polymerase NP_879925.1 1214918 D 257313 CDS NP_879926.1 33592282 2667601 1216623..1217360 1 NC_002929.2 catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 1217360 fabG 2667601 fabG Bordetella pertussis Tohama I 3-ketoacyl-ACP reductase NP_879926.1 1216623 D 257313 CDS NP_879927.1 33592283 2667566 1217463..1218038 1 NC_002929.2 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 1218038 2667566 BP1151 Bordetella pertussis Tohama I hypothetical protein NP_879927.1 1217463 D 257313 CDS NP_879928.1 33592284 2667567 1218211..1218747 1 NC_002929.2 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 1218747 2667567 BP1152 Bordetella pertussis Tohama I hypothetical protein NP_879928.1 1218211 D 257313 CDS NP_879929.1 33592285 2667568 1218750..1219094 1 NC_002929.2 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 1219094 2667568 BP1153 Bordetella pertussis Tohama I hypothetical protein NP_879929.1 1218750 D 257313 CDS NP_879930.1 33592286 2667569 1219110..1219955 1 NC_002929.2 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 1219955 2667569 BP1154 Bordetella pertussis Tohama I hypothetical protein NP_879930.1 1219110 D 257313 CDS NP_879931.1 33592287 2667570 1219994..1221373 1 NC_002929.2 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 1221373 2667570 BP1155 Bordetella pertussis Tohama I regulatory protein NP_879931.1 1219994 D 257313 CDS NP_879932.1 33592288 2667571 1221451..1222332 1 NC_002929.2 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 1222332 2667571 BP1156 Bordetella pertussis Tohama I hypothetical protein NP_879932.1 1221451 D 257313 CDS NP_879933.1 33592289 2666008 1222431..1223381 1 NC_002929.2 transposase for IS481 element; transposase 1223381 2666008 BP1157 Bordetella pertussis Tohama I transposase NP_879933.1 1222431 D 257313 CDS NP_879934.1 33592290 2666009 complement(1223378..1223788) 1 NC_002929.2 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 1223788 2666009 BP1158 Bordetella pertussis Tohama I dioxygenase NP_879934.1 1223378 R 257313 CDS NP_879935.1 33592291 2666557 complement(1223896..1224750) 1 NC_002929.2 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 1224750 2666557 BP1159 Bordetella pertussis Tohama I 2-pyrone-4,6-dicarboxylic acid hydrolase NP_879935.1 1223896 R 257313 CDS NP_879936.1 33592292 2666558 complement(1224743..1225705) 1 NC_002929.2 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 1225705 2666558 BP1160 Bordetella pertussis Tohama I lipoprotein NP_879936.1 1224743 R 257313 CDS NP_879937.1 33592293 2666559 complement(1225751..1226875) 1 NC_002929.2 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 1226875 2666559 BP1161 Bordetella pertussis Tohama I racemase NP_879937.1 1225751 R 257313 CDS NP_879938.1 33592294 2666560 1226987..1227859 1 NC_002929.2 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 1227859 2666560 BP1162 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879938.1 1226987 D 257313 CDS NP_879939.1 33592295 2666247 1227984..1228763 1 NC_002929.2 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 1228763 2666247 BP1163 Bordetella pertussis Tohama I short-chain dehydrogenase NP_879939.1 1227984 D 257313 CDS NP_879940.1 33592296 2666248 1228917..1230338 1 NC_002929.2 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 1230338 2666248 BP1164 Bordetella pertussis Tohama I hypothetical protein NP_879940.1 1228917 D 257313 CDS NP_879941.1 33592297 2665643 1230773..1232470 1 NC_002929.2 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 1232470 2665643 BP1165 Bordetella pertussis Tohama I sodium/solute symporter NP_879941.1 1230773 D 257313 CDS NP_879942.1 33592298 2665644 1232499..1232621 1 NC_002929.2 no significant database matches; hypothetical protein 1232621 2665644 BP1165A Bordetella pertussis Tohama I hypothetical protein NP_879942.1 1232499 D 257313 CDS NP_879943.1 33592299 2665645 complement(1232697..1233638) 1 NC_002929.2 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 1233638 ldcA 2665645 ldcA Bordetella pertussis Tohama I muramoyltetrapeptide carboxypeptidase NP_879943.1 1232697 R 257313 CDS NP_879944.1 33592300 2665646 1233965..1234711 1 NC_002929.2 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 1234711 2665646 BP1167 Bordetella pertussis Tohama I hypothetical protein NP_879944.1 1233965 D 257313 CDS NP_879945.1 33592301 2665386 complement(1234719..1235624) 1 NC_002929.2 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 1235624 2665386 BP1168 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879945.1 1234719 R 257313 CDS NP_879946.1 33592302 2665387 1235767..1236684 1 NC_002929.2 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 1236684 2665387 BP1169 Bordetella pertussis Tohama I oxidoreductase NP_879946.1 1235767 D 257313 CDS NP_879947.1 33592303 2665388 1236724..1237677 1 NC_002929.2 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 1237677 2665388 BP1170 Bordetella pertussis Tohama I hypothetical protein NP_879947.1 1236724 D 257313 CDS NP_879948.1 33592304 2665389 1237702..1238280 1 NC_002929.2 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 1238280 2665389 BP1171 Bordetella pertussis Tohama I hypothetical protein NP_879948.1 1237702 D 257313 CDS NP_879949.1 33592305 2665690 1239954..1240562 1 NC_002929.2 no significant database matches; hypothetical protein 1240562 2665690 BP1174 Bordetella pertussis Tohama I hypothetical protein NP_879949.1 1239954 D 257313 CDS NP_879950.1 33592306 2665691 complement(1240640..1240993) 1 NC_002929.2 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 1240993 2665691 BP1175 Bordetella pertussis Tohama I hypothetical protein NP_879950.1 1240640 R 257313 CDS NP_879951.1 33592307 2665692 complement(1241077..1242066) 1 NC_002929.2 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 1242066 astE 2665692 astE Bordetella pertussis Tohama I succinylglutamate desuccinylase NP_879951.1 1241077 R 257313 CDS NP_879952.1 33592308 2666969 1242269..1243219 1 NC_002929.2 transposase for IS481 element; transposase 1243219 2666969 BP1177 Bordetella pertussis Tohama I transposase NP_879952.1 1242269 D 257313 CDS NP_879953.1 33592309 2666970 complement(1243285..1244148) 1 NC_002929.2 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 1244148 2666970 BP1178 Bordetella pertussis Tohama I hypothetical protein NP_879953.1 1243285 R 257313 CDS NP_879954.1 33592310 2666623 complement(1244494..1245429) 1 NC_002929.2 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 1245429 2666623 BP1180 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879954.1 1244494 R 257313 CDS NP_879955.1 33592311 2666624 complement(1245542..1246279) 1 NC_002929.2 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 1246279 glnQ 2666624 glnQ Bordetella pertussis Tohama I amino acid ABC transporter ATP-binding protein NP_879955.1 1245542 R 257313 CDS NP_879956.1 33592312 2666625 complement(1246299..1246988) 1 NC_002929.2 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 1246988 2666625 BP1182 Bordetella pertussis Tohama I amino acid ABC transporter permease NP_879956.1 1246299 R 257313 CDS NP_879957.1 33592313 2667371 complement(1246981..1247670) 1 NC_002929.2 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 1247670 2667371 BP1183 Bordetella pertussis Tohama I amino acid ABC transporter permease NP_879957.1 1246981 R 257313 CDS NP_879958.1 33592314 2666221 complement(1247774..1248490) 1 NC_002929.2 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 1248490 2666221 BP1184 Bordetella pertussis Tohama I cysteine ABC transporter substrate-binding protein NP_879958.1 1247774 R 257313 CDS NP_879959.1 33592315 2666222 complement(1248653..1249855) 1 NC_002929.2 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 1249855 aspC 2666222 aspC Bordetella pertussis Tohama I aspartate aminotransferase NP_879959.1 1248653 R 257313 CDS NP_879960.1 33592316 2666223 complement(1249852..1250532) 1 NC_002929.2 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 1250532 2666223 BP1186 Bordetella pertussis Tohama I hypothetical protein NP_879960.1 1249852 R 257313 CDS NP_879961.1 33592317 2666224 1251169..1252053 1 NC_002929.2 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 1252053 2666224 BP1188 Bordetella pertussis Tohama I hypothetical protein NP_879961.1 1251169 D 257313 CDS NP_879962.1 33592318 2666225 1252065..1252283 1 NC_002929.2 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 1252283 2666225 BP1188A Bordetella pertussis Tohama I hypothetical protein NP_879962.1 1252065 D 257313 CDS NP_879963.1 33592319 2667234 complement(1252291..1252719) 1 NC_002929.2 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 1252719 2667234 BP1189 Bordetella pertussis Tohama I lipoprotein NP_879963.1 1252291 R 257313 CDS NP_879964.1 33592320 2667235 1252947..1253393 1 NC_002929.2 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 1253393 2667235 BP1190 Bordetella pertussis Tohama I hypothetical protein NP_879964.1 1252947 D 257313 CDS NP_879965.1 33592321 2667236 1253386..1254291 1 NC_002929.2 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 1254291 2667236 BP1191 Bordetella pertussis Tohama I RNA polymerase sigma factor SigJ NP_879965.1 1253386 D 257313 CDS NP_879966.1 33592322 2667237 1254436..1254762 1 NC_002929.2 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 1254762 2667237 BP1192 Bordetella pertussis Tohama I hypothetical protein NP_879966.1 1254436 D 257313 CDS NP_879967.1 33592323 2667238 1254787..1255005 1 NC_002929.2 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 1255005 2667238 BP1193 Bordetella pertussis Tohama I hypothetical protein NP_879967.1 1254787 D 257313 CDS NP_879968.1 33592324 2667239 1255055..1255672 1 NC_002929.2 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 1255672 2667239 BP1194 Bordetella pertussis Tohama I hypothetical protein NP_879968.1 1255055 D 257313 CDS NP_879969.1 33592325 2667589 1255669..1256010 1 NC_002929.2 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 1256010 2667589 BP1195 Bordetella pertussis Tohama I ferredoxin NP_879969.1 1255669 D 257313 CDS NP_879970.1 33592326 2667590 complement(1256044..1257198) 1 NC_002929.2 no significant database matches; hypothetical protein 1257198 2667590 BP1196 Bordetella pertussis Tohama I hypothetical protein NP_879970.1 1256044 R 257313 CDS NP_879971.1 33592327 2667591 complement(1257195..1257923) 1 NC_002929.2 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 1257923 btr 2667591 btr Bordetella pertussis Tohama I transcriptional regulatory protein NP_879971.1 1257195 R 257313 CDS NP_879972.1 33592328 2666478 1258261..1260858 1 NC_002929.2 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 1260858 clpB 2666478 clpB Bordetella pertussis Tohama I ATP-dependent protease, ATPase subunit NP_879972.1 1258261 D 257313 CDS NP_879973.1 33592329 2666887 1261615..1262565 1 NC_002929.2 transposase for IS481 element; transposase 1262565 2666887 BP1199 Bordetella pertussis Tohama I transposase NP_879973.1 1261615 D 257313 CDS NP_879974.1 33592330 2666888 1264436..1266379 1 NC_002929.2 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 1266379 tcfA 2666888 tcfA Bordetella pertussis Tohama I tracheal colonization factor NP_879974.1 1264436 D 257313 CDS NP_879975.1 33592331 2666889 complement(1266476..1267171) 1 NC_002929.2 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 1267171 2666889 BP1202 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_879975.1 1266476 R 257313 CDS NP_879976.1 33592332 2666845 1267329..1268537 1 NC_002929.2 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 1268537 2666845 BP1203 Bordetella pertussis Tohama I hypothetical protein NP_879976.1 1267329 D 257313 CDS NP_879977.1 33592333 2666846 1268547..1269377 1 NC_002929.2 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 1269377 2666846 BP1204 Bordetella pertussis Tohama I hypothetical protein NP_879977.1 1268547 D 257313 CDS NP_879978.1 33592334 2666847 1269445..1269897 1 NC_002929.2 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 1269897 2666847 BP1205 Bordetella pertussis Tohama I hypothetical protein NP_879978.1 1269445 D 257313 CDS NP_879979.1 33592335 2666848 complement(1269905..1270867) 1 NC_002929.2 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 1270867 2666848 BP1206 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_879979.1 1269905 R 257313 CDS NP_879980.1 33592336 2665269 1270972..1272414 1 NC_002929.2 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 1272414 2665269 BP1207 Bordetella pertussis Tohama I N-acyl-D-glutamate deacylase NP_879980.1 1270972 D 257313 CDS NP_879981.1 33592337 2665270 1272465..1273421 1 NC_002929.2 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 1273421 2665270 BP1208 Bordetella pertussis Tohama I hypothetical protein NP_879981.1 1272465 D 257313 CDS NP_879982.1 33592338 2665271 complement(1273437..1274816) 1 NC_002929.2 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 1274816 2665271 BP1209 Bordetella pertussis Tohama I oxidoreductase NP_879982.1 1273437 R 257313 CDS NP_879983.1 33592339 2665272 complement(1274816..1275832) 1 NC_002929.2 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 1275832 apbE 2665272 apbE Bordetella pertussis Tohama I thiamine biosynthesis lipoprotein NP_879983.1 1274816 R 257313 CDS NP_879984.1 33592340 2665273 complement(1275837..1276637) 1 NC_002929.2 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 1276637 2665273 BP1211 Bordetella pertussis Tohama I hypothetical protein NP_879984.1 1275837 R 257313 CDS NP_879985.1 33592341 2666041 complement(1276667..1277182) 1 NC_002929.2 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 1277182 2666041 BP1212 Bordetella pertussis Tohama I hypothetical protein NP_879985.1 1276667 R 257313 CDS NP_879986.1 33592342 2666042 complement(1277205..1277834) 1 NC_002929.2 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 1277834 2666042 BP1213 Bordetella pertussis Tohama I hypothetical protein NP_879986.1 1277205 R 257313 CDS NP_879987.1 33592343 2666043 1277981..1278928 1 NC_002929.2 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 1278928 nodI 2666043 nodI Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_879987.1 1277981 D 257313 CDS NP_879988.1 33592344 2666044 1278925..1279710 1 NC_002929.2 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 1279710 nodJ 2666044 nodJ Bordetella pertussis Tohama I ABC transporter permease NP_879988.1 1278925 D 257313 CDS NP_879989.1 33592345 2665378 1279799..1280359 1 NC_002929.2 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 1280359 2665378 BP1216 Bordetella pertussis Tohama I hypothetical protein NP_879989.1 1279799 D 257313 CDS NP_879990.1 33592346 2665379 1280369..1280755 1 NC_002929.2 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 1280755 ccrB 2665379 ccrB Bordetella pertussis Tohama I camphor resistance protein CrcB NP_879990.1 1280369 D 257313 CDS NP_879991.1 33592347 2665380 complement(1280778..1282109) 1 NC_002929.2 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 1282109 2665380 BP1218 Bordetella pertussis Tohama I hypothetical protein NP_879991.1 1280778 R 257313 CDS NP_879992.1 33592348 2665381 complement(1282106..1282969) 1 NC_002929.2 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 1282969 2665381 BP1219 Bordetella pertussis Tohama I phytoene synthase NP_879992.1 1282106 R 257313 CDS NP_879993.1 33592349 2665335 complement(1282971..1283801) 1 NC_002929.2 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 1283801 2665335 BP1220 Bordetella pertussis Tohama I phytoene synthase NP_879993.1 1282971 R 257313 CDS NP_879994.1 33592350 2665336 1283930..1285057 1 NC_002929.2 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 1285057 dadX 2665336 dadX Bordetella pertussis Tohama I alanine racemase NP_879994.1 1283930 D 257313 CDS NP_879995.1 33592351 2667416 1285209..1285925 1 NC_002929.2 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 1285925 2667416 BP1222 Bordetella pertussis Tohama I short chain dehydrogenase NP_879995.1 1285209 D 257313 CDS NP_879996.1 33592352 2667417 complement(1285939..1286631) 1 NC_002929.2 no significant database matches; hypothetical protein 1286631 2667417 BP1223 Bordetella pertussis Tohama I hypothetical protein NP_879996.1 1285939 R 257313 CDS NP_879997.1 33592353 2667418 1286737..1287687 1 NC_002929.2 transposase for IS481 element; transposase 1287687 2667418 BP1224 Bordetella pertussis Tohama I transposase NP_879997.1 1286737 D 257313 CDS NP_879998.1 33592354 2667414 complement(1287684..1288262) 1 NC_002929.2 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 1288262 2667414 BP1225 Bordetella pertussis Tohama I RNA polymerase sigma factor NP_879998.1 1287684 R 257313 CDS YP_008691076.1 552528642 2667415 complement(1288340..1290016) 1 NC_002929.2 hypothetical protein 1290016 2667415 BP1226 Bordetella pertussis Tohama I hypothetical protein YP_008691076.1 1288340 R 257313 CDS NP_879999.1 33592355 2665330 1290181..1291542 1 NC_002929.2 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 1291542 radA 2665330 radA Bordetella pertussis Tohama I DNA repair protein RadA NP_879999.1 1290181 D 257313 CDS NP_880000.1 33592356 2665331 1291565..1292338 1 NC_002929.2 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 1292338 2665331 BP1228 Bordetella pertussis Tohama I hypothetical protein NP_880000.1 1291565 D 257313 CDS NP_880001.1 33592357 2665332 1292497..1292724 1 NC_002929.2 no significant database matches; hypothetical protein 1292724 2665332 BP1229 Bordetella pertussis Tohama I hypothetical protein NP_880001.1 1292497 D 257313 CDS NP_880002.1 33592358 2665333 complement(1292798..1294204) 1 NC_002929.2 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 1294204 norM 2665333 norM Bordetella pertussis Tohama I multidrug resistance protein NP_880002.1 1292798 R 257313 CDS NP_880003.1 33592359 2665294 complement(1294201..1295937) 1 NC_002929.2 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 1295937 2665294 BP1231 Bordetella pertussis Tohama I hypothetical protein NP_880003.1 1294201 R 257313 CDS NP_880004.1 33592360 2665295 complement(1296053..1296319) 1 NC_002929.2 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 1296319 rpmE2 2665295 rpmE2 Bordetella pertussis Tohama I 50S ribosomal protein L31 NP_880004.1 1296053 R 257313 CDS NP_880005.1 33592361 2665296 complement(1296488..1297342) 1 NC_002929.2 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 1297342 2665296 BP1233 Bordetella pertussis Tohama I tryptophan oxygenase NP_880005.1 1296488 R 257313 CDS NP_880006.1 33592362 2665974 complement(1297370..1297999) 1 NC_002929.2 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 1297999 2665974 BP1234 Bordetella pertussis Tohama I hypothetical protein NP_880006.1 1297370 R 257313 CDS NP_880007.1 33592363 2665975 complement(1298086..1298763) 1 NC_002929.2 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 1298763 radC 2665975 radC Bordetella pertussis Tohama I DNA repair protein RadC NP_880007.1 1298086 R 257313 CDS NP_880008.1 33592364 2665976 1298837..1299292 1 NC_002929.2 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 1299292 fkpB 2665976 fkpB Bordetella pertussis Tohama I FKBP-type peptidylprolyl isomerase NP_880008.1 1298837 D 257313 CDS NP_880009.1 33592365 2665977 1299292..1300269 1 NC_002929.2 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 1300269 ispH 2665977 ispH Bordetella pertussis Tohama I 4-hydroxy-3-methylbut-2-enyl diphosphate reductase NP_880009.1 1299292 D 257313 CDS NP_880010.1 33592366 2665978 1300308..1300952 1 NC_002929.2 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 1300952 2665978 BP1238 Bordetella pertussis Tohama I glutathione-S-transferase NP_880010.1 1300308 D 257313 CDS NP_880011.1 33592367 2665298 complement(1301442..1301777) 1 NC_002929.2 Similar to Helicobacter pylori J99 jhp0839 TR:Q9ZKU6 (EMBL:AE001513) (99 aa) fasta scores: E(): 0.0048, 30% id in 80 aa; hypothetical protein 1301777 2665298 BP1239 Bordetella pertussis Tohama I hypothetical protein NP_880011.1 1301442 R 257313 CDS NP_880012.1 33592368 2665299 1301986..1302990 1 NC_002929.2 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 1302990 2665299 BP1240 Bordetella pertussis Tohama I hypothetical protein NP_880012.1 1301986 D 257313 CDS NP_880013.1 33592369 2665300 complement(1303027..1303632) 1 NC_002929.2 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 1303632 2665300 BP1241 Bordetella pertussis Tohama I hypothetical protein NP_880013.1 1303027 R 257313 CDS NP_880014.1 33592370 2665301 1303737..1304648 1 NC_002929.2 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 1304648 2665301 BP1242 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880014.1 1303737 D 257313 CDS NP_880015.1 33592371 2666636 1305600..1306688 1 NC_002929.2 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 1306688 2666636 BP1243 Bordetella pertussis Tohama I hypothetical protein NP_880015.1 1305600 D 257313 CDS NP_880016.1 33592372 2666637 1306706..1308472 1 NC_002929.2 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 1308472 2666637 BP1244 Bordetella pertussis Tohama I hypothetical protein NP_880016.1 1306706 D 257313 CDS NP_880017.1 33592373 2666802 1308935..1309441 1 NC_002929.2 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 1309441 2666802 BP1245 Bordetella pertussis Tohama I hypothetical protein NP_880017.1 1308935 D 257313 CDS NP_880018.1 33592374 2666803 1309438..1310916 1 NC_002929.2 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination; transcription elongation factor NusA 1310916 nusA 2666803 nusA Bordetella pertussis Tohama I transcription elongation factor NusA NP_880018.1 1309438 D 257313 CDS NP_880019.1 33592375 2666804 1310993..1313986 1 NC_002929.2 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 1313986 infB 2666804 infB Bordetella pertussis Tohama I translation initiation factor IF-2 NP_880019.1 1310993 D 257313 CDS NP_880020.1 33592376 2667585 1314014..1314415 1 NC_002929.2 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 1314415 rbfA 2667585 rbfA Bordetella pertussis Tohama I ribosome-binding factor A NP_880020.1 1314014 D 257313 CDS NP_880021.1 33592377 2667586 1314460..1315194 1 NC_002929.2 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs; tRNA pseudouridine synthase B 1315194 truB 2667586 truB Bordetella pertussis Tohama I tRNA pseudouridine synthase B NP_880021.1 1314460 D 257313 CDS NP_880022.1 33592378 2667587 1315211..1317031 1 NC_002929.2 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 1317031 typA 2667587 typA Bordetella pertussis Tohama I GTP-binding elongation factor NP_880022.1 1315211 D 257313 CDS NP_880023.1 33592379 2665223 complement(1317102..1317827) 1 NC_002929.2 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 1317827 2665223 BP1251 Bordetella pertussis Tohama I toxin NP_880023.1 1317102 R 257313 CDS NP_880024.1 33592380 2665224 complement(1317824..1318228) 1 NC_002929.2 no significant database matches; hypothetical protein 1318228 2665224 BP1252 Bordetella pertussis Tohama I hypothetical protein NP_880024.1 1317824 R 257313 CDS NP_880025.1 33592381 2665225 complement(1318380..1319009) 1 NC_002929.2 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 1319009 2665225 BP1253 Bordetella pertussis Tohama I hypothetical protein NP_880025.1 1318380 R 257313 CDS NP_880026.1 33592382 2665226 1319062..1321776 1 NC_002929.2 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 1321776 polA 2665226 polA Bordetella pertussis Tohama I DNA polymerase I NP_880026.1 1319062 D 257313 CDS NP_880027.1 33592383 2665354 1321887..1322723 1 NC_002929.2 no significant database matches; hypothetical protein 1322723 2665354 BP1255 Bordetella pertussis Tohama I hypothetical protein NP_880027.1 1321887 D 257313 CDS NP_880028.1 33592384 2665355 1322778..1323566 1 NC_002929.2 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 1323566 2665355 BP1256 Bordetella pertussis Tohama I carboxymethylenebutenolidase NP_880028.1 1322778 D 257313 CDS NP_880029.1 33592385 2665356 complement(1323600..1325261) 1 NC_002929.2 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 1325261 2665356 BP1257 Bordetella pertussis Tohama I hypothetical protein NP_880029.1 1323600 R 257313 CDS NP_880030.1 33592386 2665780 1325429..1326820 1 NC_002929.2 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 1326820 sdaA 2665780 sdaA Bordetella pertussis Tohama I L-serine dehydratase 1 NP_880030.1 1325429 D 257313 CDS NP_880031.1 33592387 2665781 complement(1326958..1327617) 1 NC_002929.2 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 1327617 2665781 BP1259 Bordetella pertussis Tohama I hypothetical protein NP_880031.1 1326958 R 257313 CDS NP_880032.1 33592388 2665782 complement(1327653..1330535) 1 NC_002929.2 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 1330535 glnE 2665782 glnE Bordetella pertussis Tohama I bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase NP_880032.1 1327653 R 257313 CDS NP_880033.1 33592389 2665784 complement(1334252..1335508) 1 NC_002929.2 An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes; transcription termination factor Rho 1335508 rho 2665784 rho Bordetella pertussis Tohama I transcription termination factor Rho NP_880033.1 1334252 R 257313 CDS NP_880034.1 33592390 2665351 complement(1335621..1336046) 1 NC_002929.2 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 1336046 trxA 2665351 trxA Bordetella pertussis Tohama I thioredoxin 1 NP_880034.1 1335621 R 257313 CDS NP_880035.1 33592391 2665352 1336240..1338201 1 NC_002929.2 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit B 1338201 parE 2665352 parE Bordetella pertussis Tohama I DNA topoisomerase IV subunit B NP_880035.1 1336240 D 257313 CDS NP_880036.1 33592392 2665313 1338201..1338809 1 NC_002929.2 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 1338809 2665313 BP1265 Bordetella pertussis Tohama I hypothetical protein NP_880036.1 1338201 D 257313 CDS NP_880037.1 33592393 2665314 1338827..1341142 1 NC_002929.2 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit A 1341142 parC 2665314 parC Bordetella pertussis Tohama I DNA topoisomerase IV subunit A NP_880037.1 1338827 D 257313 CDS NP_880038.1 33592394 2665315 1341145..1342359 1 NC_002929.2 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 1342359 2665315 BP1267 Bordetella pertussis Tohama I hypothetical protein NP_880038.1 1341145 D 257313 CDS NP_880039.1 33592395 2665311 complement(1342356..1343306) 1 NC_002929.2 transposase for IS481 element; transposase 1343306 2665311 BP1268 Bordetella pertussis Tohama I transposase NP_880039.1 1342356 R 257313 CDS NP_880040.1 33592396 2665230 complement(1344075..1344713) 1 NC_002929.2 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 1344713 2665230 BP1270 Bordetella pertussis Tohama I glutathione S-transferase NP_880040.1 1344075 R 257313 CDS NP_880041.1 33592397 2667218 complement(1346131..1346832) 1 NC_002929.2 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 1346832 livF 2667218 livF Bordetella pertussis Tohama I high-affinity branched-chain amino acid transport ATP-binding protein NP_880041.1 1346131 R 257313 CDS NP_880042.1 33592398 2667219 complement(1346833..1347600) 1 NC_002929.2 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 1347600 livG 2667219 livG Bordetella pertussis Tohama I leucine/isoleucine/valine transporter ATP-binding protein NP_880042.1 1346833 R 257313 CDS NP_880043.1 33592399 2667220 complement(1347597..1348835) 1 NC_002929.2 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 1348835 livM 2667220 livM Bordetella pertussis Tohama I leucine/isoleucine/valine transporter permease subunit NP_880043.1 1347597 R 257313 CDS NP_880044.1 33592400 2666776 complement(1348835..1349761) 1 NC_002929.2 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 1349761 livH 2666776 livH Bordetella pertussis Tohama I high-affinity branched-chain amino acid transport system permease NP_880044.1 1348835 R 257313 CDS NP_880045.1 33592401 2666777 complement(1349864..1350979) 1 NC_002929.2 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 1350979 livJ 2666777 livJ Bordetella pertussis Tohama I leu/Ile/val-binding protein NP_880045.1 1349864 R 257313 CDS NP_880046.1 33592402 2666336 complement(1350995..1351945) 1 NC_002929.2 transposase for IS481 element; transposase 1351945 2666336 BP1278 Bordetella pertussis Tohama I transposase NP_880046.1 1350995 R 257313 CDS NP_880047.1 33592403 2666337 complement(1352299..1352880) 1 NC_002929.2 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 1352880 2666337 BP1279 Bordetella pertussis Tohama I hypothetical protein NP_880047.1 1352299 R 257313 CDS NP_880048.1 33592404 2665212 complement(1352877..1353710) 1 NC_002929.2 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 1353710 proC 2665212 proC Bordetella pertussis Tohama I pyrroline-5-carboxylate reductase NP_880048.1 1352877 R 257313 CDS NP_880049.1 33592405 2665213 1353921..1355234 1 NC_002929.2 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 1355234 ugpB 2665213 ugpB Bordetella pertussis Tohama I glycerol-3-phosphate ABC transporter substrate-binding protein NP_880049.1 1353921 D 257313 CDS NP_880050.1 33592406 2665214 1355411..1356292 1 NC_002929.2 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 1356292 ugpA 2665214 ugpA Bordetella pertussis Tohama I sn-glycerol-3-phosphate ABC transporter permease NP_880050.1 1355411 D 257313 CDS NP_880051.1 33592407 2665136 1356312..1357163 1 NC_002929.2 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 1357163 ugpE 2665136 ugpE Bordetella pertussis Tohama I sn-glycerol-3-phosphate transport system permease NP_880051.1 1356312 D 257313 CDS NP_880052.1 33592408 2665137 1357216..1358304 1 NC_002929.2 part of the UgpABCE glycerol-3-phosphate uptake system; glycerol-3-phosphate transporter ATP-binding protein 1358304 ugpC 2665137 ugpC Bordetella pertussis Tohama I glycerol-3-phosphate transporter ATP-binding protein NP_880052.1 1357216 D 257313 CDS NP_880053.1 33592409 2665126 complement(1358415..1359542) 1 NC_002929.2 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 1359542 livJ 2665126 livJ Bordetella pertussis Tohama I leu/Ile/val-binding protein NP_880053.1 1358415 R 257313 CDS NP_880054.1 33592410 2665127 1359777..1360388 1 NC_002929.2 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 1360388 2665127 BP1286 Bordetella pertussis Tohama I hypothetical protein NP_880054.1 1359777 D 257313 CDS NP_880055.1 33592411 2665128 1360487..1361437 1 NC_002929.2 transposase for IS481 element; transposase 1361437 2665128 BP1287 Bordetella pertussis Tohama I transposase NP_880055.1 1360487 D 257313 CDS NP_880056.1 33592412 2664843 complement(1361659..1362036) 1 NC_002929.2 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 1362036 2664843 BP1289 Bordetella pertussis Tohama I hypothetical protein NP_880056.1 1361659 R 257313 CDS NP_880057.1 33592413 2667136 1362184..1362681 1 NC_002929.2 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 1362681 2667136 BP1290 Bordetella pertussis Tohama I hypothetical protein NP_880057.1 1362184 D 257313 CDS NP_880058.1 33592414 2667137 1362678..1363205 1 NC_002929.2 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 1363205 2667137 BP1291 Bordetella pertussis Tohama I hypothetical protein NP_880058.1 1362678 D 257313 CDS NP_880059.1 33592415 2667138 1363339..1364154 1 NC_002929.2 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 1364154 2667138 BP1292 Bordetella pertussis Tohama I hypothetical protein NP_880059.1 1363339 D 257313 CDS NP_880060.1 33592416 2667139 complement(1364167..1365348) 1 NC_002929.2 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 1365348 lldD 2667139 lldD Bordetella pertussis Tohama I L-lactate dehydrogenase NP_880060.1 1364167 R 257313 CDS NP_880061.1 33592417 2667140 complement(1365396..1366289) 1 NC_002929.2 catalyzes the decarboxylation of phosphatidyl-L-serine to phosphatidylethanoleamine; phosphatidylserine decarboxylase 1366289 psd 2667140 psd Bordetella pertussis Tohama I phosphatidylserine decarboxylase NP_880061.1 1365396 R 257313 CDS NP_880062.1 33592418 2667141 complement(1366416..1366886) 1 NC_002929.2 no significant database matches; hypothetical protein 1366886 2667141 BP1295 Bordetella pertussis Tohama I hypothetical protein NP_880062.1 1366416 R 257313 CDS NP_880063.1 33592419 2665357 complement(1367012..1367839) 1 NC_002929.2 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 1367839 2665357 BP1296 Bordetella pertussis Tohama I lipoprotein NP_880063.1 1367012 R 257313 CDS NP_880064.1 33592420 2665358 complement(1367868..1368644) 1 NC_002929.2 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 1368644 2665358 BP1297 Bordetella pertussis Tohama I lipoate-protein ligase A NP_880064.1 1367868 R 257313 CDS NP_880065.1 33592421 2665359 complement(1368641..1368934) 1 NC_002929.2 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 1368934 2665359 BP1298 Bordetella pertussis Tohama I hypothetical protein NP_880065.1 1368641 R 257313 CDS NP_880066.1 33592422 2665360 complement(1368931..1369395) 1 NC_002929.2 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 1369395 2665360 BP1299 Bordetella pertussis Tohama I acetyltransferase NP_880066.1 1368931 R 257313 CDS NP_880067.1 33592423 2665361 complement(1369407..1370108) 1 NC_002929.2 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 1370108 2665361 BP1300 Bordetella pertussis Tohama I glutathione transferase NP_880067.1 1369407 R 257313 CDS NP_880068.1 33592424 2665373 complement(1370218..1370718) 1 NC_002929.2 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 1370718 2665373 BP1301 Bordetella pertussis Tohama I glutathione peroxidase NP_880068.1 1370218 R 257313 CDS NP_880069.1 33592425 2665374 complement(1370801..1371979) 1 NC_002929.2 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 1371979 2665374 BP1302 Bordetella pertussis Tohama I hypothetical protein NP_880069.1 1370801 R 257313 CDS NP_880070.1 33592426 2665376 1373607..1373942 1 NC_002929.2 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 1373942 2665376 BP1304 Bordetella pertussis Tohama I hypothetical protein NP_880070.1 1373607 D 257313 CDS NP_880071.1 33592427 2666082 1374130..1375578 1 NC_002929.2 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 1375578 2666082 BP1305 Bordetella pertussis Tohama I hypothetical protein NP_880071.1 1374130 D 257313 CDS NP_880072.1 33592428 2666083 1375615..1375980 1 NC_002929.2 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 1375980 arsC 2666083 arsC Bordetella pertussis Tohama I arsenate reductase NP_880072.1 1375615 D 257313 CDS NP_880073.1 33592429 2666084 complement(1376087..1376626) 1 NC_002929.2 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 1376626 2666084 BP1307 Bordetella pertussis Tohama I bacterioferritin comigratory protein NP_880073.1 1376087 R 257313 CDS NP_880074.1 33592430 2666085 complement(1376719..1377669) 1 NC_002929.2 transposase for IS481 element; transposase 1377669 2666085 BP1308 Bordetella pertussis Tohama I transposase NP_880074.1 1376719 R 257313 CDS NP_880075.1 33592431 2665099 complement(1379021..1379425) 1 NC_002929.2 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 1379425 2665099 BP1311 Bordetella pertussis Tohama I hypothetical protein NP_880075.1 1379021 R 257313 CDS NP_880076.1 33592432 2665101 1380662..1380985 1 NC_002929.2 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 1380985 2665101 BP1313 Bordetella pertussis Tohama I hypothetical protein NP_880076.1 1380662 D 257313 CDS NP_880077.1 33592433 2665102 complement(1380988..1381875) 1 NC_002929.2 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 1381875 2665102 BP1314 Bordetella pertussis Tohama I hypothetical protein NP_880077.1 1380988 R 257313 CDS NP_880078.1 33592434 2665103 complement(1381908..1382333) 1 NC_002929.2 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 1382333 2665103 BP1315 Bordetella pertussis Tohama I universal stress family protein NP_880078.1 1381908 R 257313 CDS NP_880079.1 33592435 2667348 complement(1382998..1383504) 1 NC_002929.2 no significant database matches; hypothetical protein 1383504 2667348 BP1318 Bordetella pertussis Tohama I hypothetical protein NP_880079.1 1382998 R 257313 CDS NP_880080.1 33592436 2665882 complement(1383543..1384874) 1 NC_002929.2 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 1384874 2665882 BP1319 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_880080.1 1383543 R 257313 CDS NP_880081.1 33592437 2665883 1384934..1385749 1 NC_002929.2 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 1385749 2665883 BP1320 Bordetella pertussis Tohama I hypothetical protein NP_880081.1 1384934 D 257313 CDS NP_880082.1 33592438 2665884 1385746..1386600 1 NC_002929.2 catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal; pyridoxal kinase 1386600 pdxK 2665884 pdxK Bordetella pertussis Tohama I pyridoxal kinase NP_880082.1 1385746 D 257313 CDS NP_880083.1 33592439 2665233 complement(1389663..1392206) 1 NC_002929.2 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 1392206 2665233 BP1323 Bordetella pertussis Tohama I alpha amylase NP_880083.1 1389663 R 257313 CDS NP_880084.1 33592440 2665200 complement(1393573..1395327) 1 NC_002929.2 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 1395327 2665200 BP1326 Bordetella pertussis Tohama I alpha amylase NP_880084.1 1393573 R 257313 CDS NP_880085.1 33592441 2665201 complement(1395324..1397444) 1 NC_002929.2 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 1397444 glgX 2665201 glgX Bordetella pertussis Tohama I glycosyl hydrolase NP_880085.1 1395324 R 257313 CDS NP_880086.1 33592442 2665202 complement(1397449..1399644) 1 NC_002929.2 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 1399644 glgB 2665202 glgB Bordetella pertussis Tohama I glycogen branching protein NP_880086.1 1397449 R 257313 CDS NP_880087.1 33592443 2665203 complement(1399641..1402982) 1 NC_002929.2 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 1402982 2665203 BP1329 Bordetella pertussis Tohama I alpha-glucosidase NP_880087.1 1399641 R 257313 CDS NP_880088.1 33592444 2665154 1405785..1406735 1 NC_002929.2 transposase for IS481 element; transposase 1406735 2665154 BP1332 Bordetella pertussis Tohama I transposase NP_880088.1 1405785 D 257313 CDS NP_880089.1 33592445 2664840 complement(1406801..1406980) 1 NC_002929.2 no significant database matches.; hypothetical protein 1406980 2664840 BP1333 Bordetella pertussis Tohama I hypothetical protein NP_880089.1 1406801 R 257313 CDS NP_880090.1 33592446 2664841 complement(1407097..1407819) 1 NC_002929.2 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 1407819 2664841 BP1334 Bordetella pertussis Tohama I hypothetical protein NP_880090.1 1407097 R 257313 CDS NP_880091.1 33592447 2665208 complement(1407839..1408984) 1 NC_002929.2 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 1408984 2665208 BP1335 Bordetella pertussis Tohama I hypothetical protein NP_880091.1 1407839 R 257313 CDS NP_880092.1 33592448 2665210 1409892..1410842 1 NC_002929.2 transposase for IS481 element; transposase 1410842 2665210 BP1337 Bordetella pertussis Tohama I transposase NP_880092.1 1409892 D 257313 CDS NP_880093.1 33592449 2665468 complement(1411030..1412232) 1 NC_002929.2 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 1412232 2665468 BP1339 Bordetella pertussis Tohama I cardiolipin synthase 2 NP_880093.1 1411030 R 257313 CDS NP_880094.1 33592450 2665469 complement(1412229..1412987) 1 NC_002929.2 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 1412987 2665469 BP1340 Bordetella pertussis Tohama I hypothetical protein NP_880094.1 1412229 R 257313 CDS NP_880095.1 33592451 2665471 1413381..1414013 1 NC_002929.2 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 1414013 2665471 BP1342 Bordetella pertussis Tohama I hypothetical protein NP_880095.1 1413381 D 257313 CDS NP_880096.1 33592452 2665473 1414969..1417569 1 NC_002929.2 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 1417569 2665473 BP1344 Bordetella pertussis Tohama I autotransporter NP_880096.1 1414969 D 257313 CDS NP_880097.1 33592453 2665139 complement(1417557..1420976) 1 NC_002929.2 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 1420976 2665139 BP1345 Bordetella pertussis Tohama I hypothetical protein NP_880097.1 1417557 R 257313 CDS NP_880098.1 33592454 2665140 complement(1420984..1421889) 1 NC_002929.2 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 1421889 2665140 BP1346 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880098.1 1420984 R 257313 CDS NP_880099.1 33592455 2665141 1422028..1422606 1 NC_002929.2 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 1422606 2665141 BP1347 Bordetella pertussis Tohama I reductase NP_880099.1 1422028 D 257313 CDS NP_880100.1 33592456 2665142 1422603..1423514 1 NC_002929.2 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 1423514 citE 2665142 citE Bordetella pertussis Tohama I citrate lyase subunit beta NP_880100.1 1422603 D 257313 CDS NP_880101.1 33592457 2665143 complement(1423528..1424208) 1 NC_002929.2 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 1424208 2665143 BP1349 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_880101.1 1423528 R 257313 CDS NP_880102.1 33592458 2665204 1424410..1426449 1 NC_002929.2 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 1426449 2665204 BP1350 Bordetella pertussis Tohama I acetyl-CoA synthetase NP_880102.1 1424410 D 257313 CDS NP_880103.1 33592459 2665206 1427481..1428278 1 NC_002929.2 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 1428278 2665206 BP1352 Bordetella pertussis Tohama I citrate synthase NP_880103.1 1427481 D 257313 CDS NP_880104.1 33592460 2665207 1428275..1429468 1 NC_002929.2 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 1429468 2665207 BP1353 Bordetella pertussis Tohama I hypothetical protein NP_880104.1 1428275 D 257313 CDS NP_880105.1 33592461 2665398 1429465..1430427 1 NC_002929.2 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 1430427 2665398 BP1354 Bordetella pertussis Tohama I hypothetical protein NP_880105.1 1429465 D 257313 CDS NP_880106.1 33592462 2665399 complement(1430445..1431485) 1 NC_002929.2 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 1431485 2665399 BP1355 Bordetella pertussis Tohama I LacI family transcriptional regulator NP_880106.1 1430445 R 257313 CDS NP_880107.1 33592463 2665400 complement(1431473..1432081) 1 NC_002929.2 catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D; isopropylmalate isomerase small subunit 1432081 leuD 2665400 leuD Bordetella pertussis Tohama I isopropylmalate isomerase small subunit NP_880107.1 1431473 R 257313 CDS NP_880108.1 33592464 2665151 1433670..1434665 1 NC_002929.2 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 1434665 2665151 BP1358 Bordetella pertussis Tohama I hypothetical protein NP_880108.1 1433670 D 257313 CDS NP_880109.1 33592465 2665152 1434685..1435863 1 NC_002929.2 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 1435863 2665152 BP1359 Bordetella pertussis Tohama I mandelate racemase NP_880109.1 1434685 D 257313 CDS NP_880110.1 33592466 2665155 1435874..1436791 1 NC_002929.2 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 1436791 2665155 BP1360 Bordetella pertussis Tohama I ketopantoate reductase NP_880110.1 1435874 D 257313 CDS NP_880111.1 33592467 2665156 complement(1436847..1437797) 1 NC_002929.2 transposase for IS481 element; transposase 1437797 2665156 BP1361 Bordetella pertussis Tohama I transposase NP_880111.1 1436847 R 257313 CDS NP_880112.1 33592468 2665276 complement(1437896..1438666) 1 NC_002929.2 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 1438666 2665276 BP1362 Bordetella pertussis Tohama I amino acid ABC transporter ATP-binding protein NP_880112.1 1437896 R 257313 CDS NP_880113.1 33592469 2665277 complement(1438663..1439343) 1 NC_002929.2 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 1439343 2665277 BP1363 Bordetella pertussis Tohama I amino acid ABC transporter permease NP_880113.1 1438663 R 257313 CDS NP_880114.1 33592470 2665278 complement(1439410..1440198) 1 NC_002929.2 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 1440198 2665278 BP1364 Bordetella pertussis Tohama I amino acid ABC transporter substrate-binding protein NP_880114.1 1439410 R 257313 CDS NP_880115.1 33592471 2665366 complement(1440445..1441461) 1 NC_002929.2 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 1441461 2665366 BP1365 Bordetella pertussis Tohama I transposase for IS1663 NP_880115.1 1440445 R 257313 CDS NP_880116.1 33592472 2665367 1441767..1442921 1 NC_002929.2 membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export; flagellar biosynthesis protein FlhB 1442921 flhB 2665367 flhB Bordetella pertussis Tohama I flagellar biosynthesis protein FlhB NP_880116.1 1441767 D 257313 CDS NP_880117.1 33592473 2665286 complement(1447427..1447909) 1 NC_002929.2 Similar to Pseudomonas aeruginosa FlgN TR:AAK31637 (EMBL:AY029221) (156 aa) fasta scores: E(): 3.5, 28.16% id in 142 aa; hypothetical protein 1447909 2665286 BP1370 Bordetella pertussis Tohama I hypothetical protein NP_880117.1 1447427 R 257313 CDS NP_880118.1 33592474 2665287 complement(1447927..1448217) 1 NC_002929.2 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 1448217 flgM 2665287 flgM Bordetella pertussis Tohama I negative regulator of flagellin synthesis NP_880118.1 1447927 R 257313 CDS NP_880119.1 33592475 2665288 complement(1448344..1449054) 1 NC_002929.2 required for the assembly of the flagellar basal body P-ring; flagellar basal body P-ring biosynthesis protein FlgA 1449054 flgA 2665288 flgA Bordetella pertussis Tohama I flagellar basal body P-ring biosynthesis protein FlgA NP_880119.1 1448344 R 257313 CDS NP_880120.1 33592476 2665289 1449238..1449645 1 NC_002929.2 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 1449645 flgB 2665289 flgB Bordetella pertussis Tohama I flagellar basal-body rod protein FlgB NP_880120.1 1449238 D 257313 CDS NP_880121.1 33592477 2665290 1449658..1450077 1 NC_002929.2 with FlgF and B makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgC 1450077 flgC 2665290 flgC Bordetella pertussis Tohama I flagellar basal body rod protein FlgC NP_880121.1 1449658 D 257313 CDS NP_880122.1 33592478 2665291 1450125..1450829 1 NC_002929.2 acts as a scaffold for the assembly of hook proteins onto the flagellar basal body rod; flagellar basal body rod modification protein 1450829 flgD 2665291 flgD Bordetella pertussis Tohama I flagellar basal body rod modification protein NP_880122.1 1450125 D 257313 CDS NP_880123.1 33592479 2665095 1450895..1452316 1 NC_002929.2 the hook connects flagellar basal body to the flagellar filament; flagellar hook protein FlgE 1452316 flgE 2665095 flgE Bordetella pertussis Tohama I flagellar hook protein FlgE NP_880123.1 1450895 D 257313 CDS NP_880124.1 33592480 2665096 1452355..1453119 1 NC_002929.2 FlgF, with FlgB and C, makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgF 1453119 flgF 2665096 flgF Bordetella pertussis Tohama I flagellar basal body rod protein FlgF NP_880124.1 1452355 D 257313 CDS NP_880125.1 33592481 2665097 1453163..1453948 1 NC_002929.2 makes up the distal portion of the flagellar basal body rod; flagellar basal body rod protein FlgG 1453948 flgG 2665097 flgG Bordetella pertussis Tohama I flagellar basal body rod protein FlgG NP_880125.1 1453163 D 257313 CDS NP_880126.1 33592482 2665098 1453948..1454637 1 NC_002929.2 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 1454637 flgH 2665098 flgH Bordetella pertussis Tohama I flagellar basal body L-ring protein NP_880126.1 1453948 D 257313 CDS NP_880127.1 33592483 2665179 1454640..1455773 1 NC_002929.2 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 1455773 flgI 2665179 flgI Bordetella pertussis Tohama I flagellar basal body P-ring protein NP_880127.1 1454640 D 257313 CDS NP_880128.1 33592484 2665180 1455791..1456813 1 NC_002929.2 Flagellum-specific muramidase which hydrolyzes the peptidoglycan layer to assemble the rod structure in the periplasmic space; flagellar rod assembly protein FlgJ 1456813 flgJ 2665180 flgJ Bordetella pertussis Tohama I flagellar rod assembly protein FlgJ NP_880128.1 1455791 D 257313 CDS NP_880129.1 33592485 2665181 1456883..1458529 1 NC_002929.2 with FlgL acts as a hook filament junction protein to join the flagellar filament to the hook; flagellar hook-associated protein FlgK 1458529 flgK 2665181 flgK Bordetella pertussis Tohama I flagellar hook-associated protein FlgK NP_880129.1 1456883 D 257313 CDS NP_880130.1 33592486 2665182 1458563..1460095 1 NC_002929.2 With FlgK acts as a hook filament junction protein to join the flagellar filament to the hook; flagellar hook-associated protein FlgL 1460095 flgL 2665182 flgL Bordetella pertussis Tohama I flagellar hook-associated protein FlgL NP_880130.1 1458563 D 257313 CDS NP_880131.1 33592487 2665057 1460174..1461994 1 NC_002929.2 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 1461994 tsr 2665057 tsr Bordetella pertussis Tohama I methyl-accepting chemotaxis protein I NP_880131.1 1460174 D 257313 CDS NP_880132.1 33592488 2665058 1462115..1463734 1 NC_002929.2 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 1463734 tar 2665058 tar Bordetella pertussis Tohama I methyl-accepting chemotaxis protein II NP_880132.1 1462115 D 257313 CDS NP_880133.1 33592489 2667427 1465570..1466586 1 NC_002929.2 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 1466586 2667427 BP1388 Bordetella pertussis Tohama I transposase for IS1663 NP_880133.1 1465570 D 257313 CDS NP_880134.1 33592490 2665338 complement(1466633..1467421) 1 NC_002929.2 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 1467421 fliR 2665338 fliR Bordetella pertussis Tohama I flagellar biosynthetic protein FliR NP_880134.1 1466633 R 257313 CDS NP_880135.1 33592491 2665339 complement(1467444..1467713) 1 NC_002929.2 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 1467713 fliQ 2665339 fliQ Bordetella pertussis Tohama I flagellar biosynthetic protein FliQ NP_880135.1 1467444 R 257313 CDS NP_880136.1 33592492 2665340 complement(1467730..1468464) 1 NC_002929.2 FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliP 1468464 fliP 2665340 fliP Bordetella pertussis Tohama I flagellar biosynthesis protein FliP NP_880136.1 1467730 R 257313 CDS NP_880137.1 33592493 2665383 complement(1468533..1468874) 1 NC_002929.2 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 1468874 fliO 2665383 fliO Bordetella pertussis Tohama I flagellar protein FliO NP_880137.1 1468533 R 257313 CDS NP_880138.1 33592494 2665384 complement(1468885..1469385) 1 NC_002929.2 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 1469385 fliN 2665384 fliN Bordetella pertussis Tohama I flagellar motor switch protein FliN NP_880138.1 1468885 R 257313 CDS NP_880139.1 33592495 2665385 complement(1469378..1470388) 1 NC_002929.2 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 1470388 fliM 2665385 fliM Bordetella pertussis Tohama I flagellar motor switch protein FliM NP_880139.1 1469378 R 257313 CDS NP_880140.1 33592496 2665133 complement(1470391..1470939) 1 NC_002929.2 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 1470939 fliL 2665133 fliL Bordetella pertussis Tohama I flagellar protein FliL NP_880140.1 1470391 R 257313 CDS NP_880141.1 33592497 2665135 complement(1471333..1472283) 1 NC_002929.2 transposase for IS481 element; transposase 1472283 2665135 BP1397 Bordetella pertussis Tohama I transposase NP_880141.1 1471333 R 257313 CDS NP_880142.1 33592498 2665502 complement(1473485..1473931) 1 NC_002929.2 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 1473931 fliJ 2665502 fliJ Bordetella pertussis Tohama I flagellar protein FliJ NP_880142.1 1473485 R 257313 CDS NP_880143.1 33592499 2665503 complement(1473924..1475357) 1 NC_002929.2 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 1475357 fliI 2665503 fliI Bordetella pertussis Tohama I flagellum-specific ATP synthase FliI NP_880143.1 1473924 R 257313 CDS NP_880144.1 33592500 2665280 complement(1475396..1476151) 1 NC_002929.2 binds to and inhibits the function of flagella specific ATPase FliI; flagellar assembly protein H 1476151 fliH 2665280 fliH Bordetella pertussis Tohama I flagellar assembly protein H NP_880144.1 1475396 R 257313 CDS NP_880145.1 33592501 2665281 complement(1476144..1477154) 1 NC_002929.2 One of three proteins involved in switching the direction of the flagellar rotation; flagellar motor switch protein G 1477154 fliG 2665281 fliG Bordetella pertussis Tohama I flagellar motor switch protein G NP_880145.1 1476144 R 257313 CDS NP_880146.1 33592502 2665282 complement(1477144..1478820) 1 NC_002929.2 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 1478820 fliF 2665282 fliF Bordetella pertussis Tohama I flagellar MS-ring protein NP_880146.1 1477144 R 257313 CDS NP_880147.1 33592503 2665283 1479133..1479465 1 NC_002929.2 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 1479465 fliE 2665283 fliE Bordetella pertussis Tohama I flagellar hook-basal body complex protein FliE NP_880147.1 1479133 D 257313 CDS NP_880148.1 33592504 2665284 complement(1479479..1479874) 1 NC_002929.2 no significant database matches; hypothetical protein 1479874 2665284 BP1405 Bordetella pertussis Tohama I hypothetical protein NP_880148.1 1479479 R 257313 CDS NP_880149.1 33592505 2667022 complement(1479884..1480210) 1 NC_002929.2 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 1480210 2667022 BP1406 Bordetella pertussis Tohama I flagellar protein NP_880149.1 1479884 R 257313 CDS NP_880150.1 33592506 2667024 complement(1481479..1481829) 1 NC_002929.2 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 1481829 fliT 2667024 fliT Bordetella pertussis Tohama I flagellar protein FliT NP_880150.1 1481479 R 257313 CDS NP_880151.1 33592507 2667025 complement(1481877..1482305) 1 NC_002929.2 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 1482305 fliS 2667025 fliS Bordetella pertussis Tohama I flagellar protein FliS NP_880151.1 1481877 R 257313 CDS NP_880152.1 33592508 2667026 complement(1482313..1483686) 1 NC_002929.2 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 1483686 fliD 2667026 fliD Bordetella pertussis Tohama I flagellar hook-associated protein 2 NP_880152.1 1482313 R 257313 CDS NP_880153.1 33592509 2667027 complement(1483827..1484204) 1 NC_002929.2 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 1484204 flaG 2667027 flaG Bordetella pertussis Tohama I flagellar protein NP_880153.1 1483827 R 257313 CDS NP_880154.1 33592510 2667028 1484467..1485774 1 NC_002929.2 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 1485774 folC 2667028 folC Bordetella pertussis Tohama I bifunctional folylpolyglutamate synthase/dihydrofolate synthase FolC NP_880154.1 1484467 D 257313 CDS NP_880155.1 33592511 2665130 1485967..1486665 1 NC_002929.2 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 1486665 2665130 BP1413 Bordetella pertussis Tohama I hypothetical protein NP_880155.1 1485967 D 257313 CDS NP_880156.1 33592512 2665131 1486662..1487150 1 NC_002929.2 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 1487150 cvpA 2665131 cvpA Bordetella pertussis Tohama I colicin V production protein NP_880156.1 1486662 D 257313 CDS NP_880157.1 33592513 2665132 1487192..1488712 1 NC_002929.2 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway; amidophosphoribosyltransferase 1488712 purF 2665132 purF Bordetella pertussis Tohama I amidophosphoribosyltransferase NP_880157.1 1487192 D 257313 CDS NP_880158.1 33592514 2667681 complement(1488756..1489232) 1 NC_002929.2 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 1489232 dsbB 2667681 dsbB Bordetella pertussis Tohama I disulfide bond formation protein B NP_880158.1 1488756 R 257313 CDS NP_880159.1 33592515 2667683 complement(1490036..1492633) 1 NC_002929.2 catalyzes the uridylylation or deuridylylation of the PII nitrogen regulatory protein; PII uridylyl-transferase 1492633 glnD 2667683 glnD Bordetella pertussis Tohama I PII uridylyl-transferase NP_880159.1 1490036 R 257313 CDS NP_880160.1 33592516 2666445 complement(1492663..1493484) 1 NC_002929.2 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 1493484 map 2666445 map Bordetella pertussis Tohama I methionine aminopeptidase NP_880160.1 1492663 R 257313 CDS NP_880161.1 33592517 2666446 1494211..1494960 1 NC_002929.2 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 1494960 rpsB 2666446 rpsB Bordetella pertussis Tohama I 30S ribosomal protein S2 NP_880161.1 1494211 D 257313 CDS NP_880162.1 33592518 2666447 1495144..1496022 1 NC_002929.2 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 1496022 tsf 2666447 tsf Bordetella pertussis Tohama I elongation factor Ts NP_880162.1 1495144 D 257313 CDS NP_880163.1 33592519 2665415 1496120..1496836 1 NC_002929.2 Catalyzes the phosphorylation of UMP to UDP; uridylate kinase 1496836 pyrH 2665415 pyrH Bordetella pertussis Tohama I uridylate kinase NP_880163.1 1496120 D 257313 CDS NP_880164.1 33592520 2665416 1496851..1497411 1 NC_002929.2 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 1497411 frr 2665416 frr Bordetella pertussis Tohama I ribosome recycling factor NP_880164.1 1496851 D 257313 CDS NP_880165.1 33592521 2665417 1497578..1498342 1 NC_002929.2 catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate; undecaprenyl pyrophosphate synthase 1498342 uppS 2665417 uppS Bordetella pertussis Tohama I undecaprenyl pyrophosphate synthase NP_880165.1 1497578 D 257313 CDS NP_880166.1 33592522 2665418 1498362..1499219 1 NC_002929.2 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 1499219 cdsA 2665418 cdsA Bordetella pertussis Tohama I phosphatidate cytidylyltransferase NP_880166.1 1498362 D 257313 CDS NP_880167.1 33592523 2665122 1499216..1500415 1 NC_002929.2 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 1500415 dxr 2665122 dxr Bordetella pertussis Tohama I 1-deoxy-D-xylulose 5-phosphate reductoisomerase NP_880167.1 1499216 D 257313 CDS NP_880168.1 33592524 2665123 1500455..1501789 1 NC_002929.2 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 1501789 2665123 BP1426 Bordetella pertussis Tohama I hypothetical protein NP_880168.1 1500455 D 257313 CDS NP_880169.1 33592525 2665124 1501842..1504178 1 NC_002929.2 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 1504178 2665124 BP1427 Bordetella pertussis Tohama I surface antigen NP_880169.1 1501842 D 257313 CDS NP_880170.1 33592526 2665274 1504304..1504867 1 NC_002929.2 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 1504867 2665274 BP1428 Bordetella pertussis Tohama I outer membrane protein NP_880170.1 1504304 D 257313 CDS NP_880171.1 33592527 2665275 1504876..1505967 1 NC_002929.2 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 1505967 lpxD 2665275 lpxD Bordetella pertussis Tohama I UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase NP_880171.1 1504876 D 257313 CDS NP_880172.1 33592528 2665348 1506039..1506494 1 NC_002929.2 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 1506494 fabZ 2665348 fabZ Bordetella pertussis Tohama I (3R)-hydroxymyristoyl-ACP dehydratase NP_880172.1 1506039 D 257313 CDS NP_880173.1 33592529 2665349 1506495..1507289 1 NC_002929.2 catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis; UDP-N-acetylglucosamine acyltransferase 1507289 lpxA 2665349 lpxA Bordetella pertussis Tohama I UDP-N-acetylglucosamine acyltransferase NP_880173.1 1506495 D 257313 CDS NP_880174.1 33592530 2665364 1507286..1508467 1 NC_002929.2 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 1508467 lpxB 2665364 lpxB Bordetella pertussis Tohama I lipid-A-disaccharide synthase NP_880174.1 1507286 D 257313 CDS NP_880175.1 33592531 2665365 1508454..1509059 1 NC_002929.2 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids; ribonuclease HII 1509059 rnhB 2665365 rnhB Bordetella pertussis Tohama I ribonuclease HII NP_880175.1 1508454 D 257313 CDS NP_880176.1 33592532 2665929 1509056..1509829 1 NC_002929.2 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 1509829 2665929 BP1434 Bordetella pertussis Tohama I RNA methyltransferase NP_880176.1 1509056 D 257313 CDS NP_880177.1 33592533 2665930 complement(1509841..1510668) 1 NC_002929.2 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 1510668 2665930 BP1435 Bordetella pertussis Tohama I hypothetical protein NP_880177.1 1509841 R 257313 CDS NP_880178.1 33592534 2665931 1510830..1513193 1 NC_002929.2 catalyzes the formation of phosphoenolpyruvate from pyruvate; phosphoenolpyruvate synthase 1513193 ppsA 2665931 ppsA Bordetella pertussis Tohama I phosphoenolpyruvate synthase NP_880178.1 1510830 D 257313 CDS NP_880179.1 33592535 2665932 complement(1513261..1513980) 1 NC_002929.2 Catalyzes the transfer of the ammonia group from glutamine to a new carbon-nitrogen group; glutamine amidotransferase 1513980 2665932 BP1437 Bordetella pertussis Tohama I glutamine amidotransferase NP_880179.1 1513261 R 257313 CDS NP_880180.1 33592536 2665933 1514104..1514529 1 NC_002929.2 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 1514529 2665933 BP1438 Bordetella pertussis Tohama I hypothetical protein NP_880180.1 1514104 D 257313 CDS NP_880181.1 33592537 2665934 complement(1514564..1515514) 1 NC_002929.2 transposase for IS481 element; transposase 1515514 2665934 BP1439 Bordetella pertussis Tohama I transposase NP_880181.1 1514564 R 257313 CDS NP_880182.1 33592538 2665935 1515632..1516558 1 NC_002929.2 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 1516558 2665935 BP1440 Bordetella pertussis Tohama I hypothetical protein NP_880182.1 1515632 D 257313 CDS NP_880183.1 33592539 2665936 1516624..1517781 1 NC_002929.2 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 1517781 2665936 BP1441 Bordetella pertussis Tohama I hypothetical protein NP_880183.1 1516624 D 257313 CDS NP_880184.1 33592540 2665937 complement(1517762..1518229) 1 NC_002929.2 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 1518229 smpB 2665937 smpB Bordetella pertussis Tohama I SsrA-binding protein NP_880184.1 1517762 R 257313 CDS NP_880185.1 33592541 2665938 1518295..1518729 1 NC_002929.2 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 1518729 2665938 BP1443 Bordetella pertussis Tohama I hypothetical protein NP_880185.1 1518295 D 257313 CDS NP_880186.1 33592542 2665939 1518758..1519069 1 NC_002929.2 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 1519069 2665939 BP1444 Bordetella pertussis Tohama I hypothetical protein NP_880186.1 1518758 D 257313 CDS NP_880187.1 33592543 2665940 1519266..1520420 1 NC_002929.2 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 1520420 2665940 BP1445 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_880187.1 1519266 D 257313 CDS NP_880188.1 33592544 2665941 1520417..1521589 1 NC_002929.2 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 1521589 2665941 BP1446 Bordetella pertussis Tohama I enoly-CoA hydratase NP_880188.1 1520417 D 257313 CDS NP_880189.1 33592545 2665942 1521637..1522530 1 NC_002929.2 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 1522530 mmsB 2665942 mmsB Bordetella pertussis Tohama I 3-hydroxyisobutyrate dehydrogenase NP_880189.1 1521637 D 257313 CDS NP_880190.1 33592546 2665943 1522576..1523013 1 NC_002929.2 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 1523013 2665943 BP1448 Bordetella pertussis Tohama I hypothetical protein NP_880190.1 1522576 D 257313 CDS NP_880191.1 33592547 2665944 1523073..1523762 1 NC_002929.2 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 1523762 2665944 BP1449 Bordetella pertussis Tohama I hypothetical protein NP_880191.1 1523073 D 257313 CDS NP_880192.1 33592548 2665945 complement(1523772..1524722) 1 NC_002929.2 transposase for IS481 element; transposase 1524722 2665945 BP1450 Bordetella pertussis Tohama I transposase NP_880192.1 1523772 R 257313 CDS NP_880193.1 33592549 2665946 complement(1524821..1525783) 1 NC_002929.2 Maintains the balance of metabolites in the pentose-phosphate pathway; transaldolase B 1525783 talB 2665946 talB Bordetella pertussis Tohama I transaldolase B NP_880193.1 1524821 R 257313 CDS NP_880194.1 33592550 2665947 1526067..1527164 1 NC_002929.2 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 1527164 carA 2665947 carA Bordetella pertussis Tohama I carbamoyl phosphate synthase small subunit NP_880194.1 1526067 D 257313 CDS NP_880195.1 33592551 2665948 1527175..1530417 1 NC_002929.2 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 1530417 carB 2665948 carB Bordetella pertussis Tohama I carbamoyl phosphate synthase large subunit NP_880195.1 1527175 D 257313 CDS NP_880196.1 33592552 2665786 complement(1531439..1532083) 1 NC_002929.2 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 1532083 gpmB 2665786 gpmB Bordetella pertussis Tohama I phosphoglycerate mutase NP_880196.1 1531439 R 257313 CDS NP_880197.1 33592553 2665787 complement(1532094..1532993) 1 NC_002929.2 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 1532993 2665787 BP1456 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880197.1 1532094 R 257313 CDS NP_880198.1 33592554 2665788 complement(1533041..1534126) 1 NC_002929.2 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 1534126 2665788 BP1457 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880198.1 1533041 R 257313 CDS NP_880199.1 33592555 2665789 complement(1534123..1535817) 1 NC_002929.2 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 1535817 2665789 BP1458 Bordetella pertussis Tohama I ABC transporter permease NP_880199.1 1534123 R 257313 CDS NP_880200.1 33592556 2665790 1535996..1536946 1 NC_002929.2 transposase for IS481 element; transposase 1536946 2665790 BP1459 Bordetella pertussis Tohama I transposase NP_880200.1 1535996 D 257313 CDS NP_880201.1 33592557 2665792 1538500..1539561 1 NC_002929.2 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis; chorismate synthase 1539561 aroC 2665792 aroC Bordetella pertussis Tohama I chorismate synthase NP_880201.1 1538500 D 257313 CDS NP_880202.1 33592558 2665793 1539595..1540431 1 NC_002929.2 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 1540431 2665793 BP1463 Bordetella pertussis Tohama I lipoprotein NP_880202.1 1539595 D 257313 CDS NP_880203.1 33592559 2665794 complement(1540441..1540983) 1 NC_002929.2 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 1540983 mobB 2665794 mobB Bordetella pertussis Tohama I molybdopterin-guanine dinucleotide biosynthesis protein B NP_880203.1 1540441 R 257313 CDS NP_880204.1 33592560 2665618 complement(1540997..1542289) 1 NC_002929.2 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 1542289 moeA 2665618 moeA Bordetella pertussis Tohama I molybdopterin biosynthesis protein NP_880204.1 1540997 R 257313 CDS NP_880205.1 33592561 2665619 complement(1542286..1542879) 1 NC_002929.2 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 1542879 mobA 2665619 mobA Bordetella pertussis Tohama I molybdopterin-guanine dinucleotide biosynthesis protein MobA NP_880205.1 1542286 R 257313 CDS NP_880206.1 33592562 2665620 1543032..1544129 1 NC_002929.2 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 1544129 2665620 BP1467 Bordetella pertussis Tohama I iron sulfur binding protein NP_880206.1 1543032 D 257313 CDS NP_880207.1 33592563 2665621 1544136..1544696 1 NC_002929.2 hypothetical protein 1544696 2665621 BP1468 Bordetella pertussis Tohama I hypothetical protein NP_880207.1 1544136 D 257313 CDS NP_880208.1 33592564 2665622 1544693..1545373 1 NC_002929.2 hypothetical protein 1545373 2665622 BP1469 Bordetella pertussis Tohama I hypothetical protein NP_880208.1 1544693 D 257313 CDS NP_880209.1 33592565 2665623 1545397..1547487 1 NC_002929.2 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 1547487 2665623 BP1470 Bordetella pertussis Tohama I iron-sulfur binding protein NP_880209.1 1545397 D 257313 CDS NP_880210.1 33592566 2665624 1547484..1548113 1 NC_002929.2 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 1548113 2665624 BP1471 Bordetella pertussis Tohama I hypothetical protein NP_880210.1 1547484 D 257313 CDS NP_880211.1 33592567 2665625 1548567..1551458 1 NC_002929.2 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 1551458 fdhA 2665625 fdhA Bordetella pertussis Tohama I formate dehydrogenase large subunit NP_880211.1 1548567 D 257313 CDS NP_880212.1 33592568 2665627 1552093..1552326 1 NC_002929.2 no significant database matches; lipoprotein 1552326 2665627 BP1474 Bordetella pertussis Tohama I lipoprotein NP_880212.1 1552093 D 257313 CDS NP_880213.1 33592569 2665628 1552339..1553496 1 NC_002929.2 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 1553496 fdhC 2665628 fdhC Bordetella pertussis Tohama I formate dehydrogenase subunit C NP_880213.1 1552339 D 257313 CDS NP_880214.1 33592570 2665629 1553519..1553893 1 NC_002929.2 no significant database matches; hypothetical protein 1553893 2665629 BP1476 Bordetella pertussis Tohama I hypothetical protein NP_880214.1 1553519 D 257313 CDS NP_880215.1 33592571 2665630 complement(1553927..1555042) 1 NC_002929.2 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 1555042 2665630 BP1477 Bordetella pertussis Tohama I hypothetical protein NP_880215.1 1553927 R 257313 CDS NP_880216.1 33592572 2665632 1555942..1556646 1 NC_002929.2 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 1556646 2665632 BP1479 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880216.1 1555942 D 257313 CDS NP_880217.1 33592573 2666596 1556643..1557461 1 NC_002929.2 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 1557461 2666596 BP1480 Bordetella pertussis Tohama I hypothetical protein NP_880217.1 1556643 D 257313 CDS NP_880218.1 33592574 2666597 1557745..1559148 1 NC_002929.2 dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; isopropylmalate isomerase large subunit 1559148 leuC 2666597 leuC Bordetella pertussis Tohama I isopropylmalate isomerase large subunit NP_880218.1 1557745 D 257313 CDS NP_880219.1 33592575 2666598 1559163..1559813 1 NC_002929.2 catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D; isopropylmalate isomerase small subunit 1559813 leuD 2666598 leuD Bordetella pertussis Tohama I isopropylmalate isomerase small subunit NP_880219.1 1559163 D 257313 CDS NP_880220.1 33592576 2666599 1559895..1560971 1 NC_002929.2 catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis; 3-isopropylmalate dehydrogenase 1560971 leuB 2666599 leuB Bordetella pertussis Tohama I 3-isopropylmalate dehydrogenase NP_880220.1 1559895 D 257313 CDS NP_880221.1 33592577 2666600 1561158..1562288 1 NC_002929.2 catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde; aspartate-semialdehyde dehydrogenase 1562288 asd 2666600 asd Bordetella pertussis Tohama I aspartate-semialdehyde dehydrogenase NP_880221.1 1561158 D 257313 CDS NP_880222.1 33592578 2665775 1562459..1564042 1 NC_002929.2 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 1564042 2665775 BP1485 Bordetella pertussis Tohama I hypothetical protein NP_880222.1 1562459 D 257313 CDS NP_880223.1 33592579 2665776 1564046..1564858 1 NC_002929.2 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability; tRNA pseudouridine synthase A 1564858 truA 2665776 truA Bordetella pertussis Tohama I tRNA pseudouridine synthase A NP_880223.1 1564046 D 257313 CDS NP_880224.1 33592580 2665777 1565003..1566097 1 NC_002929.2 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 1566097 smoM 2665777 smoM Bordetella pertussis Tohama I mannitol ABC transporter substrate-binding protein NP_880224.1 1565003 D 257313 CDS NP_880225.1 33592581 2665778 1566309..1566938 1 NC_002929.2 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 1566938 2665778 BP1488 Bordetella pertussis Tohama I hypothetical protein NP_880225.1 1566309 D 257313 CDS NP_880226.1 33592582 2665779 1566941..1568608 1 NC_002929.2 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 1568608 2665779 BP1489 Bordetella pertussis Tohama I hypothetical protein NP_880226.1 1566941 D 257313 CDS NP_880227.1 33592583 2665795 1568623..1569279 1 NC_002929.2 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 1569279 trpF 2665795 trpF Bordetella pertussis Tohama I N-(5'-phosphoribosyl)anthranilate isomerase NP_880227.1 1568623 D 257313 CDS NP_880228.1 33592584 2665796 1569759..1570709 1 NC_002929.2 transposase for IS481 element; transposase 1570709 2665796 BP1491 Bordetella pertussis Tohama I transposase NP_880228.1 1569759 D 257313 CDS NP_880229.1 33592585 2665797 1570741..1571838 1 NC_002929.2 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 1571838 2665797 BP1492 Bordetella pertussis Tohama I hypothetical protein NP_880229.1 1570741 D 257313 CDS NP_880230.1 33592586 2665798 complement(1571835..1572785) 1 NC_002929.2 transposase for IS481 element; transposase 1572785 2665798 BP1493 Bordetella pertussis Tohama I transposase NP_880230.1 1571835 R 257313 CDS NP_880231.1 33592587 2665800 complement(1573207..1573599) 1 NC_002929.2 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 1573599 2665800 BP1495 Bordetella pertussis Tohama I hypothetical protein NP_880231.1 1573207 R 257313 CDS NP_880232.1 33592588 2665801 complement(1573605..1574264) 1 NC_002929.2 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 1574264 2665801 BP1496 Bordetella pertussis Tohama I two-component response regulator NP_880232.1 1573605 R 257313 CDS NP_880233.1 33592589 2665802 1574769..1576718 1 NC_002929.2 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 1576718 thrS 2665802 thrS Bordetella pertussis Tohama I threonyl-tRNA synthetase NP_880233.1 1574769 D 257313 CDS NP_880234.1 33592590 2665803 1576790..1577284 1 NC_002929.2 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 1577284 infC 2665803 infC Bordetella pertussis Tohama I translation initiation factor IF-3 NP_880234.1 1576790 D 257313 CDS NP_880235.1 33592591 2665804 1577421..1578377 1 NC_002929.2 catalyzes the second step in the glutathione biosynthesis pathway, where it synthesizes ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione; glutathione synthetase 1578377 gshB 2665804 gshB Bordetella pertussis Tohama I glutathione synthetase NP_880235.1 1577421 D 257313 CDS NP_880236.1 33592592 2665805 1578388..1578786 1 NC_002929.2 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 1578786 2665805 BP1500 Bordetella pertussis Tohama I PTS system sugar transporter subunit IIA NP_880236.1 1578388 D 257313 CDS NP_880237.1 33592593 2665758 1578902..1579171 1 NC_002929.2 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 1579171 ptsH 2665758 ptsH Bordetella pertussis Tohama I phosphocarrier protein HPr NP_880237.1 1578902 D 257313 CDS NP_880238.1 33592594 2665759 1579293..1580987 1 NC_002929.2 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 1580987 ptsI 2665759 ptsI Bordetella pertussis Tohama I phosphoenolpyruvate-protein phosphotransferase NP_880238.1 1579293 D 257313 CDS NP_880239.1 33592595 2665760 complement(1581152..1581376) 1 NC_002929.2 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 1581376 2665760 BP1503 Bordetella pertussis Tohama I hypothetical protein NP_880239.1 1581152 R 257313 CDS NP_880240.1 33592596 2666601 1581975..1582925 1 NC_002929.2 catalyzes the formation of L-proline from L-ornithine; ornithine cyclodeaminase 1582925 2666601 BP1505 Bordetella pertussis Tohama I ornithine cyclodeaminase NP_880240.1 1581975 D 257313 CDS NP_880241.1 33592597 2666602 1582967..1584127 1 NC_002929.2 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 1584127 2666602 BP1506 Bordetella pertussis Tohama I amino acid ABC transporter substrate-binding protein NP_880241.1 1582967 D 257313 CDS NP_880242.1 33592598 2666603 1584288..1585208 1 NC_002929.2 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 1585208 2666603 BP1507 Bordetella pertussis Tohama I extracellular solute-binding protein NP_880242.1 1584288 D 257313 CDS NP_880243.1 33592599 2666604 1585221..1585862 1 NC_002929.2 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 1585862 2666604 BP1508 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_880243.1 1585221 D 257313 CDS NP_880244.1 33592600 2666605 1585859..1586530 1 NC_002929.2 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 1586530 2666605 BP1509 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_880244.1 1585859 D 257313 CDS NP_880245.1 33592601 2667221 1586527..1587297 1 NC_002929.2 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 1587297 2667221 BP1510 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880245.1 1586527 D 257313 CDS NP_880246.1 33592602 2667222 1587396..1588346 1 NC_002929.2 transposase for IS481 element; transposase 1588346 2667222 BP1511 Bordetella pertussis Tohama I transposase NP_880246.1 1587396 D 257313 CDS NP_880247.1 33592603 2667223 complement(1588563..1588967) 1 NC_002929.2 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 1588967 2667223 BP1512 Bordetella pertussis Tohama I hypothetical protein NP_880247.1 1588563 R 257313 CDS NP_880248.1 33592604 2667224 complement(1589041..1590231) 1 NC_002929.2 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 1590231 2667224 BP1513 Bordetella pertussis Tohama I formate dehydrogenase NP_880248.1 1589041 R 257313 CDS NP_880249.1 33592605 2667225 complement(1590265..1590591) 1 NC_002929.2 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 1590591 2667225 BP1514 Bordetella pertussis Tohama I hypothetical protein NP_880249.1 1590265 R 257313 CDS NP_880250.1 33592606 2667226 complement(1590614..1591129) 1 NC_002929.2 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 1591129 2667226 BP1515 Bordetella pertussis Tohama I transporter protein NP_880250.1 1590614 R 257313 CDS NP_880251.1 33592607 2667227 complement(1591188..1592414) 1 NC_002929.2 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 1592414 fmdA 2667227 fmdA Bordetella pertussis Tohama I formamidase NP_880251.1 1591188 R 257313 CDS NP_880252.1 33592608 2667228 complement(1592592..1593722) 1 NC_002929.2 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 1593722 2667228 BP1517 Bordetella pertussis Tohama I LuxR family transcriptional regulator NP_880252.1 1592592 R 257313 CDS NP_880253.1 33592609 2667229 1593978..1594538 1 NC_002929.2 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 1594538 2667229 BP1518 Bordetella pertussis Tohama I hypothetical protein NP_880253.1 1593978 D 257313 CDS NP_880254.1 33592610 2667230 1594675..1595739 1 NC_002929.2 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 1595739 fba 2667230 fba Bordetella pertussis Tohama I fructose-1,6-bisphosphate aldolase NP_880254.1 1594675 D 257313 CDS NP_880255.1 33592611 2667231 complement(1595824..1596270) 1 NC_002929.2 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 1596270 2667231 BP1520 Bordetella pertussis Tohama I hypothetical protein NP_880255.1 1595824 R 257313 CDS NP_880256.1 33592612 2667232 1596495..1597376 1 NC_002929.2 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 1597376 hemH 2667232 hemH Bordetella pertussis Tohama I phosphoribosylaminoimidazole-succinocarboxamide synthase NP_880256.1 1596495 D 257313 CDS NP_880257.1 33592613 2667233 1597509..1597682 1 NC_002929.2 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 1597682 2667233 BP1522 Bordetella pertussis Tohama I hypothetical protein NP_880257.1 1597509 D 257313 CDS NP_880258.1 33592614 2666818 1597685..1598086 1 NC_002929.2 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 1598086 2666818 BP1523 Bordetella pertussis Tohama I DNA-binding protein NP_880258.1 1597685 D 257313 CDS NP_880259.1 33592615 2666819 1598106..1598342 1 NC_002929.2 no significant database matches; hypothetical protein 1598342 2666819 BP1524 Bordetella pertussis Tohama I hypothetical protein NP_880259.1 1598106 D 257313 CDS NP_880260.1 33592616 2666820 1598350..1598829 1 NC_002929.2 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 1598829 2666820 BP1525 Bordetella pertussis Tohama I hypothetical protein NP_880260.1 1598350 D 257313 CDS NP_880261.1 33592617 2666821 1599015..1599494 1 NC_002929.2 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 1599494 purE 2666821 purE Bordetella pertussis Tohama I phosphoribosylaminoimidazole carboxylase catalytic subunit NP_880261.1 1599015 D 257313 CDS NP_880262.1 33592618 2666822 1599497..1600687 1 NC_002929.2 With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway; phosphoribosylaminoimidazole carboxylase ATPase subunit 1600687 purK 2666822 purK Bordetella pertussis Tohama I phosphoribosylaminoimidazole carboxylase ATPase subunit NP_880262.1 1599497 D 257313 CDS NP_880263.1 33592619 2666823 1600692..1601744 1 NC_002929.2 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 1601744 2666823 BP1528 Bordetella pertussis Tohama I hypothetical protein NP_880263.1 1600692 D 257313 CDS NP_880264.1 33592620 2666824 1601881..1602903 1 NC_002929.2 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 1602903 2666824 BP1529 Bordetella pertussis Tohama I amino acid ABC transporter substrate-binding protein NP_880264.1 1601881 D 257313 CDS NP_880265.1 33592621 2666825 1602995..1603831 1 NC_002929.2 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 1603831 2666825 BP1530 Bordetella pertussis Tohama I transcriptional regulator NP_880265.1 1602995 D 257313 CDS NP_880266.1 33592622 2666826 1604024..1604929 1 NC_002929.2 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 1604929 2666826 BP1531 Bordetella pertussis Tohama I arginase NP_880266.1 1604024 D 257313 CDS NP_880267.1 33592623 2666797 1604956..1605747 1 NC_002929.2 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 1605747 2666797 BP1532 Bordetella pertussis Tohama I amino acid ABC transporter substrate-binding protein NP_880267.1 1604956 D 257313 CDS NP_880268.1 33592624 2666798 1605770..1606462 1 NC_002929.2 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 1606462 2666798 BP1533 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_880268.1 1605770 D 257313 CDS NP_880269.1 33592625 2666799 1606484..1607236 1 NC_002929.2 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 1607236 2666799 BP1534 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880269.1 1606484 D 257313 CDS NP_880270.1 33592626 2666800 1607365..1608924 1 NC_002929.2 thiamine-pyrophosphate requiring enzyme; hypothetical protein 1608924 2666800 BP1535 Bordetella pertussis Tohama I hypothetical protein NP_880270.1 1607365 D 257313 CDS NP_880271.1 33592627 2666805 1609058..1609501 1 NC_002929.2 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 1609501 2666805 BP1536 Bordetella pertussis Tohama I hypothetical protein NP_880271.1 1609058 D 257313 CDS NP_880272.1 33592628 2666806 complement(1609639..1610832) 1 NC_002929.2 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 1610832 gcdH 2666806 gcdH Bordetella pertussis Tohama I glutaryl-CoA dehydrogenase NP_880272.1 1609639 R 257313 CDS NP_880273.1 33592629 2666807 complement(1610912..1612606) 1 NC_002929.2 catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; also known as acetolactate synthase large subunit; thiamine pyrophosphate protein 1612606 ilvG 2666807 ilvG Bordetella pertussis Tohama I thiamine pyrophosphate protein NP_880273.1 1610912 R 257313 CDS NP_880274.1 33592630 2666808 1612764..1613651 1 NC_002929.2 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 1613651 2666808 BP1539 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880274.1 1612764 D 257313 CDS NP_880275.1 33592631 2666827 1613689..1614621 1 NC_002929.2 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 1614621 xerD 2666827 xerD Bordetella pertussis Tohama I site-specific tyrosine recombinase XerD NP_880275.1 1613689 D 257313 CDS NP_880276.1 33592632 2666828 1614635..1615123 1 NC_002929.2 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 1615123 2666828 BP1541 Bordetella pertussis Tohama I hypothetical protein NP_880276.1 1614635 D 257313 CDS NP_880277.1 33592633 2666829 1615241..1615819 1 NC_002929.2 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 1615819 2666829 BP1542 Bordetella pertussis Tohama I hypothetical protein NP_880277.1 1615241 D 257313 CDS NP_880278.1 33592634 2666830 1615925..1616293 1 NC_002929.2 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 1616293 2666830 BP1543 Bordetella pertussis Tohama I hypothetical protein NP_880278.1 1615925 D 257313 CDS NP_880279.1 33592635 2666831 1616392..1617342 1 NC_002929.2 transposase for IS481 element; transposase 1617342 2666831 BP1544 Bordetella pertussis Tohama I transposase NP_880279.1 1616392 D 257313 CDS NP_880280.1 33592636 2666832 complement(1617349..1618128) 1 NC_002929.2 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 1618128 pbpG 2666832 pbpG Bordetella pertussis Tohama I D-alanyl-D-alanine carboxypeptidase NP_880280.1 1617349 R 257313 CDS NP_880281.1 33592637 2666833 1618127..1618387 1 NC_002929.2 no significant database matches; hypothetical protein 1618387 2666833 BP1545A Bordetella pertussis Tohama I hypothetical protein NP_880281.1 1618127 D 257313 CDS NP_880282.1 33592638 2666834 1619148..1620350 1 NC_002929.2 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 1620350 2666834 BP1546 Bordetella pertussis Tohama I hypothetical protein NP_880282.1 1619148 D 257313 CDS NP_880283.1 33592639 2666835 1620554..1623214 1 NC_002929.2 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 1623214 2666835 BP1547 Bordetella pertussis Tohama I hypothetical protein NP_880283.1 1620554 D 257313 CDS NP_880284.1 33592640 2666779 1623227..1626631 1 NC_002929.2 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 1626631 2666779 BP1548 Bordetella pertussis Tohama I nuclease/helicase NP_880284.1 1623227 D 257313 CDS NP_880285.1 33592641 2666780 1627434..1629524 1 NC_002929.2 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 1629524 dnaX 2666780 dnaX Bordetella pertussis Tohama I DNA polymerase III subunits gamma and tau NP_880285.1 1627434 D 257313 CDS NP_880286.1 33592642 2666781 1629571..1629897 1 NC_002929.2 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 1629897 2666781 BP1550 Bordetella pertussis Tohama I hypothetical protein NP_880286.1 1629571 D 257313 CDS NP_880287.1 33592643 2666782 1629948..1630556 1 NC_002929.2 involved in a recombinational process of DNA repair, independent of the recBC complex; recombination protein RecR 1630556 recR 2666782 recR Bordetella pertussis Tohama I recombination protein RecR NP_880287.1 1629948 D 257313 CDS NP_880288.1 33592644 2666783 1630655..1631605 1 NC_002929.2 transposase for IS481 element; transposase 1631605 2666783 BP1552 Bordetella pertussis Tohama I transposase NP_880288.1 1630655 D 257313 CDS NP_880289.1 33592645 2666784 complement(1631675..1632439) 1 NC_002929.2 no significant database matches; hypothetical protein 1632439 2666784 BP1553 Bordetella pertussis Tohama I hypothetical protein NP_880289.1 1631675 R 257313 CDS NP_880290.1 33592646 2666785 complement(1632436..1633035) 1 NC_002929.2 no significant database matches; hypothetical protein 1633035 2666785 BP1554 Bordetella pertussis Tohama I hypothetical protein NP_880290.1 1632436 R 257313 CDS NP_880291.1 33592647 2666786 complement(1633139..1633990) 1 NC_002929.2 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 1633990 2666786 BP1555 Bordetella pertussis Tohama I hypothetical protein NP_880291.1 1633139 R 257313 CDS NP_880292.1 33592648 2666787 1634050..1634676 1 NC_002929.2 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 1634676 2666787 BP1556 Bordetella pertussis Tohama I hypothetical protein NP_880292.1 1634050 D 257313 CDS NP_880293.1 33592649 2666788 complement(1634673..1635623) 1 NC_002929.2 transposase for IS481 element; transposase 1635623 2666788 BP1557 Bordetella pertussis Tohama I transposase NP_880293.1 1634673 R 257313 CDS NP_880294.1 33592650 2666789 complement(1635722..1636843) 1 NC_002929.2 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 1636843 2666789 BP1558 Bordetella pertussis Tohama I hypothetical protein NP_880294.1 1635722 R 257313 CDS NP_880295.1 33592651 2666791 complement(1637931..1639343) 1 NC_002929.2 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 1639343 2666791 BP1560 Bordetella pertussis Tohama I hypothetical protein NP_880295.1 1637931 R 257313 CDS NP_880296.1 33592652 2666792 complement(1639439..1640749) 1 NC_002929.2 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 1640749 2666792 BP1561 Bordetella pertussis Tohama I hypothetical protein NP_880296.1 1639439 R 257313 CDS NP_880297.1 33592653 2666793 complement(1640855..1641415) 1 NC_002929.2 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 1641415 2666793 BP1562 Bordetella pertussis Tohama I hypothetical protein NP_880297.1 1640855 R 257313 CDS NP_880298.1 33592654 2666794 1641683..1642237 1 NC_002929.2 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 1642237 2666794 BP1563 Bordetella pertussis Tohama I chromate reductase NP_880298.1 1641683 D 257313 CDS NP_880299.1 33592655 2666795 complement(1642693..1642908) 1 NC_002929.2 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 1642908 2666795 BP1565 Bordetella pertussis Tohama I hypothetical protein NP_880299.1 1642693 R 257313 CDS NP_880300.1 33592656 2665594 1643109..1645760 1 NC_002929.2 This protein performs the mismatch recognition step during the DNA repair process; DNA mismatch repair protein MutS 1645760 mutS 2665594 mutS Bordetella pertussis Tohama I DNA mismatch repair protein MutS NP_880300.1 1643109 D 257313 CDS NP_880301.1 33592657 2665595 1645757..1646944 1 NC_002929.2 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 1646944 2665595 BP1567 Bordetella pertussis Tohama I hypothetical protein NP_880301.1 1645757 D 257313 CDS NP_880302.1 33592658 2665596 1647602..1648216 1 NC_002929.2 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 1648216 fim3 2665596 fim3 Bordetella pertussis Tohama I serotype 3 fimbrial subunit NP_880302.1 1647602 D 257313 CDS NP_880303.1 33592659 2665597 complement(1648305..1649432) 1 NC_002929.2 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 1649432 2665597 BP1569 Bordetella pertussis Tohama I lipoprotein NP_880303.1 1648305 R 257313 CDS NP_880304.1 33592660 2665598 complement(1649444..1650322) 1 NC_002929.2 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate synthase 1650322 dapA 2665598 dapA Bordetella pertussis Tohama I dihydrodipicolinate synthase NP_880304.1 1649444 R 257313 CDS NP_880305.1 33592661 2667370 1651242..1652192 1 NC_002929.2 transposase for IS481 element; transposase 1652192 2667370 BP1572 Bordetella pertussis Tohama I transposase NP_880305.1 1651242 D 257313 CDS NP_880306.1 33592662 2666626 1652374..1653126 1 NC_002929.2 similar to periplasmic-binding component of ABC transporters; glutamine ABC transporter substrate-binding protein 1653126 glnH 2666626 glnH Bordetella pertussis Tohama I glutamine ABC transporter substrate-binding protein NP_880306.1 1652374 D 257313 CDS NP_880307.1 33592663 2666627 1653195..1653854 1 NC_002929.2 similar to permease component of ABC transporters; mutations impair ability of Escherichia coli to transport and utilize glutamine; glutamine ABC transporter permease 1653854 glnP 2666627 glnP Bordetella pertussis Tohama I glutamine ABC transporter permease NP_880307.1 1653195 D 257313 CDS NP_880308.1 33592664 2666628 1653851..1654579 1 NC_002929.2 similar to ATP-binding component of ABC transporters; glutamine ABC transporter ATP-binding protein 1654579 glnQ 2666628 glnQ Bordetella pertussis Tohama I glutamine ABC transporter ATP-binding protein NP_880308.1 1653851 D 257313 CDS NP_880309.1 33592665 2666629 complement(1654592..1656871) 1 NC_002929.2 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 1656871 spoT 2666629 spoT Bordetella pertussis Tohama I guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase NP_880309.1 1654592 R 257313 CDS NP_880310.1 33592666 2666630 complement(1656896..1657099) 1 NC_002929.2 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 1657099 rpoZ 2666630 rpoZ Bordetella pertussis Tohama I DNA-directed RNA polymerase subunit omega NP_880310.1 1656896 R 257313 CDS NP_880311.1 33592667 2666631 complement(1657141..1657773) 1 NC_002929.2 Essential for recycling GMP and indirectly, cGMP; guanylate kinase 1657773 gmk 2666631 gmk Bordetella pertussis Tohama I guanylate kinase NP_880311.1 1657141 R 257313 CDS NP_880312.1 33592668 2666632 complement(1657909..1658826) 1 NC_002929.2 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 1658826 2666632 BP1579 Bordetella pertussis Tohama I cytochrome C NP_880312.1 1657909 R 257313 CDS NP_880313.1 33592669 2666633 complement(1658823..1659536) 1 NC_002929.2 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 1659536 2666633 BP1580 Bordetella pertussis Tohama I cytochrome C NP_880313.1 1658823 R 257313 CDS NP_880314.1 33592670 2666634 1659774..1660544 1 NC_002929.2 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 1660544 2666634 BP1581 Bordetella pertussis Tohama I oxidoreductase NP_880314.1 1659774 D 257313 CDS NP_880315.1 33592671 2666635 complement(1660549..1661148) 1 NC_002929.2 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 1661148 2666635 BP1582 Bordetella pertussis Tohama I hypothetical protein NP_880315.1 1660549 R 257313 CDS NP_880316.1 33592672 2666613 1661393..1662883 1 NC_002929.2 Catalyzes the hydrolysis of AMP to form adenine and ribose 5-phosphate using water as the nucleophile; AMP nucleosidase 1662883 amn 2666613 amn Bordetella pertussis Tohama I AMP nucleosidase NP_880316.1 1661393 D 257313 CDS NP_880317.1 33592673 2666614 complement(1662942..1663226) 1 NC_002929.2 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 1663226 2666614 BP1584 Bordetella pertussis Tohama I DNA-binding protein NP_880317.1 1662942 R 257313 CDS NP_880318.1 33592674 2666615 complement(1663223..1663351) 1 NC_002929.2 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 1663351 2666615 BP1585 Bordetella pertussis Tohama I hypothetical protein NP_880318.1 1663223 R 257313 CDS NP_880319.1 33592675 2666616 complement(1663364..1663519) 1 NC_002929.2 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 1663519 2666616 BP1586 Bordetella pertussis Tohama I hypothetical protein NP_880319.1 1663364 R 257313 CDS NP_880320.1 33592676 2666617 complement(1663792..1664718) 1 NC_002929.2 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 1664718 2666617 BP1587 Bordetella pertussis Tohama I hypothetical protein NP_880320.1 1663792 R 257313 CDS NP_880321.1 33592677 2666618 1664855..1665595 1 NC_002929.2 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 1665595 rph 2666618 rph Bordetella pertussis Tohama I ribonuclease PH NP_880321.1 1664855 D 257313 CDS NP_880322.1 33592678 2666619 complement(1665762..1667138) 1 NC_002929.2 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 1667138 2666619 BP1589 Bordetella pertussis Tohama I hypothetical protein NP_880322.1 1665762 R 257313 CDS NP_880323.1 33592679 2666620 1667320..1668225 1 NC_002929.2 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 1668225 2666620 BP1590 Bordetella pertussis Tohama I transcriptional regulator NP_880323.1 1667320 D 257313 CDS NP_880324.1 33592680 2666610 1668308..1669999 1 NC_002929.2 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 1669999 2666610 BP1591 Bordetella pertussis Tohama I methyl-accepting chemotaxis protein NP_880324.1 1668308 D 257313 CDS NP_880325.1 33592681 2666611 complement(1669877..1671679) 1 NC_002929.2 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 1671679 2666611 BP1592 Bordetella pertussis Tohama I hypothetical protein NP_880325.1 1669877 R 257313 CDS NP_880326.1 33592682 2666612 1671806..1672447 1 NC_002929.2 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 1672447 2666612 BP1593 Bordetella pertussis Tohama I deoxyribonucleotide triphosphate pyrophosphatase NP_880326.1 1671806 D 257313 CDS NP_880327.1 33592683 2666482 1672547..1673497 1 NC_002929.2 transposase for IS481 element; transposase 1673497 2666482 BP1594 Bordetella pertussis Tohama I transposase NP_880327.1 1672547 D 257313 CDS NP_880328.1 33592684 2666483 1673519..1674739 1 NC_002929.2 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase 1674739 2666483 BP1595 Bordetella pertussis Tohama I coproporphyrinogen III oxidase NP_880328.1 1673519 D 257313 CDS NP_880329.1 33592685 2666484 1674925..1676337 1 NC_002929.2 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 1676337 glnA 2666484 glnA Bordetella pertussis Tohama I glutamine synthetase NP_880329.1 1674925 D 257313 CDS NP_880330.1 33592686 2666485 1676392..1677468 1 NC_002929.2 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) 1677468 glnL 2666485 glnL Bordetella pertussis Tohama I nitrogen regulation protein NR(II) NP_880330.1 1676392 D 257313 CDS NP_880331.1 33592687 2666486 1677468..1678955 1 NC_002929.2 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) 1678955 glnG 2666486 glnG Bordetella pertussis Tohama I nitrogen regulation protein NR(I) NP_880331.1 1677468 D 257313 CDS NP_880332.1 33592688 2666487 complement(1678965..1679909) 1 NC_002929.2 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 1679909 2666487 BP1599 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880332.1 1678965 R 257313 CDS NP_880333.1 33592689 2666488 1680069..1680767 1 NC_002929.2 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 1680767 2666488 BP1600 Bordetella pertussis Tohama I hypothetical protein NP_880333.1 1680069 D 257313 CDS NP_880334.1 33592690 2666489 1680845..1681750 1 NC_002929.2 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 1681750 2666489 BP1601 Bordetella pertussis Tohama I hypothetical protein NP_880334.1 1680845 D 257313 CDS NP_880335.1 33592691 2666480 complement(1681770..1682720) 1 NC_002929.2 transposase for IS481 element; transposase 1682720 2666480 BP1602 Bordetella pertussis Tohama I transposase NP_880335.1 1681770 R 257313 CDS NP_880336.1 33592692 2667392 complement(1683618..1685288) 1 NC_002929.2 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 1685288 2667392 BP1604 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_880336.1 1683618 R 257313 CDS NP_880337.1 33592693 2667393 complement(1685412..1686461) 1 NC_002929.2 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 1686461 2667393 BP1605 Bordetella pertussis Tohama I iron binding protein NP_880337.1 1685412 R 257313 CDS NP_880338.1 33592694 2667394 1686783..1687559 1 NC_002929.2 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 1687559 fpr 2667394 fpr Bordetella pertussis Tohama I ferredoxin--NADP reductase NP_880338.1 1686783 D 257313 CDS NP_880339.1 33592695 2667395 complement(1687624..1688526) 1 NC_002929.2 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 1688526 2667395 BP1607 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880339.1 1687624 R 257313 CDS NP_880340.1 33592696 2667390 1689820..1690623 1 NC_002929.2 catalyzes the reduction of 2,5-diketo-D-gluconic acid to 2-keto-L-gulonic acid; 2,5-diketo-D-gluconate reductase B 1690623 dkgB 2667390 dkgB Bordetella pertussis Tohama I 2,5-diketo-D-gluconate reductase B NP_880340.1 1689820 D 257313 CDS NP_880341.1 33592697 2666086 1693317..1693703 1 NC_002929.2 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 1693703 2666086 BP1611 Bordetella pertussis Tohama I translational inhibitor NP_880341.1 1693317 D 257313 CDS NP_880342.1 33592698 2666087 1693839..1695809 1 NC_002929.2 catalyzes branch migration in Holliday junction intermediates; ATP-dependent DNA helicase RecG 1695809 recG 2666087 recG Bordetella pertussis Tohama I ATP-dependent DNA helicase RecG NP_880342.1 1693839 D 257313 CDS NP_880343.1 33592699 2666088 1695861..1696814 1 NC_002929.2 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 1696814 2666088 BP1613 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880343.1 1695861 D 257313 CDS NP_880344.1 33592700 2667198 complement(1696829..1697716) 1 NC_002929.2 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 1697716 2667198 BP1614 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880344.1 1696829 R 257313 CDS NP_880345.1 33592701 2667199 1697854..1699380 1 NC_002929.2 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 1699380 2667199 BP1615 Bordetella pertussis Tohama I aldehyde dehydrogenase NP_880345.1 1697854 D 257313 CDS NP_880346.1 33592702 2667200 1699479..1699979 1 NC_002929.2 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 1699979 dps 2667200 dps Bordetella pertussis Tohama I DNA-binding protein NP_880346.1 1699479 D 257313 CDS NP_880349.1 33592705 2667205 complement(1702426..1704510) 1 NC_002929.2 no significant database matches; hypothetical protein 1704510 2667205 BP1619 Bordetella pertussis Tohama I hypothetical protein NP_880349.1 1702426 R 257313 CDS NP_880351.1 33592707 2667207 1706178..1706948 1 NC_002929.2 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 1706948 kpsM 2667207 kpsM Bordetella pertussis Tohama I polysialic acid ABC transporter permease NP_880351.1 1706178 D 257313 CDS NP_880352.1 33592708 2667208 1706948..1707694 1 NC_002929.2 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 1707694 kpsT 2667208 kpsT Bordetella pertussis Tohama I polysialic acid transport ATP-binding protein NP_880352.1 1706948 D 257313 CDS NP_880353.1 33592709 2667209 1707736..1708905 1 NC_002929.2 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 1708905 kpsE 2667209 kpsE Bordetella pertussis Tohama I capsule polysaccharide export inner-membrane protein NP_880353.1 1707736 D 257313 CDS NP_880354.1 33592710 2667210 1708937..1711021 1 NC_002929.2 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 1711021 wbpT 2667210 wbpT Bordetella pertussis Tohama I capsular polysaccharide biosynthesis protein NP_880354.1 1708937 D 257313 CDS NP_880355.1 33592711 2667211 1711018..1711908 1 NC_002929.2 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 1711908 vipC 2667211 vipC Bordetella pertussis Tohama I capsular polysaccharide biosynthesis protein NP_880355.1 1711018 D 257313 CDS NP_880356.1 33592712 2667212 1711905..1713002 1 NC_002929.2 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 1713002 wza 2667212 wza Bordetella pertussis Tohama I capsular polysaccharide export protein NP_880356.1 1711905 D 257313 CDS NP_880357.1 33592713 2667213 1713025..1714314 1 NC_002929.2 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 1714314 wbpO 2667213 wbpO Bordetella pertussis Tohama I capsular polysaccharide biosynthesis protein NP_880357.1 1713025 D 257313 CDS NP_880358.1 33592714 2667214 1714326..1715351 1 NC_002929.2 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 1715351 wbpP 2667214 wbpP Bordetella pertussis Tohama I capsular polysaccharide biosynthesis protein NP_880358.1 1714326 D 257313 CDS NP_880359.1 33592715 2666126 1715348..1717405 1 NC_002929.2 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 1717405 wcbA 2666126 wcbA Bordetella pertussis Tohama I capsular polysaccharide export protein NP_880359.1 1715348 D 257313 CDS NP_880360.1 33592716 2666128 1718676..1719626 1 NC_002929.2 transposase for IS481 element; transposase 1719626 2666128 BP1633 Bordetella pertussis Tohama I transposase NP_880360.1 1718676 D 257313 CDS NP_880361.1 33592717 2666130 complement(1720179..1721750) 1 NC_002929.2 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 1721750 2666130 BP1635 Bordetella pertussis Tohama I arylsulfatase NP_880361.1 1720179 R 257313 CDS NP_880362.1 33592718 2667184 complement(1721854..1722888) 1 NC_002929.2 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 1722888 2667184 BP1636 Bordetella pertussis Tohama I nonspecific acid phosphatase NP_880362.1 1721854 R 257313 CDS NP_880363.1 33592719 2667185 complement(1722891..1724237) 1 NC_002929.2 no significant database matches; hypothetical protein 1724237 2667185 BP1637 Bordetella pertussis Tohama I hypothetical protein NP_880363.1 1722891 R 257313 CDS NP_880364.1 33592720 2667186 complement(1724234..1725748) 1 NC_002929.2 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 1725748 2667186 BP1638 Bordetella pertussis Tohama I hypothetical protein NP_880364.1 1724234 R 257313 CDS NP_880365.1 33592721 2667187 complement(1725739..1726749) 1 NC_002929.2 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 1726749 2667187 BP1639 Bordetella pertussis Tohama I hypothetical protein NP_880365.1 1725739 R 257313 CDS NP_880366.1 33592722 2667189 complement(1727223..1728164) 1 NC_002929.2 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 1728164 2667189 BP1640 Bordetella pertussis Tohama I hypothetical protein NP_880366.1 1727223 R 257313 CDS NP_880367.1 33592723 2667190 complement(1728173..1729141) 1 NC_002929.2 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 1729141 2667190 BP1641 Bordetella pertussis Tohama I regulatory protein NP_880367.1 1728173 R 257313 CDS NP_880368.1 33592724 2667192 1730681..1731649 1 NC_002929.2 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 1731649 2667192 BP1643 Bordetella pertussis Tohama I hypothetical protein NP_880368.1 1730681 D 257313 CDS NP_880369.1 33592725 2667180 1731827..1732816 1 NC_002929.2 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 1732816 2667180 BP1644 Bordetella pertussis Tohama I hypothetical protein NP_880369.1 1731827 D 257313 CDS NP_880370.1 33592726 2667181 1732863..1733621 1 NC_002929.2 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 1733621 2667181 BP1645 Bordetella pertussis Tohama I short-chain dehydrogenase NP_880370.1 1732863 D 257313 CDS NP_880371.1 33592727 2667182 1733811..1734548 1 NC_002929.2 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 1734548 2667182 BP1646 Bordetella pertussis Tohama I hypothetical protein NP_880371.1 1733811 D 257313 CDS NP_880372.1 33592728 2667183 1734647..1735597 1 NC_002929.2 transposase for IS481 element; transposase 1735597 2667183 BP1647 Bordetella pertussis Tohama I transposase NP_880372.1 1734647 D 257313 CDS NP_880373.1 33592729 2666387 1735782..1736564 1 NC_002929.2 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 1736564 livG 2666387 livG Bordetella pertussis Tohama I high-affinity branched-chain amino acid transport ATP-binding protein NP_880373.1 1735782 D 257313 CDS NP_880374.1 33592730 2666388 1736558..1737259 1 NC_002929.2 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 1737259 livF 2666388 livF Bordetella pertussis Tohama I high-affinity branched-chain amino acid transport ATP-binding protein NP_880374.1 1736558 D 257313 CDS NP_880375.1 33592731 2666389 1737499..1738101 1 NC_002929.2 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 1738101 2666389 BP1651 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_880375.1 1737499 D 257313 CDS NP_880377.1 33592733 2666391 1739428..1740378 1 NC_002929.2 transposase for IS481 element; transposase 1740378 2666391 BP1653 Bordetella pertussis Tohama I transposase NP_880377.1 1739428 D 257313 CDS NP_880378.1 33592734 2666392 complement(1740375..1741931) 1 NC_002929.2 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 1741931 wcbQ 2666392 wcbQ Bordetella pertussis Tohama I capsular polysaccharide biosynthesis protein NP_880378.1 1740375 R 257313 CDS NP_880379.1 33592735 2666393 complement(1741924..1742697) 1 NC_002929.2 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 1742697 wcbP 2666393 wcbP Bordetella pertussis Tohama I oxidoreductase NP_880379.1 1741924 R 257313 CDS NP_880380.1 33592736 2666394 complement(1742756..1743706) 1 NC_002929.2 transposase for IS481 element; transposase 1743706 2666394 BP1656 Bordetella pertussis Tohama I transposase NP_880380.1 1742756 R 257313 CDS NP_880381.1 33592737 2666395 1743811..1744758 1 NC_002929.2 hypothetical protein 1744758 2666395 BP1657 Bordetella pertussis Tohama I hypothetical protein NP_880381.1 1743811 D 257313 CDS NP_880382.1 33592738 2666396 complement(1744812..1746605) 1 NC_002929.2 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 1746605 2666396 BP1658 Bordetella pertussis Tohama I two-component sensor histidine kinase NP_880382.1 1744812 R 257313 CDS NP_880383.1 33592739 2666397 complement(1746619..1747293) 1 NC_002929.2 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 1747293 2666397 BP1659 Bordetella pertussis Tohama I response regulatory protein NP_880383.1 1746619 R 257313 CDS NP_880384.1 33592740 2666398 1747462..1750497 1 NC_002929.2 sequence contains 6 Ns. to be corrected; autotransporter 1750497 sphB2 2666398 sphB2 Bordetella pertussis Tohama I autotransporter NP_880384.1 1747462 D 257313 CDS NP_880385.1 33592741 2666399 complement(1750511..1750810) 1 NC_002929.2 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 1750810 2666399 BP1662 Bordetella pertussis Tohama I DNA-binding protein NP_880385.1 1750511 R 257313 CDS NP_880387.1 33592743 2666401 complement(1751125..1751748) 1 NC_002929.2 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 1751748 gst 2666401 gst Bordetella pertussis Tohama I glutathione S-transferase NP_880387.1 1751125 R 257313 CDS NP_880388.1 33592744 2666402 1751992..1752861 1 NC_002929.2 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 1752861 tfdA 2666402 tfdA Bordetella pertussis Tohama I alpha-ketoglutarate-dependent 2,4-dichlorophenoxyacetate dioxygenase NP_880388.1 1751992 D 257313 CDS NP_880389.1 33592745 2666403 complement(1752839..1753783) 1 NC_002929.2 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 1753783 2666403 BP1666 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880389.1 1752839 R 257313 CDS NP_880390.1 33592746 2666404 complement(1753869..1754840) 1 NC_002929.2 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 1754840 2666404 BP1667 Bordetella pertussis Tohama I hypothetical protein NP_880390.1 1753869 R 257313 CDS NP_880391.1 33592747 2666405 complement(1754908..1755681) 1 NC_002929.2 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 1755681 2666405 BP1668 Bordetella pertussis Tohama I short-chain dehydrogenase NP_880391.1 1754908 R 257313 CDS NP_880392.1 33592748 2666406 complement(1755678..1756874) 1 NC_002929.2 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 1756874 lldA 2666406 lldA Bordetella pertussis Tohama I lactate dehydrogenase NP_880392.1 1755678 R 257313 CDS NP_880393.1 33592749 2666251 complement(1756905..1757855) 1 NC_002929.2 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 1757855 2666251 BP1670 Bordetella pertussis Tohama I hydrolase NP_880393.1 1756905 R 257313 CDS NP_880394.1 33592750 2666252 1758077..1758766 1 NC_002929.2 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 1758766 2666252 BP1671 Bordetella pertussis Tohama I short chain dehydrogenase NP_880394.1 1758077 D 257313 CDS NP_880395.1 33592751 2666253 1758831..1759586 1 NC_002929.2 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 1759586 fabG 2666253 fabG Bordetella pertussis Tohama I 3-oxoacyl-ACP reductase NP_880395.1 1758831 D 257313 CDS NP_880396.1 33592752 2666254 1759638..1760630 1 NC_002929.2 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 1760630 2666254 BP1673 Bordetella pertussis Tohama I hypothetical protein NP_880396.1 1759638 D 257313 CDS NP_880397.1 33592753 2666255 complement(1760640..1761593) 1 NC_002929.2 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 1761593 2666255 BP1674 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880397.1 1760640 R 257313 CDS NP_880398.1 33592754 2666256 1761709..1762671 1 NC_002929.2 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 1762671 2666256 BP1675 Bordetella pertussis Tohama I hypothetical protein NP_880398.1 1761709 D 257313 CDS NP_880399.1 33592755 2666259 complement(1764498..1765448) 1 NC_002929.2 transposase for IS481 element; transposase 1765448 2666259 BP1678 Bordetella pertussis Tohama I transposase NP_880399.1 1764498 R 257313 CDS NP_880400.1 33592756 2666261 complement(1765742..1766464) 1 NC_002929.2 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 1766464 arsH 2666261 arsH Bordetella pertussis Tohama I NADPH-dependent FMN reductase NP_880400.1 1765742 R 257313 CDS NP_880401.1 33592757 2666263 complement(1766903..1768090) 1 NC_002929.2 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 1768090 2666263 BP1682 Bordetella pertussis Tohama I hypothetical protein NP_880401.1 1766903 R 257313 CDS NP_880402.1 33592758 2666264 complement(1768094..1768444) 1 NC_002929.2 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 1768444 2666264 BP1683 Bordetella pertussis Tohama I transcriptional regulator NP_880402.1 1768094 R 257313 CDS NP_880403.1 33592759 2666890 1770194..1771165 1 NC_002929.2 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 1771165 2666890 BP1685 Bordetella pertussis Tohama I hypothetical protein NP_880403.1 1770194 D 257313 CDS NP_880404.1 33592760 2666891 1771179..1771892 1 NC_002929.2 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 1771892 2666891 BP1686 Bordetella pertussis Tohama I short chain dehydrogenase NP_880404.1 1771179 D 257313 CDS NP_880405.1 33592761 2666892 complement(1771897..1772814) 1 NC_002929.2 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 1772814 2666892 BP1687 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880405.1 1771897 R 257313 CDS NP_880406.1 33592762 2666893 1772921..1773217 1 NC_002929.2 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 1773217 2666893 BP1688 Bordetella pertussis Tohama I hypothetical protein NP_880406.1 1772921 D 257313 CDS NP_880407.1 33592763 2666740 1773316..1774266 1 NC_002929.2 transposase for IS481 element; transposase 1774266 2666740 BP1689 Bordetella pertussis Tohama I transposase NP_880407.1 1773316 D 257313 CDS NP_880408.1 33592764 2666751 1775425..1778358 1 NC_002929.2 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 1778358 phaA 2666751 phaA Bordetella pertussis Tohama I monovalent cation/H+ antiporter subunit A NP_880408.1 1775425 D 257313 CDS NP_880409.1 33592765 2666752 1778358..1778702 1 NC_002929.2 subunit C of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; monovalent cation/H+ antiporter subunit C 1778702 phaC 2666752 phaC Bordetella pertussis Tohama I monovalent cation/H+ antiporter subunit C NP_880409.1 1778358 D 257313 CDS NP_880410.1 33592766 2666753 1778699..1780327 1 NC_002929.2 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 1780327 phaD 2666753 phaD Bordetella pertussis Tohama I monovalent cation/H+ antiporter subunit D NP_880410.1 1778699 D 257313 CDS NP_880411.1 33592767 2666754 1780324..1780803 1 NC_002929.2 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 1780803 phaE 2666754 phaE Bordetella pertussis Tohama I monovalent cation/H+ antiporter subunit E NP_880411.1 1780324 D 257313 CDS NP_880412.1 33592768 2666755 1780800..1781084 1 NC_002929.2 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 1781084 phaF 2666755 phaF Bordetella pertussis Tohama I monovalent cation/H+ antiporter subunit F NP_880412.1 1780800 D 257313 CDS NP_880413.1 33592769 2666756 1781081..1781407 1 NC_002929.2 subunit G of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; monovalent cation/H+ antiporter subunit G 1781407 phaG 2666756 phaG Bordetella pertussis Tohama I monovalent cation/H+ antiporter subunit G NP_880413.1 1781081 D 257313 CDS NP_880414.1 33592770 2666757 1781563..1782513 1 NC_002929.2 transposase for IS481 element; transposase 1782513 2666757 BP1697 Bordetella pertussis Tohama I transposase NP_880414.1 1781563 D 257313 CDS NP_880415.1 33592771 2666758 1782590..1783099 1 NC_002929.2 no significant database matches; hypothetical protein 1783099 2666758 BP1698 Bordetella pertussis Tohama I hypothetical protein NP_880415.1 1782590 D 257313 CDS NP_880416.1 33592772 2666759 1783197..1784045 1 NC_002929.2 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 1784045 2666759 BP1699 Bordetella pertussis Tohama I hypothetical protein NP_880416.1 1783197 D 257313 CDS NP_880417.1 33592773 2666760 1784095..1784544 1 NC_002929.2 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 1784544 cumB 2666760 cumB Bordetella pertussis Tohama I zinc-binding hydrolase NP_880417.1 1784095 D 257313 CDS NP_880418.1 33592774 2666761 1784541..1785542 1 NC_002929.2 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 1785542 ldcA 2666761 ldcA Bordetella pertussis Tohama I muramoyltetrapeptide carboxypeptidase NP_880418.1 1784541 D 257313 CDS NP_880419.1 33592775 2666762 complement(1785555..1786349) 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 1786349 2666762 BP1702 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_880419.1 1785555 R 257313 CDS NP_880420.1 33592776 2666763 complement(1786398..1788299) 1 NC_002929.2 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 1788299 2666763 BP1703 Bordetella pertussis Tohama I hypothetical protein NP_880420.1 1786398 R 257313 CDS NP_880421.1 33592777 2666764 complement(1788296..1788919) 1 NC_002929.2 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 1788919 2666764 BP1704 Bordetella pertussis Tohama I hypothetical protein NP_880421.1 1788296 R 257313 CDS NP_880422.1 33592778 2666765 complement(1789046..1790170) 1 NC_002929.2 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 1790170 2666765 BP1705 Bordetella pertussis Tohama I mannitol ABC transporter substrate-binding protein NP_880422.1 1789046 R 257313 CDS NP_880423.1 33592779 2666766 1790551..1792155 1 NC_002929.2 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 1792155 2666766 BP1706 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880423.1 1790551 D 257313 CDS NP_880424.1 33592780 2667539 1792311..1793087 1 NC_002929.2 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 1793087 2667539 BP1707 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880424.1 1792311 D 257313 CDS NP_880425.1 33592781 2667540 1793172..1794170 1 NC_002929.2 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 1794170 2667540 BP1708 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_880425.1 1793172 D 257313 CDS NP_880426.1 33592782 2667541 1794167..1794940 1 NC_002929.2 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 1794940 2667541 BP1709 Bordetella pertussis Tohama I ABC transporter permease NP_880426.1 1794167 D 257313 CDS NP_880427.1 33592783 2666572 1795925..1796875 1 NC_002929.2 transposase for IS481 element; transposase 1796875 2666572 BP1711 Bordetella pertussis Tohama I transposase NP_880427.1 1795925 D 257313 CDS NP_880428.1 33592784 2666573 1796913..1797500 1 NC_002929.2 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 1797500 2666573 BP1712 Bordetella pertussis Tohama I hypothetical protein NP_880428.1 1796913 D 257313 CDS NP_880429.1 33592785 2666574 complement(1797518..1797901) 1 NC_002929.2 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 1797901 trxC 2666574 trxC Bordetella pertussis Tohama I thioredoxin 2 NP_880429.1 1797518 R 257313 CDS NP_880430.1 33592786 2666576 complement(1799261..1800553) 1 NC_002929.2 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 1800553 2666576 BP1715 Bordetella pertussis Tohama I permease NP_880430.1 1799261 R 257313 CDS NP_880431.1 33592787 2666577 1800688..1801728 1 NC_002929.2 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 1801728 gcp 2666577 gcp Bordetella pertussis Tohama I DNA-binding/iron metalloprotein/AP endonuclease NP_880431.1 1800688 D 257313 CDS NP_880432.1 33592788 2666578 complement(1801826..1802842) 1 NC_002929.2 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 1802842 2666578 BP1717 Bordetella pertussis Tohama I transposase for IS1663 NP_880432.1 1801826 R 257313 CDS NP_880433.1 33592789 2666579 complement(1803110..1803757) 1 NC_002929.2 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 1803757 2666579 BP1718 Bordetella pertussis Tohama I glycerol-3-phosphate acyltransferase PlsY NP_880433.1 1803110 R 257313 CDS NP_880434.1 33592790 2665822 1803883..1804641 1 NC_002929.2 catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate; stationary phase survival protein SurE 1804641 surE 2665822 surE Bordetella pertussis Tohama I stationary phase survival protein SurE NP_880434.1 1803883 D 257313 CDS NP_880435.1 33592791 2665823 1804767..1805405 1 NC_002929.2 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 1805405 pcm 2665823 pcm Bordetella pertussis Tohama I protein-L-isoaspartate O-methyltransferase NP_880435.1 1804767 D 257313 CDS NP_880436.1 33592792 2665824 1805423..1806307 1 NC_002929.2 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 1806307 2665824 BP1721 Bordetella pertussis Tohama I peptidase NP_880436.1 1805423 D 257313 CDS NP_880437.1 33592793 2665825 1806304..1807083 1 NC_002929.2 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 1807083 2665825 BP1722 Bordetella pertussis Tohama I hypothetical protein NP_880437.1 1806304 D 257313 CDS NP_880438.1 33592794 2665826 1807188..1807787 1 NC_002929.2 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 1807787 2665826 BP1723 Bordetella pertussis Tohama I hypothetical protein NP_880438.1 1807188 D 257313 CDS NP_880439.1 33592795 2665827 1808076..1808828 1 NC_002929.2 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 1808828 2665827 BP1724 Bordetella pertussis Tohama I hypothetical protein NP_880439.1 1808076 D 257313 CDS NP_880440.1 33592796 2665828 1808947..1810347 1 NC_002929.2 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 1810347 rumA 2665828 rumA Bordetella pertussis Tohama I 23S rRNA 5-methyluridine methyltransferase NP_880440.1 1808947 D 257313 CDS NP_880441.1 33592797 2665829 complement(1810371..1810769) 1 NC_002929.2 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 1810769 2665829 BP1726 Bordetella pertussis Tohama I MerR family transcriptional regulator NP_880441.1 1810371 R 257313 CDS NP_880442.1 33592798 2665830 1810945..1811145 1 NC_002929.2 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 1811145 2665830 BP1727 Bordetella pertussis Tohama I hypothetical protein NP_880442.1 1810945 D 257313 CDS NP_880443.1 33592799 2665831 1811284..1812012 1 NC_002929.2 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 1812012 2665831 BP1728 Bordetella pertussis Tohama I glutaredoxin NP_880443.1 1811284 D 257313 CDS NP_880444.1 33592800 2665832 1812146..1813561 1 NC_002929.2 Catalyzes the oxidation of dihydrolipoamide to lipoamide; dihydrolipoamide dehydrogenase 1813561 2665832 BP1729 Bordetella pertussis Tohama I dihydrolipoamide dehydrogenase NP_880444.1 1812146 D 257313 CDS NP_880445.1 33592801 2665833 complement(1813565..1814428) 1 NC_002929.2 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 1814428 2665833 BP1730 Bordetella pertussis Tohama I hypothetical protein NP_880445.1 1813565 R 257313 CDS NP_880446.1 33592802 2665834 complement(1814441..1815190) 1 NC_002929.2 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 1815190 ugpQ 2665834 ugpQ Bordetella pertussis Tohama I glycerophosphodiester phosphodiesterase NP_880446.1 1814441 R 257313 CDS NP_880447.1 33592803 2665835 1815433..1817388 1 NC_002929.2 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 1817388 ppiD 2665835 ppiD Bordetella pertussis Tohama I peptidyl-prolyl cis-trans isomerase D NP_880447.1 1815433 D 257313 CDS NP_880448.1 33592804 2665836 complement(1817370..1817978) 1 NC_002929.2 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 1817978 tesA 2665836 tesA Bordetella pertussis Tohama I acyl-CoA thioesterase NP_880448.1 1817370 R 257313 CDS NP_880449.1 33592805 2665838 1818813..1819763 1 NC_002929.2 transposase for IS481 element; transposase 1819763 2665838 BP1735 Bordetella pertussis Tohama I transposase NP_880449.1 1818813 D 257313 CDS NP_880450.1 33592806 2665839 complement(1819912..1820250) 1 NC_002929.2 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 1820250 2665839 BP1736 Bordetella pertussis Tohama I hypothetical protein NP_880450.1 1819912 R 257313 CDS NP_880451.1 33592807 2665840 complement(1820308..1820469) 1 NC_002929.2 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 1820469 2665840 BP1737 Bordetella pertussis Tohama I hypothetical protein NP_880451.1 1820308 R 257313 CDS NP_880452.1 33592808 2665841 complement(1820501..1820701) 1 NC_002929.2 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 1820701 2665841 BP1738 Bordetella pertussis Tohama I hypothetical protein NP_880452.1 1820501 R 257313 CDS NP_880453.1 33592809 2665842 complement(1820967..1823540) 1 NC_002929.2 catalyze the formation of cyanophycin which may act to store excess nitrogen; cyanophycin synthetase 1823540 cphA 2665842 cphA Bordetella pertussis Tohama I cyanophycin synthetase NP_880453.1 1820967 R 257313 CDS NP_880454.1 33592810 2665843 complement(1823611..1826184) 1 NC_002929.2 catalyze the formation of cyanophycin which may act to store excess nitrogen; cyanophycin synthetase 1826184 cphA 2665843 cphA Bordetella pertussis Tohama I cyanophycin synthetase NP_880454.1 1823611 R 257313 CDS NP_880455.1 33592811 2665576 1828711..1829199 1 NC_002929.2 no significant database matches; hypothetical protein 1829199 2665576 BP1743 Bordetella pertussis Tohama I hypothetical protein NP_880455.1 1828711 D 257313 CDS NP_880456.1 33592812 2665581 complement(1829291..1830421) 1 NC_002929.2 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 1830421 2665581 BP1744 Bordetella pertussis Tohama I hypothetical protein NP_880456.1 1829291 R 257313 CDS NP_880457.1 33592813 2665582 1830496..1831317 1 NC_002929.2 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 1831317 2665582 BP1745 Bordetella pertussis Tohama I hypothetical protein NP_880457.1 1830496 D 257313 CDS NP_880458.1 33592814 2665583 1831356..1832585 1 NC_002929.2 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 1832585 2665583 BP1746 Bordetella pertussis Tohama I peptidoglycan-binding protein NP_880458.1 1831356 D 257313 CDS NP_880459.1 33592815 2665584 1832714..1833154 1 NC_002929.2 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 1833154 2665584 BP1747 Bordetella pertussis Tohama I hypothetical protein NP_880459.1 1832714 D 257313 CDS NP_880460.1 33592816 2665585 1833265..1834215 1 NC_002929.2 transposase for IS481 element; transposase 1834215 2665585 BP1748 Bordetella pertussis Tohama I transposase NP_880460.1 1833265 D 257313 CDS NP_880461.1 33592817 2665586 complement(1834212..1834685) 1 NC_002929.2 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 1834685 2665586 BP1749 Bordetella pertussis Tohama I AsnC family transcriptional regulator NP_880461.1 1834212 R 257313 CDS NP_880462.1 33592818 2665587 1834826..1835785 1 NC_002929.2 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 1835785 2665587 BP1750 Bordetella pertussis Tohama I hypothetical protein NP_880462.1 1834826 D 257313 CDS NP_880463.1 33592819 2665588 complement(1835787..1836995) 1 NC_002929.2 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 1836995 dfp 2665588 dfp Bordetella pertussis Tohama I bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase NP_880463.1 1835787 R 257313 CDS NP_880464.1 33592820 2665589 complement(1837100..1837606) 1 NC_002929.2 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis; lipoprotein signal peptidase 1837606 lspA 2665589 lspA Bordetella pertussis Tohama I lipoprotein signal peptidase NP_880464.1 1837100 R 257313 CDS NP_880465.1 33592821 2665590 complement(1837609..1840470) 1 NC_002929.2 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 1840470 ileS 2665590 ileS Bordetella pertussis Tohama I isoleucyl-tRNA synthetase NP_880465.1 1837609 R 257313 CDS NP_880466.1 33592822 2665591 complement(1840460..1841425) 1 NC_002929.2 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 1841425 ribF 2665591 ribF Bordetella pertussis Tohama I bifunctional riboflavin kinase/FMN adenylyltransferase NP_880466.1 1840460 R 257313 CDS NP_880467.1 33592823 2665593 1842178..1843479 1 NC_002929.2 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 1843479 2665593 BP1756 Bordetella pertussis Tohama I hypothetical protein NP_880467.1 1842178 D 257313 CDS NP_880468.1 33592824 2666502 1843578..1844528 1 NC_002929.2 transposase for IS481 element; transposase 1844528 2666502 BP1757 Bordetella pertussis Tohama I transposase NP_880468.1 1843578 D 257313 CDS NP_880469.1 33592825 2666503 complement(1844525..1844899) 1 NC_002929.2 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 1844899 2666503 BP1757A Bordetella pertussis Tohama I hypothetical protein NP_880469.1 1844525 R 257313 CDS NP_880470.1 33592826 2666504 1845161..1846369 1 NC_002929.2 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 1846369 2666504 BP1758 Bordetella pertussis Tohama I fatty acid desaturase NP_880470.1 1845161 D 257313 CDS NP_880471.1 33592827 2666505 1846366..1848666 1 NC_002929.2 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 1848666 uvrD 2666505 uvrD Bordetella pertussis Tohama I DNA helicase II NP_880471.1 1846366 D 257313 CDS NP_880472.1 33592828 2666506 complement(1848719..1851331) 1 NC_002929.2 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 1851331 2666506 BP1760 Bordetella pertussis Tohama I hypothetical protein NP_880472.1 1848719 R 257313 CDS NP_880473.1 33592829 2666507 complement(1851691..1853616) 1 NC_002929.2 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 1853616 2666507 BP1761 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880473.1 1851691 R 257313 CDS NP_880474.1 33592830 2666508 complement(1853613..1854509) 1 NC_002929.2 involved in methylation of ribosomal protein L3; N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase 1854509 2666508 BP1762 Bordetella pertussis Tohama I N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase NP_880474.1 1853613 R 257313 CDS NP_880475.1 33592831 2666509 complement(1854516..1855655) 1 NC_002929.2 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 1855655 dapE 2666509 dapE Bordetella pertussis Tohama I succinyl-diaminopimelate desuccinylase NP_880475.1 1854516 R 257313 CDS NP_880476.1 33592832 2666510 complement(1855655..1856476) 1 NC_002929.2 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 1856476 dapD 2666510 dapD Bordetella pertussis Tohama I 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase NP_880476.1 1855655 R 257313 CDS NP_880477.1 33592833 2666512 complement(1858047..1858376) 1 NC_002929.2 no significant database matches. Similar to BP0266, BP2719, BP3099, BP3683, and BP3731; hypothetical protein 1858376 2666512 BP1766 Bordetella pertussis Tohama I hypothetical protein NP_880477.1 1858047 R 257313 CDS NP_880478.1 33592834 2666513 1858759..1860015 1 NC_002929.2 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 1860015 phg 2666513 phg Bordetella pertussis Tohama I autotransporter NP_880478.1 1858759 D 257313 CDS NP_880479.1 33592835 2666514 1860090..1860371 1 NC_002929.2 no significant database matches; hypothetical protein 1860371 2666514 BP1768 Bordetella pertussis Tohama I hypothetical protein NP_880479.1 1860090 D 257313 CDS NP_880480.1 33592836 2666515 1860413..1860733 1 NC_002929.2 no significant database matches; hypothetical protein 1860733 2666515 BP1769 Bordetella pertussis Tohama I hypothetical protein NP_880480.1 1860413 D 257313 CDS NP_880481.1 33592837 2666516 1861040..1861243 1 NC_002929.2 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 1861243 cspA 2666516 cspA Bordetella pertussis Tohama I cold shock-like protein NP_880481.1 1861040 D 257313 CDS NP_880482.1 33592838 2666439 1861327..1861893 1 NC_002929.2 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 1861893 2666439 BP1771 Bordetella pertussis Tohama I hypothetical protein NP_880482.1 1861327 D 257313 CDS NP_880483.1 33592839 2666440 1862239..1862439 1 NC_002929.2 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 1862439 cspA 2666440 cspA Bordetella pertussis Tohama I cold shock-like protein NP_880483.1 1862239 D 257313 CDS NP_880484.1 33592840 2666441 complement(1862551..1863111) 1 NC_002929.2 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 1863111 2666441 BP1773 Bordetella pertussis Tohama I hypothetical protein NP_880484.1 1862551 R 257313 CDS NP_880485.1 33592841 2666442 1863308..1864618 1 NC_002929.2 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer; trigger factor 1864618 tig 2666442 tig Bordetella pertussis Tohama I trigger factor NP_880485.1 1863308 D 257313 CDS NP_880486.1 33592842 2666443 1864621..1865274 1 NC_002929.2 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates; ATP-dependent Clp protease proteolytic subunit 1865274 clpP 2666443 clpP Bordetella pertussis Tohama I ATP-dependent Clp protease proteolytic subunit NP_880486.1 1864621 D 257313 CDS NP_880487.1 33592843 2666444 1865379..1866683 1 NC_002929.2 binds and unfolds substrates as part of the ClpXP protease; ATP-dependent protease ATP-binding protein ClpX 1866683 clpX 2666444 clpX Bordetella pertussis Tohama I ATP-dependent protease ATP-binding protein ClpX NP_880487.1 1865379 D 257313 CDS NP_880488.1 33592844 2666935 1866872..1869325 1 NC_002929.2 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 1869325 lon 2666935 lon Bordetella pertussis Tohama I ATP-dependent protease La NP_880488.1 1866872 D 257313 CDS NP_880489.1 33592845 2666955 complement(1869449..1870348) 1 NC_002929.2 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 1870348 2666955 BP1778 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880489.1 1869449 R 257313 CDS NP_880490.1 33592846 2666956 1870627..1871850 1 NC_002929.2 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 1871850 2666956 BP1779 Bordetella pertussis Tohama I hypothetical protein NP_880490.1 1870627 D 257313 CDS NP_880491.1 33592847 2666957 1871916..1872887 1 NC_002929.2 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 1872887 2666957 BP1780 Bordetella pertussis Tohama I hypothetical protein NP_880491.1 1871916 D 257313 CDS NP_880492.1 33592848 2666961 1872954..1873355 1 NC_002929.2 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 1873355 2666961 BP1781 Bordetella pertussis Tohama I hypothetical protein NP_880492.1 1872954 D 257313 CDS NP_880493.1 33592849 2666962 1873375..1874172 1 NC_002929.2 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 1874172 2666962 BP1782 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase NP_880493.1 1873375 D 257313 CDS NP_880494.1 33592850 2666963 1874169..1874600 1 NC_002929.2 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 1874600 2666963 BP1783 Bordetella pertussis Tohama I hypothetical protein NP_880494.1 1874169 D 257313 CDS NP_880495.1 33592851 2666964 1874597..1875754 1 NC_002929.2 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 1875754 2666964 BP1784 Bordetella pertussis Tohama I thiolase NP_880495.1 1874597 D 257313 CDS NP_880496.1 33592852 2667240 1875776..1876552 1 NC_002929.2 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 1876552 fabG 2667240 fabG Bordetella pertussis Tohama I 3-oxoacyl-ACP reductase NP_880496.1 1875776 D 257313 CDS NP_880497.1 33592853 2667243 1878765..1879433 1 NC_002929.2 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 1879433 pcaI 2667243 pcaI Bordetella pertussis Tohama I 3-oxoadipate CoA-transferase subunit A NP_880497.1 1878765 D 257313 CDS NP_880498.1 33592854 2667244 1879426..1880067 1 NC_002929.2 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 1880067 pcaJ 2667244 pcaJ Bordetella pertussis Tohama I 3-oxoadipate CoA-transferase subunit B NP_880498.1 1879426 D 257313 CDS NP_880499.1 33592855 2667247 1881634..1882584 1 NC_002929.2 transposase for IS481 element; transposase 1882584 2667247 BP1792 Bordetella pertussis Tohama I transposase NP_880499.1 1881634 D 257313 CDS NP_880500.1 33592856 2667248 complement(1884142..1884792) 1 NC_002929.2 Represses a number of genes involved in the response to DNA damage; LexA repressor 1884792 lexA 2667248 lexA Bordetella pertussis Tohama I LexA repressor NP_880500.1 1884142 R 257313 CDS NP_880501.1 33592857 2667249 complement(1884921..1886123) 1 NC_002929.2 catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase 1886123 tyrB 2667249 tyrB Bordetella pertussis Tohama I aromatic amino acid aminotransferase NP_880501.1 1884921 R 257313 CDS NP_880502.1 33592858 2667250 1886201..1888237 1 NC_002929.2 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 1888237 uvrB 2667250 uvrB Bordetella pertussis Tohama I excinuclease ABC subunit B NP_880502.1 1886201 D 257313 CDS NP_880503.1 33592859 2667251 1888490..1888981 1 NC_002929.2 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 1888981 ptpA 2667251 ptpA Bordetella pertussis Tohama I low molecular weight protein-tyrosine-phosphatase NP_880503.1 1888490 D 257313 CDS NP_880504.1 33592860 2665966 1889197..1889709 1 NC_002929.2 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 1889709 2665966 BP1798 Bordetella pertussis Tohama I DNA-binding protein NP_880504.1 1889197 D 257313 CDS NP_880505.1 33592861 2665967 1889727..1890938 1 NC_002929.2 catalyzes the removal of elemental sulfur from cysteine to produce alanine; involved in NAD biosynthesis; cysteine desulfurase 1890938 iscS 2665967 iscS Bordetella pertussis Tohama I cysteine desulfurase NP_880505.1 1889727 D 257313 CDS NP_880506.1 33592862 2665968 1890976..1891386 1 NC_002929.2 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 1891386 iscU 2665968 iscU Bordetella pertussis Tohama I scaffold protein NP_880506.1 1890976 D 257313 CDS NP_880507.1 33592863 2665969 1891388..1891711 1 NC_002929.2 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 1891711 iscA 2665969 iscA Bordetella pertussis Tohama I [Fe-S] cluster formation/repair protein NP_880507.1 1891388 D 257313 CDS NP_880508.1 33592864 2665970 1891714..1892226 1 NC_002929.2 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 1892226 hscB 2665970 hscB Bordetella pertussis Tohama I co-chaperone HscB NP_880508.1 1891714 D 257313 CDS NP_880509.1 33592865 2665971 1892356..1894218 1 NC_002929.2 involved in the maturation of iron-sulfur cluster-containing proteins; chaperone protein HscA 1894218 hscA 2665971 hscA Bordetella pertussis Tohama I chaperone protein HscA NP_880509.1 1892356 D 257313 CDS NP_880510.1 33592866 2665972 1894228..1894569 1 NC_002929.2 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 1894569 fdx 2665972 fdx Bordetella pertussis Tohama I ferredoxin, 2Fe-2S NP_880510.1 1894228 D 257313 CDS NP_880511.1 33592867 2665973 1894569..1894763 1 NC_002929.2 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 1894763 2665973 BP1805 Bordetella pertussis Tohama I hypothetical protein NP_880511.1 1894569 D 257313 CDS NP_880512.1 33592868 2665980 1894888..1895781 1 NC_002929.2 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 1895781 2665980 BP1806 Bordetella pertussis Tohama I hypothetical protein NP_880512.1 1894888 D 257313 CDS NP_880513.1 33592869 2665981 complement(1895778..1896728) 1 NC_002929.2 transposase for IS481 element; transposase 1896728 2665981 BP1807 Bordetella pertussis Tohama I transposase NP_880513.1 1895778 R 257313 CDS NP_880514.1 33592870 2666857 complement(1896853..1897662) 1 NC_002929.2 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 1897662 paaG 2666857 paaG Bordetella pertussis Tohama I enoyl-CoA hydratase NP_880514.1 1896853 R 257313 CDS NP_880515.1 33592871 2666858 1897863..1898813 1 NC_002929.2 transposase for IS481 element; transposase 1898813 2666858 BP1809 Bordetella pertussis Tohama I transposase NP_880515.1 1897863 D 257313 CDS NP_880516.1 33592872 2666859 1898912..1899862 1 NC_002929.2 transposase for IS481 element; transposase 1899862 2666859 BP1810 Bordetella pertussis Tohama I transposase NP_880516.1 1898912 D 257313 CDS NP_880517.1 33592873 2666861 1901136..1902353 1 NC_002929.2 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 1902353 2666861 BP1812 Bordetella pertussis Tohama I hypothetical protein NP_880517.1 1901136 D 257313 CDS NP_880518.1 33592874 2666862 1902350..1903405 1 NC_002929.2 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 1903405 pdxA 2666862 pdxA Bordetella pertussis Tohama I pyridoxal phosphate biosynthetic protein NP_880518.1 1902350 D 257313 CDS NP_880519.1 33592875 2666863 1903410..1904312 1 NC_002929.2 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 1904312 2666863 BP1814 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_880519.1 1903410 D 257313 CDS NP_880520.1 33592876 2666864 1904389..1905261 1 NC_002929.2 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 1905261 2666864 BP1815 Bordetella pertussis Tohama I hypothetical protein NP_880520.1 1904389 D 257313 CDS NP_880521.1 33592877 2666865 1905392..1905760 1 NC_002929.2 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 1905760 panD 2666865 panD Bordetella pertussis Tohama I aspartate alpha-decarboxylase NP_880521.1 1905392 D 257313 CDS NP_880522.1 33592878 2666216 1905818..1906864 1 NC_002929.2 catalyzes the formation of 3,6-dideoxy-D-glycero-D-glycero-4-hexulose; CDP-6-deoxy-delta-3,4-glucoseen reductase 1906864 ascD 2666216 ascD Bordetella pertussis Tohama I CDP-6-deoxy-delta-3,4-glucoseen reductase NP_880522.1 1905818 D 257313 CDS NP_880523.1 33592879 2666217 1907060..1908316 1 NC_002929.2 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 1908316 dadA 2666217 dadA Bordetella pertussis Tohama I D-amino acid dehydrogenase small subunit NP_880523.1 1907060 D 257313 CDS NP_880524.1 33592880 2666218 1908336..1909658 1 NC_002929.2 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 1909658 ugpB 2666218 ugpB Bordetella pertussis Tohama I glycerol-3-phosphate ABC transporter substrate-binding protein NP_880524.1 1908336 D 257313 CDS NP_880525.1 33592881 2666231 complement(1909808..1910764) 1 NC_002929.2 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 1910764 2666231 BP1820 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880525.1 1909808 R 257313 CDS NP_880526.1 33592882 2666233 1912237..1912587 1 NC_002929.2 hypothetical protein 1912587 2666233 BP1822 Bordetella pertussis Tohama I hypothetical protein NP_880526.1 1912237 D 257313 CDS NP_880527.1 33592883 2666234 1912635..1914209 1 NC_002929.2 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 1914209 2666234 BP1823 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_880527.1 1912635 D 257313 CDS NP_880528.1 33592884 2666235 1914262..1915206 1 NC_002929.2 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 1915206 2666235 BP1824 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_880528.1 1914262 D 257313 CDS NP_880529.1 33592885 2667602 1915224..1916054 1 NC_002929.2 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 1916054 2667602 BP1825 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_880529.1 1915224 D 257313 CDS NP_880530.1 33592886 2667603 1916047..1917681 1 NC_002929.2 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 1917681 2667603 BP1826 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880530.1 1916047 D 257313 CDS NP_880531.1 33592887 2667604 1917678..1919033 1 NC_002929.2 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 1919033 2667604 BP1827 Bordetella pertussis Tohama I amidase NP_880531.1 1917678 D 257313 CDS NP_880532.1 33592888 2667110 1919940..1921517 1 NC_002929.2 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 1921517 2667110 BP1829 Bordetella pertussis Tohama I lipoprotein NP_880532.1 1919940 D 257313 CDS NP_880533.1 33592889 2667111 1921521..1922795 1 NC_002929.2 no significant database matches; hypothetical protein 1922795 2667111 BP1830 Bordetella pertussis Tohama I hypothetical protein NP_880533.1 1921521 D 257313 CDS NP_880534.1 33592890 2667112 1922893..1923267 1 NC_002929.2 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 1923267 2667112 BP1831 Bordetella pertussis Tohama I hypothetical protein NP_880534.1 1922893 D 257313 CDS NP_880535.1 33592891 2667114 1924983..1926116 1 NC_002929.2 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 1926116 2667114 BP1833 Bordetella pertussis Tohama I general secretion pathway protein NP_880535.1 1924983 D 257313 CDS NP_880536.1 33592892 2667115 1926154..1926759 1 NC_002929.2 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 1926759 2667115 BP1834 Bordetella pertussis Tohama I fimbrial protein NP_880536.1 1926154 D 257313 CDS NP_880537.1 33592893 2667116 1926756..1927574 1 NC_002929.2 no significant database matches; hypothetical protein 1927574 2667116 BP1835 Bordetella pertussis Tohama I hypothetical protein NP_880537.1 1926756 D 257313 CDS NP_880538.1 33592894 2667117 1927646..1930270 1 NC_002929.2 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 1930270 alaS 2667117 alaS Bordetella pertussis Tohama I alanyl-tRNA synthetase NP_880538.1 1927646 D 257313 CDS NP_880539.1 33592895 2667118 1930257..1930511 1 NC_002929.2 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 1930511 2667118 BP1837 Bordetella pertussis Tohama I hypothetical protein NP_880539.1 1930257 D 257313 CDS NP_880540.1 33592896 2667119 complement(1930578..1931159) 1 NC_002929.2 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 1931159 2667119 BP1838 Bordetella pertussis Tohama I hypothetical protein NP_880540.1 1930578 R 257313 CDS NP_880541.1 33592897 2667120 1931463..1931723 1 NC_002929.2 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 1931723 rpsP 2667120 rpsP Bordetella pertussis Tohama I 30S ribosomal protein S16 NP_880541.1 1931463 D 257313 CDS NP_880542.1 33592898 2667121 1931889..1932512 1 NC_002929.2 Essential for efficient processing of 16S rRNA; 16S rRNA-processing protein RimM 1932512 rimM 2667121 rimM Bordetella pertussis Tohama I 16S rRNA-processing protein RimM NP_880542.1 1931889 D 257313 CDS NP_880543.1 33592899 2667122 1932512..1933285 1 NC_002929.2 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA; tRNA (guanine-N(1)-)-methyltransferase 1933285 trmD 2667122 trmD Bordetella pertussis Tohama I tRNA (guanine-N(1)-)-methyltransferase NP_880543.1 1932512 D 257313 CDS NP_880544.1 33592900 2667123 complement(1933282..1934490) 1 NC_002929.2 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 1934490 2667123 BP1842 Bordetella pertussis Tohama I class-V aminotransferase NP_880544.1 1933282 R 257313 CDS NP_880545.1 33592901 2667124 complement(1934516..1934989) 1 NC_002929.2 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 1934989 2667124 BP1843 Bordetella pertussis Tohama I hypothetical protein NP_880545.1 1934516 R 257313 CDS NP_880546.1 33592902 2667125 complement(1935063..1936013) 1 NC_002929.2 transposase for IS481 element; transposase 1936013 2667125 BP1844 Bordetella pertussis Tohama I transposase NP_880546.1 1935063 R 257313 CDS NP_880547.1 33592903 2667126 complement(1936112..1937128) 1 NC_002929.2 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 1937128 2667126 BP1845 Bordetella pertussis Tohama I hypothetical protein NP_880547.1 1936112 R 257313 CDS NP_880548.1 33592904 2667127 1937307..1938341 1 NC_002929.2 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 1938341 2667127 BP1846 Bordetella pertussis Tohama I hypothetical protein NP_880548.1 1937307 D 257313 CDS NP_880549.1 33592905 2667128 1938338..1938964 1 NC_002929.2 catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP); thymidylate kinase 1938964 tmk 2667128 tmk Bordetella pertussis Tohama I thymidylate kinase NP_880549.1 1938338 D 257313 CDS NP_880550.1 33592906 2667129 1938961..1940013 1 NC_002929.2 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' 1940013 holB 2667129 holB Bordetella pertussis Tohama I DNA polymerase III subunit delta' NP_880550.1 1938961 D 257313 CDS NP_880551.1 33592907 2667130 1940063..1940833 1 NC_002929.2 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 1940833 2667130 BP1849 Bordetella pertussis Tohama I hypothetical protein NP_880551.1 1940063 D 257313 CDS NP_880552.1 33592908 2666875 1940884..1941720 1 NC_002929.2 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 1941720 2666875 BP1850 Bordetella pertussis Tohama I hypothetical protein NP_880552.1 1940884 D 257313 CDS NP_880553.1 33592909 2666876 1941916..1942656 1 NC_002929.2 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 1942656 2666876 BP1851 Bordetella pertussis Tohama I transcriptional regulator NP_880553.1 1941916 D 257313 CDS NP_880554.1 33592910 2666877 1942731..1943474 1 NC_002929.2 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 1943474 2666877 BP1852 Bordetella pertussis Tohama I glutamine ABC transporter substrate-binding protein NP_880554.1 1942731 D 257313 CDS NP_880555.1 33592911 2666879 1944136..1944909 1 NC_002929.2 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 1944909 glnQ 2666879 glnQ Bordetella pertussis Tohama I glutamine transport ATP-binding protein NP_880555.1 1944136 D 257313 CDS NP_880556.1 33592912 2666881 1946047..1947336 1 NC_002929.2 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 1947336 gdhA 2666881 gdhA Bordetella pertussis Tohama I glutamate dehydrogenase NP_880556.1 1946047 D 257313 CDS NP_880557.1 33592913 2666883 complement(1948947..1950194) 1 NC_002929.2 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 1950194 amaB 2666883 amaB Bordetella pertussis Tohama I allantoate amidohydrolase NP_880557.1 1948947 R 257313 CDS NP_880558.1 33592914 2667636 complement(1950204..1951913) 1 NC_002929.2 catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; also known as acetolactate synthase large subunit; thiamine pyrophosphate protein 1951913 ilvG 2667636 ilvG Bordetella pertussis Tohama I thiamine pyrophosphate protein NP_880558.1 1950204 R 257313 CDS NP_880559.1 33592915 2667637 complement(1951910..1952848) 1 NC_002929.2 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 1952848 citE 2667637 citE Bordetella pertussis Tohama I citrate lyase subunit beta NP_880559.1 1951910 R 257313 CDS NP_880560.1 33592916 2667638 complement(1952845..1954128) 1 NC_002929.2 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 1954128 2667638 BP1862 Bordetella pertussis Tohama I hypothetical protein NP_880560.1 1952845 R 257313 CDS NP_880561.1 33592917 2667639 complement(1954132..1954614) 1 NC_002929.2 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 1954614 2667639 BP1863 Bordetella pertussis Tohama I hypothetical protein NP_880561.1 1954132 R 257313 CDS NP_880562.1 33592918 2667640 complement(1954615..1955601) 1 NC_002929.2 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 1955601 2667640 BP1864 Bordetella pertussis Tohama I hypothetical protein NP_880562.1 1954615 R 257313 CDS NP_880563.1 33592919 2667641 complement(1955774..1956493) 1 NC_002929.2 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 1956493 2667641 BP1865 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_880563.1 1955774 R 257313 CDS NP_880564.1 33592920 2667642 complement(1956610..1957560) 1 NC_002929.2 transposase for IS481 element; transposase 1957560 2667642 BP1866 Bordetella pertussis Tohama I transposase NP_880564.1 1956610 R 257313 CDS NP_880566.1 33592922 2667648 1960746..1962095 1 NC_002929.2 catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia; amidase 1962095 2667648 BP1874 Bordetella pertussis Tohama I amidase NP_880566.1 1960746 D 257313 CDS NP_880567.1 33592923 2667649 1962153..1962947 1 NC_002929.2 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 1962947 2667649 BP1875 Bordetella pertussis Tohama I hypothetical protein NP_880567.1 1962153 D 257313 CDS NP_880568.1 33592924 2667056 1963081..1963956 1 NC_002929.2 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 1963956 bvgR 2667056 bvgR Bordetella pertussis Tohama I regulatory protein BvgR NP_880568.1 1963081 D 257313 CDS NP_880569.1 33592925 2667057 complement(1964000..1967716) 1 NC_002929.2 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 1967716 bvgS 2667057 bvgS Bordetella pertussis Tohama I virulence sensor protein NP_880569.1 1964000 R 257313 CDS NP_880570.1 33592926 2667058 complement(1967725..1968354) 1 NC_002929.2 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 1968354 bvgA 2667058 bvgA Bordetella pertussis Tohama I virulence factors transcription regulator NP_880570.1 1967725 R 257313 CDS NP_880571.1 33592927 2667059 1968781..1979553 1 NC_002929.2 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 1979553 fhaB 2667059 fhaB Bordetella pertussis Tohama I filamentous hemagglutinin/adhesin NP_880571.1 1968781 D 257313 CDS NP_880572.1 33592928 2667064 1980316..1981050 1 NC_002929.2 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 1981050 fimB 2667064 fimB Bordetella pertussis Tohama I chaperone protein NP_880572.1 1980316 D 257313 CDS NP_880573.1 33592929 2667065 1981113..1983734 1 NC_002929.2 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 1983734 fimC 2667065 fimC Bordetella pertussis Tohama I outer membrane usher protein NP_880573.1 1981113 D 257313 CDS NP_880574.1 33592930 2667435 1983748..1984845 1 NC_002929.2 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 1984845 fimD 2667435 fimD Bordetella pertussis Tohama I fimbrial adhesin NP_880574.1 1983748 D 257313 CDS NP_880575.1 33592931 2667436 1984838..1986592 1 NC_002929.2 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 1986592 fhaC 2667436 fhaC Bordetella pertussis Tohama I hemolysin activator-like protein NP_880575.1 1984838 D 257313 CDS NP_880576.1 33592932 2667438 complement(1987910..1988410) 1 NC_002929.2 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 1988410 2667438 BP1886 Bordetella pertussis Tohama I hypothetical protein NP_880576.1 1987910 R 257313 CDS NP_880577.1 33592933 2667439 complement(1988417..1989391) 1 NC_002929.2 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 1989391 2667439 BP1887 Bordetella pertussis Tohama I hypothetical protein NP_880577.1 1988417 R 257313 CDS NP_880578.1 33592934 2667441 complement(1990948..1991439) 1 NC_002929.2 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 1991439 2667441 BP1890 Bordetella pertussis Tohama I hypothetical protein NP_880578.1 1990948 R 257313 CDS NP_880579.1 33592935 2667442 complement(1991453..1992418) 1 NC_002929.2 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 1992418 2667442 BP1891 Bordetella pertussis Tohama I hypothetical protein NP_880579.1 1991453 R 257313 CDS NP_880580.1 33592936 2667443 complement(1992439..1993116) 1 NC_002929.2 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 1993116 2667443 BP1892 Bordetella pertussis Tohama I hypothetical protein NP_880580.1 1992439 R 257313 CDS NP_880581.1 33592937 2667445 1994315..1994827 1 NC_002929.2 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 1994827 2667445 BP1894 Bordetella pertussis Tohama I hypothetical protein NP_880581.1 1994315 D 257313 CDS NP_880582.1 33592938 2667446 1994906..1998529 1 NC_002929.2 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 1998529 oplaH 2667446 oplaH Bordetella pertussis Tohama I 5-oxoprolinase NP_880582.1 1994906 D 257313 CDS NP_880583.1 33592939 2667447 complement(1998543..1999574) 1 NC_002929.2 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 1999574 2667447 BP1896 Bordetella pertussis Tohama I hypothetical protein NP_880583.1 1998543 R 257313 CDS NP_880584.1 33592940 2665419 2000734..2001567 1 NC_002929.2 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 2001567 2665419 BP1898 Bordetella pertussis Tohama I hypothetical protein NP_880584.1 2000734 D 257313 CDS NP_880585.1 33592941 2665420 complement(2001581..2002339) 1 NC_002929.2 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 2002339 2665420 BP1899 Bordetella pertussis Tohama I transcriptional regulator NP_880585.1 2001581 R 257313 CDS NP_880586.1 33592942 2665421 2002501..2003493 1 NC_002929.2 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 2003493 2665421 BP1900 Bordetella pertussis Tohama I hypothetical protein NP_880586.1 2002501 D 257313 CDS NP_880587.1 33592943 2665422 complement(2003711..2004487) 1 NC_002929.2 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 2004487 2665422 BP1901 Bordetella pertussis Tohama I methyltransferase NP_880587.1 2003711 R 257313 CDS NP_880588.1 33592944 2665423 2004595..2005377 1 NC_002929.2 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 2005377 suhB 2665423 suhB Bordetella pertussis Tohama I inositol monophosphatase NP_880588.1 2004595 D 257313 CDS NP_880589.1 33592945 2665424 2005504..2007090 1 NC_002929.2 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 2007090 2665424 BP1903 Bordetella pertussis Tohama I hypothetical protein NP_880589.1 2005504 D 257313 CDS NP_880590.1 33592946 2665425 2007115..2007978 1 NC_002929.2 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 2007978 uppP 2665425 uppP Bordetella pertussis Tohama I undecaprenyl pyrophosphate phosphatase NP_880590.1 2007115 D 257313 CDS NP_880591.1 33592947 2665426 complement(2008186..2008935) 1 NC_002929.2 catalyzes the formation of 2,3=diacylglucosamine 1-phosphate from UDP-2,3=diacylglucosamine; UDP-2,3-diacylglucosamine hydrolase 2008935 lpxH 2665426 lpxH Bordetella pertussis Tohama I UDP-2,3-diacylglucosamine hydrolase NP_880591.1 2008186 R 257313 CDS NP_880592.1 33592948 2665427 complement(2008955..2009464) 1 NC_002929.2 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 2009464 ppiB 2665427 ppiB Bordetella pertussis Tohama I peptidyl-prolyl cis-trans isomerase B NP_880592.1 2008955 R 257313 CDS NP_880593.1 33592949 2665428 complement(2009593..2010276) 1 NC_002929.2 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 2010276 2665428 BP1907 Bordetella pertussis Tohama I hypothetical protein NP_880593.1 2009593 R 257313 CDS NP_880594.1 33592950 2665429 2010516..2011976 1 NC_002929.2 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 2011976 cysS 2665429 cysS Bordetella pertussis Tohama I cysteinyl-tRNA synthetase NP_880594.1 2010516 D 257313 CDS NP_880595.1 33592951 2666722 2011996..2012640 1 NC_002929.2 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 2012640 2666722 BP1909 Bordetella pertussis Tohama I DNA-3-methyladenine glycosylase NP_880595.1 2011996 D 257313 CDS NP_880596.1 33592952 2666723 2012677..2013642 1 NC_002929.2 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 2013642 accA 2666723 accA Bordetella pertussis Tohama I acetyl-CoA carboxylase carboxyltransferase subunit alpha NP_880596.1 2012677 D 257313 CDS NP_880597.1 33592953 2666724 2013741..2014691 1 NC_002929.2 transposase for IS481 element; transposase 2014691 2666724 BP1911 Bordetella pertussis Tohama I transposase NP_880597.1 2013741 D 257313 CDS NP_880598.1 33592954 2666725 2014821..2015786 1 NC_002929.2 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 2015786 2666725 BP1912 Bordetella pertussis Tohama I hypothetical protein NP_880598.1 2014821 D 257313 CDS NP_880599.1 33592955 2666726 2015886..2017151 1 NC_002929.2 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation.; aspartate kinase 2017151 ask 2666726 ask Bordetella pertussis Tohama I aspartate kinase NP_880599.1 2015886 D 257313 CDS NP_880600.1 33592956 2666727 complement(2017545..2018561) 1 NC_002929.2 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 2018561 2666727 BP1914 Bordetella pertussis Tohama I transposase for IS1663 NP_880600.1 2017545 R 257313 CDS NP_880601.1 33592957 2666728 2018905..2019405 1 NC_002929.2 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 2019405 2666728 BP1915 Bordetella pertussis Tohama I hypothetical protein NP_880601.1 2018905 D 257313 CDS NP_880602.1 33592958 2666729 2019447..2019761 1 NC_002929.2 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 2019761 2666729 BP1916 Bordetella pertussis Tohama I hypothetical protein NP_880602.1 2019447 D 257313 CDS NP_880603.1 33592959 2666730 2019771..2020712 1 NC_002929.2 Converts (S)-3-hydroxyactk-CoA to 3-oxoayl-CoA; 3-hydroxyacyl-CoA dehydrogenase 2020712 2666730 BP1917 Bordetella pertussis Tohama I 3-hydroxyacyl-CoA dehydrogenase NP_880603.1 2019771 D 257313 CDS NP_880604.1 33592960 2666731 2020709..2021233 1 NC_002929.2 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 2021233 2666731 BP1918 Bordetella pertussis Tohama I hypothetical protein NP_880604.1 2020709 D 257313 CDS NP_880605.1 33592961 2666732 2021236..2022504 1 NC_002929.2 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 2022504 2666732 BP1919 Bordetella pertussis Tohama I hypothetical protein NP_880605.1 2021236 D 257313 CDS NP_880606.1 33592962 2665478 2022533..2023516 1 NC_002929.2 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 2023516 2665478 BP1920 Bordetella pertussis Tohama I C4-dicarboxylate ABC transporter substrate-binding protein NP_880606.1 2022533 D 257313 CDS NP_880607.1 33592963 2665479 2023513..2024322 1 NC_002929.2 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 2024322 bioH 2665479 bioH Bordetella pertussis Tohama I hydrolase NP_880607.1 2023513 D 257313 CDS NP_880608.1 33592964 2665480 2024319..2025122 1 NC_002929.2 catalyzes the formation of L-aspartate to iminoaspartate in NAD(+) biosynthesis; L-aspartate dehydrogenase 2025122 2665480 BP1922 Bordetella pertussis Tohama I L-aspartate dehydrogenase NP_880608.1 2024319 D 257313 CDS NP_880609.1 33592965 2665481 2025137..2025904 1 NC_002929.2 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 2025904 2665481 BP1923 Bordetella pertussis Tohama I short chain dehydrogenase NP_880609.1 2025137 D 257313 CDS NP_880610.1 33592966 2665915 2025992..2026630 1 NC_002929.2 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 2026630 2665915 BP1924 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_880610.1 2025992 D 257313 CDS NP_880611.1 33592967 2665916 complement(2026635..2027588) 1 NC_002929.2 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 2027588 2665916 BP1925 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880611.1 2026635 R 257313 CDS NP_880612.1 33592968 2665917 2027700..2028824 1 NC_002929.2 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 2028824 2665917 BP1926 Bordetella pertussis Tohama I extracellular solute-binding protein NP_880612.1 2027700 D 257313 CDS NP_880613.1 33592969 2665919 2030462..2031289 1 NC_002929.2 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 2031289 2665919 BP1928 Bordetella pertussis Tohama I ABC transporter permease NP_880613.1 2030462 D 257313 CDS NP_880614.1 33592970 2666663 2031286..2032089 1 NC_002929.2 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 2032089 2666663 BP1929 Bordetella pertussis Tohama I ABC transporter permease NP_880614.1 2031286 D 257313 CDS NP_880615.1 33592971 2666664 2032086..2033177 1 NC_002929.2 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 2033177 2666664 BP1930 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880615.1 2032086 D 257313 CDS NP_880616.1 33592972 2666665 complement(2033584..2034612) 1 NC_002929.2 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 2034612 2666665 BP1931 Bordetella pertussis Tohama I NADH-dependent flavin oxidoreductase NP_880616.1 2033584 R 257313 CDS NP_880617.1 33592973 2666667 complement(2035484..2037604) 1 NC_002929.2 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 2037604 2666667 BP1933 Bordetella pertussis Tohama I pimeloyl-CoA synthetase NP_880617.1 2035484 R 257313 CDS NP_880618.1 33592974 2666668 complement(2037605..2038561) 1 NC_002929.2 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 2038561 2666668 BP1934 Bordetella pertussis Tohama I hypothetical protein NP_880618.1 2037605 R 257313 CDS NP_880619.1 33592975 2666669 complement(2038630..2039022) 1 NC_002929.2 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 2039022 2666669 BP1935 Bordetella pertussis Tohama I hypothetical protein NP_880619.1 2038630 R 257313 CDS NP_880620.1 33592976 2666670 complement(2039026..2039502) 1 NC_002929.2 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 2039502 2666670 BP1936 Bordetella pertussis Tohama I hypothetical protein NP_880620.1 2039026 R 257313 CDS NP_880621.1 33592977 2666671 complement(2039516..2039851) 1 NC_002929.2 no significant database matches; hypothetical protein 2039851 2666671 BP1937 Bordetella pertussis Tohama I hypothetical protein NP_880621.1 2039516 R 257313 CDS NP_880622.1 33592978 2666672 complement(2039858..2040307) 1 NC_002929.2 no significant database matches; hypothetical protein 2040307 2666672 BP1938 Bordetella pertussis Tohama I hypothetical protein NP_880622.1 2039858 R 257313 CDS NP_880623.1 33592979 2666673 2040515..2040814 1 NC_002929.2 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 2040814 2666673 BP1939 Bordetella pertussis Tohama I ArsR family transcriptional regulator NP_880623.1 2040515 D 257313 CDS NP_880624.1 33592980 2666674 2040867..2041979 1 NC_002929.2 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 2041979 nemA 2666674 nemA Bordetella pertussis Tohama I N-ethylmaleimide reductase NP_880624.1 2040867 D 257313 CDS NP_880625.1 33592981 2666675 complement(2041984..2042574) 1 NC_002929.2 no significant database matches; hypothetical protein 2042574 2666675 BP1941 Bordetella pertussis Tohama I hypothetical protein NP_880625.1 2041984 R 257313 CDS NP_880626.1 33592982 2665639 complement(2042603..2043862) 1 NC_002929.2 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 2043862 hmsR 2665639 hmsR Bordetella pertussis Tohama I N-glycosyltransferase NP_880626.1 2042603 R 257313 CDS NP_880627.1 33592983 2665640 complement(2043866..2045971) 1 NC_002929.2 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 2045971 hmsF 2665640 hmsF Bordetella pertussis Tohama I hemin storage protein NP_880627.1 2043866 R 257313 CDS NP_880628.1 33592984 2665641 complement(2045977..2047962) 1 NC_002929.2 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 2047962 hmsH 2665641 hmsH Bordetella pertussis Tohama I hemin storage protein NP_880628.1 2045977 R 257313 CDS NP_880629.1 33592985 2665642 2048171..2048407 1 NC_002929.2 no significant database matches; hypothetical protein 2048407 2665642 BP1945 Bordetella pertussis Tohama I hypothetical protein NP_880629.1 2048171 D 257313 CDS NP_880630.1 33592986 2665647 2048752..2049237 1 NC_002929.2 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 2049237 2665647 BP1946 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_880630.1 2048752 D 257313 CDS NP_880631.1 33592987 2665648 2049605..2050555 1 NC_002929.2 transposase for IS481 element; transposase 2050555 2665648 BP1947 Bordetella pertussis Tohama I transposase NP_880631.1 2049605 D 257313 CDS NP_880632.1 33592988 2665649 2050602..2051810 1 NC_002929.2 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 2051810 2665649 BP1948 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter substrate-binding protein NP_880632.1 2050602 D 257313 CDS NP_880633.1 33592989 2665650 2051902..2053851 1 NC_002929.2 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 2053851 2665650 BP1949 Bordetella pertussis Tohama I permease of branched-chain amino acid transport system NP_880633.1 2051902 D 257313 CDS NP_880634.1 33592990 2665651 2053848..2054624 1 NC_002929.2 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 2054624 2665651 BP1950 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter ATP-binding protein NP_880634.1 2053848 D 257313 CDS NP_880635.1 33592991 2665652 2054621..2055391 1 NC_002929.2 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 2055391 2665652 BP1951 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880635.1 2054621 D 257313 CDS NP_880636.1 33592992 2665706 complement(2057835..2058356) 1 NC_002929.2 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 2058356 2665706 BP1953 Bordetella pertussis Tohama I oxidoreductase NP_880636.1 2057835 R 257313 CDS NP_880637.1 33592993 2665712 complement(2058433..2059584) 1 NC_002929.2 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 2059584 2665712 BP1954 Bordetella pertussis Tohama I monooxygenase NP_880637.1 2058433 R 257313 CDS NP_880638.1 33592994 2665713 2059885..2060637 1 NC_002929.2 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 2060637 maiA 2665713 maiA Bordetella pertussis Tohama I maleate cis-trans isomerase NP_880638.1 2059885 D 257313 CDS NP_880639.1 33592995 2666013 2061504..2062535 1 NC_002929.2 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 2062535 2666013 BP1957 Bordetella pertussis Tohama I hypothetical protein NP_880639.1 2061504 D 257313 CDS NP_880640.1 33592996 2666014 2062551..2063168 1 NC_002929.2 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 2063168 2666014 BP1958 Bordetella pertussis Tohama I isochorismatase NP_880640.1 2062551 D 257313 CDS NP_880641.1 33592997 2666015 2063360..2064376 1 NC_002929.2 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 2064376 2666015 BP1959 Bordetella pertussis Tohama I transposase for IS1663 NP_880641.1 2063360 D 257313 CDS NP_880642.1 33592998 2666017 2066515..2067855 1 NC_002929.2 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 2067855 2666017 BP1961 Bordetella pertussis Tohama I flavocytochrome NP_880642.1 2066515 D 257313 CDS NP_880643.1 33592999 2666638 complement(2067866..2069974) 1 NC_002929.2 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 2069974 bfrI 2666638 bfrI Bordetella pertussis Tohama I ferrisiderophore receptor NP_880643.1 2067866 R 257313 CDS NP_880644.1 33593000 2666640 2070729..2071694 1 NC_002929.2 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 2071694 2666640 BP1965 Bordetella pertussis Tohama I hypothetical protein NP_880644.1 2070729 D 257313 CDS NP_880645.1 33593001 2666643 2074972..2075634 1 NC_002929.2 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 2075634 2666643 BP1969 Bordetella pertussis Tohama I LuxR family transcriptional regulator NP_880645.1 2074972 D 257313 CDS NP_880646.1 33593002 2666644 2075736..2077163 1 NC_002929.2 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 2077163 pgm 2666644 pgm Bordetella pertussis Tohama I phosphoglucomutase NP_880646.1 2075736 D 257313 CDS NP_880647.1 33593003 2666645 2077173..2078744 1 NC_002929.2 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 2078744 pgi 2666645 pgi Bordetella pertussis Tohama I glucose-6-phosphate isomerase NP_880647.1 2077173 D 257313 CDS NP_880648.1 33593004 2666646 2078927..2079880 1 NC_002929.2 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 2079880 srpH 2666646 srpH Bordetella pertussis Tohama I serine acetyltransferase NP_880648.1 2078927 D 257313 CDS NP_880649.1 33593005 2666647 2079942..2081168 1 NC_002929.2 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 2081168 2666647 BP1973 Bordetella pertussis Tohama I hypothetical protein NP_880649.1 2079942 D 257313 CDS NP_880650.1 33593006 2666648 2081181..2082005 1 NC_002929.2 Modulates the activities of several enzymes which are inactive in their acetylated form; NAD-dependent deacetylase 2082005 2666648 BP1974 Bordetella pertussis Tohama I NAD-dependent deacetylase NP_880650.1 2081181 D 257313 CDS NP_880651.1 33593007 2666649 complement(2082074..2082925) 1 NC_002929.2 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 2082925 2666649 BP1975 Bordetella pertussis Tohama I inositol monophosphatase NP_880651.1 2082074 R 257313 CDS NP_880652.1 33593008 2666650 complement(2083103..2084572) 1 NC_002929.2 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 2084572 gabD 2666650 gabD Bordetella pertussis Tohama I succinate-semialdehyde dehydrogenase NP_880652.1 2083103 R 257313 CDS NP_880653.1 33593009 2666651 complement(2084652..2085917) 1 NC_002929.2 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 2085917 goaG 2666651 goaG Bordetella pertussis Tohama I 4-aminobutyrate aminotransferase NP_880653.1 2084652 R 257313 CDS NP_880654.1 33593010 2665716 complement(2087552..2088451) 1 NC_002929.2 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 2088451 2665716 BP1979 Bordetella pertussis Tohama I hypothetical protein NP_880654.1 2087552 R 257313 CDS NP_880655.1 33593011 2665717 2088531..2090624 1 NC_002929.2 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 2090624 2665717 BP1980 Bordetella pertussis Tohama I ATP-dependent DNA helicase NP_880655.1 2088531 D 257313 CDS NP_880656.1 33593012 2665719 2091546..2092184 1 NC_002929.2 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 2092184 2665719 BP1982 Bordetella pertussis Tohama I nuclease NP_880656.1 2091546 D 257313 CDS NP_880657.1 33593013 2665720 2092281..2094530 1 NC_002929.2 no significant database matches; extracellular solute-binding protein 2094530 2665720 BP1983 Bordetella pertussis Tohama I extracellular solute-binding protein NP_880657.1 2092281 D 257313 CDS NP_880658.1 33593014 2665721 2094527..2095504 1 NC_002929.2 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 2095504 2665721 BP1984 Bordetella pertussis Tohama I oligopeptide transport system permease NP_880658.1 2094527 D 257313 CDS NP_880659.1 33593015 2665722 2095510..2096961 1 NC_002929.2 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 2096961 2665722 BP1985 Bordetella pertussis Tohama I oligopeptide transport integral membrane protein NP_880659.1 2095510 D 257313 CDS NP_880660.1 33593016 2665723 2096958..2098634 1 NC_002929.2 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 2098634 2665723 BP1986 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880660.1 2096958 D 257313 CDS NP_880661.1 33593017 2665724 complement(2098683..2099234) 1 NC_002929.2 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 2099234 2665724 BP1987 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_880661.1 2098683 R 257313 CDS NP_880662.1 33593018 2665726 complement(2101094..2102806) 1 NC_002929.2 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 2102806 2665726 BP1989 Bordetella pertussis Tohama I hypothetical protein NP_880662.1 2101094 R 257313 CDS NP_880663.1 33593019 2665727 2103263..2104081 1 NC_002929.2 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 2104081 2665727 BP1990 Bordetella pertussis Tohama I hypothetical protein NP_880663.1 2103263 D 257313 CDS NP_880664.1 33593020 2666116 2104179..2104355 1 NC_002929.2 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 2104355 2666116 BP1991 Bordetella pertussis Tohama I hypothetical protein NP_880664.1 2104179 D 257313 CDS NP_880665.1 33593021 2666117 2104425..2104949 1 NC_002929.2 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 2104949 2666117 BP1992 Bordetella pertussis Tohama I hypothetical protein NP_880665.1 2104425 D 257313 CDS NP_880666.1 33593022 2666118 2104910..2105353 1 NC_002929.2 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 2105353 2666118 BP1993 Bordetella pertussis Tohama I hypothetical protein NP_880666.1 2104910 D 257313 CDS NP_880667.1 33593023 2666119 2105355..2105831 1 NC_002929.2 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 2105831 2666119 BP1994 Bordetella pertussis Tohama I hypothetical protein NP_880667.1 2105355 D 257313 CDS NP_880668.1 33593024 2666517 2105828..2106769 1 NC_002929.2 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 2106769 2666517 BP1995 Bordetella pertussis Tohama I hypothetical protein NP_880668.1 2105828 D 257313 CDS NP_880669.1 33593025 2666518 2106825..2108174 1 NC_002929.2 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 2108174 2666518 BP1996 Bordetella pertussis Tohama I type II secretion system protein NP_880669.1 2106825 D 257313 CDS NP_880670.1 33593026 2666519 2108171..2109520 1 NC_002929.2 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 2109520 2666519 BP1997 Bordetella pertussis Tohama I hypothetical protein NP_880670.1 2108171 D 257313 CDS NP_880671.1 33593027 2666092 2110879..2111799 1 NC_002929.2 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 2111799 2666092 BP1999 Bordetella pertussis Tohama I hypothetical protein NP_880671.1 2110879 D 257313 CDS NP_880672.1 33593028 2666094 2112793..2113635 1 NC_002929.2 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 2113635 2666094 BP2001 Bordetella pertussis Tohama I lipoprotein NP_880672.1 2112793 D 257313 CDS NP_880673.1 33593029 2666096 2114059..2116302 1 NC_002929.2 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 2116302 2666096 BP2003 Bordetella pertussis Tohama I hypothetical protein NP_880673.1 2114059 D 257313 CDS NP_880674.1 33593030 2666097 2116324..2117715 1 NC_002929.2 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 2117715 2666097 BP2004 Bordetella pertussis Tohama I response regulator NP_880674.1 2116324 D 257313 CDS NP_880675.1 33593031 2666098 2117795..2118490 1 NC_002929.2 Unknown function; lipoprotein 2118490 2666098 BP2005 Bordetella pertussis Tohama I lipoprotein NP_880675.1 2117795 D 257313 CDS NP_880676.1 33593032 2666099 2118590..2119057 1 NC_002929.2 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 2119057 2666099 BP2006 Bordetella pertussis Tohama I hypothetical protein NP_880676.1 2118590 D 257313 CDS NP_880677.1 33593033 2666100 2119115..2119819 1 NC_002929.2 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 2119819 2666100 BP2007 Bordetella pertussis Tohama I RNA polymerase sigma factor NP_880677.1 2119115 D 257313 CDS NP_880678.1 33593034 2666101 2119966..2120535 1 NC_002929.2 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 2120535 2666101 BP2008 Bordetella pertussis Tohama I hypothetical protein NP_880678.1 2119966 D 257313 CDS NP_880679.1 33593035 2666102 2120532..2120942 1 NC_002929.2 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 2120942 2666102 BP2009 Bordetella pertussis Tohama I cytochrome c NP_880679.1 2120532 D 257313 CDS NP_880680.1 33593036 2666103 complement(2121062..2121619) 1 NC_002929.2 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA; elongation factor P 2121619 efp 2666103 efp Bordetella pertussis Tohama I elongation factor P NP_880680.1 2121062 R 257313 CDS NP_880681.1 33593037 2666104 complement(2121762..2122874) 1 NC_002929.2 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 2122874 2666104 BP2011 Bordetella pertussis Tohama I hypothetical protein NP_880681.1 2121762 R 257313 CDS NP_880682.1 33593038 2666105 complement(2122890..2124092) 1 NC_002929.2 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 2124092 2666105 BP2012 Bordetella pertussis Tohama I hypothetical protein NP_880682.1 2122890 R 257313 CDS NP_880683.1 33593039 2666106 2124262..2125038 1 NC_002929.2 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 2125038 2666106 BP2013 Bordetella pertussis Tohama I hypothetical protein NP_880683.1 2124262 D 257313 CDS NP_880684.1 33593040 2666107 complement(2125147..2127852) 1 NC_002929.2 catalyzes the conversion of citrate to isocitrate; aconitate hydratase 2127852 acnA 2666107 acnA Bordetella pertussis Tohama I aconitate hydratase NP_880684.1 2125147 R 257313 CDS NP_880685.1 33593041 2666108 complement(2128090..2128692) 1 NC_002929.2 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 2128692 2666108 BP2015 Bordetella pertussis Tohama I lipoprotein NP_880685.1 2128090 R 257313 CDS NP_880686.1 33593042 2666422 2128969..2131173 1 NC_002929.2 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 2131173 brfB 2666422 brfB Bordetella pertussis Tohama I ferric siderophore receptor NP_880686.1 2128969 D 257313 CDS NP_880687.1 33593043 2666423 2131336..2132070 1 NC_002929.2 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 2132070 2666423 BP2017 Bordetella pertussis Tohama I haloacid-type dehydrogenase NP_880687.1 2131336 D 257313 CDS NP_880688.1 33593044 2666424 complement(2132147..2133097) 1 NC_002929.2 transposase for IS481 element; transposase 2133097 2666424 BP2018 Bordetella pertussis Tohama I transposase NP_880688.1 2132147 R 257313 CDS NP_880689.1 33593045 2666425 complement(2133179..2133727) 1 NC_002929.2 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 2133727 2666425 BP2019 Bordetella pertussis Tohama I lipoprotein NP_880689.1 2133179 R 257313 CDS NP_880690.1 33593046 2666426 complement(2133730..2134068) 1 NC_002929.2 no significant database hits; hypothetical protein 2134068 2666426 BP2020 Bordetella pertussis Tohama I hypothetical protein NP_880690.1 2133730 R 257313 CDS NP_880691.1 33593047 2666427 complement(2134463..2137054) 1 NC_002929.2 catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase 2137054 acnB 2666427 acnB Bordetella pertussis Tohama I bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase NP_880691.1 2134463 R 257313 CDS NP_880692.1 33593048 2666428 2137190..2137864 1 NC_002929.2 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 2137864 2666428 BP2022 Bordetella pertussis Tohama I exonuclease NP_880692.1 2137190 D 257313 CDS NP_880693.1 33593049 2666429 2137877..2138263 1 NC_002929.2 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 2138263 2666429 BP2023 Bordetella pertussis Tohama I hypothetical protein NP_880693.1 2137877 D 257313 CDS NP_880694.1 33593050 2666430 complement(2138270..2138560) 1 NC_002929.2 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 2138560 2666430 BP2024 Bordetella pertussis Tohama I hypothetical protein NP_880694.1 2138270 R 257313 CDS NP_880695.1 33593051 2666431 2138696..2138995 1 NC_002929.2 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 2138995 2666431 BP2025 Bordetella pertussis Tohama I hypothetical protein NP_880695.1 2138696 D 257313 CDS NP_880696.1 33593052 2666432 2139064..2139966 1 NC_002929.2 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 2139966 2666432 BP2026 Bordetella pertussis Tohama I hypothetical protein NP_880696.1 2139064 D 257313 CDS NP_880697.1 33593053 2666433 2139970..2140740 1 NC_002929.2 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 2140740 2666433 BP2027 Bordetella pertussis Tohama I hypothetical protein NP_880697.1 2139970 D 257313 CDS NP_880698.1 33593054 2666434 2141126..2141575 1 NC_002929.2 Unknown function; hypothetical protein 2141575 2666434 BP2028 Bordetella pertussis Tohama I hypothetical protein NP_880698.1 2141126 D 257313 CDS NP_880699.1 33593055 2666435 complement(2141643..2142593) 1 NC_002929.2 transposase for IS481 element; transposase 2142593 2666435 BP2029 Bordetella pertussis Tohama I transposase NP_880699.1 2141643 R 257313 CDS NP_880700.1 33593056 2666437 complement(2142955..2143866) 1 NC_002929.2 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 2143866 2666437 BP2030 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880700.1 2142955 R 257313 CDS NP_880701.1 33593057 2666438 2144077..2145609 1 NC_002929.2 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 2145609 2666438 BP2031 Bordetella pertussis Tohama I acyl-CoA transferase NP_880701.1 2144077 D 257313 CDS NP_880702.1 33593058 2665765 complement(2146841..2147803) 1 NC_002929.2 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 2147803 2665765 BP2034 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_880702.1 2146841 R 257313 CDS NP_880704.1 33593060 2665767 complement(2155206..2155478) 1 NC_002929.2 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 2155478 2665767 BP2037 Bordetella pertussis Tohama I hypothetical protein NP_880704.1 2155206 R 257313 CDS NP_880705.1 33593061 2665768 complement(2155475..2156422) 1 NC_002929.2 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 2156422 2665768 BP2038 Bordetella pertussis Tohama I hydroxlacyl-CoA dehydrogenase NP_880705.1 2155475 R 257313 CDS NP_880706.1 33593062 2665769 2156604..2157998 1 NC_002929.2 catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia; amidase 2157998 2665769 BP2039 Bordetella pertussis Tohama I amidase NP_880706.1 2156604 D 257313 CDS NP_880707.1 33593063 2665770 complement(2158021..2158416) 1 NC_002929.2 Unknown function; hypothetical protein 2158416 2665770 BP2040 Bordetella pertussis Tohama I hypothetical protein NP_880707.1 2158021 R 257313 CDS NP_880708.1 33593064 2665771 complement(2158413..2159672) 1 NC_002929.2 Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway; gamma-glutamyl phosphate reductase 2159672 proA 2665771 proA Bordetella pertussis Tohama I gamma-glutamyl phosphate reductase NP_880708.1 2158413 R 257313 CDS NP_880709.1 33593065 2665772 complement(2159794..2160849) 1 NC_002929.2 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 2160849 holA 2665772 holA Bordetella pertussis Tohama I DNA polymerase III subunit delta NP_880709.1 2159794 R 257313 CDS NP_880710.1 33593066 2665773 complement(2160852..2161511) 1 NC_002929.2 Unknown function; lipoprotein 2161511 2665773 BP2043 Bordetella pertussis Tohama I lipoprotein NP_880710.1 2160852 R 257313 CDS NP_880711.1 33593067 2665774 complement(2161527..2164184) 1 NC_002929.2 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 2164184 leuS 2665774 leuS Bordetella pertussis Tohama I leucyl-tRNA synthetase NP_880711.1 2161527 R 257313 CDS NP_880712.1 33593068 2667543 complement(2164262..2165464) 1 NC_002929.2 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 2165464 2667543 BP2045 Bordetella pertussis Tohama I transmembrane transport protein NP_880712.1 2164262 R 257313 CDS NP_880713.1 33593069 2667544 complement(2165461..2165973) 1 NC_002929.2 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 2165973 2667544 BP2046 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_880713.1 2165461 R 257313 CDS NP_880714.2 552528635 2667545 complement(2166096..2166533) 1 NC_002929.2 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 2166533 bph2 2667545 bph2 Bordetella pertussis Tohama I DNA-binding protein Bph2 NP_880714.2 2166096 R 257313 CDS NP_880715.1 33593071 2667546 2166810..2167760 1 NC_002929.2 transposase for IS481 element; transposase 2167760 2667546 BP2048 Bordetella pertussis Tohama I transposase NP_880715.1 2166810 D 257313 CDS NP_880716.1 33593072 2667547 2168014..2169819 1 NC_002929.2 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 2169819 2667547 BP2049 Bordetella pertussis Tohama I sulfate transporter NP_880716.1 2168014 D 257313 CDS NP_880717.1 33593073 2667548 complement(2169933..2170100) 1 NC_002929.2 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 2170100 rpmG 2667548 rpmG Bordetella pertussis Tohama I 50S ribosomal protein L33 NP_880717.1 2169933 R 257313 CDS NP_880718.1 33593074 2667549 complement(2170164..2170400) 1 NC_002929.2 required for 70S ribosome assembly; 50S ribosomal protein L28 2170400 rpmB 2667549 rpmB Bordetella pertussis Tohama I 50S ribosomal protein L28 NP_880718.1 2170164 R 257313 CDS NP_880719.1 33593075 2667550 complement(2170769..2171968) 1 NC_002929.2 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 2171968 2667550 BP2052 Bordetella pertussis Tohama I transmembrane transport protein NP_880719.1 2170769 R 257313 CDS NP_880720.1 33593076 2666580 2173484..2174434 1 NC_002929.2 transposase for IS481 element; transposase 2174434 2666580 BP2054 Bordetella pertussis Tohama I transposase NP_880720.1 2173484 D 257313 CDS NP_880721.1 33593077 2666581 2174886..2175887 1 NC_002929.2 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 2175887 2666581 BP2055 Bordetella pertussis Tohama I glycine/betaine ABC transporter substrate-binding protein NP_880721.1 2174886 D 257313 CDS NP_880722.1 33593078 2666582 2176060..2176917 1 NC_002929.2 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 2176917 2666582 BP2056 Bordetella pertussis Tohama I binding-protein-dependent transport protein NP_880722.1 2176060 D 257313 CDS NP_880723.1 33593079 2666583 2176914..2178176 1 NC_002929.2 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 2178176 2666583 BP2057 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880723.1 2176914 D 257313 CDS NP_880724.1 33593080 2666584 2178277..2178651 1 NC_002929.2 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 2178651 2666584 BP2058 Bordetella pertussis Tohama I tautomerase NP_880724.1 2178277 D 257313 CDS NP_880725.1 33593081 2666585 2178724..2179911 1 NC_002929.2 catalyzes the formation of beta-ketovaleryl-CoA from acetyl-CoA and propionyl-CoA; beta-ketothiolase 2179911 2666585 BP2059 Bordetella pertussis Tohama I beta-ketothiolase NP_880725.1 2178724 D 257313 CDS NP_880726.1 33593082 2666586 2179996..2180766 1 NC_002929.2 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 2180766 2666586 BP2060 Bordetella pertussis Tohama I hypothetical protein NP_880726.1 2179996 D 257313 CDS NP_880727.1 33593083 2666587 2180880..2181644 1 NC_002929.2 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 2181644 2666587 BP2061 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_880727.1 2180880 D 257313 CDS NP_880728.1 33593084 2666588 2181595..2182896 1 NC_002929.2 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 2182896 2666588 BP2062 Bordetella pertussis Tohama I malonyl-CoA decarboxylase NP_880728.1 2181595 D 257313 CDS NP_880729.1 33593085 2666589 2182893..2183699 1 NC_002929.2 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 2183699 2666589 BP2063 Bordetella pertussis Tohama I hypothetical protein NP_880729.1 2182893 D 257313 CDS NP_880730.1 33593086 2666591 2185444..2186415 1 NC_002929.2 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 2186415 2666591 BP2066 Bordetella pertussis Tohama I hypothetical protein NP_880730.1 2185444 D 257313 CDS NP_880731.1 33593087 2666592 2186572..2187084 1 NC_002929.2 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 2187084 2666592 BP2067 Bordetella pertussis Tohama I superoxide dismutase NP_880731.1 2186572 D 257313 CDS NP_880732.1 33593088 2666593 2187243..2188217 1 NC_002929.2 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 2188217 2666593 BP2068 Bordetella pertussis Tohama I hypothetical protein NP_880732.1 2187243 D 257313 CDS NP_880733.1 33593089 2667079 2189218..2190012 1 NC_002929.2 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 2190012 2667079 BP2070 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880733.1 2189218 D 257313 CDS NP_880734.1 33593090 2667080 complement(2190038..2190844) 1 NC_002929.2 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 2190844 2667080 BP2071 Bordetella pertussis Tohama I molybdenum-binding protein NP_880734.1 2190038 R 257313 CDS NP_880735.1 33593091 2667081 2190955..2191545 1 NC_002929.2 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 2191545 2667081 BP2072 Bordetella pertussis Tohama I lipoprotein NP_880735.1 2190955 D 257313 CDS NP_880736.1 33593092 2667082 2191556..2192734 1 NC_002929.2 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 2192734 2667082 BP2073 Bordetella pertussis Tohama I hypothetical protein NP_880736.1 2191556 D 257313 CDS NP_880737.1 33593093 2667083 2192837..2193211 1 NC_002929.2 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 2193211 2667083 BP2074 Bordetella pertussis Tohama I DNA-binding protein NP_880737.1 2192837 D 257313 CDS NP_880738.1 33593094 2667084 2193464..2194810 1 NC_002929.2 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 2194810 2667084 BP2075 Bordetella pertussis Tohama I efflux system inner membrane protein NP_880738.1 2193464 D 257313 CDS NP_880739.1 33593095 2667085 2194877..2198107 1 NC_002929.2 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 2198107 2667085 BP2076 Bordetella pertussis Tohama I efflux system transmembrane protein NP_880739.1 2194877 D 257313 CDS NP_880740.1 33593096 2667087 2199598..2200344 1 NC_002929.2 involved in the de novo synthesis of pyridoxine (Vitamin B6); pyridoxine 5'-phosphate synthase 2200344 pdxJ 2667087 pdxJ Bordetella pertussis Tohama I pyridoxine 5'-phosphate synthase NP_880740.1 2199598 D 257313 CDS NP_880741.1 33593097 2667088 2200429..2200890 1 NC_002929.2 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 2200890 acpS 2667088 acpS Bordetella pertussis Tohama I 4'-phosphopantetheinyl transferase NP_880741.1 2200429 D 257313 CDS NP_880742.1 33593098 2667089 2200928..2201986 1 NC_002929.2 hydrolyzes the terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides; beta-hexosaminidase 2201986 nagZ 2667089 nagZ Bordetella pertussis Tohama I beta-hexosaminidase NP_880742.1 2200928 D 257313 CDS NP_880743.1 33593099 2667193 2201949..2203778 1 NC_002929.2 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 2203778 uvrC 2667193 uvrC Bordetella pertussis Tohama I excinuclease ABC subunit C NP_880743.1 2201949 D 257313 CDS NP_880744.1 33593100 2667194 2203818..2204390 1 NC_002929.2 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 2204390 pgsA 2667194 pgsA Bordetella pertussis Tohama I CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase NP_880744.1 2203818 D 257313 CDS NP_880745.1 33593101 2667196 complement(2205815..2206636) 1 NC_002929.2 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 2206636 queF 2667196 queF Bordetella pertussis Tohama I 7-cyano-7-deazaguanine reductase NP_880745.1 2205815 R 257313 CDS NP_880746.1 33593102 2667197 2206955..2208277 1 NC_002929.2 Catalyzes the first step in the glyoxalate cycle, which converts lipids to carbohydrates; isocitrate lyase 2208277 aceA 2667197 aceA Bordetella pertussis Tohama I isocitrate lyase NP_880746.1 2206955 D 257313 CDS NP_880747.1 33593103 2665445 2208637..2209272 1 NC_002929.2 Unknown function. C-terminus has been interrupted by an insertion element; hypothetical protein 2209272 2665445 BP2086 Bordetella pertussis Tohama I hypothetical protein NP_880747.1 2208637 D 257313 CDS NP_880748.1 33593104 2665446 complement(2209232..2210182) 1 NC_002929.2 transposase for IS481 element; transposase 2210182 2665446 BP2087 Bordetella pertussis Tohama I transposase NP_880748.1 2209232 R 257313 CDS NP_880749.1 33593105 2666653 complement(2211053..2211925) 1 NC_002929.2 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 2211925 2666653 BP2089 Bordetella pertussis Tohama I ABC transporter permease NP_880749.1 2211053 R 257313 CDS NP_880750.1 33593106 2666621 complement(2212003..2213142) 1 NC_002929.2 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 2213142 2666621 BP2090 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_880750.1 2212003 R 257313 CDS NP_880751.1 33593107 2666622 2213501..2214757 1 NC_002929.2 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 2214757 2666622 BP2091 Bordetella pertussis Tohama I dioxygenase hydroxylase component NP_880751.1 2213501 D 257313 CDS NP_880752.1 33593108 2666994 2214763..2215290 1 NC_002929.2 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 2215290 2666994 BP2092 Bordetella pertussis Tohama I dioxygenase component NP_880752.1 2214763 D 257313 CDS NP_880753.1 33593109 2666995 2215301..2216113 1 NC_002929.2 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 2216113 2666995 BP2093 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase-like protein NP_880753.1 2215301 D 257313 CDS NP_880754.1 33593110 2666996 2216113..2216835 1 NC_002929.2 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 2216835 2666996 BP2094 Bordetella pertussis Tohama I 3-oxoacyl-ACP reductase NP_880754.1 2216113 D 257313 CDS NP_880755.1 33593111 2666997 2216857..2217171 1 NC_002929.2 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 2217171 2666997 BP2095 Bordetella pertussis Tohama I ferredoxin NP_880755.1 2216857 D 257313 CDS NP_880756.1 33593112 2666998 2217189..2218337 1 NC_002929.2 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 2218337 2666998 BP2096 Bordetella pertussis Tohama I fatty-acyl-CoA racemase NP_880756.1 2217189 D 257313 CDS NP_880757.1 33593113 2666999 complement(2218368..2219243) 1 NC_002929.2 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 2219243 2666999 BP2097 Bordetella pertussis Tohama I esterase NP_880757.1 2218368 R 257313 CDS NP_880758.1 33593114 2667000 complement(2219240..2220559) 1 NC_002929.2 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 2220559 2667000 BP2098 Bordetella pertussis Tohama I acyl-CoA ligase NP_880758.1 2219240 R 257313 CDS NP_880759.1 33593115 2667001 complement(2220632..2221828) 1 NC_002929.2 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 2221828 2667001 BP2099 Bordetella pertussis Tohama I acetyl-CoA acetyltransferase NP_880759.1 2220632 R 257313 CDS NP_880760.1 33593116 2667002 complement(2221839..2223326) 1 NC_002929.2 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 2223326 2667002 BP2100 Bordetella pertussis Tohama I hypothetical protein NP_880760.1 2221839 R 257313 CDS NP_880761.1 33593117 2667004 2225921..2226820 1 NC_002929.2 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 2226820 2667004 BP2102 Bordetella pertussis Tohama I lysR family transcriptional regulator NP_880761.1 2225921 D 257313 CDS NP_880762.1 33593118 2666202 2226901..2227923 1 NC_002929.2 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 2227923 2666202 BP2103 Bordetella pertussis Tohama I hypothetical protein NP_880762.1 2226901 D 257313 CDS NP_880763.1 33593119 2666203 2228022..2228972 1 NC_002929.2 transposase for IS481 element; transposase 2228972 2666203 BP2104 Bordetella pertussis Tohama I transposase NP_880763.1 2228022 D 257313 CDS NP_880764.1 33593120 2666204 2229194..2230144 1 NC_002929.2 transposase for IS481 element; transposase 2230144 2666204 BP2105 Bordetella pertussis Tohama I transposase NP_880764.1 2229194 D 257313 CDS NP_880765.1 33593121 2666205 complement(2230141..2230443) 1 NC_002929.2 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 2230443 2666205 BP2106 Bordetella pertussis Tohama I hypothetical protein NP_880765.1 2230141 R 257313 CDS NP_880766.1 33593122 2666206 2230603..2231007 1 NC_002929.2 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 2231007 2666206 BP2107 Bordetella pertussis Tohama I hypothetical protein NP_880766.1 2230603 D 257313 CDS NP_880767.1 33593123 2666207 2231000..2232226 1 NC_002929.2 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 2232226 2666207 BP2108 Bordetella pertussis Tohama I hypothetical protein NP_880767.1 2231000 D 257313 CDS NP_880768.1 33593124 2666208 2232223..2232669 1 NC_002929.2 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 2232669 2666208 BP2109 Bordetella pertussis Tohama I hypothetical protein NP_880768.1 2232223 D 257313 CDS NP_880769.1 33593125 2666209 2232739..2233521 1 NC_002929.2 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 2233521 2666209 BP2110 Bordetella pertussis Tohama I exodeoxyribonuclease III NP_880769.1 2232739 D 257313 CDS NP_880770.1 33593126 2666210 2233563..2235068 1 NC_002929.2 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 2235068 2666210 BP2111 Bordetella pertussis Tohama I hypothetical protein NP_880770.1 2233563 D 257313 CDS NP_880772.1 33593128 2666320 complement(2237625..2238446) 1 NC_002929.2 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 2238446 2666320 BP2114 Bordetella pertussis Tohama I hydrolase NP_880772.1 2237625 R 257313 CDS NP_880773.1 33593129 2666321 complement(2238465..2239319) 1 NC_002929.2 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 2239319 2666321 BP2115 Bordetella pertussis Tohama I hypothetical protein NP_880773.1 2238465 R 257313 CDS NP_880774.1 33593130 2666322 complement(2239323..2240294) 1 NC_002929.2 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 2240294 2666322 BP2116 Bordetella pertussis Tohama I hypothetical protein NP_880774.1 2239323 R 257313 CDS NP_880775.1 33593131 2667624 complement(2242680..2242976) 1 NC_002929.2 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 2242976 2667624 BP2119 Bordetella pertussis Tohama I hypothetical protein NP_880775.1 2242680 R 257313 CDS NP_880776.1 33593132 2667625 2243151..2244503 1 NC_002929.2 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 2244503 gor 2667625 gor Bordetella pertussis Tohama I glutathione reductase NP_880776.1 2243151 D 257313 CDS NP_880777.1 33593133 2667626 complement(2244646..2245662) 1 NC_002929.2 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 2245662 2667626 BP2121 Bordetella pertussis Tohama I transposase for IS1663 NP_880777.1 2244646 R 257313 CDS NP_880778.1 33593134 2667629 complement(2247642..2248655) 1 NC_002929.2 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 2248655 2667629 BP2124 Bordetella pertussis Tohama I hypothetical protein NP_880778.1 2247642 R 257313 CDS NP_880779.1 33593135 2667630 complement(2248742..2249647) 1 NC_002929.2 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 2249647 2667630 BP2125 Bordetella pertussis Tohama I lysR family transcriptional regulator NP_880779.1 2248742 R 257313 CDS NP_880780.1 33593136 2667631 2249804..2250148 1 NC_002929.2 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 2250148 2667631 BP2125A Bordetella pertussis Tohama I hypothetical protein NP_880780.1 2249804 D 257313 CDS NP_880781.1 33593137 2667632 2250306..2250764 1 NC_002929.2 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 2250764 2667632 BP2126 Bordetella pertussis Tohama I oxidoreductase subunit NP_880781.1 2250306 D 257313 CDS NP_880782.1 33593138 2667633 2250778..2252994 1 NC_002929.2 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 2252994 2667633 BP2127 Bordetella pertussis Tohama I exported oxidoreductase subunit NP_880782.1 2250778 D 257313 CDS NP_880783.1 33593139 2667634 2252991..2254052 1 NC_002929.2 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 2254052 2667634 BP2128 Bordetella pertussis Tohama I hypothetical protein NP_880783.1 2252991 D 257313 CDS NP_880784.1 33593140 2667635 2254081..2255055 1 NC_002929.2 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 2255055 2667635 BP2129 Bordetella pertussis Tohama I AraC family transcriptional regulator NP_880784.1 2254081 D 257313 CDS NP_880785.1 33593141 2667615 complement(2255007..2255825) 1 NC_002929.2 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 2255825 2667615 BP2130 Bordetella pertussis Tohama I hypothetical protein NP_880785.1 2255007 R 257313 CDS NP_880786.1 33593142 2667616 complement(2255838..2256446) 1 NC_002929.2 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 2256446 2667616 BP2131 Bordetella pertussis Tohama I hypothetical protein NP_880786.1 2255838 R 257313 CDS NP_880787.1 33593143 2667617 2256621..2257016 1 NC_002929.2 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 2257016 2667617 BP2132 Bordetella pertussis Tohama I hypothetical protein NP_880787.1 2256621 D 257313 CDS NP_880788.1 33593144 2667618 2257035..2258474 1 NC_002929.2 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 2258474 2667618 BP2133 Bordetella pertussis Tohama I transmembrane efflux protein NP_880788.1 2257035 D 257313 CDS NP_880789.1 33593145 2667619 2258503..2258850 1 NC_002929.2 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 2258850 2667619 BP2134 Bordetella pertussis Tohama I hypothetical protein NP_880789.1 2258503 D 257313 CDS NP_880790.1 33593146 2665875 complement(2258869..2259819) 1 NC_002929.2 transposase for IS481 element; transposase 2259819 2665875 BP2135 Bordetella pertussis Tohama I transposase NP_880790.1 2258869 R 257313 CDS NP_880791.1 33593147 2665879 2260472..2261422 1 NC_002929.2 transposase for IS481 element; transposase 2261422 2665879 BP2137 Bordetella pertussis Tohama I transposase NP_880791.1 2260472 D 257313 CDS NP_880792.1 33593148 2665880 2261461..2263323 1 NC_002929.2 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 2263323 2665880 BP2138 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880792.1 2261461 D 257313 CDS NP_880793.1 33593149 2666976 2263451..2264044 1 NC_002929.2 Unknown function; lipoprotein 2264044 2666976 BP2139 Bordetella pertussis Tohama I lipoprotein NP_880793.1 2263451 D 257313 CDS NP_880794.1 33593150 2666977 complement(2264057..2264986) 1 NC_002929.2 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 2264986 2666977 BP2140 Bordetella pertussis Tohama I hypothetical protein NP_880794.1 2264057 R 257313 CDS NP_880795.1 33593151 2666978 2265156..2265614 1 NC_002929.2 Unknown function; hypothetical protein 2265614 2666978 BP2141 Bordetella pertussis Tohama I hypothetical protein NP_880795.1 2265156 D 257313 CDS NP_880796.1 33593152 2666979 2265862..2266542 1 NC_002929.2 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 2266542 2666979 BP2142 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_880796.1 2265862 D 257313 CDS NP_880797.1 33593153 2666980 2266591..2268282 1 NC_002929.2 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 2268282 2666980 BP2143 Bordetella pertussis Tohama I sulfate transporter NP_880797.1 2266591 D 257313 CDS NP_880798.1 33593154 2666981 complement(2268298..2268849) 1 NC_002929.2 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 2268849 2666981 BP2144 Bordetella pertussis Tohama I hypothetical protein NP_880798.1 2268298 R 257313 CDS NP_880799.1 33593155 2666982 complement(2268846..2269217) 1 NC_002929.2 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 2269217 2666982 BP2145 Bordetella pertussis Tohama I ArsR family transcriptional regulator NP_880799.1 2268846 R 257313 CDS NP_880800.1 33593156 2666983 2269330..2270166 1 NC_002929.2 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 2270166 2666983 BP2146 Bordetella pertussis Tohama I hypothetical protein NP_880800.1 2269330 D 257313 CDS NP_880801.1 33593157 2666984 complement(2270177..2270656) 1 NC_002929.2 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 2270656 2666984 BP2147 Bordetella pertussis Tohama I hypothetical protein NP_880801.1 2270177 R 257313 CDS NP_880802.1 33593158 2666985 2270799..2270978 1 NC_002929.2 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 2270978 2666985 BP2148 Bordetella pertussis Tohama I hypothetical protein NP_880802.1 2270799 D 257313 CDS NP_880803.1 33593159 2666986 complement(2271108..2272082) 1 NC_002929.2 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 2272082 2666986 BP2149 Bordetella pertussis Tohama I AraC family transcriptional regulator NP_880803.1 2271108 R 257313 CDS NP_880804.1 33593160 2666987 2272213..2272569 1 NC_002929.2 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 2272569 2666987 BP2150 Bordetella pertussis Tohama I hypothetical protein NP_880804.1 2272213 D 257313 CDS NP_880805.1 33593161 2666988 complement(2272559..2273434) 1 NC_002929.2 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 2273434 2666988 BP2151 Bordetella pertussis Tohama I oxidoreductase NP_880805.1 2272559 R 257313 CDS NP_880806.1 33593162 2666989 2273533..2274417 1 NC_002929.2 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 2274417 2666989 BP2152 Bordetella pertussis Tohama I lysR family transcriptional regulator NP_880806.1 2273533 D 257313 CDS NP_880807.1 33593163 2667017 complement(2274439..2275734) 1 NC_002929.2 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 2275734 2667017 BP2153 Bordetella pertussis Tohama I hypothetical protein NP_880807.1 2274439 R 257313 CDS NP_880808.1 33593164 2667019 2276683..2277333 1 NC_002929.2 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 2277333 2667019 BP2156 Bordetella pertussis Tohama I hypothetical protein NP_880808.1 2276683 D 257313 CDS NP_880809.1 33593165 2667020 complement(2277421..2278941) 1 NC_002929.2 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 2278941 acoD 2667020 acoD Bordetella pertussis Tohama I aldehyde dehydrogenase NP_880809.1 2277421 R 257313 CDS NP_880810.1 33593166 2667021 2279199..2281064 1 NC_002929.2 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 2281064 2667021 BP2158 Bordetella pertussis Tohama I sigma-54-dependent transcriptional regulator NP_880810.1 2279199 D 257313 CDS NP_880811.1 33593167 2666656 complement(2282984..2283343) 1 NC_002929.2 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 2283343 2666656 BP2161 Bordetella pertussis Tohama I hypothetical protein NP_880811.1 2282984 R 257313 CDS NP_880812.1 33593168 2666657 complement(2283331..2284767) 1 NC_002929.2 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 2284767 2666657 BP2162 Bordetella pertussis Tohama I biotin synthesis protein NP_880812.1 2283331 R 257313 CDS NP_880813.1 33593169 2666658 complement(2284764..2285417) 1 NC_002929.2 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 2285417 2666658 BP2163 Bordetella pertussis Tohama I hypothetical protein NP_880813.1 2284764 R 257313 CDS NP_880814.1 33593170 2666659 complement(2285414..2286607) 1 NC_002929.2 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 2286607 2666659 BP2164 Bordetella pertussis Tohama I 8-amino-7-oxononanoate synthase NP_880814.1 2285414 R 257313 CDS NP_880815.1 33593171 2666660 2286711..2287985 1 NC_002929.2 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 2287985 bioA 2666660 bioA Bordetella pertussis Tohama I adenosylmethionine-8-amino-7-oxononanoate aminotransferase NP_880815.1 2286711 D 257313 CDS NP_880816.1 33593172 2666661 complement(2287982..2288932) 1 NC_002929.2 transposase for IS481 element; transposase 2288932 2666661 BP2166 Bordetella pertussis Tohama I transposase NP_880816.1 2287982 R 257313 CDS NP_880817.1 33593173 2666662 2289099..2290073 1 NC_002929.2 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 2290073 2666662 BP2167 Bordetella pertussis Tohama I hypothetical protein NP_880817.1 2289099 D 257313 CDS NP_880818.1 33593174 2665991 2290070..2290213 1 NC_002929.2 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 2290213 2665991 BP2168 Bordetella pertussis Tohama I outer membrane protein NP_880818.1 2290070 D 257313 CDS NP_880819.1 33593175 2665993 2291835..2292497 1 NC_002929.2 CcoO; FixO; cbb3-type cytochrome c oxidase subunit II 2292497 2665993 BP2170 Bordetella pertussis Tohama I cbb3-type cytochrome c oxidase subunit II NP_880819.1 2291835 D 257313 CDS NP_880820.1 33593176 2665994 2292500..2292676 1 NC_002929.2 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 2292676 2665994 BP2171 Bordetella pertussis Tohama I cytochrome C oxidase subunit CcoQ NP_880820.1 2292500 D 257313 CDS NP_880821.1 33593177 2665995 2292673..2293611 1 NC_002929.2 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 2293611 2665995 BP2172 Bordetella pertussis Tohama I cytochrome C oxidase subunit III NP_880821.1 2292673 D 257313 CDS NP_880822.1 33593178 2665996 2293703..2295193 1 NC_002929.2 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 2295193 2665996 BP2173 Bordetella pertussis Tohama I ferredoxin NP_880822.1 2293703 D 257313 CDS NP_880823.1 33593179 2665997 2295279..2295431 1 NC_002929.2 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 2295431 2665997 BP2174 Bordetella pertussis Tohama I lipoprotein NP_880823.1 2295279 D 257313 CDS NP_880824.1 33593180 2665998 2295445..2295684 1 NC_002929.2 hypothetical protein 2295684 2665998 BP2175 Bordetella pertussis Tohama I hypothetical protein NP_880824.1 2295445 D 257313 CDS NP_880825.1 33593181 2665999 2295780..2296523 1 NC_002929.2 hypothetical protein 2296523 2665999 BP2176 Bordetella pertussis Tohama I hypothetical protein NP_880825.1 2295780 D 257313 CDS NP_880826.1 33593182 2666000 2296556..2297056 1 NC_002929.2 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 2297056 2666000 BP2177 Bordetella pertussis Tohama I hypothetical protein NP_880826.1 2296556 D 257313 CDS NP_880827.1 33593183 2666001 2297155..2298078 1 NC_002929.2 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 2298078 2666001 BP2178 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880827.1 2297155 D 257313 CDS NP_880828.1 33593184 2666002 2298075..2298836 1 NC_002929.2 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 2298836 2666002 BP2179 Bordetella pertussis Tohama I ABC transporter permease NP_880828.1 2298075 D 257313 CDS NP_880829.1 33593185 2666003 complement(2298852..2299937) 1 NC_002929.2 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 2299937 2666003 BP2180 Bordetella pertussis Tohama I hypothetical protein NP_880829.1 2298852 R 257313 CDS NP_880830.1 33593186 2666533 2300137..2301087 1 NC_002929.2 transposase for IS481 element; transposase 2301087 2666533 BP2181 Bordetella pertussis Tohama I transposase NP_880830.1 2300137 D 257313 CDS NP_880831.1 33593187 2666908 2301745..2302044 1 NC_002929.2 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 2302044 2666908 BP2183 Bordetella pertussis Tohama I hypothetical protein NP_880831.1 2301745 D 257313 CDS NP_880832.1 33593188 2666909 complement(2302454..2304736) 1 NC_002929.2 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 2304736 rpoD 2666909 rpoD Bordetella pertussis Tohama I RNA polymerase sigma factor RpoD NP_880832.1 2302454 R 257313 CDS NP_880833.1 33593189 2666910 complement(2305422..2307452) 1 NC_002929.2 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 2307452 dnaG 2666910 dnaG Bordetella pertussis Tohama I DNA primase NP_880833.1 2305422 R 257313 CDS NP_880834.1 33593190 2666911 complement(2307472..2307684) 1 NC_002929.2 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 2307684 rpsU 2666911 rpsU Bordetella pertussis Tohama I 30S ribosomal protein S21 NP_880834.1 2307472 R 257313 CDS NP_880835.1 33593191 2666912 complement(2307962..2308501) 1 NC_002929.2 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 2308501 2666912 BP2187 Bordetella pertussis Tohama I transferase NP_880835.1 2307962 R 257313 CDS NP_880836.1 33593192 2666913 complement(2308615..2309922) 1 NC_002929.2 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis; adenylosuccinate synthetase 2309922 purA 2666913 purA Bordetella pertussis Tohama I adenylosuccinate synthetase NP_880836.1 2308615 R 257313 CDS NP_880837.1 33593193 2667289 complement(2309987..2311144) 1 NC_002929.2 May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine; ATP phosphoribosyltransferase 2311144 hisZ 2667289 hisZ Bordetella pertussis Tohama I ATP phosphoribosyltransferase NP_880837.1 2309987 R 257313 CDS NP_880838.1 33593194 2667290 complement(2311328..2312227) 1 NC_002929.2 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 2312227 hflC 2667290 hflC Bordetella pertussis Tohama I inner membrane-anchored protein NP_880838.1 2311328 R 257313 CDS NP_880839.1 33593195 2667291 complement(2312246..2313550) 1 NC_002929.2 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 2313550 hflK 2667291 hflK Bordetella pertussis Tohama I hypothetical protein NP_880839.1 2312246 R 257313 CDS NP_880840.1 33593196 2667292 complement(2313516..2314622) 1 NC_002929.2 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 2314622 hflX 2667292 hflX Bordetella pertussis Tohama I GTP-binding protein NP_880840.1 2313516 R 257313 CDS NP_880841.1 33593197 2667293 complement(2314710..2314946) 1 NC_002929.2 Stimulates the elongation of poly(A) tails; RNA-binding protein Hfq 2314946 hfq 2667293 hfq Bordetella pertussis Tohama I RNA-binding protein Hfq NP_880841.1 2314710 R 257313 CDS NP_880842.1 33593198 2667294 complement(2315085..2316155) 1 NC_002929.2 catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis; histidinol-phosphate aminotransferase 2316155 his1 2667294 his1 Bordetella pertussis Tohama I histidinol-phosphate aminotransferase NP_880842.1 2315085 R 257313 CDS NP_880843.1 33593199 2667295 complement(2316159..2317514) 1 NC_002929.2 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 2317514 engA 2667295 engA Bordetella pertussis Tohama I GTP-binding protein EngA NP_880843.1 2316159 R 257313 CDS NP_880844.1 33593200 2667296 complement(2317541..2318701) 1 NC_002929.2 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 2318701 2667296 BP2196 Bordetella pertussis Tohama I quinoprotein NP_880844.1 2317541 R 257313 CDS NP_880845.1 33593201 2667297 complement(2318704..2319342) 1 NC_002929.2 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 2319342 2667297 BP2197 Bordetella pertussis Tohama I hypothetical protein NP_880845.1 2318704 R 257313 CDS NP_880846.1 33593202 2667298 complement(2319344..2320648) 1 NC_002929.2 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 2320648 hisS 2667298 hisS Bordetella pertussis Tohama I histidyl-tRNA synthetase NP_880846.1 2319344 R 257313 CDS NP_880847.1 33593203 2667299 complement(2320689..2321984) 1 NC_002929.2 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 2321984 ispG 2667299 ispG Bordetella pertussis Tohama I 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase NP_880847.1 2320689 R 257313 CDS NP_880848.1 33593204 2667300 complement(2321991..2322497) 1 NC_002929.2 hypothetical protein 2322497 2667300 BP2200 Bordetella pertussis Tohama I hypothetical protein NP_880848.1 2321991 R 257313 CDS NP_880849.1 33593205 2667301 complement(2322494..2323642) 1 NC_002929.2 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 2323642 2667301 BP2201 Bordetella pertussis Tohama I hypothetical protein NP_880849.1 2322494 R 257313 CDS NP_880850.1 33593206 2667302 complement(2323670..2324095) 1 NC_002929.2 catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate; nucleoside diphosphate kinase 2324095 ndk 2667302 ndk Bordetella pertussis Tohama I nucleoside diphosphate kinase NP_880850.1 2323670 R 257313 CDS NP_880851.1 33593207 2667303 2324418..2327300 1 NC_002929.2 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 2327300 valS 2667303 valS Bordetella pertussis Tohama I valyl-tRNA synthetase NP_880851.1 2324418 D 257313 CDS NP_880852.1 33593208 2667304 complement(2327393..2328154) 1 NC_002929.2 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 2328154 2667304 BP2204 Bordetella pertussis Tohama I outer membrane (scaffolding) protein NP_880852.1 2327393 R 257313 CDS NP_880853.1 33593209 2667306 2328914..2330263 1 NC_002929.2 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 2330263 2667306 BP2206 Bordetella pertussis Tohama I two component sensor kinase NP_880853.1 2328914 D 257313 CDS NP_880854.1 33593210 2666004 2330362..2331312 1 NC_002929.2 transposase for IS481 element; transposase 2331312 2666004 BP2207 Bordetella pertussis Tohama I transposase NP_880854.1 2330362 D 257313 CDS NP_880855.1 33593211 2666006 complement(2334053..2335342) 1 NC_002929.2 catalyzes the oxidative deamination of D-amino acids; D-amino acid dehydrogenase small subunit 2335342 2666006 BP2210 Bordetella pertussis Tohama I D-amino acid dehydrogenase small subunit NP_880855.1 2334053 R 257313 CDS NP_880856.1 33593212 2666007 complement(2335461..2335898) 1 NC_002929.2 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 2335898 2666007 BP2211 Bordetella pertussis Tohama I DNA-binding protein NP_880856.1 2335461 R 257313 CDS NP_880857.1 33593213 2666010 complement(2335942..2337150) 1 NC_002929.2 flavohemoprotein; catalyzes the formation of nitrate from nitric oxide; can also catalyze the reduction of dihydropteridine; nitric oxide dioxygenase 2337150 fhp 2666010 fhp Bordetella pertussis Tohama I nitric oxide dioxygenase NP_880857.1 2335942 R 257313 CDS NP_880858.1 33593214 2666011 2337297..2337761 1 NC_002929.2 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 2337761 2666011 BP2213 Bordetella pertussis Tohama I hypothetical protein NP_880858.1 2337297 D 257313 CDS NP_880859.1 33593215 2666012 complement(2337785..2338735) 1 NC_002929.2 transposase for IS481 element; transposase 2338735 2666012 BP2214 Bordetella pertussis Tohama I transposase NP_880859.1 2337785 R 257313 CDS NP_880860.1 33593216 2666348 complement(2338834..2339394) 1 NC_002929.2 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 2339394 ectA 2666348 ectA Bordetella pertussis Tohama I L-2,4-diaminobutyric acid acetyltransferase NP_880860.1 2338834 R 257313 CDS NP_880861.1 33593217 2666349 complement(2339391..2339936) 1 NC_002929.2 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 2339936 2666349 BP2216 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_880861.1 2339391 R 257313 CDS NP_880862.1 33593218 2666353 2340132..2341160 1 NC_002929.2 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 2341160 2666353 BP2217 Bordetella pertussis Tohama I SIS family regulator NP_880862.1 2340132 D 257313 CDS NP_880863.1 33593219 2666354 2341201..2342541 1 NC_002929.2 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 2342541 2666354 BP2218 Bordetella pertussis Tohama I hypothetical protein NP_880863.1 2341201 D 257313 CDS NP_880864.1 33593220 2666355 2342650..2343654 1 NC_002929.2 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 2343654 2666355 BP2219 Bordetella pertussis Tohama I cell surface protein NP_880864.1 2342650 D 257313 CDS NP_880865.1 33593221 2666356 2343761..2346361 1 NC_002929.2 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 2346361 2666356 BP2220 Bordetella pertussis Tohama I hypothetical protein NP_880865.1 2343761 D 257313 CDS NP_880866.1 33593222 2666357 2346460..2347410 1 NC_002929.2 transposase for IS481 element; transposase 2347410 2666357 BP2221 Bordetella pertussis Tohama I transposase NP_880866.1 2346460 D 257313 CDS NP_880867.1 33593223 2666213 complement(2347407..2347679) 1 NC_002929.2 No significant database matches. May be disrupted by downsteam IS481; hypothetical protein 2347679 2666213 BP2222 Bordetella pertussis Tohama I hypothetical protein NP_880867.1 2347407 R 257313 CDS NP_880868.1 33593224 2666214 complement(2347938..2350649) 1 NC_002929.2 Previously sequenced as Bordetella pertussis BapA protein BapA TR:Q9F4B4 (EMBL:AJ277632) (903 aa) fasta scores: E(): 0, 100% id in 903 aa; autotransporter 2350649 bapA 2666214 bapA Bordetella pertussis Tohama I autotransporter NP_880868.1 2347938 R 257313 CDS NP_880869.1 33593225 2666215 2351304..2352761 1 NC_002929.2 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 2352761 2666215 BP2225 Bordetella pertussis Tohama I phospholipase NP_880869.1 2351304 D 257313 CDS NP_880870.1 33593226 2667458 complement(2352758..2353108) 1 NC_002929.2 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 2353108 2667458 BP2226 Bordetella pertussis Tohama I anti-sigma factor antagonist NP_880870.1 2352758 R 257313 CDS NP_880871.1 33593227 2667459 2353252..2353680 1 NC_002929.2 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 2353680 2667459 BP2227 Bordetella pertussis Tohama I anti-sigma factor NP_880871.1 2353252 D 257313 CDS NP_880872.1 33593228 2667460 2353764..2354927 1 NC_002929.2 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 2354927 alr 2667460 alr Bordetella pertussis Tohama I alanine racemase NP_880872.1 2353764 D 257313 CDS NP_880873.1 33593229 2667461 complement(2354924..2357410) 1 NC_002929.2 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 2357410 2667461 BP2229 Bordetella pertussis Tohama I inner membrane transport protein NP_880873.1 2354924 R 257313 CDS NP_880874.1 33593230 2667462 2357450..2359471 1 NC_002929.2 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 2359471 2667462 BP2230 Bordetella pertussis Tohama I regulator NP_880874.1 2357450 D 257313 CDS NP_880875.1 33593231 2667454 2359468..2360655 1 NC_002929.2 hypothetical protein 2360655 2667454 BP2231 Bordetella pertussis Tohama I hypothetical protein NP_880875.1 2359468 D 257313 CDS NP_880876.1 33593232 2667455 complement(2360697..2362004) 1 NC_002929.2 hypothetical protein 2362004 2667455 BP2232 Bordetella pertussis Tohama I hypothetical protein NP_880876.1 2360697 R 257313 CDS NP_880877.1 33593233 2667456 2362220..2362918 1 NC_002929.2 hypothetical protein 2362918 2667456 BP2233 Bordetella pertussis Tohama I hypothetical protein NP_880877.1 2362220 D 257313 CDS NP_880878.1 33593234 2667457 2363093..2363695 1 NC_002929.2 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 2363695 brpL 2667457 brpL Bordetella pertussis Tohama I RNA polymerase sigma factor NP_880878.1 2363093 D 257313 CDS NP_880879.1 33593235 2667061 complement(2363716..2365518) 1 NC_002929.2 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 2365518 bscC 2667061 bscC Bordetella pertussis Tohama I type III secretion protein NP_880879.1 2363716 R 257313 CDS NP_880880.1 33593236 2667062 complement(2365509..2365907) 1 NC_002929.2 hypothetical protein 2365907 bscW 2667062 bscW Bordetella pertussis Tohama I hypothetical protein NP_880880.1 2365509 R 257313 CDS NP_880881.1 33593237 2667063 complement(2365904..2366953) 1 NC_002929.2 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 2366953 bscU 2667063 bscU Bordetella pertussis Tohama I type III secretion protein NP_880881.1 2365904 R 257313 CDS NP_880882.1 33593238 2667215 complement(2366950..2367750) 1 NC_002929.2 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 2367750 bscT 2667215 bscT Bordetella pertussis Tohama I type III secretion protein NP_880882.1 2366950 R 257313 CDS NP_880883.1 33593239 2667216 complement(2367762..2368028) 1 NC_002929.2 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 2368028 bscS 2667216 bscS Bordetella pertussis Tohama I type III secretion protein NP_880883.1 2367762 R 257313 CDS NP_880884.1 33593240 2667217 complement(2368034..2368705) 1 NC_002929.2 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 2368705 bscR 2667217 bscR Bordetella pertussis Tohama I type III secretion system protein NP_880884.1 2368034 R 257313 CDS NP_880885.1 33593241 2667203 complement(2368702..2369781) 1 NC_002929.2 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 2369781 bscQ 2667203 bscQ Bordetella pertussis Tohama I type III secretion protein NP_880885.1 2368702 R 257313 CDS NP_880886.1 33593242 2667204 complement(2369778..2370326) 1 NC_002929.2 hypothetical protein 2370326 bscP 2667204 bscP Bordetella pertussis Tohama I hypothetical protein NP_880886.1 2369778 R 257313 CDS NP_880887.1 33593243 2667131 complement(2370323..2370832) 1 NC_002929.2 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 2370832 bscO 2667131 bscO Bordetella pertussis Tohama I type III secretion protein NP_880887.1 2370323 R 257313 CDS NP_880888.1 33593244 2667132 complement(2370832..2372166) 1 NC_002929.2 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 2372166 bscN 2667132 bscN Bordetella pertussis Tohama I type III secretion system ATPase NP_880888.1 2370832 R 257313 CDS NP_880889.1 33593245 2667133 complement(2372171..2372809) 1 NC_002929.2 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 2372809 bscL 2667133 bscL Bordetella pertussis Tohama I type III secretion system protein NP_880889.1 2372171 R 257313 CDS NP_880890.1 33593246 2667134 complement(2372779..2373441) 1 NC_002929.2 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 2373441 bscK 2667134 bscK Bordetella pertussis Tohama I hypothetical protein NP_880890.1 2372779 R 257313 CDS NP_880891.1 33593247 2667135 complement(2373434..2374258) 1 NC_002929.2 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 2374258 bscJ 2667135 bscJ Bordetella pertussis Tohama I type III secretion protein NP_880891.1 2373434 R 257313 CDS NP_880892.1 33593248 2667090 complement(2374255..2374662) 1 NC_002929.2 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 2374662 bscI 2667090 bscI Bordetella pertussis Tohama I type III secretion protein NP_880892.1 2374255 R 257313 CDS NP_880893.1 33593249 2667091 complement(2374659..2375180) 1 NC_002929.2 hypothetical protein 2375180 bcr4 2667091 bcr4 Bordetella pertussis Tohama I hypothetical protein NP_880893.1 2374659 R 257313 CDS NP_880894.1 33593250 2667092 complement(2375185..2375646) 1 NC_002929.2 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 2375646 bcrH2 2667092 bcrH2 Bordetella pertussis Tohama I regulatory protein NP_880894.1 2375185 R 257313 CDS NP_880895.1 33593251 2667093 complement(2375670..2376878) 1 NC_002929.2 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 2376878 bopB 2667093 bopB Bordetella pertussis Tohama I outer protein B NP_880895.1 2375670 R 257313 CDS NP_880896.1 33593252 2667094 complement(2376902..2377843) 1 NC_002929.2 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 2377843 bopD 2667094 bopD Bordetella pertussis Tohama I outer protein D NP_880896.1 2376902 R 257313 CDS NP_880897.1 33593253 2665949 complement(2377891..2378376) 1 NC_002929.2 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 2378376 bcrH1 2665949 bcrH1 Bordetella pertussis Tohama I regulatory protein NP_880897.1 2377891 R 257313 CDS NP_880898.1 33593254 2665950 complement(2378392..2378667) 1 NC_002929.2 hypothetical protein 2378667 2665950 BP2255 Bordetella pertussis Tohama I hypothetical protein NP_880898.1 2378392 R 257313 CDS NP_880899.1 33593255 2665951 complement(2378689..2379306) 1 NC_002929.2 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 2379306 bsp22 2665951 bsp22 Bordetella pertussis Tohama I secreted protein NP_880899.1 2378689 R 257313 CDS NP_880900.1 33593256 2665952 2379470..2380567 1 NC_002929.2 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 2380567 bopN 2665952 bopN Bordetella pertussis Tohama I outer protein N NP_880900.1 2379470 D 257313 CDS NP_880901.1 33593257 2665953 2380564..2380941 1 NC_002929.2 hypothetical protein 2380941 2665953 BP2258 Bordetella pertussis Tohama I hypothetical protein NP_880901.1 2380564 D 257313 CDS NP_880902.1 33593258 2665954 2380946..2381356 1 NC_002929.2 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 2381356 2665954 BP2259 Bordetella pertussis Tohama I hypothetical protein NP_880902.1 2380946 D 257313 CDS NP_880903.1 33593259 2665955 2381353..2381721 1 NC_002929.2 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 2381721 2665955 BP2260 Bordetella pertussis Tohama I hypothetical protein NP_880903.1 2381353 D 257313 CDS NP_880904.1 33593260 2665956 2381718..2383817 1 NC_002929.2 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 2383817 bcrD 2665956 bcrD Bordetella pertussis Tohama I type III secretion pore protein NP_880904.1 2381718 D 257313 CDS NP_880905.1 33593261 2665957 2383814..2385094 1 NC_002929.2 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 2385094 bscD 2665957 bscD Bordetella pertussis Tohama I type III secretion protein NP_880905.1 2383814 D 257313 CDS NP_880906.1 33593262 2665958 2385135..2385434 1 NC_002929.2 hypothetical protein 2385434 bscE 2665958 bscE Bordetella pertussis Tohama I hypothetical protein NP_880906.1 2385135 D 257313 CDS NP_880907.1 33593263 2665959 2385424..2385690 1 NC_002929.2 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 2385690 bscF 2665959 bscF Bordetella pertussis Tohama I type III secretion protein NP_880907.1 2385424 D 257313 CDS NP_880908.1 33593264 2665960 complement(2385726..2386181) 1 NC_002929.2 hypothetical protein 2386181 2665960 BP2265 Bordetella pertussis Tohama I hypothetical protein NP_880908.1 2385726 R 257313 CDS NP_880909.1 33593265 2665961 2386525..2387475 1 NC_002929.2 transposase for IS481 element; transposase 2387475 2665961 BP2266 Bordetella pertussis Tohama I transposase NP_880909.1 2386525 D 257313 CDS NP_880910.1 33593266 2665962 complement(2387777..2388253) 1 NC_002929.2 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 2388253 greA 2665962 greA Bordetella pertussis Tohama I transcription elongation factor NP_880910.1 2387777 R 257313 CDS NP_880911.1 33593267 2665963 2388877..2390418 1 NC_002929.2 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 2390418 2665963 BP2268 Bordetella pertussis Tohama I methyl-accepting chemotaxis protein NP_880911.1 2388877 D 257313 CDS NP_880912.1 33593268 2665964 complement(2390449..2391762) 1 NC_002929.2 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 2391762 2665964 BP2269 Bordetella pertussis Tohama I xanthine/uracil family permease NP_880912.1 2390449 R 257313 CDS NP_880913.1 33593269 2665965 2392314..2393636 1 NC_002929.2 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 2393636 2665965 BP2271 Bordetella pertussis Tohama I regulatory lipoprotein NP_880913.1 2392314 D 257313 CDS NP_880914.1 33593270 2666133 complement(2393633..2394583) 1 NC_002929.2 transposase for IS481 element; transposase 2394583 2666133 BP2272 Bordetella pertussis Tohama I transposase NP_880914.1 2393633 R 257313 CDS NP_880915.1 33593271 2666135 complement(2395113..2396135) 1 NC_002929.2 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 2396135 2666135 BP2274 Bordetella pertussis Tohama I iron ABC transporter substrate-binding protein NP_880915.1 2395113 R 257313 CDS NP_880916.1 33593272 2666136 complement(2396164..2396994) 1 NC_002929.2 catalyzes the degradation of phosphonoacetaldehyde to acetaldehyde and phosphate; phosphonoacetaldehyde hydrolase 2396994 2666136 BP2275 Bordetella pertussis Tohama I phosphonoacetaldehyde hydrolase NP_880916.1 2396164 R 257313 CDS NP_880917.1 33593273 2666137 complement(2397011..2398708) 1 NC_002929.2 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 2398708 2666137 BP2276 Bordetella pertussis Tohama I ABC transporter permease NP_880917.1 2397011 R 257313 CDS NP_880918.1 33593274 2666080 complement(2398773..2399849) 1 NC_002929.2 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 2399849 2666080 BP2277 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880918.1 2398773 R 257313 CDS NP_880919.1 33593275 2666081 2400009..2400872 1 NC_002929.2 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 2400872 2666081 BP2278 Bordetella pertussis Tohama I transcriptional regulator NP_880919.1 2400009 D 257313 CDS NP_880920.1 33593276 2666089 2400903..2401472 1 NC_002929.2 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 2401472 2666089 BP2279 Bordetella pertussis Tohama I hypothetical protein NP_880920.1 2400903 D 257313 CDS NP_880921.1 33593277 2666090 complement(2401489..2402340) 1 NC_002929.2 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 2402340 2666090 BP2280 Bordetella pertussis Tohama I sulfurtransferase NP_880921.1 2401489 R 257313 CDS NP_880922.1 33593278 2667396 2403398..2404279 1 NC_002929.2 metalloprotease; heat shock protein HtpX 2404279 2667396 BP2282 Bordetella pertussis Tohama I heat shock protein HtpX NP_880922.1 2403398 D 257313 CDS NP_880923.1 33593279 2667397 complement(2404354..2405343) 1 NC_002929.2 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 2405343 qor 2667397 qor Bordetella pertussis Tohama I quinone oxidoreductase NP_880923.1 2404354 R 257313 CDS NP_880924.1 33593280 2667398 complement(2405406..2406356) 1 NC_002929.2 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 2406356 2667398 BP2284 Bordetella pertussis Tohama I hypothetical protein NP_880924.1 2405406 R 257313 CDS NP_880925.1 33593281 2667399 2406419..2407276 1 NC_002929.2 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 2407276 2667399 BP2285 Bordetella pertussis Tohama I hypothetical protein NP_880925.1 2406419 D 257313 CDS NP_880926.1 33593282 2667400 2407336..2407824 1 NC_002929.2 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 2407824 2667400 BP2286 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_880926.1 2407336 D 257313 CDS NP_880927.1 33593283 2667402 2409397..2410587 1 NC_002929.2 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 2410587 2667402 BP2289 Bordetella pertussis Tohama I multidrug resistance protein NP_880927.1 2409397 D 257313 CDS NP_880928.1 33593284 2667403 2410584..2412170 1 NC_002929.2 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 2412170 2667403 BP2290 Bordetella pertussis Tohama I multidrug resistance protein NP_880928.1 2410584 D 257313 CDS NP_880929.1 33593285 2667404 complement(2412189..2413256) 1 NC_002929.2 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 2413256 2667404 BP2291 Bordetella pertussis Tohama I tartrate dehydrogenase NP_880929.1 2412189 R 257313 CDS NP_880930.1 33593286 2667405 complement(2413361..2414905) 1 NC_002929.2 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 2414905 2667405 BP2292 Bordetella pertussis Tohama I transcriptional regulator NP_880930.1 2413361 R 257313 CDS NP_880931.1 33593287 2667406 2415325..2416899 1 NC_002929.2 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 2416899 2667406 BP2293 Bordetella pertussis Tohama I peptide ABC transporter substrate-binding protein NP_880931.1 2415325 D 257313 CDS NP_880932.1 33593288 2666150 2417007..2418023 1 NC_002929.2 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 2418023 2666150 BP2294 Bordetella pertussis Tohama I integral membrane transport protein NP_880932.1 2417007 D 257313 CDS NP_880933.1 33593289 2666151 2418020..2418859 1 NC_002929.2 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 2418859 2666151 BP2295 Bordetella pertussis Tohama I integral membrane transport protein NP_880933.1 2418020 D 257313 CDS NP_880934.1 33593290 2666152 2418864..2420501 1 NC_002929.2 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 2420501 2666152 BP2296 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_880934.1 2418864 D 257313 CDS NP_880935.1 33593291 2666153 complement(2420498..2421448) 1 NC_002929.2 transposase for IS481 element; transposase 2421448 2666153 BP2297 Bordetella pertussis Tohama I transposase NP_880935.1 2420498 R 257313 CDS NP_880936.1 33593292 2666154 2421591..2422865 1 NC_002929.2 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 2422865 2666154 BP2298 Bordetella pertussis Tohama I aminobutyrate aminotransferase NP_880936.1 2421591 D 257313 CDS NP_880937.1 33593293 2666155 2422895..2423185 1 NC_002929.2 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 2423185 2666155 BP2299 Bordetella pertussis Tohama I hypothetical protein NP_880937.1 2422895 D 257313 CDS NP_880938.1 33593294 2666156 2423237..2424271 1 NC_002929.2 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 2424271 2666156 BP2300 Bordetella pertussis Tohama I acetylpolyamine aminohydrolase NP_880938.1 2423237 D 257313 CDS NP_880939.1 33593295 2666157 2424291..2425553 1 NC_002929.2 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 2425553 2666157 BP2301 Bordetella pertussis Tohama I allantoate amidohydrolase NP_880939.1 2424291 D 257313 CDS NP_880940.1 33593296 2666158 2425556..2426479 1 NC_002929.2 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 2426479 2666158 BP2302 Bordetella pertussis Tohama I hypothetical protein NP_880940.1 2425556 D 257313 CDS NP_880941.1 33593297 2666159 2426476..2427969 1 NC_002929.2 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 2427969 2666159 BP2303 Bordetella pertussis Tohama I aldehyde dehydrogenase NP_880941.1 2426476 D 257313 CDS NP_880942.1 33593298 2666490 complement(2427980..2428912) 1 NC_002929.2 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 2428912 2666490 BP2304 Bordetella pertussis Tohama I 2-hydroxyacid dehydrogenase NP_880942.1 2427980 R 257313 CDS NP_880943.1 33593299 2666491 2429130..2430419 1 NC_002929.2 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 2430419 2666491 BP2305 Bordetella pertussis Tohama I aminotransferase NP_880943.1 2429130 D 257313 CDS NP_880944.1 33593300 2666492 complement(2430454..2431809) 1 NC_002929.2 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 2431809 2666492 BP2306 Bordetella pertussis Tohama I sodium:alanine symporter NP_880944.1 2430454 R 257313 CDS NP_880945.1 33593301 2666493 complement(2431870..2433468) 1 NC_002929.2 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 2433468 2666493 BP2307 Bordetella pertussis Tohama I ATP-binding protein NP_880945.1 2431870 R 257313 CDS NP_880946.1 33593302 2666494 2433545..2434276 1 NC_002929.2 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 2434276 2666494 BP2308 Bordetella pertussis Tohama I hypothetical protein NP_880946.1 2433545 D 257313 CDS NP_880947.1 33593303 2666495 2434344..2435684 1 NC_002929.2 catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis; phosphoribosylamine--glycine ligase 2435684 purD 2666495 purD Bordetella pertussis Tohama I phosphoribosylamine--glycine ligase NP_880947.1 2434344 D 257313 CDS NP_880948.1 33593304 2666496 2435700..2436611 1 NC_002929.2 catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis; coproporphyrinogen III oxidase 2436611 hemF 2666496 hemF Bordetella pertussis Tohama I coproporphyrinogen III oxidase NP_880948.1 2435700 D 257313 CDS NP_880949.1 33593305 2666497 2436602..2437195 1 NC_002929.2 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 2437195 nadD 2666497 nadD Bordetella pertussis Tohama I nicotinate-nucleotide adenylyltransferase NP_880949.1 2436602 D 257313 CDS NP_880950.1 33593306 2666498 2437257..2437643 1 NC_002929.2 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 2437643 2666498 BP2312 Bordetella pertussis Tohama I hypothetical protein NP_880950.1 2437257 D 257313 CDS NP_880951.1 33593307 2666499 2437655..2438125 1 NC_002929.2 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 2438125 2666499 BP2313 Bordetella pertussis Tohama I rRNA large subunit methyltransferase NP_880951.1 2437655 D 257313 CDS NP_880952.1 33593308 2666500 2438137..2438760 1 NC_002929.2 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 2438760 maf 2666500 maf Bordetella pertussis Tohama I Maf-like protein NP_880952.1 2438137 D 257313 CDS NP_880953.1 33593309 2666501 complement(2438781..2441528) 1 NC_002929.2 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 2441528 vag8 2666501 vag8 Bordetella pertussis Tohama I autotransporter NP_880953.1 2438781 R 257313 CDS NP_880954.1 33593310 2666138 2448007..2448957 1 NC_002929.2 transposase for IS481 element; transposase 2448957 2666138 BP2316 Bordetella pertussis Tohama I transposase NP_880954.1 2448007 D 257313 CDS NP_880955.1 33593311 2666139 2449001..2450464 1 NC_002929.2 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 2450464 2666139 BP2317 Bordetella pertussis Tohama I ribonuclease NP_880955.1 2449001 D 257313 CDS NP_880956.1 33593312 2666140 complement(2450498..2451400) 1 NC_002929.2 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 2451400 2666140 BP2318 Bordetella pertussis Tohama I dehydratase NP_880956.1 2450498 R 257313 CDS NP_880957.1 33593313 2666141 complement(2451397..2451942) 1 NC_002929.2 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 2451942 2666141 BP2319 Bordetella pertussis Tohama I transcriptional regulator NP_880957.1 2451397 R 257313 CDS NP_880958.1 33593314 2666142 2452026..2453525 1 NC_002929.2 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 2453525 2666142 BP2320 Bordetella pertussis Tohama I inner membrane efflux protein NP_880958.1 2452026 D 257313 CDS NP_880959.1 33593315 2666143 complement(2453498..2455369) 1 NC_002929.2 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 2455369 2666143 BP2321 Bordetella pertussis Tohama I ABC transporter NP_880959.1 2453498 R 257313 CDS NP_880960.1 33593316 2666144 2455385..2456350 1 NC_002929.2 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 2456350 waaF 2666144 waaF Bordetella pertussis Tohama I heptosyltransferase II NP_880960.1 2455385 D 257313 CDS NP_880961.1 33593317 2666145 2456363..2457127 1 NC_002929.2 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 2457127 2666145 BP2323 Bordetella pertussis Tohama I hypothetical protein NP_880961.1 2456363 D 257313 CDS NP_880962.1 33593318 2666146 2457132..2457404 1 NC_002929.2 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 2457404 2666146 BP2324 Bordetella pertussis Tohama I hypothetical protein NP_880962.1 2457132 D 257313 CDS NP_880963.1 33593319 2666147 complement(2457529..2458650) 1 NC_002929.2 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 2458650 2666147 BP2325 Bordetella pertussis Tohama I transferase NP_880963.1 2457529 R 257313 CDS NP_880964.1 33593320 2666148 complement(2458658..2459383) 1 NC_002929.2 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 2459383 2666148 BP2326 Bordetella pertussis Tohama I polysaccharide deacetylase NP_880964.1 2458658 R 257313 CDS NP_880965.2 161610760 2666149 2459746..2461362 1 NC_002929.2 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 2461362 2666149 BP2327 Bordetella pertussis Tohama I outer membrane protein NP_880965.2 2459746 D 257313 CDS NP_880966.1 33593322 2666698 complement(2461341..2462453) 1 NC_002929.2 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 2462453 2666698 BP2328 Bordetella pertussis Tohama I transferase NP_880966.1 2461341 R 257313 CDS NP_880967.1 33593323 2666699 complement(2462450..2463202) 1 NC_002929.2 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 2463202 2666699 BP2329 Bordetella pertussis Tohama I transferase NP_880967.1 2462450 R 257313 CDS NP_880968.1 33593324 2666700 complement(2463199..2464050) 1 NC_002929.2 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 2464050 2666700 BP2330 Bordetella pertussis Tohama I hypothetical protein NP_880968.1 2463199 R 257313 CDS NP_880969.1 33593325 2666701 complement(2464043..2465146) 1 NC_002929.2 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 2465146 2666701 BP2331 Bordetella pertussis Tohama I transferase NP_880969.1 2464043 R 257313 CDS NP_880970.1 33593326 2666707 complement(2465146..2468637) 1 NC_002929.2 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 2468637 dnaE 2666707 dnaE Bordetella pertussis Tohama I DNA polymerase III subunit alpha NP_880970.1 2465146 R 257313 CDS NP_880971.1 33593327 2666708 2468748..2469674 1 NC_002929.2 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 2469674 2666708 BP2333 Bordetella pertussis Tohama I dioxygenase NP_880971.1 2468748 D 257313 CDS NP_880972.1 33593328 2666709 complement(2469806..2473690) 1 NC_002929.2 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 2473690 2666709 BP2334 Bordetella pertussis Tohama I ATP-dependent helicase NP_880972.1 2469806 R 257313 CDS NP_880973.1 33593329 2666702 2473823..2475226 1 NC_002929.2 catalyzes the formation of N-acetyl-L-glutamate from L-glutamate and acetyl-CoA in arginine biosynthesis; N-acetylglutamate synthase 2475226 argA 2666702 argA Bordetella pertussis Tohama I N-acetylglutamate synthase NP_880973.1 2473823 D 257313 CDS NP_880974.1 33593330 2666703 2475300..2475572 1 NC_002929.2 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 2475572 2666703 BP2336 Bordetella pertussis Tohama I hypothetical protein NP_880974.1 2475300 D 257313 CDS NP_880975.1 33593331 2666704 2475626..2477506 1 NC_002929.2 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 2477506 2666704 BP2337 Bordetella pertussis Tohama I phospholipase NP_880975.1 2475626 D 257313 CDS NP_880976.1 33593332 2666705 complement(2477520..2478326) 1 NC_002929.2 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 2478326 2666705 BP2338 Bordetella pertussis Tohama I transporter NP_880976.1 2477520 R 257313 CDS NP_880977.1 33593333 2666706 complement(2478454..2479134) 1 NC_002929.2 Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway; ribose-5-phosphate isomerase A 2479134 rpiA 2666706 rpiA Bordetella pertussis Tohama I ribose-5-phosphate isomerase A NP_880977.1 2478454 R 257313 CDS NP_880978.1 33593334 2665569 complement(2479188..2480846) 1 NC_002929.2 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 2480846 2665569 BP2340 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_880978.1 2479188 R 257313 CDS NP_880979.1 33593335 2665570 complement(2480926..2482287) 1 NC_002929.2 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 2482287 2665570 BP2341 Bordetella pertussis Tohama I lipoprotein NP_880979.1 2480926 R 257313 CDS NP_880980.1 33593336 2665571 2482467..2483126 1 NC_002929.2 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 2483126 2665571 BP2342 Bordetella pertussis Tohama I hypothetical protein NP_880980.1 2482467 D 257313 CDS NP_880981.1 33593337 2665572 complement(2483134..2483850) 1 NC_002929.2 responsible for recognizing base lesions in the genome and initiating base excision DNA repair; 3-methyladenine DNA glycosylase 2483850 2665572 BP2343 Bordetella pertussis Tohama I 3-methyladenine DNA glycosylase NP_880981.1 2483134 R 257313 CDS NP_880982.1 33593338 2665573 complement(2483855..2484211) 1 NC_002929.2 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 2484211 2665573 BP2344 Bordetella pertussis Tohama I hypothetical protein NP_880982.1 2483855 R 257313 CDS NP_880983.1 33593339 2665574 complement(2484208..2485017) 1 NC_002929.2 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 2485017 2665574 BP2345 Bordetella pertussis Tohama I inner membrane permease polyamine transport protein NP_880983.1 2484208 R 257313 CDS NP_880984.1 33593340 2666037 complement(2485014..2485928) 1 NC_002929.2 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 2485928 2666037 BP2346 Bordetella pertussis Tohama I inner membrane permease polyamine transport protein NP_880984.1 2485014 R 257313 CDS NP_880985.1 33593341 2666038 complement(2485925..2487052) 1 NC_002929.2 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 2487052 2666038 BP2347 Bordetella pertussis Tohama I polyamine transport ATP-binding protein NP_880985.1 2485925 R 257313 CDS NP_880986.1 33593342 2665430 complement(2487059..2488162) 1 NC_002929.2 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 2488162 2665430 BP2348 Bordetella pertussis Tohama I putrescine ABC transporter NP_880986.1 2487059 R 257313 CDS NP_880987.1 33593343 2665431 complement(2488294..2489028) 1 NC_002929.2 catalyzes the phosphorylation of 3-deoxy-D-manno-octulosonic acid at the 4-OH position; 3-deoxy-D-manno-octulosonic-acid kinase 2489028 2665431 BP2349 Bordetella pertussis Tohama I 3-deoxy-D-manno-octulosonic-acid kinase NP_880987.1 2488294 R 257313 CDS NP_880988.1 33593344 2665432 complement(2489018..2489443) 1 NC_002929.2 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 2489443 2665432 BP2350 Bordetella pertussis Tohama I globin-like protein NP_880988.1 2489018 R 257313 CDS NP_880989.1 33593345 2665433 complement(2489443..2491986) 1 NC_002929.2 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 2491986 2665433 BP2351 Bordetella pertussis Tohama I inner membrane transport permease NP_880989.1 2489443 R 257313 CDS NP_880990.1 33593346 2665434 2492101..2493075 1 NC_002929.2 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 2493075 2665434 BP2352 Bordetella pertussis Tohama I C4-dicarboxylate ABC transporter substrate-binding protein NP_880990.1 2492101 D 257313 CDS NP_880991.1 33593347 2665435 2493161..2493661 1 NC_002929.2 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 2493661 2665435 BP2353 Bordetella pertussis Tohama I inner membrane transport protein NP_880991.1 2493161 D 257313 CDS NP_880992.1 33593348 2665436 2493702..2494979 1 NC_002929.2 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 2494979 2665436 BP2354 Bordetella pertussis Tohama I hypothetical protein NP_880992.1 2493702 D 257313 CDS NP_880993.1 33593349 2665437 2495078..2496028 1 NC_002929.2 transposase for IS481 element; transposase 2496028 2665437 BP2355 Bordetella pertussis Tohama I transposase NP_880993.1 2495078 D 257313 CDS NP_880994.1 33593350 2665439 complement(2497246..2498556) 1 NC_002929.2 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 2498556 gltA 2665439 gltA Bordetella pertussis Tohama I type II citrate synthase NP_880994.1 2497246 R 257313 CDS NP_880995.1 33593351 2665440 complement(2498577..2498837) 1 NC_002929.2 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 2498837 2665440 BP2359 Bordetella pertussis Tohama I hypothetical protein NP_880995.1 2498577 R 257313 CDS NP_880996.1 33593352 2665441 complement(2498863..2499579) 1 NC_002929.2 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 2499579 sdhB 2665441 sdhB Bordetella pertussis Tohama I succinate dehydrogenase iron-sulfur subunit NP_880996.1 2498863 R 257313 CDS NP_880997.1 33593353 2665442 complement(2499592..2501370) 1 NC_002929.2 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 2501370 sdhA 2665442 sdhA Bordetella pertussis Tohama I succinate dehydrogenase flavoprotein subunit NP_880997.1 2499592 R 257313 CDS NP_880998.1 33593354 2665443 complement(2501374..2501757) 1 NC_002929.2 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 2501757 sdhD 2665443 sdhD Bordetella pertussis Tohama I succinate dehydrogenase hydrophobic membrane anchor protein NP_880998.1 2501374 R 257313 CDS NP_880999.1 33593355 2665444 complement(2501757..2502170) 1 NC_002929.2 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 2502170 sdhC 2665444 sdhC Bordetella pertussis Tohama I succinate dehydrogenase cytochrome B subunit NP_880999.1 2501757 R 257313 CDS NP_881000.1 33593356 2665657 complement(2502295..2503113) 1 NC_002929.2 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 2503113 2665657 BP2364 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881000.1 2502295 R 257313 CDS NP_881001.1 33593357 2665658 2503363..2504352 1 NC_002929.2 catalyzes the oxidation of malate to oxaloacetate; malate dehydrogenase 2504352 mdH 2665658 mdH Bordetella pertussis Tohama I malate dehydrogenase NP_881001.1 2503363 D 257313 CDS NP_881002.1 33593358 2665660 2505583..2506785 1 NC_002929.2 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 2506785 prpC 2665660 prpC Bordetella pertussis Tohama I methylcitrate synthase NP_881002.1 2505583 D 257313 CDS NP_881003.2 161610759 2665661 2506904..2509498 1 NC_002929.2 Catalyzes the conversion of citrate to isocitrate; aconitate hydratase 2509498 acnA 2665661 acnA Bordetella pertussis Tohama I aconitate hydratase NP_881003.2 2506904 D 257313 CDS NP_881004.1 33593360 2665662 2509555..2510745 1 NC_002929.2 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 2510745 2665662 BP2370 Bordetella pertussis Tohama I hypothetical protein NP_881004.1 2509555 D 257313 CDS NP_881005.1 33593361 2665663 2510763..2512220 1 NC_002929.2 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 2512220 prpD 2665663 prpD Bordetella pertussis Tohama I 2-methylcitrate dehydratase NP_881005.1 2510763 D 257313 CDS NP_881006.1 33593362 2665664 2512290..2512712 1 NC_002929.2 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 2512712 2665664 BP2372 Bordetella pertussis Tohama I hypothetical protein NP_881006.1 2512290 D 257313 CDS NP_881007.1 33593363 2665665 2512742..2514133 1 NC_002929.2 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 2514133 2665665 BP2373 Bordetella pertussis Tohama I hypothetical protein NP_881007.1 2512742 D 257313 CDS NP_881008.1 33593364 2665666 2514332..2514529 1 NC_002929.2 hypothetical protein 2514529 2665666 BP2374 Bordetella pertussis Tohama I hypothetical protein NP_881008.1 2514332 D 257313 CDS NP_881009.1 33593365 2665729 2515257..2516129 1 NC_002929.2 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 2516129 2665729 BP2376 Bordetella pertussis Tohama I hypothetical protein NP_881009.1 2515257 D 257313 CDS NP_881010.1 33593366 2665730 2516240..2517931 1 NC_002929.2 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 2517931 2665730 BP2377 Bordetella pertussis Tohama I AMP-binding protein NP_881010.1 2516240 D 257313 CDS NP_881011.1 33593367 2665731 2517943..2518464 1 NC_002929.2 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 2518464 2665731 BP2378 Bordetella pertussis Tohama I transferase NP_881011.1 2517943 D 257313 CDS NP_881012.1 33593368 2665732 2518514..2519428 1 NC_002929.2 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 2519428 2665732 BP2379 Bordetella pertussis Tohama I chaperonin NP_881012.1 2518514 D 257313 CDS NP_881013.1 33593369 2665733 2519505..2520257 1 NC_002929.2 hypothetical protein 2520257 2665733 BP2380 Bordetella pertussis Tohama I hypothetical protein NP_881013.1 2519505 D 257313 CDS NP_881014.1 33593370 2665734 complement(2520235..2520636) 1 NC_002929.2 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 2520636 2665734 BP2381 Bordetella pertussis Tohama I hypothetical protein NP_881014.1 2520235 R 257313 CDS NP_881015.1 33593371 2665735 complement(2520661..2521140) 1 NC_002929.2 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 2521140 2665735 BP2382 Bordetella pertussis Tohama I hypothetical protein NP_881015.1 2520661 R 257313 CDS NP_881016.1 33593372 2665736 complement(2521190..2521945) 1 NC_002929.2 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 2521945 2665736 BP2383 Bordetella pertussis Tohama I hypothetical protein NP_881016.1 2521190 R 257313 CDS NP_881017.1 33593373 2665737 2522144..2523709 1 NC_002929.2 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 2523709 2665737 BP2384 Bordetella pertussis Tohama I transcriptional regulator NP_881017.1 2522144 D 257313 CDS NP_881018.1 33593374 2665738 complement(2523777..2524133) 1 NC_002929.2 forms a complex with FtsL and FtsQ; colocalizes to the septal region of the dividing cell; membrane protein; cell division protein FtsB 2524133 ftsB 2665738 ftsB Bordetella pertussis Tohama I cell division protein FtsB NP_881018.1 2523777 R 257313 CDS NP_881019.1 33593375 2665739 complement(2524215..2525501) 1 NC_002929.2 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis; phosphopyruvate hydratase 2525501 eno 2665739 eno Bordetella pertussis Tohama I phosphopyruvate hydratase NP_881019.1 2524215 R 257313 CDS NP_881020.1 33593376 2665740 complement(2525507..2525791) 1 NC_002929.2 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 2525791 2665740 BP2387 Bordetella pertussis Tohama I hypothetical protein NP_881020.1 2525507 R 257313 CDS NP_881021.1 33593377 2665741 complement(2525801..2526658) 1 NC_002929.2 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 2526658 kdsA 2665741 kdsA Bordetella pertussis Tohama I 2-dehydro-3-deoxyphosphooctonate aldolase NP_881021.1 2525801 R 257313 CDS NP_881022.1 33593378 2665742 complement(2526655..2528307) 1 NC_002929.2 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 2528307 pyrG 2665742 pyrG Bordetella pertussis Tohama I CTP synthetase NP_881022.1 2526655 R 257313 CDS NP_881023.1 33593379 2665482 complement(2528389..2529339) 1 NC_002929.2 transposase for IS481 element; transposase 2529339 2665482 BP2390 Bordetella pertussis Tohama I transposase NP_881023.1 2528389 R 257313 CDS NP_881024.1 33593380 2665483 complement(2529572..2531371) 1 NC_002929.2 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 2531371 2665483 BP2391 Bordetella pertussis Tohama I aminopeptidase NP_881024.1 2529572 R 257313 CDS NP_881025.1 33593381 2665485 complement(2532211..2533359) 1 NC_002929.2 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 2533359 2665485 BP2393 Bordetella pertussis Tohama I D-aminopeptidase NP_881025.1 2532211 R 257313 CDS NP_881026.1 33593382 2665486 complement(2533377..2534276) 1 NC_002929.2 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 2534276 2665486 BP2394 Bordetella pertussis Tohama I binding-protein-dependent transport permease NP_881026.1 2533377 R 257313 CDS NP_881027.1 33593383 2665487 complement(2534284..2535204) 1 NC_002929.2 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 2535204 2665487 BP2395 Bordetella pertussis Tohama I binding-protein-dependent transport permease NP_881027.1 2534284 R 257313 CDS NP_881028.1 33593384 2665488 complement(2535266..2536819) 1 NC_002929.2 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 2536819 2665488 BP2396 Bordetella pertussis Tohama I peptide ABC transporter substrate-binding protein NP_881028.1 2535266 R 257313 CDS NP_881029.1 33593385 2665489 complement(2536890..2538791) 1 NC_002929.2 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 2538791 2665489 BP2397 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881029.1 2536890 R 257313 CDS NP_881030.1 33593386 2665490 complement(2538836..2539816) 1 NC_002929.2 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 2539816 2665490 BP2398 Bordetella pertussis Tohama I L-asparaginase NP_881030.1 2538836 R 257313 CDS NP_881031.1 33593387 2665491 complement(2539813..2540697) 1 NC_002929.2 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 2540697 2665491 BP2399 Bordetella pertussis Tohama I transcriptional regulator NP_881031.1 2539813 R 257313 CDS NP_881032.1 33593388 2665492 complement(2540921..2541574) 1 NC_002929.2 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 2541574 2665492 BP2400 Bordetella pertussis Tohama I coenzyme A transferase subunit NP_881032.1 2540921 R 257313 CDS NP_881033.1 33593389 2667270 complement(2542388..2542837) 1 NC_002929.2 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 2542837 2667270 BP2402 Bordetella pertussis Tohama I hypothetical protein NP_881033.1 2542388 R 257313 CDS NP_881034.1 33593390 2667271 2542965..2544593 1 NC_002929.2 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 2544593 2667271 BP2403 Bordetella pertussis Tohama I electron transfer flavoprotein-ubiquinone oxidoreductase NP_881034.1 2542965 D 257313 CDS NP_881035.1 33593391 2667272 2544691..2545575 1 NC_002929.2 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 2545575 2667272 BP2404 Bordetella pertussis Tohama I hypothetical protein NP_881035.1 2544691 D 257313 CDS NP_881036.1 33593392 2667273 2545572..2546720 1 NC_002929.2 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 2546720 2667273 BP2405 Bordetella pertussis Tohama I cytochrome p450 oxidoreductase NP_881036.1 2545572 D 257313 CDS NP_881037.1 33593393 2667274 2546717..2547079 1 NC_002929.2 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 2547079 2667274 BP2406 Bordetella pertussis Tohama I hypothetical protein NP_881037.1 2546717 D 257313 CDS NP_881038.1 33593394 2667275 complement(2547093..2548112) 1 NC_002929.2 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 2548112 ltaE 2667275 ltaE Bordetella pertussis Tohama I low-specificity L-threonine aldolase NP_881038.1 2547093 R 257313 CDS NP_881039.1 33593395 2667276 complement(2548134..2549024) 1 NC_002929.2 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 2549024 2667276 BP2408 Bordetella pertussis Tohama I hypothetical protein NP_881039.1 2548134 R 257313 CDS NP_881040.1 33593396 2667277 complement(2549170..2551149) 1 NC_002929.2 Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA; acetyl-CoA synthetase 2551149 2667277 BP2409 Bordetella pertussis Tohama I acetyl-CoA synthetase NP_881040.1 2549170 R 257313 CDS NP_881041.1 33593397 2666738 complement(2552696..2553103) 1 NC_002929.2 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 2553103 2666738 BP2411 Bordetella pertussis Tohama I hypothetical protein NP_881041.1 2552696 R 257313 CDS NP_881042.1 33593398 2666742 2555224..2555883 1 NC_002929.2 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 2555883 2666742 BP2413 Bordetella pertussis Tohama I lipoprotein NP_881042.1 2555224 D 257313 CDS NP_881043.1 33593399 2666743 complement(2555988..2556329) 1 NC_002929.2 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 2556329 2666743 BP2414 Bordetella pertussis Tohama I hypothetical protein NP_881043.1 2555988 R 257313 CDS NP_881044.1 33593400 2666744 2556638..2557588 1 NC_002929.2 transposase for IS481 element; transposase 2557588 2666744 BP2415 Bordetella pertussis Tohama I transposase NP_881044.1 2556638 D 257313 CDS NP_881045.1 33593401 2666745 complement(2557585..2558538) 1 NC_002929.2 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 2558538 2666745 BP2416 Bordetella pertussis Tohama I transcriptional regulator CysB-like protein NP_881045.1 2557585 R 257313 CDS NP_881046.1 33593402 2666746 complement(2558638..2560104) 1 NC_002929.2 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 2560104 2666746 BP2417 Bordetella pertussis Tohama I oxidoreductase NP_881046.1 2558638 R 257313 CDS NP_881047.1 33593403 2666747 complement(2560217..2561434) 1 NC_002929.2 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 2561434 2666747 BP2418 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881047.1 2560217 R 257313 CDS NP_881048.1 33593404 2666748 2561574..2562494 1 NC_002929.2 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 2562494 2666748 BP2419 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881048.1 2561574 D 257313 CDS NP_881049.1 33593405 2666749 complement(2562491..2563603) 1 NC_002929.2 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 2563603 2666749 BP2420 Bordetella pertussis Tohama I hypothetical protein NP_881049.1 2562491 R 257313 CDS NP_881050.1 33593406 2666733 2563657..2565156 1 NC_002929.2 catalyzes the removal of N-terminal amino acids preferably leucine from various peptides; leucyl aminopeptidase 2565156 pepA 2666733 pepA Bordetella pertussis Tohama I leucyl aminopeptidase NP_881050.1 2563657 D 257313 CDS NP_881051.1 33593407 2666734 2565174..2565629 1 NC_002929.2 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 2565629 2666734 BP2422 Bordetella pertussis Tohama I hypothetical protein NP_881051.1 2565174 D 257313 CDS NP_881052.1 33593408 2666735 2565660..2565986 1 NC_002929.2 no significant database hits; hypothetical protein 2565986 2666735 BP2423 Bordetella pertussis Tohama I hypothetical protein NP_881052.1 2565660 D 257313 CDS NP_881053.1 33593409 2666736 2566085..2566795 1 NC_002929.2 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 2566795 2666736 BP2424 Bordetella pertussis Tohama I hypothetical protein NP_881053.1 2566085 D 257313 CDS NP_881054.1 33593410 2665861 2566977..2567930 1 NC_002929.2 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 2567930 2665861 BP2425 Bordetella pertussis Tohama I hypothetical protein NP_881054.1 2566977 D 257313 CDS NP_881055.1 33593411 2665862 2568027..2568896 1 NC_002929.2 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 2568896 2665862 BP2426 Bordetella pertussis Tohama I hypothetical protein NP_881055.1 2568027 D 257313 CDS NP_881056.1 33593412 2665865 complement(2571046..2571981) 1 NC_002929.2 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 2571981 2665865 BP2428 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881056.1 2571046 R 257313 CDS NP_881057.1 33593413 2665866 complement(2571986..2572573) 1 NC_002929.2 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 2572573 2665866 BP2429 Bordetella pertussis Tohama I hypothetical protein NP_881057.1 2571986 R 257313 CDS NP_881058.1 33593414 2665867 complement(2572566..2573456) 1 NC_002929.2 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 2573456 era 2665867 era Bordetella pertussis Tohama I GTP-binding protein Era NP_881058.1 2572566 R 257313 CDS NP_881059.1 33593415 2665868 complement(2573453..2574223) 1 NC_002929.2 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 2574223 rnc 2665868 rnc Bordetella pertussis Tohama I ribonuclease III NP_881059.1 2573453 R 257313 CDS NP_881060.1 33593416 2665869 complement(2574220..2575104) 1 NC_002929.2 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 2575104 lep 2665869 lep Bordetella pertussis Tohama I signal peptidase I NP_881060.1 2574220 R 257313 CDS NP_881061.1 33593417 2665494 complement(2575127..2576920) 1 NC_002929.2 binds to the ribosome on the universally-conserved alpha-sarcin loop; GTP-binding protein LepA 2576920 lepA 2665494 lepA Bordetella pertussis Tohama I GTP-binding protein LepA NP_881061.1 2575127 R 257313 CDS NP_881062.1 33593418 2665495 complement(2577051..2578538) 1 NC_002929.2 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 2578538 mucD 2665495 mucD Bordetella pertussis Tohama I serine protease NP_881062.1 2577051 R 257313 CDS NP_881063.1 33593419 2665496 complement(2578576..2579634) 1 NC_002929.2 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 2579634 mucB 2665496 mucB Bordetella pertussis Tohama I sigma factor regulatory protein NP_881063.1 2578576 R 257313 CDS NP_881064.1 33593420 2665497 complement(2579634..2580143) 1 NC_002929.2 no significant database hits; hypothetical protein 2580143 2665497 BP2436 Bordetella pertussis Tohama I hypothetical protein NP_881064.1 2579634 R 257313 CDS NP_881065.1 33593421 2665498 complement(2580147..2580746) 1 NC_002929.2 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 2580746 sigE 2665498 sigE Bordetella pertussis Tohama I RNA polymerase sigma factor RpoE NP_881065.1 2580147 R 257313 CDS NP_881066.1 33593422 2665499 complement(2580743..2581243) 1 NC_002929.2 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 2581243 2665499 BP2438 Bordetella pertussis Tohama I hypothetical protein NP_881066.1 2580743 R 257313 CDS NP_881067.1 33593423 2665500 complement(2581245..2582474) 1 NC_002929.2 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 2582474 fabF 2665500 fabF Bordetella pertussis Tohama I 3-oxoacyl-ACP synthase NP_881067.1 2581245 R 257313 CDS NP_881068.1 33593424 2665501 complement(2582664..2582903) 1 NC_002929.2 carries the fatty acid chain in fatty acid biosynthesis; acyl carrier protein 2582903 acpP 2665501 acpP Bordetella pertussis Tohama I acyl carrier protein NP_881068.1 2582664 R 257313 CDS NP_881069.1 33593425 2666884 complement(2583086..2583838) 1 NC_002929.2 Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-ACP reductase 2583838 fabG 2666884 fabG Bordetella pertussis Tohama I 3-ketoacyl-ACP reductase NP_881069.1 2583086 R 257313 CDS NP_881070.1 33593426 2666885 complement(2583840..2584775) 1 NC_002929.2 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 2584775 fabD 2666885 fabD Bordetella pertussis Tohama I ACP S-malonyltransferase NP_881070.1 2583840 R 257313 CDS NP_881071.1 33593427 2666886 complement(2584857..2585843) 1 NC_002929.2 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 2585843 fabH 2666886 fabH Bordetella pertussis Tohama I 3-oxoacyl-ACP synthase NP_881071.1 2584857 R 257313 CDS NP_881072.1 33593428 2667650 complement(2585843..2586901) 1 NC_002929.2 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 2586901 2667650 BP2444 Bordetella pertussis Tohama I glycerol-3-phosphate acyltransferase PlsX NP_881072.1 2585843 R 257313 CDS NP_881073.1 33593429 2667651 complement(2586958..2587140) 1 NC_002929.2 some L32 proteins have zinc finger motifs consisting of CXXC while others do not; 50S ribosomal protein L32 2587140 rpmF 2667651 rpmF Bordetella pertussis Tohama I 50S ribosomal protein L32 NP_881073.1 2586958 R 257313 CDS NP_881074.1 33593430 2667652 complement(2587192..2587785) 1 NC_002929.2 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 2587785 2667652 BP2446 Bordetella pertussis Tohama I hypothetical protein NP_881074.1 2587192 R 257313 CDS NP_881075.1 33593431 2667653 2587894..2588493 1 NC_002929.2 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 2588493 maf 2667653 maf Bordetella pertussis Tohama I Maf-like protein NP_881075.1 2587894 D 257313 CDS NP_881076.1 33593432 2667654 2588490..2589200 1 NC_002929.2 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 2589200 2667654 BP2448 Bordetella pertussis Tohama I hypothetical protein NP_881076.1 2588490 D 257313 CDS NP_881077.1 33593433 2667655 2589202..2590029 1 NC_002929.2 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 2590029 2667655 BP2449 Bordetella pertussis Tohama I hydrolase NP_881077.1 2589202 D 257313 CDS NP_881078.1 33593434 2667657 complement(2591846..2593087) 1 NC_002929.2 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 2593087 2667657 BP2451 Bordetella pertussis Tohama I membrane transport protein NP_881078.1 2591846 R 257313 CDS NP_881079.1 33593435 2667307 complement(2593099..2593872) 1 NC_002929.2 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 2593872 2667307 BP2452 Bordetella pertussis Tohama I hypothetical protein NP_881079.1 2593099 R 257313 CDS NP_881080.1 33593436 2667308 complement(2593899..2594849) 1 NC_002929.2 transposase for IS481 element; transposase 2594849 2667308 BP2453 Bordetella pertussis Tohama I transposase NP_881080.1 2593899 R 257313 CDS NP_881081.1 33593437 2667309 complement(2594948..2595730) 1 NC_002929.2 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 2595730 2667309 BP2454 Bordetella pertussis Tohama I oxidoreductase NP_881081.1 2594948 R 257313 CDS NP_881082.1 33593438 2667310 complement(2595819..2597045) 1 NC_002929.2 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 2597045 2667310 BP2455 Bordetella pertussis Tohama I membrane efflux protein NP_881082.1 2595819 R 257313 CDS NP_881083.1 33593439 2665743 2597771..2599156 1 NC_002929.2 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 2599156 alcA 2665743 alcA Bordetella pertussis Tohama I alcaligin biosynthesis enzyme NP_881083.1 2597771 D 257313 CDS NP_881084.1 33593440 2665744 2599175..2599780 1 NC_002929.2 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 2599780 alcB 2665744 alcB Bordetella pertussis Tohama I alcaligin biosynthesis protein NP_881084.1 2599175 D 257313 CDS NP_881085.1 33593441 2665745 2599777..2601633 1 NC_002929.2 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 2601633 alcC 2665745 alcC Bordetella pertussis Tohama I alcaligin biosynthesis protein NP_881085.1 2599777 D 257313 CDS NP_881086.1 33593442 2665746 2601630..2602430 1 NC_002929.2 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 2602430 alcD 2665746 alcD Bordetella pertussis Tohama I hypothetical protein NP_881086.1 2601630 D 257313 CDS NP_881087.1 33593443 2665747 2602445..2603638 1 NC_002929.2 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 2603638 alcE 2665747 alcE Bordetella pertussis Tohama I iron-sulfur protein NP_881087.1 2602445 D 257313 CDS NP_881088.1 33593444 2665748 2603706..2604680 1 NC_002929.2 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 2604680 alcR 2665748 alcR Bordetella pertussis Tohama I transcriptional regulator NP_881088.1 2603706 D 257313 CDS NP_881089.1 33593445 2665749 2604803..2606026 1 NC_002929.2 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 2606026 bcr 2665749 bcr Bordetella pertussis Tohama I drug resistance translocase NP_881089.1 2604803 D 257313 CDS NP_881090.1 33593446 2667469 2606137..2608341 1 NC_002929.2 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 2608341 fauA 2667469 fauA Bordetella pertussis Tohama I ferric alcaligin siderophore receptor NP_881090.1 2606137 D 257313 CDS NP_881091.1 33593447 2667470 2608636..2609295 1 NC_002929.2 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 2609295 mar 2667470 mar Bordetella pertussis Tohama I membrane efflux protein NP_881091.1 2608636 D 257313 CDS NP_881092.1 33593448 2667471 2609881..2610603 1 NC_002929.2 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 2610603 2667471 BP2465 Bordetella pertussis Tohama I hypothetical protein NP_881092.1 2609881 D 257313 CDS NP_881093.1 33593449 2667472 complement(2610619..2610780) 1 NC_002929.2 No siginificant database matches; hypothetical protein 2610780 2667472 BP2466 Bordetella pertussis Tohama I hypothetical protein NP_881093.1 2610619 R 257313 CDS NP_881094.1 33593450 2667473 2610874..2611389 1 NC_002929.2 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 2611389 2667473 BP2467 Bordetella pertussis Tohama I hypothetical protein NP_881094.1 2610874 D 257313 CDS NP_881095.1 33593451 2667474 2611662..2611979 1 NC_002929.2 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 2611979 vrg-6 2667474 vrg-6 Bordetella pertussis Tohama I virulence protein NP_881095.1 2611662 D 257313 CDS NP_881096.1 33593452 2667475 complement(2612167..2612511) 1 NC_002929.2 no significant database hits; hypothetical protein 2612511 2667475 BP2469 Bordetella pertussis Tohama I hypothetical protein NP_881096.1 2612167 R 257313 CDS NP_881097.1 33593453 2667476 complement(2612694..2614049) 1 NC_002929.2 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 2614049 2667476 BP2470 Bordetella pertussis Tohama I seryl-tRNA synthetase NP_881097.1 2612694 R 257313 CDS NP_881098.1 33593454 2667477 complement(2614096..2615436) 1 NC_002929.2 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 2615436 2667477 BP2471 Bordetella pertussis Tohama I recombination factor protein RarA NP_881098.1 2614096 R 257313 CDS NP_881099.1 33593455 2666547 complement(2615538..2616170) 1 NC_002929.2 participates with LolB in the incorporation of lipoprotein into the outer membrane; outer-membrane lipoprotein carrier protein 2616170 lolA 2666547 lolA Bordetella pertussis Tohama I outer-membrane lipoprotein carrier protein NP_881099.1 2615538 R 257313 CDS NP_881100.1 33593456 2666548 complement(2616170..2618539) 1 NC_002929.2 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 2618539 ftsK 2666548 ftsK Bordetella pertussis Tohama I cell division protein NP_881100.1 2616170 R 257313 CDS NP_881101.1 33593457 2666549 2618572..2619531 1 NC_002929.2 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 2619531 trxB 2666549 trxB Bordetella pertussis Tohama I thioredoxin reductase NP_881101.1 2618572 D 257313 CDS NP_881102.1 33593458 2666550 2619518..2620204 1 NC_002929.2 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 2620204 2666550 BP2475 Bordetella pertussis Tohama I hypothetical protein NP_881102.1 2619518 D 257313 CDS NP_881103.1 33593459 2666551 2620201..2620533 1 NC_002929.2 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 2620533 2666551 BP2476 Bordetella pertussis Tohama I mebrane transport protein NP_881103.1 2620201 D 257313 CDS NP_881104.1 33593460 2666552 2620649..2621599 1 NC_002929.2 transposase for IS481 element; transposase 2621599 2666552 BP2477 Bordetella pertussis Tohama I transposase NP_881104.1 2620649 D 257313 CDS NP_881105.1 33593461 2666553 complement(2621596..2623662) 1 NC_002929.2 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 2623662 2666553 BP2478 Bordetella pertussis Tohama I membrane transport protein NP_881105.1 2621596 R 257313 CDS NP_881106.1 33593462 2666554 complement(2623662..2623934) 1 NC_002929.2 no significant database hits; hypothetical protein 2623934 2666554 BP2479 Bordetella pertussis Tohama I hypothetical protein NP_881106.1 2623662 R 257313 CDS NP_881107.1 33593463 2666555 2624718..2626502 1 NC_002929.2 catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit A 2626502 kdpA 2666555 kdpA Bordetella pertussis Tohama I potassium-transporting ATPase subunit A NP_881107.1 2624718 D 257313 CDS NP_881108.1 33593464 2666556 2626526..2628691 1 NC_002929.2 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 2628691 kdpB 2666556 kdpB Bordetella pertussis Tohama I potassium-transporting ATPase subunit B NP_881108.1 2626526 D 257313 CDS NP_881109.1 33593465 2666680 2628702..2629301 1 NC_002929.2 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 2629301 kdpC 2666680 kdpC Bordetella pertussis Tohama I potassium-transporting ATPase subunit C NP_881109.1 2628702 D 257313 CDS NP_881110.1 33593466 2666681 2629367..2632081 1 NC_002929.2 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 2632081 kdpD 2666681 kdpD Bordetella pertussis Tohama I two component sensor protein NP_881110.1 2629367 D 257313 CDS NP_881111.1 33593467 2666682 2632123..2632818 1 NC_002929.2 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 2632818 kdpE 2666682 kdpE Bordetella pertussis Tohama I two component system transcriptional regulatory protein NP_881111.1 2632123 D 257313 CDS NP_881112.1 33593468 2666683 complement(2632827..2633777) 1 NC_002929.2 transposase for IS481 element; transposase 2633777 2666683 BP2485 Bordetella pertussis Tohama I transposase NP_881112.1 2632827 R 257313 CDS NP_881113.1 33593469 2666684 complement(2633876..2635117) 1 NC_002929.2 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 2635117 2666684 BP2486 Bordetella pertussis Tohama I hypothetical protein NP_881113.1 2633876 R 257313 CDS NP_881114.1 33593470 2666685 complement(2635267..2636268) 1 NC_002929.2 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 2636268 2666685 BP2487 Bordetella pertussis Tohama I hypothetical protein NP_881114.1 2635267 R 257313 CDS NP_881115.1 33593471 2666686 complement(2636446..2637702) 1 NC_002929.2 Converts isocitrate to alpha ketoglutarate; isocitrate dehydrogenase 2637702 icd 2666686 icd Bordetella pertussis Tohama I isocitrate dehydrogenase NP_881115.1 2636446 R 257313 CDS NP_881116.1 33593472 2666687 2637905..2638330 1 NC_002929.2 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 2638330 2666687 BP2489 Bordetella pertussis Tohama I hypothetical protein NP_881116.1 2637905 D 257313 CDS NP_881117.1 33593473 2666688 complement(2638372..2638734) 1 NC_002929.2 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 2638734 2666688 BP2490 Bordetella pertussis Tohama I cytochrome NP_881117.1 2638372 R 257313 CDS NP_881118.1 33593474 2667334 complement(2638747..2639082) 1 NC_002929.2 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 2639082 2667334 BP2491 Bordetella pertussis Tohama I cytochrome NP_881118.1 2638747 R 257313 CDS NP_881119.1 33593475 2667335 2639267..2640217 1 NC_002929.2 transposase for IS481 element; transposase 2640217 2667335 BP2492 Bordetella pertussis Tohama I transposase NP_881119.1 2639267 D 257313 CDS NP_881120.1 33593476 2666525 2640310..2641197 1 NC_002929.2 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 2641197 2666525 BP2493 Bordetella pertussis Tohama I ATP-binding protein NP_881120.1 2640310 D 257313 CDS NP_881121.1 33593477 2666526 2641219..2642391 1 NC_002929.2 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 2642391 2666526 BP2494 Bordetella pertussis Tohama I hypothetical protein NP_881121.1 2641219 D 257313 CDS NP_881122.1 33593478 2666527 complement(2642395..2642937) 1 NC_002929.2 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 2642937 2666527 BP2495 Bordetella pertussis Tohama I hypothetical protein NP_881122.1 2642395 R 257313 CDS NP_881123.1 33593479 2666528 complement(2642975..2643349) 1 NC_002929.2 no significant database hits; hypothetical protein 2643349 2666528 BP2496 Bordetella pertussis Tohama I hypothetical protein NP_881123.1 2642975 R 257313 CDS NP_881124.1 33593480 2666529 2643682..2646432 1 NC_002929.2 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 2646432 2666529 BP2497 Bordetella pertussis Tohama I zinc protease NP_881124.1 2643682 D 257313 CDS NP_881125.1 33593481 2666530 complement(2646601..2647758) 1 NC_002929.2 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 2647758 dnaJ 2666530 dnaJ Bordetella pertussis Tohama I molecular chaperone DnaJ NP_881125.1 2646601 R 257313 CDS NP_881126.1 33593482 2666522 complement(2647859..2649784) 1 NC_002929.2 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 2649784 dnaK 2666522 dnaK Bordetella pertussis Tohama I molecular chaperone DnaK NP_881126.1 2647859 R 257313 CDS NP_881127.1 33593483 2666523 complement(2649875..2650255) 1 NC_002929.2 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 2650255 2666523 BP2500 Bordetella pertussis Tohama I thioredoxin NP_881127.1 2649875 R 257313 CDS NP_881128.1 33593484 2666524 complement(2650263..2650817) 1 NC_002929.2 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 2650817 2666524 BP2501 Bordetella pertussis Tohama I heat shock protein GrpE NP_881128.1 2650263 R 257313 CDS NP_881129.1 33593485 2665653 complement(2650959..2651201) 1 NC_002929.2 no significant database hits; hypothetical protein 2651201 2665653 BP2502 Bordetella pertussis Tohama I hypothetical protein NP_881129.1 2650959 R 257313 CDS NP_881130.1 33593486 2665654 complement(2651283..2652386) 1 NC_002929.2 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 2652386 hemH 2665654 hemH Bordetella pertussis Tohama I ferrochelatase NP_881130.1 2651283 R 257313 CDS NP_881131.1 33593487 2665655 complement(2652429..2653433) 1 NC_002929.2 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 2653433 hrcA 2665655 hrcA Bordetella pertussis Tohama I heat-inducible transcription repressor NP_881131.1 2652429 R 257313 CDS NP_881132.1 33593488 2665656 2653548..2654447 1 NC_002929.2 catalyzes the phosphorylation of NAD to NADP; NAD(+)/NADH kinase family protein 2654447 ppnK 2665656 ppnK Bordetella pertussis Tohama I NAD(+)/NADH kinase family protein NP_881132.1 2653548 D 257313 CDS NP_881133.1 33593489 2665667 2654463..2656124 1 NC_002929.2 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 2656124 2665667 BP2506 Bordetella pertussis Tohama I DNA repair protein NP_881133.1 2654463 D 257313 CDS NP_881134.1 33593490 2665668 complement(2656199..2656618) 1 NC_002929.2 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 2656618 fur 2665668 fur Bordetella pertussis Tohama I ferric ion uptake regulator NP_881134.1 2656199 R 257313 CDS NP_881135.1 33593491 2665669 2656769..2657317 1 NC_002929.2 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 2657317 omlA 2665669 omlA Bordetella pertussis Tohama I outer membrane lipoprotein NP_881135.1 2656769 D 257313 CDS NP_881136.1 33593492 2665670 2657318..2658127 1 NC_002929.2 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate reductase 2658127 dapB 2665670 dapB Bordetella pertussis Tohama I dihydrodipicolinate reductase NP_881136.1 2657318 D 257313 CDS NP_881137.1 33593493 2665671 complement(2658164..2659219) 1 NC_002929.2 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis; UDP-N-acetylenolpyruvoylglucosamine reductase 2659219 murB 2665671 murB Bordetella pertussis Tohama I UDP-N-acetylenolpyruvoylglucosamine reductase NP_881137.1 2658164 R 257313 CDS NP_881138.1 33593494 2665672 complement(2659538..2660329) 1 NC_002929.2 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 2660329 2665672 BP2511 Bordetella pertussis Tohama I hydrolase NP_881138.1 2659538 R 257313 CDS NP_881139.1 33593495 2665673 complement(2660342..2661778) 1 NC_002929.2 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 2661778 2665673 BP2512 Bordetella pertussis Tohama I hypothetical protein NP_881139.1 2660342 R 257313 CDS NP_881140.1 33593496 2665674 complement(2661794..2662780) 1 NC_002929.2 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 2662780 2665674 BP2513 Bordetella pertussis Tohama I hypothetical protein NP_881140.1 2661794 R 257313 CDS NP_881141.1 33593497 2665675 complement(2662818..2663666) 1 NC_002929.2 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 2663666 purU 2665675 purU Bordetella pertussis Tohama I formyltetrahydrofolate deformylase NP_881141.1 2662818 R 257313 CDS NP_881142.1 33593498 2665676 complement(2663667..2664266) 1 NC_002929.2 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 2664266 soxG 2665676 soxG Bordetella pertussis Tohama I sarcosine oxidase subunit gamma NP_881142.1 2663667 R 257313 CDS NP_881143.1 33593499 2665677 complement(2664274..2667213) 1 NC_002929.2 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 2667213 soxA 2665677 soxA Bordetella pertussis Tohama I sarcosine oxidase subunit alpha NP_881143.1 2664274 R 257313 CDS NP_881144.1 33593500 2665678 complement(2667210..2667482) 1 NC_002929.2 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 2667482 soxD 2665678 soxD Bordetella pertussis Tohama I sarcosine oxidase subunit delta NP_881144.1 2667210 R 257313 CDS NP_881145.1 33593501 2665679 complement(2667493..2668746) 1 NC_002929.2 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 2668746 soxB 2665679 soxB Bordetella pertussis Tohama I sarcosine oxidase subunit beta NP_881145.1 2667493 R 257313 CDS NP_881146.1 33593502 2665680 2669028..2670053 1 NC_002929.2 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 2670053 2665680 BP2519 Bordetella pertussis Tohama I dipeptidase NP_881146.1 2669028 D 257313 CDS NP_881147.1 33593503 2665681 2670121..2671164 1 NC_002929.2 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 2671164 2665681 BP2520 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881147.1 2670121 D 257313 CDS NP_881148.1 33593504 2666236 2671161..2672189 1 NC_002929.2 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 2672189 2666236 BP2521 Bordetella pertussis Tohama I dehydrogenase NP_881148.1 2671161 D 257313 CDS NP_881149.1 33593505 2666237 complement(2672195..2673070) 1 NC_002929.2 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 2673070 folD 2666237 folD Bordetella pertussis Tohama I bifunctional folylpolyglutamate synthase/dihydrofolate synthase FolC NP_881149.1 2672195 R 257313 CDS NP_881150.1 33593506 2666238 complement(2673074..2674027) 1 NC_002929.2 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 2674027 2666238 BP2523 Bordetella pertussis Tohama I hypothetical protein NP_881150.1 2673074 R 257313 CDS NP_881151.1 33593507 2666219 complement(2674030..2674980) 1 NC_002929.2 transposase for IS481 element; transposase 2674980 2666219 BP2524 Bordetella pertussis Tohama I transposase NP_881151.1 2674030 R 257313 CDS NP_881152.1 33593508 2666239 complement(2675405..2676250) 1 NC_002929.2 hypothetical protein 2676250 2666239 BP2525 Bordetella pertussis Tohama I hypothetical protein NP_881152.1 2675405 R 257313 CDS NP_881153.1 33593509 2666241 complement(2677861..2679273) 1 NC_002929.2 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 2679273 2666241 BP2526 Bordetella pertussis Tohama I secretory apparatus NP_881153.1 2677861 R 257313 CDS NP_881154.1 33593510 2666226 complement(2679270..2680115) 1 NC_002929.2 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 2680115 2666226 BP2527 Bordetella pertussis Tohama I secretory protein NP_881154.1 2679270 R 257313 CDS NP_881155.1 33593511 2666227 complement(2680112..2680768) 1 NC_002929.2 no significant database hits; hypothetical protein 2680768 2666227 BP2528 Bordetella pertussis Tohama I hypothetical protein NP_881155.1 2680112 R 257313 CDS NP_881156.1 33593512 2666229 complement(2681359..2682675) 1 NC_002929.2 no significant database hits; hypothetical protein 2682675 2666229 BP2529 Bordetella pertussis Tohama I hypothetical protein NP_881156.1 2681359 R 257313 CDS NP_881157.1 33593513 2666230 complement(2682672..2682935) 1 NC_002929.2 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 2682935 2666230 BP2530 Bordetella pertussis Tohama I hypothetical protein NP_881157.1 2682672 R 257313 CDS NP_881158.1 33593514 2666712 complement(2683129..2683260) 1 NC_002929.2 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 2683260 ecnB 2666712 ecnB Bordetella pertussis Tohama I entericidin B-like bacteriolytic toxin NP_881158.1 2683129 R 257313 CDS NP_881159.1 33593515 2666713 complement(2683287..2683982) 1 NC_002929.2 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 2683982 2666713 BP2532 Bordetella pertussis Tohama I hypothetical protein NP_881159.1 2683287 R 257313 CDS NP_881160.1 33593516 2666714 complement(2684177..2684713) 1 NC_002929.2 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 2684713 ppa 2666714 ppa Bordetella pertussis Tohama I inorganic pyrophosphatase NP_881160.1 2684177 R 257313 CDS NP_881161.1 33593517 2666715 complement(2684742..2686337) 1 NC_002929.2 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 2686337 2666715 BP2534 Bordetella pertussis Tohama I hypothetical protein NP_881161.1 2684742 R 257313 CDS NP_881162.1 33593518 2666716 complement(2686341..2687525) 1 NC_002929.2 no significant database hits; hypothetical protein 2687525 2666716 BP2535 Bordetella pertussis Tohama I hypothetical protein NP_881162.1 2686341 R 257313 CDS NP_881163.1 33593519 2666717 complement(2687563..2688351) 1 NC_002929.2 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 2688351 2666717 BP2536 Bordetella pertussis Tohama I uroporphyrinogen-III synthase NP_881163.1 2687563 R 257313 CDS NP_881164.1 33593520 2666718 complement(2688384..2689328) 1 NC_002929.2 transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis; porphobilinogen deaminase 2689328 hemC 2666718 hemC Bordetella pertussis Tohama I porphobilinogen deaminase NP_881164.1 2688384 R 257313 CDS NP_881165.1 33593521 2666719 complement(2689447..2690166) 1 NC_002929.2 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 2690166 2666719 BP2538 Bordetella pertussis Tohama I hypothetical protein NP_881165.1 2689447 R 257313 CDS NP_881166.1 33593522 2666720 complement(2690325..2691020) 1 NC_002929.2 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 2691020 2666720 BP2539 Bordetella pertussis Tohama I hypothetical protein NP_881166.1 2690325 R 257313 CDS NP_881167.1 33593523 2666721 complement(2691296..2692177) 1 NC_002929.2 Catalyzes the only substrate-level phosphorylation in the TCA cycle; succinyl-CoA synthetase subunit alpha 2692177 sucD 2666721 sucD Bordetella pertussis Tohama I succinyl-CoA synthetase subunit alpha NP_881167.1 2691296 R 257313 CDS NP_881168.1 33593524 2666045 complement(2692197..2693357) 1 NC_002929.2 catalyzes the interconversion of succinyl-CoA and succinate; succinyl-CoA synthetase subunit beta 2693357 sucC 2666045 sucC Bordetella pertussis Tohama I succinyl-CoA synthetase subunit beta NP_881168.1 2692197 R 257313 CDS NP_881169.1 33593525 2666046 complement(2693368..2693970) 1 NC_002929.2 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 2693970 2666046 BP2542 Bordetella pertussis Tohama I hypothetical protein NP_881169.1 2693368 R 257313 CDS NP_881170.1 33593526 2666047 complement(2694175..2696469) 1 NC_002929.2 catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine; 5- methyltetrahydropteroyltriglutamate/homocysteine S-methyltransferase 2696469 metE 2666047 metE Bordetella pertussis Tohama I 5- methyltetrahydropteroyltriglutamate/homocysteine S-methyltransferase NP_881170.1 2694175 R 257313 CDS NP_881171.1 33593527 2666048 2696631..2697560 1 NC_002929.2 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 2697560 metR 2666048 metR Bordetella pertussis Tohama I transcriptional regulatory protein NP_881171.1 2696631 D 257313 CDS NP_881172.1 33593528 2666049 complement(2697635..2698201) 1 NC_002929.2 binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities; recombination regulator RecX 2698201 recX 2666049 recX Bordetella pertussis Tohama I recombination regulator RecX NP_881172.1 2697635 R 257313 CDS NP_881173.1 33593529 2666050 complement(2698234..2699295) 1 NC_002929.2 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 2699295 recA 2666050 recA Bordetella pertussis Tohama I recombinase A NP_881173.1 2698234 R 257313 CDS NP_881174.1 33593530 2666053 2699535..2700224 1 NC_002929.2 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 2700224 2666053 BP2547 Bordetella pertussis Tohama I two-component response regulatory protein NP_881174.1 2699535 D 257313 CDS NP_881175.1 33593531 2666054 2700340..2701698 1 NC_002929.2 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 2701698 2666054 BP2548 Bordetella pertussis Tohama I two-component system histidine kinase NP_881175.1 2700340 D 257313 CDS NP_881176.1 33593532 2666057 2701893..2703569 1 NC_002929.2 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 2703569 2666057 BP2549 Bordetella pertussis Tohama I sugar transport protein NP_881176.1 2701893 D 257313 CDS NP_881177.1 33593533 2667280 complement(2703821..2704615) 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 2704615 2667280 BP2550 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_881177.1 2703821 R 257313 CDS NP_881178.1 33593534 2667281 complement(2704625..2705689) 1 NC_002929.2 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 2705689 2667281 BP2551 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881178.1 2704625 R 257313 CDS NP_881179.1 33593535 2667282 complement(2705686..2707437) 1 NC_002929.2 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 2707437 2667282 BP2552 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881179.1 2705686 R 257313 CDS NP_881180.1 33593536 2667283 complement(2707466..2708503) 1 NC_002929.2 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 2708503 2667283 BP2553 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881180.1 2707466 R 257313 CDS NP_881181.1 33593537 2667284 complement(2708541..2709287) 1 NC_002929.2 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 2709287 fabG 2667284 fabG Bordetella pertussis Tohama I 3-oxoacyl-ACP reductase NP_881181.1 2708541 R 257313 CDS NP_881182.1 33593538 2667285 complement(2709288..2709731) 1 NC_002929.2 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 2709731 2667285 BP2555 Bordetella pertussis Tohama I hypothetical protein NP_881182.1 2709288 R 257313 CDS NP_881183.1 33593539 2667286 complement(2709732..2710124) 1 NC_002929.2 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 2710124 2667286 BP2556 Bordetella pertussis Tohama I hypothetical protein NP_881183.1 2709732 R 257313 CDS NP_881184.1 33593540 2667287 complement(2710132..2711295) 1 NC_002929.2 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 2711295 2667287 BP2557 Bordetella pertussis Tohama I hypothetical protein NP_881184.1 2710132 R 257313 CDS NP_881185.1 33593541 2667288 2711511..2712398 1 NC_002929.2 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 2712398 2667288 BP2558 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881185.1 2711511 D 257313 CDS NP_881186.1 33593542 2665750 2712535..2713722 1 NC_002929.2 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 2713722 2665750 BP2559 Bordetella pertussis Tohama I hypothetical protein NP_881186.1 2712535 D 257313 CDS NP_881187.1 33593543 2665751 complement(2713774..2714190) 1 NC_002929.2 no significant database hits; hypothetical protein 2714190 2665751 BP2560 Bordetella pertussis Tohama I hypothetical protein NP_881187.1 2713774 R 257313 CDS NP_881188.1 33593544 2665752 2714344..2715243 1 NC_002929.2 Required for efficient pilin antigenic variation; recombination associated protein 2715243 rdgC 2665752 rdgC Bordetella pertussis Tohama I recombination associated protein NP_881188.1 2714344 D 257313 CDS NP_881189.1 33593545 2667336 complement(2715283..2716578) 1 NC_002929.2 catalyzes the conversion of carbamoyl phosphate and aspartate to form N-carbamoyl aspartate; aspartate carbamoyltransferase 2716578 pyrB 2667336 pyrB Bordetella pertussis Tohama I aspartate carbamoyltransferase NP_881189.1 2715283 R 257313 CDS NP_881190.1 33593546 2667337 complement(2716685..2717098) 1 NC_002929.2 hypothetical protein 2717098 2667337 BP2563 Bordetella pertussis Tohama I hypothetical protein NP_881190.1 2716685 R 257313 CDS NP_881191.1 33593547 2667338 complement(2717100..2717534) 1 NC_002929.2 no significant database hits; lipoprotein 2717534 2667338 BP2564 Bordetella pertussis Tohama I lipoprotein NP_881191.1 2717100 R 257313 CDS NP_881192.1 33593548 2667153 complement(2717660..2717791) 1 NC_002929.2 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 2717791 ecnA2 2667153 ecnA2 Bordetella pertussis Tohama I entericidin A anti-toxin NP_881192.1 2717660 R 257313 CDS NP_881193.1 33593549 2667154 2717934..2718707 1 NC_002929.2 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 2718707 2667154 BP2566 Bordetella pertussis Tohama I endonulease NP_881193.1 2717934 D 257313 CDS NP_881194.1 33593550 2667155 complement(2718849..2719232) 1 NC_002929.2 no significant database hits; hypothetical protein 2719232 2667155 BP2567 Bordetella pertussis Tohama I hypothetical protein NP_881194.1 2718849 R 257313 CDS NP_881195.1 33593551 2667156 complement(2719919..2720869) 1 NC_002929.2 transposase for IS481 element; transposase 2720869 2667156 BP2568 Bordetella pertussis Tohama I transposase NP_881195.1 2719919 R 257313 CDS NP_881196.1 33593552 2667157 complement(2721262..2721858) 1 NC_002929.2 lipoprotein 2721858 2667157 BP2569 Bordetella pertussis Tohama I lipoprotein NP_881196.1 2721262 R 257313 CDS NP_881197.1 33593553 2667158 2722042..2723133 1 NC_002929.2 no significant database hits; hypothetical protein 2723133 2667158 BP2570 Bordetella pertussis Tohama I hypothetical protein NP_881197.1 2722042 D 257313 CDS NP_881198.1 33593554 2667159 complement(2723633..2724043) 1 NC_002929.2 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 2724043 2667159 BP2571 Bordetella pertussis Tohama I transcriptional regulatory protein NP_881198.1 2723633 R 257313 CDS NP_881199.1 33593555 2667160 complement(2724102..2724443) 1 NC_002929.2 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 2724443 ihfA 2667160 ihfA Bordetella pertussis Tohama I integration host factor subunit alpha NP_881199.1 2724102 R 257313 CDS NP_881200.1 33593556 2667161 complement(2724449..2726866) 1 NC_002929.2 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 2726866 pheT 2667161 pheT Bordetella pertussis Tohama I phenylalanyl-tRNA synthetase subunit beta NP_881200.1 2724449 R 257313 CDS NP_881201.2 161610758 2666018 complement(2726879..2727901) 1 NC_002929.2 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 2727901 pheS 2666018 pheS Bordetella pertussis Tohama I phenylalanyl-tRNA synthetase subunit alpha NP_881201.2 2726879 R 257313 CDS NP_881202.1 33593558 2666019 complement(2727976..2728335) 1 NC_002929.2 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit; 50S ribosomal protein L20 2728335 rplT 2666019 rplT Bordetella pertussis Tohama I 50S ribosomal protein L20 NP_881202.1 2727976 R 257313 CDS NP_881203.1 33593559 2666020 complement(2728351..2728548) 1 NC_002929.2 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 2728548 rpmI 2666020 rpmI Bordetella pertussis Tohama I 50S ribosomal protein L35 NP_881203.1 2728351 R 257313 CDS NP_881204.1 33593560 2666021 complement(2728884..2729834) 1 NC_002929.2 transposase for IS481 element; transposase 2729834 2666021 BP2577 Bordetella pertussis Tohama I transposase NP_881204.1 2728884 R 257313 CDS NP_881205.1 33593561 2666022 2730029..2730478 1 NC_002929.2 catalyzes the formation of dUMP from dUTP; deoxyuridine 5'-triphosphate nucleotidohydrolase 2730478 dut 2666022 dut Bordetella pertussis Tohama I deoxyuridine 5'-triphosphate nucleotidohydrolase NP_881205.1 2730029 D 257313 CDS NP_881206.1 33593562 2666023 complement(2730475..2731425) 1 NC_002929.2 transposase for IS481 element; transposase 2731425 2666023 BP2579 Bordetella pertussis Tohama I transposase NP_881206.1 2730475 R 257313 CDS NP_881207.1 33593563 2667150 2731536..2732984 1 NC_002929.2 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 2732984 2667150 BP2580 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881207.1 2731536 D 257313 CDS NP_881208.1 33593564 2667151 complement(2733099..2733380) 1 NC_002929.2 no significant database hits; hypothetical protein 2733380 2667151 BP2581 Bordetella pertussis Tohama I hypothetical protein NP_881208.1 2733099 R 257313 CDS NP_881209.1 33593565 2667152 2733484..2734434 1 NC_002929.2 transposase for IS481 element; transposase 2734434 2667152 BP2582 Bordetella pertussis Tohama I transposase NP_881209.1 2733484 D 257313 CDS NP_881210.1 33593566 2667165 complement(2734679..2735437) 1 NC_002929.2 no significant database hits; hypothetical protein 2735437 2667165 BP2583 Bordetella pertussis Tohama I hypothetical protein NP_881210.1 2734679 R 257313 CDS NP_881211.1 33593567 2667168 complement(2736037..2736675) 1 NC_002929.2 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 2736675 2667168 BP2585 Bordetella pertussis Tohama I DedA family integral membrane protein NP_881211.1 2736037 R 257313 CDS NP_881212.1 33593568 2667169 2736784..2737818 1 NC_002929.2 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 2737818 2667169 BP2586 Bordetella pertussis Tohama I hypothetical protein NP_881212.1 2736784 D 257313 CDS NP_881213.1 33593569 2665753 complement(2737815..2738765) 1 NC_002929.2 transposase for IS481 element; transposase 2738765 2665753 BP2587 Bordetella pertussis Tohama I transposase NP_881213.1 2737815 R 257313 CDS NP_881214.1 33593570 2665755 complement(2739181..2739705) 1 NC_002929.2 no significant database hits; DNA-binding protein 2739705 2665755 BP2589 Bordetella pertussis Tohama I DNA-binding protein NP_881214.1 2739181 R 257313 CDS NP_881215.1 33593571 2665756 complement(2740177..2741238) 1 NC_002929.2 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 2741238 2665756 BP2590 Bordetella pertussis Tohama I LacI family transcriptional regulator NP_881215.1 2740177 R 257313 CDS NP_881216.1 33593572 2665757 complement(2741322..2742956) 1 NC_002929.2 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 2742956 2665757 BP2591 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881216.1 2741322 R 257313 CDS NP_881217.1 33593573 2665507 complement(2742958..2743761) 1 NC_002929.2 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 2743761 2665507 BP2592 Bordetella pertussis Tohama I ABC transporter permease NP_881217.1 2742958 R 257313 CDS NP_881218.1 33593574 2665508 complement(2743790..2744749) 1 NC_002929.2 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 2744749 2665508 BP2593 Bordetella pertussis Tohama I ABC transporter permease NP_881218.1 2743790 R 257313 CDS NP_881219.1 33593575 2665509 complement(2744753..2746267) 1 NC_002929.2 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 2746267 2665509 BP2594 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881219.1 2744753 R 257313 CDS NP_881220.1 33593576 2665511 complement(2747740..2748210) 1 NC_002929.2 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 2748210 2665511 BP2596 Bordetella pertussis Tohama I hypothetical protein NP_881220.1 2747740 R 257313 CDS NP_881221.1 33593577 2665512 complement(2748246..2748857) 1 NC_002929.2 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 2748857 2665512 BP2597 Bordetella pertussis Tohama I membrane transport protein NP_881221.1 2748246 R 257313 CDS NP_881222.1 33593578 2665513 complement(2748888..2749511) 1 NC_002929.2 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 2749511 2665513 BP2598 Bordetella pertussis Tohama I hypothetical protein NP_881222.1 2748888 R 257313 CDS NP_881223.1 33593579 2665514 2749592..2751124 1 NC_002929.2 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 2751124 2665514 BP2599 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881223.1 2749592 D 257313 CDS NP_881224.1 33593580 2665515 complement(2751159..2752400) 1 NC_002929.2 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 2752400 2665515 BP2600 Bordetella pertussis Tohama I hypothetical protein NP_881224.1 2751159 R 257313 CDS NP_881225.1 33593581 2665520 complement(2752444..2753475) 1 NC_002929.2 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 2753475 2665520 BP2601 Bordetella pertussis Tohama I alcohol dehydrogenase NP_881225.1 2752444 R 257313 CDS NP_881226.1 33593582 2665521 complement(2753472..2754641) 1 NC_002929.2 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 2754641 2665521 BP2602 Bordetella pertussis Tohama I hypothetical protein NP_881226.1 2753472 R 257313 CDS NP_881227.1 33593583 2665522 complement(2754635..2755315) 1 NC_002929.2 no significant database hits; hypothetical protein 2755315 2665522 BP2603 Bordetella pertussis Tohama I hypothetical protein NP_881227.1 2754635 R 257313 CDS NP_881228.1 33593584 2667612 2755477..2756319 1 NC_002929.2 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 2756319 2667612 BP2604 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881228.1 2755477 D 257313 CDS NP_881229.1 33593585 2667613 complement(2756482..2757453) 1 NC_002929.2 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 2757453 2667613 BP2605 Bordetella pertussis Tohama I AraC family transcriptional regulator NP_881229.1 2756482 R 257313 CDS NP_881230.1 33593586 2667614 2757625..2758503 1 NC_002929.2 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 2758503 2667614 BP2606 Bordetella pertussis Tohama I hypothetical protein NP_881230.1 2757625 D 257313 CDS NP_881231.1 33593587 2667610 complement(2758526..2759596) 1 NC_002929.2 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 2759596 2667610 BP2607 Bordetella pertussis Tohama I hypothetical protein NP_881231.1 2758526 R 257313 CDS NP_881232.1 33593588 2667611 complement(2759637..2760587) 1 NC_002929.2 transposase for IS481 element; transposase 2760587 2667611 BP2608 Bordetella pertussis Tohama I transposase NP_881232.1 2759637 R 257313 CDS NP_881233.1 33593589 2667620 complement(2760880..2762238) 1 NC_002929.2 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 2762238 2667620 BP2609 Bordetella pertussis Tohama I hypothetical protein NP_881233.1 2760880 R 257313 CDS NP_881234.1 33593590 2667621 2762350..2764077 1 NC_002929.2 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 2764077 2667621 BP2610 Bordetella pertussis Tohama I solute transport protein NP_881234.1 2762350 D 257313 CDS NP_881235.1 33593591 2666563 complement(2765350..2765784) 1 NC_002929.2 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 2765784 2666563 BP2612 Bordetella pertussis Tohama I hypothetical protein NP_881235.1 2765350 R 257313 CDS NP_881236.1 33593592 2666564 complement(2765777..2767012) 1 NC_002929.2 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 2767012 2666564 BP2613 Bordetella pertussis Tohama I hypothetical protein NP_881236.1 2765777 R 257313 CDS NP_881237.1 33593593 2666565 complement(2767020..2767814) 1 NC_002929.2 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 2767814 2666565 BP2614 Bordetella pertussis Tohama I ABC transporter permease NP_881237.1 2767020 R 257313 CDS NP_881238.1 33593594 2666561 complement(2767811..2768614) 1 NC_002929.2 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 2768614 2666561 BP2615 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881238.1 2767811 R 257313 CDS NP_881239.1 33593595 2666566 complement(2768641..2769618) 1 NC_002929.2 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 2769618 2666566 BP2616 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881239.1 2768641 R 257313 CDS NP_881240.1 33593596 2666567 complement(2769647..2771218) 1 NC_002929.2 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 2771218 2666567 BP2617 Bordetella pertussis Tohama I hypothetical protein NP_881240.1 2769647 R 257313 CDS NP_881242.1 33593598 2666570 complement(2773775..2775193) 1 NC_002929.2 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 2775193 2666570 BP2620 Bordetella pertussis Tohama I membrane efflux protein NP_881242.1 2773775 R 257313 CDS NP_881243.1 33593599 2666571 2775218..2775907 1 NC_002929.2 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 2775907 2666571 BP2621 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_881243.1 2775218 D 257313 CDS NP_881244.1 33593600 2667142 complement(2776003..2777343) 1 NC_002929.2 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 2777343 hipA 2667142 hipA Bordetella pertussis Tohama I HipA-like protein NP_881244.1 2776003 R 257313 CDS NP_881245.1 33593601 2667143 complement(2777345..2777632) 1 NC_002929.2 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 2777632 hipB 2667143 hipB Bordetella pertussis Tohama I DNA-binding protein NP_881245.1 2777345 R 257313 CDS NP_881246.1 33593602 2667144 complement(2777956..2779548) 1 NC_002929.2 contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway; GMP synthase 2779548 guaA 2667144 guaA Bordetella pertussis Tohama I GMP synthase NP_881246.1 2777956 R 257313 CDS NP_881247.1 33593603 2667145 complement(2779645..2781105) 1 NC_002929.2 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 2781105 guaB 2667145 guaB Bordetella pertussis Tohama I inosine-5'-monophosphate dehydrogenase NP_881247.1 2779645 R 257313 CDS NP_881248.1 33593604 2667146 2781328..2781939 1 NC_002929.2 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 2781939 2667146 BP2626 Bordetella pertussis Tohama I hypothetical protein NP_881248.1 2781328 D 257313 CDS NP_881249.1 33593605 2667149 complement(2785686..2786636) 1 NC_002929.2 transposase for IS481 element; transposase 2786636 2667149 BP2630 Bordetella pertussis Tohama I transposase NP_881249.1 2785686 R 257313 CDS NP_881250.1 33593606 2667340 complement(2787052..2789688) 1 NC_002929.2 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 2789688 2667340 BP2632 Bordetella pertussis Tohama I GTP-binding protein NP_881250.1 2787052 R 257313 CDS NP_881251.1 33593607 2667341 complement(2789685..2790809) 1 NC_002929.2 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 2790809 2667341 BP2633 Bordetella pertussis Tohama I exonuclease NP_881251.1 2789685 R 257313 CDS NP_881252.1 33593608 2667343 2792324..2792791 1 NC_002929.2 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 2792791 lrp 2667343 lrp Bordetella pertussis Tohama I leucine-responsive regulatory protein NP_881252.1 2792324 D 257313 CDS NP_881253.1 33593609 2667344 2792913..2793581 1 NC_002929.2 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 2793581 2667344 BP2636 Bordetella pertussis Tohama I hypothetical protein NP_881253.1 2792913 D 257313 CDS NP_881254.1 33593610 2667449 2793654..2794856 1 NC_002929.2 no significant database hits; lipoprotein 2794856 2667449 BP2637 Bordetella pertussis Tohama I lipoprotein NP_881254.1 2793654 D 257313 CDS NP_881255.1 33593611 2667450 complement(2794858..2796588) 1 NC_002929.2 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 2796588 2667450 BP2638 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881255.1 2794858 R 257313 CDS NP_881256.1 33593612 2667451 complement(2796706..2797014) 1 NC_002929.2 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 2797014 2667451 BP2639 Bordetella pertussis Tohama I hypothetical protein NP_881256.1 2796706 R 257313 CDS NP_881257.1 33593613 2667452 complement(2797027..2797839) 1 NC_002929.2 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 2797839 2667452 BP2640 Bordetella pertussis Tohama I ABC transporter permease NP_881257.1 2797027 R 257313 CDS NP_881258.1 33593614 2666052 complement(2798720..2799808) 1 NC_002929.2 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 2799808 2666052 BP2642 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881258.1 2798720 R 257313 CDS NP_881259.1 33593615 2666059 2801011..2801799 1 NC_002929.2 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 2801799 glpR 2666059 glpR Bordetella pertussis Tohama I glycerol-3-phosphate regulon repressor protein NP_881259.1 2801011 D 257313 CDS NP_881260.1 33593616 2666055 2801839..2803443 1 NC_002929.2 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 2803443 2666055 BP2644 Bordetella pertussis Tohama I glycerol-3-phosphate dehydrogenase NP_881260.1 2801839 D 257313 CDS NP_881261.1 33593617 2666056 2803524..2804264 1 NC_002929.2 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 2804264 2666056 BP2645 Bordetella pertussis Tohama I IclR family transcriptional regulator NP_881261.1 2803524 D 257313 CDS NP_881262.1 33593618 2667171 complement(2805139..2806158) 1 NC_002929.2 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 2806158 2667171 BP2647 Bordetella pertussis Tohama I hypothetical protein NP_881262.1 2805139 R 257313 CDS NP_881263.1 33593619 2667172 complement(2806155..2807537) 1 NC_002929.2 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 2807537 2667172 BP2648 Bordetella pertussis Tohama I hypothetical protein NP_881263.1 2806155 R 257313 CDS NP_881264.1 33593620 2667173 complement(2807570..2808430) 1 NC_002929.2 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 2808430 2667173 BP2649 Bordetella pertussis Tohama I hypothetical protein NP_881264.1 2807570 R 257313 CDS NP_881265.1 33593621 2667175 2809512..2810315 1 NC_002929.2 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 2810315 2667175 BP2651 Bordetella pertussis Tohama I hypothetical protein NP_881265.1 2809512 D 257313 CDS NP_881266.1 33593622 2667176 2810308..2810811 1 NC_002929.2 no significant database hits; hypothetical protein 2810811 2667176 BP2652 Bordetella pertussis Tohama I hypothetical protein NP_881266.1 2810308 D 257313 CDS NP_881267.1 33593623 2667177 complement(2810902..2811873) 1 NC_002929.2 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 2811873 2667177 BP2653 Bordetella pertussis Tohama I hypothetical protein NP_881267.1 2810902 R 257313 CDS NP_881268.1 33593624 2667178 complement(2811912..2812856) 1 NC_002929.2 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 2812856 2667178 BP2654 Bordetella pertussis Tohama I dihydrodipicolinate synthase NP_881268.1 2811912 R 257313 CDS NP_881269.1 33593625 2667179 2812952..2813761 1 NC_002929.2 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 2813761 2667179 BP2655 Bordetella pertussis Tohama I IclR family transcriptional regulator NP_881269.1 2812952 D 257313 CDS NP_881270.1 33593626 2667162 complement(2813838..2814212) 1 NC_002929.2 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 2814212 2667162 BP2656 Bordetella pertussis Tohama I hypothetical protein NP_881270.1 2813838 R 257313 CDS NP_881271.1 33593627 2667163 complement(2814319..2815011) 1 NC_002929.2 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 2815011 2667163 BP2657 Bordetella pertussis Tohama I hypothetical protein NP_881271.1 2814319 R 257313 CDS NP_881272.1 33593628 2667164 complement(2815004..2815420) 1 NC_002929.2 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 2815420 2667164 BP2658 Bordetella pertussis Tohama I peptidyl-tRNA hydrolase domain-containing protein NP_881272.1 2815004 R 257313 CDS NP_881273.1 33593629 2665523 2815531..2816163 1 NC_002929.2 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 2816163 2665523 BP2659 Bordetella pertussis Tohama I hypothetical protein NP_881273.1 2815531 D 257313 CDS NP_881274.1 33593630 2665524 2816192..2816635 1 NC_002929.2 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 2816635 2665524 BP2660 Bordetella pertussis Tohama I hypothetical protein NP_881274.1 2816192 D 257313 CDS NP_881275.1 33593631 2665525 complement(2816657..2817748) 1 NC_002929.2 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 2817748 2665525 BP2661 Bordetella pertussis Tohama I mannitol ABC transporter substrate-binding protein NP_881275.1 2816657 R 257313 CDS NP_881276.1 33593632 2665526 complement(2817803..2818603) 1 NC_002929.2 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 2818603 2665526 BP2662 Bordetella pertussis Tohama I class II aldolase/adducin domain-containing protein NP_881276.1 2817803 R 257313 CDS NP_881277.1 33593633 2665527 2818739..2819359 1 NC_002929.2 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 2819359 2665527 BP2663 Bordetella pertussis Tohama I transcriptional regulatory protein NP_881277.1 2818739 D 257313 CDS NP_881278.1 33593634 2665528 2819499..2819972 1 NC_002929.2 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 2819972 2665528 BP2664 Bordetella pertussis Tohama I MarR family transcriptional regulator NP_881278.1 2819499 D 257313 CDS NP_881279.1 33593635 2665530 2821112..2822062 1 NC_002929.2 transposase for IS481 element; transposase 2822062 2665530 BP2666 Bordetella pertussis Tohama I transposase NP_881279.1 2821112 D 257313 CDS NP_881280.1 33593636 2665531 complement(2822059..2829720) 1 NC_002929.2 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 2829720 fhaS 2665531 fhaS Bordetella pertussis Tohama I adhesin NP_881280.1 2822059 R 257313 CDS NP_881281.1 33593637 2665504 complement(2829961..2834007) 1 NC_002929.2 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 2834007 purL 2665504 purL Bordetella pertussis Tohama I phosphoribosylformylglycinamidine synthase NP_881281.1 2829961 R 257313 CDS NP_881282.1 33593638 2665505 2834320..2834901 1 NC_002929.2 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 2834901 2665505 BP2669 Bordetella pertussis Tohama I hypothetical protein NP_881282.1 2834320 D 257313 CDS NP_881283.1 33593639 2665506 2834898..2836196 1 NC_002929.2 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 2836196 2665506 BP2670 Bordetella pertussis Tohama I membrane permease NP_881283.1 2834898 D 257313 CDS NP_881284.1 33593640 2665535 2836276..2837304 1 NC_002929.2 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 2837304 2665535 BP2671 Bordetella pertussis Tohama I hypothetical protein NP_881284.1 2836276 D 257313 CDS NP_881285.1 33593641 2665536 2837565..2838515 1 NC_002929.2 transposase for IS481 element; transposase 2838515 2665536 BP2672 Bordetella pertussis Tohama I transposase NP_881285.1 2837565 D 257313 CDS NP_881286.1 33593642 2665537 complement(2838512..2839462) 1 NC_002929.2 transposase for IS1002 element; transposase 2839462 2665537 BP2673 Bordetella pertussis Tohama I transposase NP_881286.1 2838512 R 257313 CDS NP_881287.1 33593643 2665538 2839779..2840384 1 NC_002929.2 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 2840384 fimX 2665538 fimX Bordetella pertussis Tohama I fimbrial protein NP_881287.1 2839779 D 257313 CDS NP_881288.1 33593644 2665539 complement(2840438..2841751) 1 NC_002929.2 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 2841751 paaK 2665539 paaK Bordetella pertussis Tohama I phenylacetate-coenzyme A ligase NP_881288.1 2840438 R 257313 CDS NP_881289.1 33593645 2665540 complement(2841826..2842296) 1 NC_002929.2 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 2842296 paaI 2665540 paaI Bordetella pertussis Tohama I phenylacetic acid degradation protein NP_881289.1 2841826 R 257313 CDS NP_881290.1 33593646 2665541 complement(2842296..2843084) 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 2843084 paaG 2665541 paaG Bordetella pertussis Tohama I enoyl-CoA hydratase NP_881290.1 2842296 R 257313 CDS NP_881291.1 33593647 2665542 complement(2843095..2844747) 1 NC_002929.2 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 2844747 2665542 BP2678 Bordetella pertussis Tohama I oxidoreductase NP_881291.1 2843095 R 257313 CDS NP_881292.1 33593648 2665543 complement(2844835..2845785) 1 NC_002929.2 transposase for IS481 element; transposase 2845785 2665543 BP2679 Bordetella pertussis Tohama I transposase NP_881292.1 2844835 R 257313 CDS NP_881293.1 33593649 2665545 complement(2846947..2847453) 1 NC_002929.2 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 2847453 paaD 2665545 paaD Bordetella pertussis Tohama I phenylacetic acid degradation protein NP_881293.1 2846947 R 257313 CDS NP_881294.1 33593650 2665546 complement(2847450..2848214) 1 NC_002929.2 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 2848214 paaC 2665546 paaC Bordetella pertussis Tohama I phenylacetic acid degradation protein NP_881294.1 2847450 R 257313 CDS NP_881295.1 33593651 2665547 complement(2848230..2848514) 1 NC_002929.2 with PaaBCDE catalyzes the hydroxylation of phenylacetyl-CoA; involved in phenylacetate degradation; phenylacetate-CoA oxygenase subunit PaaB 2848514 paaB 2665547 paaB Bordetella pertussis Tohama I phenylacetate-CoA oxygenase subunit PaaB NP_881295.1 2848230 R 257313 CDS NP_881296.1 33593652 2665548 complement(2848579..2849568) 1 NC_002929.2 with PaaBCDE catalyzes the hydroxylation of phenylacetyl-CoA; phenylacetate-CoA oxygenase subunit PaaA 2849568 paaA 2665548 paaA Bordetella pertussis Tohama I phenylacetate-CoA oxygenase subunit PaaA NP_881296.1 2848579 R 257313 CDS NP_881297.1 33593653 2665549 2849740..2850669 1 NC_002929.2 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 2850669 paaX 2665549 paaX Bordetella pertussis Tohama I phenylacetic acid degradation operon negative regulatory protein NP_881297.1 2849740 D 257313 CDS NP_881298.1 33593654 2665550 complement(2850641..2851327) 1 NC_002929.2 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 2851327 2665550 BP2686 Bordetella pertussis Tohama I hypothetical protein NP_881298.1 2850641 R 257313 CDS NP_881299.1 33593655 2665551 complement(2851361..2851906) 1 NC_002929.2 3'-5' exoribonuclease specific for small oligoribonuclotides; oligoribonuclease 2851906 2665551 BP2687 Bordetella pertussis Tohama I oligoribonuclease NP_881299.1 2851361 R 257313 CDS NP_881300.1 33593656 2665552 2851951..2853216 1 NC_002929.2 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 2853216 2665552 BP2688 Bordetella pertussis Tohama I integral membrane zinc-metalloprotease NP_881300.1 2851951 D 257313 CDS NP_881301.1 33593657 2665532 2853213..2854115 1 NC_002929.2 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 2854115 2665532 BP2689 Bordetella pertussis Tohama I ribosome-associated GTPase NP_881301.1 2853213 D 257313 CDS NP_881302.1 33593658 2665553 complement(2855297..2856250) 1 NC_002929.2 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 2856250 2665553 BP2691 Bordetella pertussis Tohama I ABC transporter permease NP_881302.1 2855297 R 257313 CDS NP_881303.1 33593659 2665554 complement(2856336..2857853) 1 NC_002929.2 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 2857853 2665554 BP2692 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881303.1 2856336 R 257313 CDS NP_881304.1 33593660 2667311 complement(2857895..2859523) 1 NC_002929.2 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 2859523 2667311 BP2693 Bordetella pertussis Tohama I gamma-glutamyltranspeptidase NP_881304.1 2857895 R 257313 CDS NP_881305.1 33593661 2667312 2859631..2860512 1 NC_002929.2 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 2860512 2667312 BP2694 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881305.1 2859631 D 257313 CDS NP_881306.1 33593662 2667316 2863625..2863999 1 NC_002929.2 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 2863999 2667316 BP2698 Bordetella pertussis Tohama I endonuclease NP_881306.1 2863625 D 257313 CDS NP_881307.1 33593663 2667317 complement(2864024..2864362) 1 NC_002929.2 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 2864362 glnB 2667317 glnB Bordetella pertussis Tohama I nitrogen regulatory protein NP_881307.1 2864024 R 257313 CDS NP_881308.1 33593664 2667318 complement(2864406..2866040) 1 NC_002929.2 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 2866040 nadE 2667318 nadE Bordetella pertussis Tohama I NAD synthetase NP_881308.1 2864406 R 257313 CDS NP_881309.1 33593665 2667319 complement(2866079..2867425) 1 NC_002929.2 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 2867425 2667319 BP2701 Bordetella pertussis Tohama I membrane transport protein NP_881309.1 2866079 R 257313 CDS NP_881310.1 33593666 2667320 2867533..2868954 1 NC_002929.2 catalyzes the formation of arginine from (N-L-arginino)succinate; argininosuccinate lyase 2868954 argH 2667320 argH Bordetella pertussis Tohama I argininosuccinate lyase NP_881310.1 2867533 D 257313 CDS NP_881311.1 33593667 2667321 complement(2869024..2869608) 1 NC_002929.2 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 2869608 2667321 BP2703 Bordetella pertussis Tohama I hypothetical protein NP_881311.1 2869024 R 257313 CDS NP_881312.1 33593668 2667322 complement(2869711..2870661) 1 NC_002929.2 transposase for IS481 element; transposase 2870661 2667322 BP2704 Bordetella pertussis Tohama I transposase NP_881312.1 2869711 R 257313 CDS NP_881313.1 33593669 2667323 2870796..2871902 1 NC_002929.2 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 2871902 2667323 BP2705 Bordetella pertussis Tohama I molybdenum-binding protein NP_881313.1 2870796 D 257313 CDS NP_881314.1 33593670 2667324 2871913..2873010 1 NC_002929.2 together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z; molybdenum cofactor biosynthesis protein A 2873010 moaA 2667324 moaA Bordetella pertussis Tohama I molybdenum cofactor biosynthesis protein A NP_881314.1 2871913 D 257313 CDS NP_881315.1 33593671 2667325 complement(2873155..2874360) 1 NC_002929.2 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 2874360 moeA 2667325 moeA Bordetella pertussis Tohama I molybdopterin cofactor biosynthesis protein NP_881315.1 2873155 R 257313 CDS NP_881316.1 33593672 2667326 complement(2874367..2874888) 1 NC_002929.2 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 2874888 moaB 2667326 moaB Bordetella pertussis Tohama I molybdenum cofactor biosynthesis protein NP_881316.1 2874367 R 257313 CDS NP_881317.1 33593673 2667327 complement(2874885..2875376) 1 NC_002929.2 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 2875376 moaE 2667327 moaE Bordetella pertussis Tohama I molybdopterin converting factor NP_881317.1 2874885 R 257313 CDS NP_881318.1 33593674 2667328 complement(2875373..2875624) 1 NC_002929.2 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 2875624 moaD 2667328 moaD Bordetella pertussis Tohama I molybdopterin converting factor NP_881318.1 2875373 R 257313 CDS NP_881319.1 33593675 2667329 complement(2875605..2876090) 1 NC_002929.2 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 2876090 moaC 2667329 moaC Bordetella pertussis Tohama I molybdenum cofactor biosynthesis protein NP_881319.1 2875605 R 257313 CDS NP_881320.1 33593676 2667330 2876226..2879687 1 NC_002929.2 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 2879687 2667330 BP2712 Bordetella pertussis Tohama I hypothetical protein NP_881320.1 2876226 D 257313 CDS NP_881321.1 33593677 2667331 2879705..2880589 1 NC_002929.2 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 2880589 2667331 BP2713 Bordetella pertussis Tohama I hydrolase NP_881321.1 2879705 D 257313 CDS NP_881322.1 33593678 2667332 complement(2880599..2881030) 1 NC_002929.2 lipoprotein 2881030 2667332 BP2714 Bordetella pertussis Tohama I lipoprotein NP_881322.1 2880599 R 257313 CDS NP_881323.1 33593679 2667333 2881277..2881780 1 NC_002929.2 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 2881780 2667333 BP2715 Bordetella pertussis Tohama I AhpC/TSA-family protein NP_881323.1 2881277 D 257313 CDS NP_881324.1 33593680 2666691 2881858..2883258 1 NC_002929.2 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 2883258 2666691 BP2716 Bordetella pertussis Tohama I membrane transport protein NP_881324.1 2881858 D 257313 CDS NP_881325.1 33593681 2666692 complement(2883333..2884208) 1 NC_002929.2 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 2884208 2666692 BP2717 Bordetella pertussis Tohama I hypothetical protein NP_881325.1 2883333 R 257313 CDS NP_881326.1 33593682 2666693 complement(2884205..2885227) 1 NC_002929.2 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 2885227 2666693 BP2718 Bordetella pertussis Tohama I biotin synthase NP_881326.1 2884205 R 257313 CDS NP_881327.1 33593683 2666696 2885680..2885985 1 NC_002929.2 no significant database hits. Similar to BP0266, BP1766, BP3099, BP3683, and BP3731; hypothetical protein 2885985 2666696 BP2719 Bordetella pertussis Tohama I hypothetical protein NP_881327.1 2885680 D 257313 CDS NP_881328.1 33593684 2666697 2886076..2886666 1 NC_002929.2 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 2886666 2666697 BP2720 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_881328.1 2886076 D 257313 CDS NP_881329.1 33593685 2666689 complement(2886857..2887873) 1 NC_002929.2 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 2887873 2666689 BP2721 Bordetella pertussis Tohama I transposase for IS1663 NP_881329.1 2886857 R 257313 CDS NP_881330.1 33593686 2666690 complement(2888065..2890401) 1 NC_002929.2 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 2890401 2666690 BP2722 Bordetella pertussis Tohama I membrane transport ATPase NP_881330.1 2888065 R 257313 CDS NP_881331.1 33593687 2665982 2890484..2890918 1 NC_002929.2 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 2890918 2665982 BP2723 Bordetella pertussis Tohama I MerR family transcriptional regulator NP_881331.1 2890484 D 257313 CDS NP_881332.1 33593688 2665983 2891017..2891967 1 NC_002929.2 transposase for IS481 element; transposase 2891967 2665983 BP2724 Bordetella pertussis Tohama I transposase NP_881332.1 2891017 D 257313 CDS NP_881333.1 33593689 2665984 complement(2891964..2892758) 1 NC_002929.2 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 2892758 2665984 BP2725 Bordetella pertussis Tohama I hypothetical protein NP_881333.1 2891964 R 257313 CDS NP_881334.1 33593690 2665985 complement(2892790..2893494) 1 NC_002929.2 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 2893494 2665985 BP2726 Bordetella pertussis Tohama I oxidoreductase NP_881334.1 2892790 R 257313 CDS NP_881335.1 33593691 2665986 complement(2893569..2894369) 1 NC_002929.2 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 2894369 2665986 BP2727 Bordetella pertussis Tohama I SurF1-family protein NP_881335.1 2893569 R 257313 CDS NP_881336.1 33593692 2665987 complement(2894366..2894773) 1 NC_002929.2 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 2894773 2665987 BP2728 Bordetella pertussis Tohama I cytochrome ubiquinol oxidase subunit IV NP_881336.1 2894366 R 257313 CDS NP_881337.1 33593693 2665988 complement(2894770..2895411) 1 NC_002929.2 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 2895411 2665988 BP2729 Bordetella pertussis Tohama I cytochrome ubiquinol oxidase subunit III NP_881337.1 2894770 R 257313 CDS NP_881338.1 33593694 2665989 complement(2895404..2897404) 1 NC_002929.2 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 2897404 2665989 BP2730 Bordetella pertussis Tohama I cytochrome ubiquinol oxidase subunit I NP_881338.1 2895404 R 257313 CDS NP_881339.1 33593695 2666901 2898665..2899996 1 NC_002929.2 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 2899996 2666901 BP2732 Bordetella pertussis Tohama I membrane transport protein NP_881339.1 2898665 D 257313 CDS NP_881340.1 33593696 2666902 complement(2899993..2900943) 1 NC_002929.2 transposase for IS481 element; transposase 2900943 2666902 BP2733 Bordetella pertussis Tohama I transposase NP_881340.1 2899993 R 257313 CDS NP_881341.1 33593697 2666903 complement(join(2901042..2901722,2901722..2902543)) 1 NC_002929.2 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) 2902543 2666903 BP2734 Bordetella pertussis Tohama I chelatase (pseudogene) NP_881341.1 2901042 R 257313 CDS NP_881342.1 33593698 2666904 complement(2902650..2902916) 1 NC_002929.2 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 2902916 2666904 BP2735 Bordetella pertussis Tohama I hypothetical protein NP_881342.1 2902650 R 257313 CDS NP_881343.1 33593699 2666905 2903624..2903962 1 NC_002929.2 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 2903962 2666905 BP2736 Bordetella pertussis Tohama I nitrogen regulatory protein P-II NP_881343.1 2903624 D 257313 CDS NP_881344.1 33593700 2666060 complement(join(2905291..2907627,2907632..2908003,2908005..2908277)) 1 NC_002929.2 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 2908277 bapC 2666060 bapC Bordetella pertussis Tohama I autotransporter NP_881344.1 2905291 R 257313 CDS NP_881345.1 33593701 2666061 complement(2908516..2909118) 1 NC_002929.2 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 2909118 2666061 BP2741 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_881345.1 2908516 R 257313 CDS NP_881346.1 33593702 2666062 2909215..2910504 1 NC_002929.2 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 2910504 2666062 BP2742 Bordetella pertussis Tohama I membrane transport protein NP_881346.1 2909215 D 257313 CDS NP_881347.1 33593703 2666063 complement(2910562..2911293) 1 NC_002929.2 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 2911293 2666063 BP2743 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881347.1 2910562 R 257313 CDS NP_881348.1 33593704 2666064 complement(2911290..2912093) 1 NC_002929.2 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 2912093 2666064 BP2744 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881348.1 2911290 R 257313 CDS NP_881349.1 33593705 2666065 complement(2912090..2913178) 1 NC_002929.2 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 2913178 2666065 BP2745 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881349.1 2912090 R 257313 CDS NP_881350.1 33593706 2666066 complement(2913175..2914104) 1 NC_002929.2 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 2914104 2666066 BP2746 Bordetella pertussis Tohama I ABC transporter permease NP_881350.1 2913175 R 257313 CDS NP_881351.1 33593707 2666067 complement(2914253..2915398) 1 NC_002929.2 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 2915398 2666067 BP2747 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881351.1 2914253 R 257313 CDS NP_881352.1 33593708 2666068 complement(2915420..2916370) 1 NC_002929.2 transposase for IS481 element; transposase 2916370 2666068 BP2748 Bordetella pertussis Tohama I transposase NP_881352.1 2915420 R 257313 CDS NP_881353.1 33593709 2666915 complement(2916701..2920522) 1 NC_002929.2 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 2920522 putA 2666915 putA Bordetella pertussis Tohama I trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase NP_881353.1 2916701 R 257313 CDS NP_881354.1 33593710 2666916 complement(2920679..2921347) 1 NC_002929.2 no significant database hits; lipoprotein 2921347 2666916 BP2750 Bordetella pertussis Tohama I lipoprotein NP_881354.1 2920679 R 257313 CDS NP_881355.1 33593711 2666932 complement(2921352..2923025) 1 NC_002929.2 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 2923025 2666932 BP2751 Bordetella pertussis Tohama I hypothetical protein NP_881355.1 2921352 R 257313 CDS NP_881356.1 33593712 2666933 complement(2923044..2924240) 1 NC_002929.2 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 2924240 2666933 BP2752 Bordetella pertussis Tohama I hypothetical protein NP_881356.1 2923044 R 257313 CDS NP_881357.1 33593713 2666934 complement(2924368..2926683) 1 NC_002929.2 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 2926683 clpA 2666934 clpA Bordetella pertussis Tohama I ATP-dependent Clp protease ATP-binding NP_881357.1 2924368 R 257313 CDS NP_881358.1 33593714 2667033 complement(2926739..2928907) 1 NC_002929.2 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 2928907 pbp 2667033 pbp Bordetella pertussis Tohama I penicillin-binding protein NP_881358.1 2926739 R 257313 CDS NP_881359.1 33593715 2667034 complement(2928904..2934093) 1 NC_002929.2 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 2934093 2667034 BP2755 Bordetella pertussis Tohama I hypothetical protein NP_881359.1 2928904 R 257313 CDS NP_881360.1 33593716 2667035 complement(2934183..2934497) 1 NC_002929.2 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 2934497 clpS 2667035 clpS Bordetella pertussis Tohama I ATP-dependent Clp protease adaptor protein ClpS NP_881360.1 2934183 R 257313 CDS NP_881361.1 33593717 2667036 2934725..2934970 1 NC_002929.2 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 2934970 2667036 BP2757 Bordetella pertussis Tohama I cold-shock protein NP_881361.1 2934725 D 257313 CDS NP_881362.1 33593718 2667037 2935065..2935583 1 NC_002929.2 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 2935583 2667037 BP2758 Bordetella pertussis Tohama I hypothetical protein NP_881362.1 2935065 D 257313 CDS NP_881363.1 33593719 2666339 complement(2935683..2936888) 1 NC_002929.2 catalyzes the thiolytic cleavage of beta-ketoadipyl-CoA to succinate and acetyl-CoA; beta-ketoadipyl CoA thiolase 2936888 2666339 BP2759 Bordetella pertussis Tohama I beta-ketoadipyl CoA thiolase NP_881363.1 2935683 R 257313 CDS NP_881364.1 33593720 2666340 complement(2937004..2938320) 1 NC_002929.2 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 2938320 2666340 BP2760 Bordetella pertussis Tohama I chloride-channel protein NP_881364.1 2937004 R 257313 CDS NP_881365.1 33593721 2666341 complement(2938518..2939096) 1 NC_002929.2 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 2939096 sodB 2666341 sodB Bordetella pertussis Tohama I superoxide dismutase NP_881365.1 2938518 R 257313 CDS NP_881366.1 33593722 2666342 complement(2939169..2940560) 1 NC_002929.2 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides; exodeoxyribonuclease VII large subunit 2940560 xseA 2666342 xseA Bordetella pertussis Tohama I exodeoxyribonuclease VII large subunit NP_881366.1 2939169 R 257313 CDS NP_881367.1 33593723 2666343 complement(2940728..2941678) 1 NC_002929.2 transposase for IS481 element; transposase 2941678 2666343 BP2763 Bordetella pertussis Tohama I transposase NP_881367.1 2940728 R 257313 CDS NP_881368.1 33593724 2666350 2941959..2942579 1 NC_002929.2 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 2942579 2666350 BP2764 Bordetella pertussis Tohama I biopolymer transport protein NP_881368.1 2941959 D 257313 CDS NP_881369.1 33593725 2666351 2942576..2942989 1 NC_002929.2 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 2942989 2666351 BP2765 Bordetella pertussis Tohama I biopolymer transport protein NP_881369.1 2942576 D 257313 CDS NP_881370.1 33593726 2666352 2942986..2944029 1 NC_002929.2 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 2944029 lpxK 2666352 lpxK Bordetella pertussis Tohama I tetraacyldisaccharide 4'-kinase NP_881370.1 2942986 D 257313 CDS NP_881371.1 33593727 2666344 2944085..2944273 1 NC_002929.2 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 2944273 2666344 BP2767 Bordetella pertussis Tohama I hypothetical protein NP_881371.1 2944085 D 257313 CDS NP_881372.1 33593728 2666345 2944283..2945047 1 NC_002929.2 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 2945047 2666345 BP2768 Bordetella pertussis Tohama I 3-deoxy-manno-octulosonate cytidylyltransferase NP_881372.1 2944283 D 257313 CDS NP_881373.1 33593729 2666346 2945138..2945794 1 NC_002929.2 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP; adenylate kinase 2945794 adk 2666346 adk Bordetella pertussis Tohama I adenylate kinase NP_881373.1 2945138 D 257313 CDS NP_881374.1 33593730 2666347 2945886..2946644 1 NC_002929.2 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 2946644 2666347 BP2770 Bordetella pertussis Tohama I short-chain dehydrogenase NP_881374.1 2945886 D 257313 CDS NP_881375.1 33593731 2666242 2946670..2948271 1 NC_002929.2 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 2948271 2666242 BP2771 Bordetella pertussis Tohama I hypothetical protein NP_881375.1 2946670 D 257313 CDS NP_881376.1 33593732 2666243 2948472..2949476 1 NC_002929.2 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 2949476 2666243 BP2772 Bordetella pertussis Tohama I hypothetical protein NP_881376.1 2948472 D 257313 CDS NP_881377.1 33593733 2666866 2949577..2949840 1 NC_002929.2 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase; 30S ribosomal protein S20 2949840 rpsT 2666866 rpsT Bordetella pertussis Tohama I 30S ribosomal protein S20 NP_881377.1 2949577 D 257313 CDS NP_881378.1 33593734 2666867 complement(2949958..2950734) 1 NC_002929.2 cleaves 5-dehydro-4-deoxy-glucarate and 2-dehydro-3-deoxy-D-glucarate; alpha-dehydro-beta-deoxy-D-glucarate aldolase 2950734 2666867 BP2774 Bordetella pertussis Tohama I alpha-dehydro-beta-deoxy-D-glucarate aldolase NP_881378.1 2949958 R 257313 CDS NP_881379.1 33593735 2666869 2951325..2952275 1 NC_002929.2 transposase for IS481 element; transposase 2952275 2666869 BP2776 Bordetella pertussis Tohama I transposase NP_881379.1 2951325 D 257313 CDS NP_881380.1 33593736 2666852 complement(2954659..2955771) 1 NC_002929.2 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 2955771 2666852 BP2780 Bordetella pertussis Tohama I malate dehydrogenase NP_881380.1 2954659 R 257313 CDS NP_881381.1 33593737 2666870 complement(2955828..2956778) 1 NC_002929.2 transposase for IS481 element; transposase 2956778 2666870 BP2781 Bordetella pertussis Tohama I transposase NP_881381.1 2955828 R 257313 CDS NP_881382.1 33593738 2666871 complement(2956987..2957208) 1 NC_002929.2 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 2957208 2666871 BP2782 Bordetella pertussis Tohama I lipoprotein NP_881382.1 2956987 R 257313 CDS NP_881383.1 33593739 2666872 complement(2957422..2958828) 1 NC_002929.2 catalyzes the formation of L-threonine from O-phospho-L-homoserine; threonine synthase 2958828 thrC 2666872 thrC Bordetella pertussis Tohama I threonine synthase NP_881383.1 2957422 R 257313 CDS NP_881384.1 33593740 2666873 complement(2958825..2960129) 1 NC_002929.2 catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine; homoserine dehydrogenase 2960129 2666873 BP2784 Bordetella pertussis Tohama I homoserine dehydrogenase NP_881384.1 2958825 R 257313 CDS NP_881385.1 33593741 2666874 complement(2960126..2961313) 1 NC_002929.2 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 2961313 2666874 BP2785 Bordetella pertussis Tohama I aminotransferase NP_881385.1 2960126 R 257313 CDS NP_881386.1 33593742 2666195 2961530..2961982 1 NC_002929.2 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 2961982 2666195 BP2786 Bordetella pertussis Tohama I hypothetical protein NP_881386.1 2961530 D 257313 CDS NP_881387.1 33593743 2666196 2961985..2962449 1 NC_002929.2 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 2962449 2666196 BP2787 Bordetella pertussis Tohama I hypothetical protein NP_881387.1 2961985 D 257313 CDS NP_881388.1 33593744 2666197 2962520..2964208 1 NC_002929.2 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 2964208 2666197 BP2788 Bordetella pertussis Tohama I hypothetical protein NP_881388.1 2962520 D 257313 CDS NP_881389.1 33593745 2666198 2964313..2965290 1 NC_002929.2 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 2965290 2666198 BP2789 Bordetella pertussis Tohama I hypothetical protein NP_881389.1 2964313 D 257313 CDS NP_881390.1 33593746 2666199 2965370..2966338 1 NC_002929.2 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 2966338 2666199 BP2790 Bordetella pertussis Tohama I hypothetical protein NP_881390.1 2965370 D 257313 CDS NP_881391.1 33593747 2666200 complement(2966359..2967732) 1 NC_002929.2 unwinds double stranded DNA; replicative DNA helicase 2967732 dnaB 2666200 dnaB Bordetella pertussis Tohama I replicative DNA helicase NP_881391.1 2966359 R 257313 CDS NP_881392.1 33593748 2666201 complement(2967729..2968565) 1 NC_002929.2 no significant database hits; hypothetical protein 2968565 2666201 BP2792 Bordetella pertussis Tohama I hypothetical protein NP_881392.1 2967729 R 257313 CDS NP_881393.1 33593749 2666190 complement(2968682..2969137) 1 NC_002929.2 in Escherichia coli this protein is wrapped around the base of the L1 stalk; 50S ribosomal protein L9 2969137 rplI 2666190 rplI Bordetella pertussis Tohama I 50S ribosomal protein L9 NP_881393.1 2968682 R 257313 CDS NP_881394.1 33593750 2666191 complement(2969153..2969425) 1 NC_002929.2 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 2969425 rpsR 2666191 rpsR Bordetella pertussis Tohama I 30S ribosomal protein S18 NP_881394.1 2969153 R 257313 CDS NP_881395.1 33593751 2666192 complement(2969518..2969841) 1 NC_002929.2 binds single-stranded DNA at the primosome assembly site; primosomal replication protein N 2969841 priB 2666192 priB Bordetella pertussis Tohama I primosomal replication protein N NP_881395.1 2969518 R 257313 CDS NP_881396.1 33593752 2666193 complement(2969889..2970269) 1 NC_002929.2 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21; 30S ribosomal protein S6 2970269 rpsF 2666193 rpsF Bordetella pertussis Tohama I 30S ribosomal protein S6 NP_881396.1 2969889 R 257313 CDS NP_881397.1 33593753 2666919 complement(2970489..2971286) 1 NC_002929.2 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 2971286 2666919 BP2797 Bordetella pertussis Tohama I GTP cyclohydrolase NP_881397.1 2970489 R 257313 CDS NP_881398.1 33593754 2666920 complement(2971443..2973305) 1 NC_002929.2 catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate; 1-deoxy-D-xylulose-5-phosphate synthase 2973305 dxs 2666920 dxs Bordetella pertussis Tohama I 1-deoxy-D-xylulose-5-phosphate synthase NP_881398.1 2971443 R 257313 CDS NP_881399.1 33593755 2666921 complement(2973355..2974266) 1 NC_002929.2 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 2974266 2666921 BP2799 Bordetella pertussis Tohama I geranyltranstransferase NP_881399.1 2973355 R 257313 CDS NP_881400.1 33593756 2666922 complement(2974271..2974537) 1 NC_002929.2 catalyzes the bidirectional exonucleolytic cleavage of DNA; exodeoxyribonuclease VII small subunit 2974537 xseB 2666922 xseB Bordetella pertussis Tohama I exodeoxyribonuclease VII small subunit NP_881400.1 2974271 R 257313 CDS NP_881401.1 33593757 2666923 complement(2974624..2975493) 1 NC_002929.2 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 2975493 2666923 BP2801 Bordetella pertussis Tohama I transcriptional regulator NP_881401.1 2974624 R 257313 CDS NP_881402.1 33593758 2666924 2975629..2976594 1 NC_002929.2 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 2976594 2666924 BP2802 Bordetella pertussis Tohama I hypothetical protein NP_881402.1 2975629 D 257313 CDS NP_881403.1 33593759 2666925 2976765..2977775 1 NC_002929.2 no significant database hits; hypothetical protein 2977775 2666925 BP2803 Bordetella pertussis Tohama I hypothetical protein NP_881403.1 2976765 D 257313 CDS NP_881404.1 33593760 2666926 2977923..2979074 1 NC_002929.2 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 2979074 2666926 BP2804 Bordetella pertussis Tohama I iron-sulfur protein NP_881404.1 2977923 D 257313 CDS NP_881405.1 33593761 2666928 complement(2980217..2981689) 1 NC_002929.2 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 2981689 2666928 BP2806 Bordetella pertussis Tohama I cation transport protein NP_881405.1 2980217 R 257313 CDS NP_881406.1 33593762 2666929 complement(2981700..2982110) 1 NC_002929.2 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 2982110 2666929 BP2807 Bordetella pertussis Tohama I thioesterase NP_881406.1 2981700 R 257313 CDS NP_881407.1 33593763 2666930 complement(2982174..2983220) 1 NC_002929.2 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 2983220 2666930 BP2808 Bordetella pertussis Tohama I hypothetical protein NP_881407.1 2982174 R 257313 CDS NP_881408.1 33593764 2666931 2983327..2984205 1 NC_002929.2 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 2984205 2666931 BP2809 Bordetella pertussis Tohama I transcriptional regulator NP_881408.1 2983327 D 257313 CDS NP_881409.1 33593765 2665599 complement(2984219..2985415) 1 NC_002929.2 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 2985415 2665599 BP2810 Bordetella pertussis Tohama I hydrolase NP_881409.1 2984219 R 257313 CDS NP_881410.1 33593766 2665600 2985477..2987168 1 NC_002929.2 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 2987168 fadD 2665600 fadD Bordetella pertussis Tohama I long-chain-fatty-acid--CoA ligase NP_881410.1 2985477 D 257313 CDS NP_881411.1 33593767 2665601 complement(2987165..2988115) 1 NC_002929.2 transposase for IS481 element; transposase 2988115 2665601 BP2812 Bordetella pertussis Tohama I transposase NP_881411.1 2987165 R 257313 CDS NP_881412.1 33593768 2665602 complement(2988236..2989231) 1 NC_002929.2 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 2989231 2665602 BP2813 Bordetella pertussis Tohama I inositol monophosphatase NP_881412.1 2988236 R 257313 CDS NP_881413.1 33593769 2665604 2991410..2993635 1 NC_002929.2 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 2993635 2665604 BP2815 Bordetella pertussis Tohama I hypothetical protein NP_881413.1 2991410 D 257313 CDS NP_881414.1 33593770 2665605 2993800..2994888 1 NC_002929.2 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 2994888 2665605 BP2816 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881414.1 2993800 D 257313 CDS NP_881415.1 33593771 2665606 2994899..2995498 1 NC_002929.2 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 2995498 2665606 BP2817 Bordetella pertussis Tohama I ABC transporter permease NP_881415.1 2994899 D 257313 CDS NP_881416.1 33593772 2665607 2995546..2996343 1 NC_002929.2 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 2996343 2665607 BP2818 Bordetella pertussis Tohama I hypothetical protein NP_881416.1 2995546 D 257313 CDS NP_881417.1 33593773 2665608 2996875..2997825 1 NC_002929.2 transposase for IS481 element; transposase 2997825 2665608 BP2819 Bordetella pertussis Tohama I transposase NP_881417.1 2996875 D 257313 CDS NP_881418.1 33593774 2665609 2997900..2999054 1 NC_002929.2 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 2999054 2665609 BP2820 Bordetella pertussis Tohama I alcohol dehydrogenase NP_881418.1 2997900 D 257313 CDS NP_881419.1 33593775 2665610 complement(2999111..3000061) 1 NC_002929.2 transposase for IS481 element; transposase 3000061 2665610 BP2821 Bordetella pertussis Tohama I transposase NP_881419.1 2999111 R 257313 CDS NP_881420.1 33593776 2667096 complement(3000494..3000880) 1 NC_002929.2 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 3000880 2667096 BP2823 Bordetella pertussis Tohama I hypothetical protein NP_881420.1 3000494 R 257313 CDS NP_881421.1 33593777 2667097 complement(3000930..3002174) 1 NC_002929.2 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 3002174 2667097 BP2824 Bordetella pertussis Tohama I hypothetical protein NP_881421.1 3000930 R 257313 CDS NP_881422.1 33593778 2667098 complement(3002171..3002881) 1 NC_002929.2 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 3002881 2667098 BP2825 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881422.1 3002171 R 257313 CDS NP_881423.1 33593779 2667099 complement(3002896..3003879) 1 NC_002929.2 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 3003879 2667099 BP2826 Bordetella pertussis Tohama I hypothetical protein NP_881423.1 3002896 R 257313 CDS NP_881424.1 33593780 2667100 3004170..3004574 1 NC_002929.2 no significant database hits; hypothetical protein 3004574 2667100 BP2827 Bordetella pertussis Tohama I hypothetical protein NP_881424.1 3004170 D 257313 CDS NP_881425.1 33593781 2667102 3005941..3006807 1 NC_002929.2 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 3006807 2667102 BP2830 Bordetella pertussis Tohama I ABC transporter permease NP_881425.1 3005941 D 257313 CDS NP_881426.1 33593782 2667103 3006830..3007621 1 NC_002929.2 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 3007621 2667103 BP2831 Bordetella pertussis Tohama I ABC transporter permease NP_881426.1 3006830 D 257313 CDS NP_881427.1 33593783 2667104 3007632..3008759 1 NC_002929.2 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 3008759 2667104 BP2832 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881427.1 3007632 D 257313 CDS NP_881428.1 33593784 2667107 3011117..3012379 1 NC_002929.2 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 3012379 2667107 BP2835 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881428.1 3011117 D 257313 CDS NP_881429.1 33593785 2667108 3012386..3013138 1 NC_002929.2 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 3013138 2667108 BP2836 Bordetella pertussis Tohama I DNA-binding protein NP_881429.1 3012386 D 257313 CDS NP_881430.1 33593786 2665611 3013651..3014115 1 NC_002929.2 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 3014115 2665611 BP2837 Bordetella pertussis Tohama I MerR family transcriptional regulator NP_881430.1 3013651 D 257313 CDS NP_881431.1 33593787 2665612 3014147..3014806 1 NC_002929.2 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 3014806 2665612 BP2838 Bordetella pertussis Tohama I hydrolase NP_881431.1 3014147 D 257313 CDS NP_881432.1 33593788 2665613 3014951..3017059 1 NC_002929.2 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 3017059 2665613 BP2839 Bordetella pertussis Tohama I hypothetical protein NP_881432.1 3014951 D 257313 CDS NP_881433.1 33593789 2665614 complement(3017061..3017681) 1 NC_002929.2 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 3017681 2665614 BP2840 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_881433.1 3017061 R 257313 CDS NP_881434.1 33593790 2665615 3017773..3018525 1 NC_002929.2 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 3018525 2665615 BP2841 Bordetella pertussis Tohama I short-chain dehydrogenase NP_881434.1 3017773 D 257313 CDS NP_881435.1 33593791 2666973 complement(3021440..3022390) 1 NC_002929.2 transposase for IS481 element; transposase 3022390 2666973 BP2845 Bordetella pertussis Tohama I transposase NP_881435.1 3021440 R 257313 CDS NP_881436.1 33593792 2666975 3024354..3025304 1 NC_002929.2 transposase for IS481 element; transposase 3025304 2666975 BP2848 Bordetella pertussis Tohama I transposase NP_881436.1 3024354 D 257313 CDS NP_881437.1 33593793 2666069 complement(3025301..3026209) 1 NC_002929.2 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 3026209 2666069 BP2849 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881437.1 3025301 R 257313 CDS NP_881438.1 33593794 2666070 3026336..3027172 1 NC_002929.2 catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate; 3-methyl-2-oxobutanoate hydroxymethyltransferase 3027172 panB 2666070 panB Bordetella pertussis Tohama I 3-methyl-2-oxobutanoate hydroxymethyltransferase NP_881438.1 3026336 D 257313 CDS NP_881439.1 33593795 2666071 3027685..3028794 1 NC_002929.2 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 3028794 2666071 BP2851 Bordetella pertussis Tohama I outer membrane porin protein NP_881439.1 3027685 D 257313 CDS NP_881440.1 33593796 2666072 complement(3028856..3029806) 1 NC_002929.2 transposase for IS481 element; transposase 3029806 2666072 BP2852 Bordetella pertussis Tohama I transposase NP_881440.1 3028856 R 257313 CDS NP_881441.1 33593797 2666073 complement(3029999..3030781) 1 NC_002929.2 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 3030781 2666073 BP2853 Bordetella pertussis Tohama I short chain dehydrogenase NP_881441.1 3029999 R 257313 CDS NP_881442.1 33593798 2666074 complement(3030795..3031544) 1 NC_002929.2 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 3031544 2666074 BP2854 Bordetella pertussis Tohama I short chain dehydrogenase NP_881442.1 3030795 R 257313 CDS NP_881443.1 33593799 2666075 complement(3031572..3032918) 1 NC_002929.2 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 3032918 2666075 BP2855 Bordetella pertussis Tohama I membrane transport protein NP_881443.1 3031572 R 257313 CDS NP_881444.1 33593800 2666076 complement(3032944..3033873) 1 NC_002929.2 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 3033873 2666076 BP2856 Bordetella pertussis Tohama I hypothetical protein NP_881444.1 3032944 R 257313 CDS NP_881445.1 33593801 2666077 3033989..3034894 1 NC_002929.2 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 3034894 2666077 BP2857 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881445.1 3033989 D 257313 CDS NP_881446.1 33593802 2666078 complement(3034912..3036111) 1 NC_002929.2 catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase 3036111 tyrB 2666078 tyrB Bordetella pertussis Tohama I aromatic amino acid aminotransferase NP_881446.1 3034912 R 257313 CDS NP_881447.1 33593803 2666079 complement(3036184..3036876) 1 NC_002929.2 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 3036876 2666079 BP2859 Bordetella pertussis Tohama I hypothetical protein NP_881447.1 3036184 R 257313 CDS NP_881448.1 33593804 2666801 complement(3036925..3039351) 1 NC_002929.2 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 3039351 2666801 BP2860 Bordetella pertussis Tohama I cation-transporting ATPase NP_881448.1 3036925 R 257313 CDS NP_881449.1 33593805 2666809 complement(3039396..3040346) 1 NC_002929.2 transposase for IS481 element; transposase 3040346 2666809 BP2861 Bordetella pertussis Tohama I transposase NP_881449.1 3039396 R 257313 CDS NP_881450.1 33593806 2666810 complement(3040563..3040931) 1 NC_002929.2 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 3040931 2666810 BP2862 Bordetella pertussis Tohama I hypothetical protein NP_881450.1 3040563 R 257313 CDS NP_881451.1 33593807 2666811 3041253..3042143 1 NC_002929.2 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 3042143 2666811 BP2863 Bordetella pertussis Tohama I hypothetical protein NP_881451.1 3041253 D 257313 CDS NP_881452.1 33593808 2666812 3042187..3043197 1 NC_002929.2 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 3043197 2666812 BP2864 Bordetella pertussis Tohama I alcohol dehydrogenase NP_881452.1 3042187 D 257313 CDS NP_881453.1 33593809 2666813 3043194..3043628 1 NC_002929.2 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 3043628 2666813 BP2865 Bordetella pertussis Tohama I hypothetical protein NP_881453.1 3043194 D 257313 CDS NP_881454.1 33593810 2666815 3044754..3045542 1 NC_002929.2 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 3045542 2666815 BP2867 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881454.1 3044754 D 257313 CDS NP_881455.1 33593811 2666816 3045552..3046334 1 NC_002929.2 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 3046334 2666816 BP2868 Bordetella pertussis Tohama I ABC transporter inner membrane protein NP_881455.1 3045552 D 257313 CDS NP_881456.1 33593812 2666817 complement(3046338..3047429) 1 NC_002929.2 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 3047429 2666817 BP2869 Bordetella pertussis Tohama I hypothetical protein NP_881456.1 3046338 R 257313 CDS NP_881457.1 33593813 2666281 3047535..3049010 1 NC_002929.2 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 3049010 2666281 BP2870 Bordetella pertussis Tohama I acid CoA ligase NP_881457.1 3047535 D 257313 CDS NP_881458.1 33593814 2666282 3049152..3049700 1 NC_002929.2 no significant database hits. Similar to BP3011, 45.562% identity (47.531% ungapped) in 169 aa overlap.; hypothetical protein 3049700 2666282 BP2871 Bordetella pertussis Tohama I hypothetical protein NP_881458.1 3049152 D 257313 CDS NP_881459.1 33593815 2666283 complement(3049716..3050177) 1 NC_002929.2 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 3050177 2666283 BP2872 Bordetella pertussis Tohama I AsnC family transcriptional regulator NP_881459.1 3049716 R 257313 CDS NP_881460.1 33593816 2666284 complement(3050278..3051267) 1 NC_002929.2 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 3051267 2666284 BP2873 Bordetella pertussis Tohama I hypothetical protein NP_881460.1 3050278 R 257313 CDS NP_881461.1 33593817 2666285 3051566..3052267 1 NC_002929.2 catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine; riboflavin synthase subunit alpha 3052267 ribE 2666285 ribE Bordetella pertussis Tohama I riboflavin synthase subunit alpha NP_881461.1 3051566 D 257313 CDS NP_881462.1 33593818 2666286 complement(3052306..3053679) 1 NC_002929.2 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 3053679 2666286 BP2875 Bordetella pertussis Tohama I amidase NP_881462.1 3052306 R 257313 CDS NP_881463.1 33593819 2666274 3055891..3056793 1 NC_002929.2 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 3056793 2666274 BP2878 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881463.1 3055891 D 257313 CDS NP_881464.1 33593820 2666275 complement(3056741..3057961) 1 NC_002929.2 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 3057961 2666275 BP2879 Bordetella pertussis Tohama I membrane transport protein NP_881464.1 3056741 R 257313 CDS NP_881465.1 33593821 2666276 complement(3057958..3058467) 1 NC_002929.2 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 3058467 2666276 BP2880 Bordetella pertussis Tohama I hypothetical protein NP_881465.1 3057958 R 257313 CDS NP_881466.1 33593822 2666277 complement(3058457..3059134) 1 NC_002929.2 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 3059134 2666277 BP2881 Bordetella pertussis Tohama I hypothetical protein NP_881466.1 3058457 R 257313 CDS NP_881467.1 33593823 2666278 3059223..3060092 1 NC_002929.2 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 3060092 2666278 BP2882 Bordetella pertussis Tohama I lysR family transcriptional regulator NP_881467.1 3059223 D 257313 CDS NP_881468.1 33593824 2666280 3060442..3061392 1 NC_002929.2 transposase for IS481 element; transposase 3061392 2666280 BP2884 Bordetella pertussis Tohama I transposase NP_881468.1 3060442 D 257313 CDS NP_881469.1 33593825 2667552 complement(3061389..3062465) 1 NC_002929.2 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 3062465 2667552 BP2885 Bordetella pertussis Tohama I hypothetical protein NP_881469.1 3061389 R 257313 CDS NP_881470.1 33593826 2667553 complement(3062510..3063262) 1 NC_002929.2 lipoprotein 3063262 2667553 BP2886 Bordetella pertussis Tohama I lipoprotein NP_881470.1 3062510 R 257313 CDS NP_881471.1 33593827 2667554 3063777..3064106 1 NC_002929.2 no significant database hits; hypothetical protein 3064106 2667554 BP2887 Bordetella pertussis Tohama I hypothetical protein NP_881471.1 3063777 D 257313 CDS NP_881472.1 33593828 2667555 3064168..3064863 1 NC_002929.2 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 3064863 2667555 BP2888 Bordetella pertussis Tohama I hypothetical protein NP_881472.1 3064168 D 257313 CDS NP_881473.1 33593829 2667556 complement(3064948..3065406) 1 NC_002929.2 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 3065406 2667556 BP2889 Bordetella pertussis Tohama I c'cytochrome NP_881473.1 3064948 R 257313 CDS NP_881474.1 33593830 2667557 complement(3065469..3066845) 1 NC_002929.2 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide; adenylosuccinate lyase 3066845 purB 2667557 purB Bordetella pertussis Tohama I adenylosuccinate lyase NP_881474.1 3065469 R 257313 CDS NP_881475.1 33593831 2665844 3067005..3067616 1 NC_002929.2 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 3067616 2665844 BP2891 Bordetella pertussis Tohama I hypothetical protein NP_881475.1 3067005 D 257313 CDS NP_881476.1 33593832 2665845 complement(3067714..3068532) 1 NC_002929.2 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 3068532 2665845 BP2892 Bordetella pertussis Tohama I hypothetical protein NP_881476.1 3067714 R 257313 CDS NP_881477.1 33593833 2665846 complement(3068633..3069748) 1 NC_002929.2 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs; tRNA-specific 2-thiouridylase MnmA 3069748 mnmA 2665846 mnmA Bordetella pertussis Tohama I tRNA-specific 2-thiouridylase MnmA NP_881477.1 3068633 R 257313 CDS NP_881478.1 33593834 2665847 complement(3069761..3070681) 1 NC_002929.2 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 3070681 2665847 BP2894 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881478.1 3069761 R 257313 CDS NP_881479.1 33593835 2665848 3070852..3071838 1 NC_002929.2 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 3071838 2665848 BP2895 Bordetella pertussis Tohama I hypothetical protein NP_881479.1 3070852 D 257313 CDS NP_881480.1 33593836 2665851 3071899..3072774 1 NC_002929.2 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 3072774 2665851 BP2896 Bordetella pertussis Tohama I hydrolase NP_881480.1 3071899 D 257313 CDS NP_881481.1 33593837 2665852 3073029..3074147 1 NC_002929.2 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 3074147 pntaA 2665852 pntaA Bordetella pertussis Tohama I NAD(P) transhydrogenase subunit alpha part 1 NP_881481.1 3073029 D 257313 CDS NP_881482.1 33593838 2666160 complement(3075942..3076973) 1 NC_002929.2 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 3076973 2666160 BP2900 Bordetella pertussis Tohama I transcriptional regulator NP_881482.1 3075942 R 257313 CDS NP_881483.1 33593839 2666161 3077128..3079341 1 NC_002929.2 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 3079341 bfeA 2666161 bfeA Bordetella pertussis Tohama I outer membrane receptor FepA NP_881483.1 3077128 D 257313 CDS NP_881484.1 33593840 2666162 3079344..3080255 1 NC_002929.2 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 3080255 2666162 BP2902 Bordetella pertussis Tohama I hypothetical protein NP_881484.1 3079344 D 257313 CDS NP_881485.1 33593841 2666163 complement(3080246..3081475) 1 NC_002929.2 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 3081475 glcF 2666163 glcF Bordetella pertussis Tohama I glycolate oxidase iron-sulfur subunit NP_881485.1 3080246 R 257313 CDS NP_881486.1 33593842 2666164 complement(3081508..3082617) 1 NC_002929.2 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 3082617 glcE 2666164 glcE Bordetella pertussis Tohama I glycolate oxidase FAD binding subunit NP_881486.1 3081508 R 257313 CDS NP_881487.1 33593843 2666165 complement(3082629..3084128) 1 NC_002929.2 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 3084128 glcD 2666165 glcD Bordetella pertussis Tohama I glycolate oxidase subunit NP_881487.1 3082629 R 257313 CDS NP_881488.1 33593844 2666166 complement(3084263..3085672) 1 NC_002929.2 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 3085672 2666166 BP2906 Bordetella pertussis Tohama I oxidoreductase NP_881488.1 3084263 R 257313 CDS NP_881489.1 33593845 2666167 3085865..3098455 1 NC_002929.2 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 3098455 fhaL 2666167 fhaL Bordetella pertussis Tohama I adhesin NP_881489.1 3085865 D 257313 CDS NP_881490.1 33593846 2666168 complement(3098477..3099550) 1 NC_002929.2 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 3099550 aroG 2666168 aroG Bordetella pertussis Tohama I phospho-2-dehydro-3-deoxyheptonate aldolase NP_881490.1 3098477 R 257313 CDS NP_881491.1 33593847 2666169 complement(3099807..3101267) 1 NC_002929.2 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 3101267 2666169 BP2909 Bordetella pertussis Tohama I hypothetical protein NP_881491.1 3099807 R 257313 CDS NP_881492.1 33593848 2666170 complement(3101278..3102108) 1 NC_002929.2 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 3102108 2666170 BP2910 Bordetella pertussis Tohama I hydrolase NP_881492.1 3101278 R 257313 CDS NP_881493.1 33593849 2666171 3102233..3102604 1 NC_002929.2 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) 3102604 bph3 2666171 bph3 Bordetella pertussis Tohama I DNA-binding protein (histone) NP_881493.1 3102233 D 257313 CDS NP_881494.1 33593850 2666172 complement(3102703..3103653) 1 NC_002929.2 transposase for IS481 element; transposase 3103653 2666172 BP2912 Bordetella pertussis Tohama I transposase NP_881494.1 3102703 R 257313 CDS NP_881495.1 33593851 2666173 complement(3103752..3104555) 1 NC_002929.2 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 3104555 2666173 BP2913 Bordetella pertussis Tohama I hypothetical protein NP_881495.1 3103752 R 257313 CDS NP_881496.1 33593852 2666174 complement(3104552..3105079) 1 NC_002929.2 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 3105079 2666174 BP2914 Bordetella pertussis Tohama I RNA polymerase sigma factor NP_881496.1 3104552 R 257313 CDS NP_881497.1 33593853 2666175 complement(3105130..3105498) 1 NC_002929.2 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 3105498 2666175 BP2915 Bordetella pertussis Tohama I hypothetical protein NP_881497.1 3105130 R 257313 CDS NP_881498.1 33593854 2666176 complement(3105699..3106181) 1 NC_002929.2 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 3106181 2666176 BP2916 Bordetella pertussis Tohama I nucleotide-binding protein NP_881498.1 3105699 R 257313 CDS NP_881499.1 33593855 2666177 3106312..3106764 1 NC_002929.2 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 3106764 2666177 BP2917 Bordetella pertussis Tohama I hypothetical protein NP_881499.1 3106312 D 257313 CDS NP_881500.1 33593856 2666178 complement(3106772..3107185) 1 NC_002929.2 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 3107185 2666178 BP2918 Bordetella pertussis Tohama I hypothetical protein NP_881500.1 3106772 R 257313 CDS NP_881501.1 33593857 2667038 complement(3107307..3108050) 1 NC_002929.2 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 3108050 2667038 BP2919 Bordetella pertussis Tohama I lipoprotein NP_881501.1 3107307 R 257313 CDS NP_881502.1 33593858 2667039 3108196..3109425 1 NC_002929.2 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 3109425 2667039 BP2920 Bordetella pertussis Tohama I chromate transport protein NP_881502.1 3108196 D 257313 CDS NP_881503.1 33593859 2667040 complement(3109428..3110897) 1 NC_002929.2 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 3110897 2667040 BP2921 Bordetella pertussis Tohama I hypothetical protein NP_881503.1 3109428 R 257313 CDS NP_881504.1 33593860 2667041 complement(3110909..3113107) 1 NC_002929.2 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 3113107 bfrG 2667041 bfrG Bordetella pertussis Tohama I TonB-dependent receptor NP_881504.1 3110909 R 257313 CDS NP_881505.1 33593861 2667042 complement(3113270..3113707) 1 NC_002929.2 no significant database hits; lipoprotein 3113707 2667042 BP2923 Bordetella pertussis Tohama I lipoprotein NP_881505.1 3113270 R 257313 CDS NP_881506.1 33593862 2667043 3114009..3114305 1 NC_002929.2 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 3114305 2667043 BP2924 Bordetella pertussis Tohama I hypothetical protein NP_881506.1 3114009 D 257313 CDS NP_881507.1 33593863 2667044 3114302..3115186 1 NC_002929.2 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 3115186 2667044 BP2925 Bordetella pertussis Tohama I hypothetical protein NP_881507.1 3114302 D 257313 CDS NP_881508.1 33593864 2667045 3115201..3115956 1 NC_002929.2 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 3115956 2667045 BP2926 Bordetella pertussis Tohama I hypothetical protein NP_881508.1 3115201 D 257313 CDS NP_881509.1 33593865 2667046 3115960..3116457 1 NC_002929.2 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 3116457 2667046 BP2927 Bordetella pertussis Tohama I hypothetical protein NP_881509.1 3115960 D 257313 CDS NP_881510.1 33593866 2667047 complement(3116489..3117919) 1 NC_002929.2 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 3117919 2667047 BP2928 Bordetella pertussis Tohama I membrane transport protein NP_881510.1 3116489 R 257313 CDS NP_881511.1 33593867 2667048 3118058..3118405 1 NC_002929.2 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 3118405 2667048 BP2929 Bordetella pertussis Tohama I regulatory protein NP_881511.1 3118058 D 257313 CDS NP_881512.1 33593868 2667049 complement(3118526..3118873) 1 NC_002929.2 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 3118873 cyoD 2667049 cyoD Bordetella pertussis Tohama I cytochrome 0 ubiquinol oxidase NP_881512.1 3118526 R 257313 CDS NP_881513.1 33593869 2667050 complement(3118873..3119484) 1 NC_002929.2 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 3119484 cyoC 2667050 cyoC Bordetella pertussis Tohama I cytochrome O ubiquinol oxidase NP_881513.1 3118873 R 257313 CDS NP_881514.1 33593870 2667032 complement(3119488..3121467) 1 NC_002929.2 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 3121467 cyoB 2667032 cyoB Bordetella pertussis Tohama I ubiquinol oxidase subunit I NP_881514.1 3119488 R 257313 CDS NP_881515.1 33593871 2666186 complement(3121471..3122385) 1 NC_002929.2 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 3122385 cyoA 2666186 cyoA Bordetella pertussis Tohama I ubiquinol oxidase polypeptide II NP_881515.1 3121471 R 257313 CDS NP_881516.1 33593872 2666187 complement(3122594..3123148) 1 NC_002929.2 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 3123148 2666187 BP2934 Bordetella pertussis Tohama I two component system response regulator NP_881516.1 3122594 R 257313 CDS NP_881517.1 33593873 2665682 complement(3123145..3124356) 1 NC_002929.2 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 3124356 2665682 BP2935 Bordetella pertussis Tohama I two component system, histidine kinase NP_881517.1 3123145 R 257313 CDS NP_881518.1 33593874 2665683 complement(3124551..3125558) 1 NC_002929.2 no significant database hits; hypothetical protein 3125558 2665683 BP2936 Bordetella pertussis Tohama I hypothetical protein NP_881518.1 3124551 R 257313 CDS NP_881519.1 33593875 2665684 complement(3125697..3126563) 1 NC_002929.2 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 3126563 2665684 BP2937 Bordetella pertussis Tohama I hypothetical protein NP_881519.1 3125697 R 257313 CDS NP_881520.1 33593876 2665686 complement(3127322..3128128) 1 NC_002929.2 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 3128128 2665686 BP2939 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881520.1 3127322 R 257313 CDS NP_881521.1 33593877 2665687 3128182..3129540 1 NC_002929.2 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 3129540 2665687 BP2940 Bordetella pertussis Tohama I hypothetical protein NP_881521.1 3128182 D 257313 CDS NP_881522.1 33593878 2665688 complement(3129537..3130727) 1 NC_002929.2 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 3130727 2665688 BP2941 Bordetella pertussis Tohama I racemase NP_881522.1 3129537 R 257313 CDS NP_881523.1 33593879 2665876 3130785..3131696 1 NC_002929.2 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 3131696 2665876 BP2942 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881523.1 3130785 D 257313 CDS NP_881524.1 33593880 2665877 complement(3131720..3132709) 1 NC_002929.2 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 3132709 2665877 BP2943 Bordetella pertussis Tohama I hypothetical protein NP_881524.1 3131720 R 257313 CDS NP_881525.1 33593881 2665886 complement(3132734..3133201) 1 NC_002929.2 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 3133201 2665886 BP2944 Bordetella pertussis Tohama I hypothetical protein NP_881525.1 3132734 R 257313 CDS NP_881526.1 33593882 2665888 3133888..3134595 1 NC_002929.2 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 3134595 2665888 BP2946 Bordetella pertussis Tohama I ArsR family transcriptional regulator NP_881526.1 3133888 D 257313 CDS NP_881527.1 33593883 2665889 3134715..3135665 1 NC_002929.2 transposase for IS481 element; transposase 3135665 2665889 BP2947 Bordetella pertussis Tohama I transposase NP_881527.1 3134715 D 257313 CDS NP_881528.1 33593884 2667453 complement(3135811..3136971) 1 NC_002929.2 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 3136971 2667453 BP2948 Bordetella pertussis Tohama I riboflavin biosynthesis protein ribd [includes: diaminohydroxyphosphoribosylaminopyrimidine deaminase NP_881528.1 3135811 R 257313 CDS NP_881529.1 33593885 2667463 3137060..3137704 1 NC_002929.2 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 3137704 2667463 BP2949 Bordetella pertussis Tohama I hypothetical protein NP_881529.1 3137060 D 257313 CDS NP_881530.1 33593886 2667465 complement(3138699..3139181) 1 NC_002929.2 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 3139181 nrdR 2667465 nrdR Bordetella pertussis Tohama I transcriptional regulator NrdR NP_881530.1 3138699 R 257313 CDS NP_881531.1 33593887 2667466 complement(3139339..3140586) 1 NC_002929.2 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate; serine hydroxymethyltransferase 3140586 glyA 2667466 glyA Bordetella pertussis Tohama I serine hydroxymethyltransferase NP_881531.1 3139339 R 257313 CDS NP_881532.1 33593888 2667467 complement(3140807..3141463) 1 NC_002929.2 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 3141463 2667467 BP2953 Bordetella pertussis Tohama I hypothetical protein NP_881532.1 3140807 R 257313 CDS NP_881533.1 33593889 2667468 complement(3141499..3142728) 1 NC_002929.2 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr); tyrosyl-tRNA synthetase 3142728 tyrS 2667468 tyrS Bordetella pertussis Tohama I tyrosyl-tRNA synthetase NP_881533.1 3141499 R 257313 CDS NP_881534.1 33593890 2665693 3142996..3143946 1 NC_002929.2 transposase for IS481 element; transposase 3143946 2665693 BP2955 Bordetella pertussis Tohama I transposase NP_881534.1 3142996 D 257313 CDS NP_881535.1 33593891 2665694 3144038..3145453 1 NC_002929.2 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 3145453 2665694 BP2956 Bordetella pertussis Tohama I hypothetical protein NP_881535.1 3144038 D 257313 CDS NP_881536.1 33593892 2665695 3145459..3146595 1 NC_002929.2 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 3146595 anmK 2665695 anmK Bordetella pertussis Tohama I anhydro-N-acetylmuramic acid kinase NP_881536.1 3145459 D 257313 CDS NP_881537.1 33593893 2665696 complement(3146665..3147036) 1 NC_002929.2 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 3147036 2665696 BP2958 Bordetella pertussis Tohama I iron-sulfur cluster insertion protein ErpA NP_881537.1 3146665 R 257313 CDS NP_881538.1 33593894 2665697 complement(3147124..3147870) 1 NC_002929.2 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 3147870 2665697 BP2959 Bordetella pertussis Tohama I hypothetical protein NP_881538.1 3147124 R 257313 CDS NP_881539.1 33593895 2665698 complement(3147907..3148971) 1 NC_002929.2 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 3148971 argC 2665698 argC Bordetella pertussis Tohama I N-acetyl-gamma-glutamyl-phosphate reductase NP_881539.1 3147907 R 257313 CDS NP_881540.1 33593896 2665699 complement(3149160..3149552) 1 NC_002929.2 forms a direct contact with the tRNA during translation; 30S ribosomal protein S9 3149552 rpsI 2665699 rpsI Bordetella pertussis Tohama I 30S ribosomal protein S9 NP_881540.1 3149160 R 257313 CDS NP_881541.1 33593897 2667005 complement(3149562..3149990) 1 NC_002929.2 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit; 50S ribosomal protein L13 3149990 rplM 2667005 rplM Bordetella pertussis Tohama I 50S ribosomal protein L13 NP_881541.1 3149562 R 257313 CDS NP_881542.1 33593898 2667006 complement(3150286..3151383) 1 NC_002929.2 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 3151383 2667006 BP2963 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881542.1 3150286 R 257313 CDS NP_881543.1 33593899 2667007 complement(3151725..3153089) 1 NC_002929.2 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 3153089 2667007 BP2964 Bordetella pertussis Tohama I hypothetical protein NP_881543.1 3151725 R 257313 CDS NP_881544.1 33593900 2667008 3153082..3153699 1 NC_002929.2 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 3153699 2667008 BP2965 Bordetella pertussis Tohama I hypothetical protein NP_881544.1 3153082 D 257313 CDS NP_881545.1 33593901 2667009 3153713..3154387 1 NC_002929.2 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 3154387 2667009 BP2966 Bordetella pertussis Tohama I carboxylesterase NP_881545.1 3153713 D 257313 CDS NP_881546.1 33593902 2666991 3155644..3156453 1 NC_002929.2 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 3156453 2666991 BP2969 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881546.1 3155644 D 257313 CDS NP_881547.1 33593903 2667010 3156456..3157292 1 NC_002929.2 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 3157292 2667010 BP2970 Bordetella pertussis Tohama I ABC transporter inner membrane protein NP_881547.1 3156456 D 257313 CDS NP_881548.1 33593904 2667011 3157307..3157999 1 NC_002929.2 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 3157999 2667011 BP2971 Bordetella pertussis Tohama I hydrolase NP_881548.1 3157307 D 257313 CDS NP_881549.1 33593905 2667012 complement(3158011..3158400) 1 NC_002929.2 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 3158400 2667012 BP2972 Bordetella pertussis Tohama I hypothetical protein NP_881549.1 3158011 R 257313 CDS NP_881550.1 33593906 2667013 complement(3158506..3159894) 1 NC_002929.2 exhibits an RNA-dependent ATPase activity, specifically stimulated by bacterial 23S rRNA; ATP-dependent RNA helicase DbpA 3159894 dbpA 2667013 dbpA Bordetella pertussis Tohama I ATP-dependent RNA helicase DbpA NP_881550.1 3158506 R 257313 CDS NP_881551.1 33593907 2667014 complement(3160011..3161507) 1 NC_002929.2 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 3161507 2667014 BP2974 Bordetella pertussis Tohama I hypothetical protein NP_881551.1 3160011 R 257313 CDS NP_881552.1 33593908 2667015 3161804..3162478 1 NC_002929.2 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 3162478 2667015 BP2975 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881552.1 3161804 D 257313 CDS NP_881553.1 33593909 2667016 3162577..3163527 1 NC_002929.2 transposase for IS481 element; transposase 3163527 2667016 BP2976 Bordetella pertussis Tohama I transposase NP_881553.1 3162577 D 257313 CDS NP_881554.1 33593910 2666917 complement(3163524..3165983) 1 NC_002929.2 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 3165983 2666917 BP2977 Bordetella pertussis Tohama I hypothetical protein NP_881554.1 3163524 R 257313 CDS NP_881555.1 33593911 2666918 3166143..3167525 1 NC_002929.2 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation; glutamyl-tRNA synthetase 3167525 gltX 2666918 gltX Bordetella pertussis Tohama I glutamyl-tRNA synthetase NP_881555.1 3166143 D 257313 CDS NP_881556.1 33593912 2665855 complement(3167529..3168716) 1 NC_002929.2 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 3168716 2665855 BP2979 Bordetella pertussis Tohama I membrane transport protein NP_881556.1 3167529 R 257313 CDS NP_881557.1 33593913 2665856 complement(3168785..3169324) 1 NC_002929.2 no significant database hits; lipoprotein 3169324 2665856 BP2980 Bordetella pertussis Tohama I lipoprotein NP_881557.1 3168785 R 257313 CDS NP_881558.1 33593914 2665857 complement(3169496..3169948) 1 NC_002929.2 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 3169948 2665857 BP2981 Bordetella pertussis Tohama I AsnC family transcriptional regulator NP_881558.1 3169496 R 257313 CDS NP_881559.1 33593915 2665859 3173878..3176805 1 NC_002929.2 Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha 3176805 nrdA 2665859 nrdA Bordetella pertussis Tohama I ribonucleotide-diphosphate reductase subunit alpha NP_881559.1 3173878 D 257313 CDS NP_881560.1 33593916 2665860 3176827..3178023 1 NC_002929.2 Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit beta 3178023 nrdB 2665860 nrdB Bordetella pertussis Tohama I ribonucleotide-diphosphate reductase subunit beta NP_881560.1 3176827 D 257313 CDS NP_881561.1 33593917 2665849 3178341..3178868 1 NC_002929.2 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 3178868 bpH1 2665849 bpH1 Bordetella pertussis Tohama I histone protein NP_881561.1 3178341 D 257313 CDS NP_881562.1 33593918 2665850 3179007..3179582 1 NC_002929.2 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 3179582 2665850 BP2986 Bordetella pertussis Tohama I hypothetical protein NP_881562.1 3179007 D 257313 CDS NP_881563.1 33593919 2665707 complement(3179590..3181053) 1 NC_002929.2 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 3181053 dltA 2665707 dltA Bordetella pertussis Tohama I D-alanine--D-alanine ligase NP_881563.1 3179590 R 257313 CDS NP_881564.1 33593920 2665708 complement(3181064..3182191) 1 NC_002929.2 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 3182191 dltB 2665708 dltB Bordetella pertussis Tohama I protein involved in the transfer of D-alanine into teichoic acids NP_881564.1 3181064 R 257313 CDS NP_881565.1 33593921 2665709 complement(3182199..3182324) 1 NC_002929.2 hypothetical protein 3182324 2665709 BP2989 Bordetella pertussis Tohama I hypothetical protein NP_881565.1 3182199 R 257313 CDS NP_881566.1 33593922 2665700 complement(3182321..3183448) 1 NC_002929.2 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 3183448 dltD 2665700 dltD Bordetella pertussis Tohama I protein involved in the transfer of D-alanine into teichoic acids NP_881566.1 3182321 R 257313 CDS NP_881567.1 33593923 2665701 complement(3183474..3183713) 1 NC_002929.2 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 3183713 2665701 BP2991 Bordetella pertussis Tohama I acyl carrier protein NP_881567.1 3183474 R 257313 CDS NP_881568.1 33593924 2665702 complement(3183994..3184497) 1 NC_002929.2 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 3184497 pcp 2665702 pcp Bordetella pertussis Tohama I lipoprotein NP_881568.1 3183994 R 257313 CDS NP_881569.1 33593925 2665703 complement(3184670..3185611) 1 NC_002929.2 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 3185611 2665703 BP2993 Bordetella pertussis Tohama I carbohydrate kinase NP_881569.1 3184670 R 257313 CDS NP_881570.1 33593926 2665704 complement(3185623..3186720) 1 NC_002929.2 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 3186720 2665704 BP2994 Bordetella pertussis Tohama I hypothetical protein NP_881570.1 3185623 R 257313 CDS NP_881571.1 33593927 2665711 complement(3187686..3189032) 1 NC_002929.2 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 3189032 fabG 2665711 fabG Bordetella pertussis Tohama I acetyl-CoA carboxylase biotin carboxylase subunit NP_881571.1 3187686 R 257313 CDS NP_881572.1 33593928 2665890 complement(3189042..3189491) 1 NC_002929.2 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 3189491 fabE 2665890 fabE Bordetella pertussis Tohama I acetyl-CoA carboxylase biotin carboxyl carrier protein subunit NP_881572.1 3189042 R 257313 CDS NP_881573.1 33593929 2665891 complement(3189581..3190015) 1 NC_002929.2 catalyzes the formation of 3-dehydroshikimate from 3-dehydroquinate in chorismate biosynthesis; 3-dehydroquinate dehydratase 3190015 aroQ 2665891 aroQ Bordetella pertussis Tohama I 3-dehydroquinate dehydratase NP_881573.1 3189581 R 257313 CDS NP_881574.1 33593930 2665892 complement(3190094..3190663) 1 NC_002929.2 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 3190663 2665892 BP2999 Bordetella pertussis Tohama I thioredoxin NP_881574.1 3190094 R 257313 CDS NP_881575.1 33593931 2665893 3190725..3192095 1 NC_002929.2 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 3192095 mpl 2665893 mpl Bordetella pertussis Tohama I UDP-N-acetylmuramate--L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase NP_881575.1 3190725 D 257313 CDS NP_881576.1 33593932 2665894 3192106..3192699 1 NC_002929.2 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 3192699 2665894 BP3001 Bordetella pertussis Tohama I hypothetical protein NP_881576.1 3192106 D 257313 CDS NP_881577.1 33593933 2665895 3192771..3194654 1 NC_002929.2 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 3194654 2665895 BP3002 Bordetella pertussis Tohama I hypothetical protein NP_881577.1 3192771 D 257313 CDS NP_881578.1 33593934 2665896 3194692..3195591 1 NC_002929.2 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 3195591 2665896 BP3003 Bordetella pertussis Tohama I hypothetical protein NP_881578.1 3194692 D 257313 CDS NP_881579.1 33593935 2665897 3195588..3196451 1 NC_002929.2 AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate; shikimate 5-dehydrogenase 3196451 aroE 2665897 aroE Bordetella pertussis Tohama I shikimate 5-dehydrogenase NP_881579.1 3195588 D 257313 CDS NP_881580.1 33593936 2665898 3196550..3197500 1 NC_002929.2 transposase for IS481 element; transposase 3197500 2665898 BP3005 Bordetella pertussis Tohama I transposase NP_881580.1 3196550 D 257313 CDS NP_881581.1 33593937 2665899 3197509..3198057 1 NC_002929.2 catalyzes the transfer of palmitate to lipid A; palmitoyl transferase 3198057 pagP 2665899 pagP Bordetella pertussis Tohama I palmitoyl transferase NP_881581.1 3197509 D 257313 CDS NP_881582.1 33593938 2665900 complement(3198054..3198674) 1 NC_002929.2 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 3198674 2665900 BP3007 Bordetella pertussis Tohama I hypothetical protein NP_881582.1 3198054 R 257313 CDS NP_881583.1 33593939 2665901 complement(3198845..3199315) 1 NC_002929.2 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 3199315 grp 2665901 grp Bordetella pertussis Tohama I glutamate uptake regulatory protein NP_881583.1 3198845 R 257313 CDS NP_881584.1 33593940 2665902 complement(3199322..3200581) 1 NC_002929.2 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 3200581 2665902 BP3009 Bordetella pertussis Tohama I D-amino acid dehydrogenase small subunit NP_881584.1 3199322 R 257313 CDS NP_881585.1 33593941 2665903 complement(3200634..3201446) 1 NC_002929.2 Similar to Rhizobium meliloti oxidoreductase SMC01157 TR:CAC41799 (EMBL:AL591783) (259 aa) fasta scores: E(): 3e-26, 39.01% id in 264 aa; oxidoreductase 3201446 2665903 BP3010 Bordetella pertussis Tohama I oxidoreductase NP_881585.1 3200634 R 257313 CDS NP_881586.1 33593942 2665904 3201498..3202115 1 NC_002929.2 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 3202115 2665904 BP3011 Bordetella pertussis Tohama I hypothetical protein NP_881586.1 3201498 D 257313 CDS NP_881587.1 33593943 2665905 complement(3202125..3203174) 1 NC_002929.2 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 3203174 2665905 BP3012 Bordetella pertussis Tohama I hypothetical protein NP_881587.1 3202125 R 257313 CDS NP_881588.1 33593944 2665906 complement(3203294..3204013) 1 NC_002929.2 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 3204013 2665906 BP3013 Bordetella pertussis Tohama I hypothetical protein NP_881588.1 3203294 R 257313 CDS NP_881589.1 33593945 2665907 complement(3204030..3206765) 1 NC_002929.2 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 3206765 secA 2665907 secA Bordetella pertussis Tohama I preprotein translocase subunit SecA NP_881589.1 3204030 R 257313 CDS NP_881590.1 33593946 2665908 complement(3206945..3207874) 1 NC_002929.2 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 3207874 2665908 BP3015 Bordetella pertussis Tohama I M23/M37 family peptidase NP_881590.1 3206945 R 257313 CDS NP_881591.1 33593947 2665909 3208060..3208467 1 NC_002929.2 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 3208467 2665909 BP3016 Bordetella pertussis Tohama I hypothetical protein NP_881591.1 3208060 D 257313 CDS NP_881592.1 33593948 2665910 complement(3208579..3209502) 1 NC_002929.2 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 3209502 lpxC 2665910 lpxC Bordetella pertussis Tohama I UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase NP_881592.1 3208579 R 257313 CDS NP_881593.1 33593949 2665911 complement(3209731..3210915) 1 NC_002929.2 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 3210915 ftsZ 2665911 ftsZ Bordetella pertussis Tohama I cell division protein FtsZ NP_881593.1 3209731 R 257313 CDS NP_881594.1 33593950 2665912 complement(3211104..3212330) 1 NC_002929.2 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 3212330 ftsA 2665912 ftsA Bordetella pertussis Tohama I cell division protein FtsA NP_881594.1 3211104 R 257313 CDS NP_881595.1 33593951 2665913 complement(3212335..3213156) 1 NC_002929.2 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 3213156 ftsQ 2665913 ftsQ Bordetella pertussis Tohama I cell division protein FtsQ NP_881595.1 3212335 R 257313 CDS NP_881596.1 33593952 2665914 complement(3213169..3214119) 1 NC_002929.2 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 3214119 ddl 2665914 ddl Bordetella pertussis Tohama I D-alanine--D-alanine ligase NP_881596.1 3213169 R 257313 CDS NP_881597.1 33593953 2665870 complement(3214116..3215522) 1 NC_002929.2 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 3215522 murC 2665870 murC Bordetella pertussis Tohama I UDP-N-acetylmuramate--L-alanine ligase NP_881597.1 3214116 R 257313 CDS NP_881598.1 33593954 2665871 complement(3215519..3216592) 1 NC_002929.2 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 3216592 murG 2665871 murG Bordetella pertussis Tohama I undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase NP_881598.1 3215519 R 257313 CDS NP_881599.1 33593955 2665872 complement(3216589..3217782) 1 NC_002929.2 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 3217782 ftsW 2665872 ftsW Bordetella pertussis Tohama I cell division protein FtsW NP_881599.1 3216589 R 257313 CDS NP_881600.1 33593956 2665873 complement(3217779..3219311) 1 NC_002929.2 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 3219311 murD 2665873 murD Bordetella pertussis Tohama I UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase NP_881600.1 3217779 R 257313 CDS NP_881601.1 33593957 2665874 complement(3219308..3220441) 1 NC_002929.2 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan; phospho-N-acetylmuramoyl-pentapeptide- transferase 3220441 mraY 2665874 mraY Bordetella pertussis Tohama I phospho-N-acetylmuramoyl-pentapeptide- transferase NP_881601.1 3219308 R 257313 CDS NP_881602.1 33593958 2666363 complement(3220467..3223304) 1 NC_002929.2 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 3223304 murE 2666363 murE Bordetella pertussis Tohama I bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase NP_881602.1 3220467 R 257313 CDS NP_881603.1 33593959 2666358 complement(3223301..3225031) 1 NC_002929.2 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 3225031 ftsI 2666358 ftsI Bordetella pertussis Tohama I peptidoglycan synthetase NP_881603.1 3223301 R 257313 CDS NP_881604.1 33593960 2666359 complement(3225028..3225306) 1 NC_002929.2 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 3225306 ftsL 2666359 ftsL Bordetella pertussis Tohama I cell division protein NP_881604.1 3225028 R 257313 CDS NP_881605.1 33593961 2666360 complement(3225306..3226400) 1 NC_002929.2 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 3226400 mraW 2666360 mraW Bordetella pertussis Tohama I S-adenosyl-methyltransferase MraW NP_881605.1 3225306 R 257313 CDS NP_881606.1 33593962 2666361 complement(3226409..3226837) 1 NC_002929.2 MraZ; UPF0040; crystal structure shows similarity to AbrB; cell division protein MraZ 3226837 mraZ 2666361 mraZ Bordetella pertussis Tohama I cell division protein MraZ NP_881606.1 3226409 R 257313 CDS NP_881607.1 33593963 2666362 3227640..3229448 1 NC_002929.2 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 3229448 2666362 BP3034 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881607.1 3227640 D 257313 CDS NP_881608.1 33593964 2666364 complement(3229488..3230567) 1 NC_002929.2 catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis; dihydroorotase 3230567 pyrC 2666364 pyrC Bordetella pertussis Tohama I dihydroorotase NP_881608.1 3229488 R 257313 CDS NP_881609.1 33593965 2666365 complement(3230564..3231757) 1 NC_002929.2 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 3231757 2666365 BP3036 Bordetella pertussis Tohama I hydrolase NP_881609.1 3230564 R 257313 CDS NP_881610.1 33593966 2666366 3231907..3232185 1 NC_002929.2 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 3232185 2666366 BP3037 Bordetella pertussis Tohama I hypothetical protein NP_881610.1 3231907 D 257313 CDS NP_881612.1 33593968 2665447 complement(3239631..3240119) 1 NC_002929.2 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 3240119 lrp 2665447 lrp Bordetella pertussis Tohama I leucine-responsive regulatory protein NP_881612.1 3239631 R 257313 CDS NP_881613.1 33593969 2665448 3240260..3241372 1 NC_002929.2 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 3241372 bllY 2665448 bllY Bordetella pertussis Tohama I hemolysin NP_881613.1 3240260 D 257313 CDS NP_881614.1 33593970 2665449 complement(3241440..3242000) 1 NC_002929.2 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 3242000 2665449 BP3041 Bordetella pertussis Tohama I methionine sulfoxide reductase A NP_881614.1 3241440 R 257313 CDS NP_881615.1 33593971 2665450 complement(3242024..3242356) 1 NC_002929.2 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 3242356 cyt 2665450 cyt Bordetella pertussis Tohama I cytochrome c-552 NP_881615.1 3242024 R 257313 CDS NP_881616.1 33593972 2665451 complement(3242340..3244028) 1 NC_002929.2 catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis; dihydroxy-acid dehydratase 3244028 ilvD 2665451 ilvD Bordetella pertussis Tohama I dihydroxy-acid dehydratase NP_881616.1 3242340 R 257313 CDS NP_881617.1 33593973 2665452 3244148..3244936 1 NC_002929.2 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein; prolipoprotein diacylglyceryl transferase 3244936 lgt 2665452 lgt Bordetella pertussis Tohama I prolipoprotein diacylglyceryl transferase NP_881617.1 3244148 D 257313 CDS NP_881618.1 33593974 2665454 3245644..3246594 1 NC_002929.2 transposase for IS481 element; transposase 3246594 2665454 BP3046 Bordetella pertussis Tohama I transposase NP_881618.1 3245644 D 257313 CDS NP_881619.1 33593975 2665455 complement(3247039..3247350) 1 NC_002929.2 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 3247350 2665455 BP3047 Bordetella pertussis Tohama I hypothetical protein NP_881619.1 3247039 R 257313 CDS NP_881620.1 33593976 2665456 complement(3247350..3247880) 1 NC_002929.2 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 3247880 2665456 BP3048 Bordetella pertussis Tohama I hypothetical protein NP_881620.1 3247350 R 257313 CDS NP_881621.1 33593977 2665457 3248043..3248993 1 NC_002929.2 transposase for IS481 element; transposase 3248993 2665457 BP3049 Bordetella pertussis Tohama I transposase NP_881621.1 3248043 D 257313 CDS NP_881622.1 33593978 2665458 3249283..3249747 1 NC_002929.2 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 3249747 2665458 BP3050 Bordetella pertussis Tohama I hypothetical protein NP_881622.1 3249283 D 257313 CDS NP_881623.1 33593979 2666531 3249762..3251267 1 NC_002929.2 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 3251267 2666531 BP3051 Bordetella pertussis Tohama I hypothetical protein NP_881623.1 3249762 D 257313 CDS NP_881624.1 33593980 2666532 3251521..3253128 1 NC_002929.2 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 3253128 2666532 BP3052 Bordetella pertussis Tohama I gamma-glutamyltranspeptidase NP_881624.1 3251521 D 257313 CDS NP_881625.1 33593981 2666535 3253256..3254089 1 NC_002929.2 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 3254089 2666535 BP3053 Bordetella pertussis Tohama I oxidoreductase NP_881625.1 3253256 D 257313 CDS NP_881626.1 33593982 2666537 complement(3254530..3255480) 1 NC_002929.2 transposase for IS481 element; transposase 3255480 2666537 BP3055 Bordetella pertussis Tohama I transposase NP_881626.1 3254530 R 257313 CDS NP_881627.1 33593983 2666538 3255619..3256371 1 NC_002929.2 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 3256371 ung 2666538 ung Bordetella pertussis Tohama I uracil-DNA glycosylase NP_881627.1 3255619 D 257313 CDS NP_881628.1 33593984 2666539 3256610..3258334 1 NC_002929.2 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 3258334 2666539 BP3057 Bordetella pertussis Tohama I ATP-dependent RNA helicase NP_881628.1 3256610 D 257313 CDS NP_881629.1 33593985 2666540 3258354..3259613 1 NC_002929.2 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 3259613 2666540 BP3058 Bordetella pertussis Tohama I hypothetical protein NP_881629.1 3258354 D 257313 CDS NP_881630.1 33593986 2666541 complement(3259628..3260722) 1 NC_002929.2 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 3260722 cca 2666541 cca Bordetella pertussis Tohama I tRNA CCA-pyrophosphorylase NP_881630.1 3259628 R 257313 CDS NP_881631.1 33593987 2666542 complement(3260719..3262782) 1 NC_002929.2 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 3262782 2666542 BP3060 Bordetella pertussis Tohama I transglycosylase NP_881631.1 3260719 R 257313 CDS NP_881632.1 33593988 2666543 3262858..3263538 1 NC_002929.2 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 3263538 2666543 BP3061 Bordetella pertussis Tohama I 5-formyltetrahydrofolate cyclo-ligase NP_881632.1 3262858 D 257313 CDS NP_881633.1 33593989 2666544 3263816..3265189 1 NC_002929.2 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 3265189 2666544 BP3062 Bordetella pertussis Tohama I integral membrane transport protein NP_881633.1 3263816 D 257313 CDS NP_881634.1 33593990 2666545 3265191..3266210 1 NC_002929.2 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 3266210 2666545 BP3063 Bordetella pertussis Tohama I aminohydrolase NP_881634.1 3265191 D 257313 CDS NP_881635.1 33593991 2666546 3266274..3267245 1 NC_002929.2 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 3267245 2666546 BP3064 Bordetella pertussis Tohama I transcriptional regulator NP_881635.1 3266274 D 257313 CDS NP_881636.1 33593992 2665922 complement(3267310..3268260) 1 NC_002929.2 transposase for IS481 element; transposase 3268260 2665922 BP3065 Bordetella pertussis Tohama I transposase NP_881636.1 3267310 R 257313 CDS NP_881637.1 33593993 2665923 complement(3268359..3269201) 1 NC_002929.2 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 3269201 2665923 BP3066 Bordetella pertussis Tohama I methylenetetrahydrofolate reductase NP_881637.1 3268359 R 257313 CDS NP_881638.1 33593994 2665924 complement(3269201..3269536) 1 NC_002929.2 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 3269536 2665924 BP3067 Bordetella pertussis Tohama I hypothetical protein NP_881638.1 3269201 R 257313 CDS NP_881639.1 33593995 2665925 complement(3269607..3271025) 1 NC_002929.2 catalyzes the formation of L-homocysteine from S-adenosyl-L-homocysteine; S-adenosyl-L-homocysteine hydrolase 3271025 acyH 2665925 acyH Bordetella pertussis Tohama I S-adenosyl-L-homocysteine hydrolase NP_881639.1 3269607 R 257313 CDS NP_881640.1 33593996 2665926 complement(3271305..3272345) 1 NC_002929.2 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 3272345 2665926 BP3069 Bordetella pertussis Tohama I glycosyl transferase family protein NP_881640.1 3271305 R 257313 CDS NP_881641.1 33593997 2665927 complement(3272425..3272676) 1 NC_002929.2 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 3272676 2665927 BP3070 Bordetella pertussis Tohama I hypothetical protein NP_881641.1 3272425 R 257313 CDS NP_881642.1 33593998 2665928 complement(3272787..3273950) 1 NC_002929.2 methionine adenosyltransferase; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase; S-adenosylmethionine synthetase 3273950 metK 2665928 metK Bordetella pertussis Tohama I S-adenosylmethionine synthetase NP_881642.1 3272787 R 257313 CDS NP_881643.1 33593999 2666331 3274234..3275088 1 NC_002929.2 Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis lauroyl acyltransferase 3275088 2666331 BP3072 Bordetella pertussis Tohama I lipid A biosynthesis lauroyl acyltransferase NP_881643.1 3274234 D 257313 CDS NP_881644.1 33594000 2666332 3275085..3275975 1 NC_002929.2 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 3275975 2666332 BP3073 Bordetella pertussis Tohama I acyltransferase NP_881644.1 3275085 D 257313 CDS NP_881645.1 33594001 2666333 3276018..3276929 1 NC_002929.2 involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate; diaminopimelate epimerase 3276929 dapF 2666333 dapF Bordetella pertussis Tohama I diaminopimelate epimerase NP_881645.1 3276018 D 257313 CDS NP_881646.1 33594002 2666334 3276956..3277648 1 NC_002929.2 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 3277648 2666334 BP3075 Bordetella pertussis Tohama I hypothetical protein NP_881646.1 3276956 D 257313 CDS NP_881647.1 33594003 2666335 3277663..3278643 1 NC_002929.2 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 3278643 xerC 2666335 xerC Bordetella pertussis Tohama I site-specific tyrosine recombinase XerC NP_881647.1 3277663 D 257313 CDS NP_881648.1 33594004 2666326 complement(3278656..3280797) 1 NC_002929.2 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 3280797 2666326 BP3077 Bordetella pertussis Tohama I outer membrane protein NP_881648.1 3278656 R 257313 CDS NP_881649.1 33594005 2666327 complement(3280846..3281784) 1 NC_002929.2 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 3281784 2666327 BP3078 Bordetella pertussis Tohama I hypothetical protein NP_881649.1 3280846 R 257313 CDS NP_881650.1 33594006 2666328 complement(3281805..3282386) 1 NC_002929.2 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 3282386 2666328 BP3079 Bordetella pertussis Tohama I hypothetical protein NP_881650.1 3281805 R 257313 CDS NP_881651.1 33594007 2666329 complement(3282434..3283369) 1 NC_002929.2 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 3283369 2666329 BP3080 Bordetella pertussis Tohama I ABC transporter substrate-binding protein NP_881651.1 3282434 R 257313 CDS NP_881652.1 33594008 2666330 complement(3283366..3284262) 1 NC_002929.2 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 3284262 2666330 BP3081 Bordetella pertussis Tohama I ABC transporter permease NP_881652.1 3283366 R 257313 CDS NP_881653.1 33594009 2667051 complement(3284259..3284981) 1 NC_002929.2 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 3284981 2667051 BP3082 Bordetella pertussis Tohama I transport protein ATP-binding NP_881653.1 3284259 R 257313 CDS NP_881654.1 33594010 2667052 3285301..3285813 1 NC_002929.2 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 3285813 2667052 BP3083 Bordetella pertussis Tohama I regulatory protein NP_881654.1 3285301 D 257313 CDS NP_881655.1 33594011 2667053 3286090..3287205 1 NC_002929.2 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 3287205 2667053 BP3084 Bordetella pertussis Tohama I hypothetical protein NP_881655.1 3286090 D 257313 CDS NP_881656.1 33594012 2667054 3287348..3287812 1 NC_002929.2 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 3287812 dksA 2667054 dksA Bordetella pertussis Tohama I dnaK suppressor protein NP_881656.1 3287348 D 257313 CDS NP_881657.1 33594013 2667055 3287960..3288499 1 NC_002929.2 heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease peptidase subunit 3288499 hslV 2667055 hslV Bordetella pertussis Tohama I ATP-dependent protease peptidase subunit NP_881657.1 3287960 D 257313 CDS NP_881658.1 33594014 2666368 3288521..3289855 1 NC_002929.2 heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease ATP-binding protein HslU 3289855 hslU 2666368 hslU Bordetella pertussis Tohama I ATP-dependent protease ATP-binding protein HslU NP_881658.1 3288521 D 257313 CDS NP_881659.1 33594015 2666369 complement(3289869..3290174) 1 NC_002929.2 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 3290174 2666369 BP3088 Bordetella pertussis Tohama I hypothetical protein NP_881659.1 3289869 R 257313 CDS NP_881660.1 33594016 2666370 3290599..3291159 1 NC_002929.2 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 3291159 2666370 BP3090 Bordetella pertussis Tohama I hypothetical protein NP_881660.1 3290599 D 257313 CDS NP_881661.1 33594017 2666371 3291258..3292208 1 NC_002929.2 transposase for IS481 element; transposase 3292208 2666371 BP3091 Bordetella pertussis Tohama I transposase NP_881661.1 3291258 D 257313 CDS NP_881662.1 33594018 2666372 3292425..3293999 1 NC_002929.2 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 3293999 2666372 BP3092 Bordetella pertussis Tohama I phospholipase D NP_881662.1 3292425 D 257313 CDS NP_881663.1 33594019 2666373 complement(3294006..3295115) 1 NC_002929.2 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 3295115 modD 2666373 modD Bordetella pertussis Tohama I molybdenum transport ATP-binding protein NP_881663.1 3294006 R 257313 CDS NP_881664.1 33594020 2665459 complement(3295127..3295807) 1 NC_002929.2 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 3295807 modC 2665459 modC Bordetella pertussis Tohama I molybdenum transport system permease NP_881664.1 3295127 R 257313 CDS NP_881665.1 33594021 2665460 complement(3295829..3296584) 1 NC_002929.2 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 3296584 modB 2665460 modB Bordetella pertussis Tohama I molybdate ABC transporter substrate-binding protein NP_881665.1 3295829 R 257313 CDS NP_881666.1 33594022 2665461 complement(3296720..3297604) 1 NC_002929.2 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 3297604 2665461 BP3096 Bordetella pertussis Tohama I hydrolase NP_881666.1 3296720 R 257313 CDS NP_881667.1 33594023 2665462 3297692..3298273 1 NC_002929.2 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 3298273 2665462 BP3097 Bordetella pertussis Tohama I hypothetical protein NP_881667.1 3297692 D 257313 CDS NP_881668.1 33594024 2665463 complement(3298366..3298488) 1 NC_002929.2 hypothetical protein 3298488 2665463 BP3098 Bordetella pertussis Tohama I hypothetical protein NP_881668.1 3298366 R 257313 CDS NP_881669.1 33594025 2665464 complement(3298534..3298833) 1 NC_002929.2 hypothetical protein 3298833 2665464 BP3099 Bordetella pertussis Tohama I hypothetical protein NP_881669.1 3298534 R 257313 CDS NP_881670.1 33594026 2665465 complement(3298985..3299464) 1 NC_002929.2 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 3299464 2665465 BP3100 Bordetella pertussis Tohama I hypothetical protein NP_881670.1 3298985 R 257313 CDS NP_881671.1 33594027 2665467 complement(3301617..3302045) 1 NC_002929.2 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 3302045 2665467 BP3102 Bordetella pertussis Tohama I regulatory protein NP_881671.1 3301617 R 257313 CDS NP_881672.1 33594028 2665475 complement(3302136..3303086) 1 NC_002929.2 transposase for IS481 element; transposase 3303086 2665475 BP3103 Bordetella pertussis Tohama I transposase NP_881672.1 3302136 R 257313 CDS NP_881673.1 33594029 2665477 complement(3303614..3304387) 1 NC_002929.2 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 3304387 2665477 BP3105 Bordetella pertussis Tohama I molybdate ABC transporter substrate-binding protein NP_881673.1 3303614 R 257313 CDS NP_881674.1 33594030 2665807 complement(3304520..3305530) 1 NC_002929.2 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 3305530 2665807 BP3106 Bordetella pertussis Tohama I hypothetical protein NP_881674.1 3304520 R 257313 CDS NP_881675.1 33594031 2665808 complement(3305682..3307337) 1 NC_002929.2 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 3307337 2665808 BP3107 Bordetella pertussis Tohama I gamma-glutamyltranspeptidase NP_881675.1 3305682 R 257313 CDS NP_881676.1 33594032 2665809 complement(3307392..3307733) 1 NC_002929.2 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 3307733 2665809 BP3108 Bordetella pertussis Tohama I hypothetical protein NP_881676.1 3307392 R 257313 CDS NP_881677.1 33594033 2665810 complement(3307747..3309186) 1 NC_002929.2 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 3309186 2665810 BP3109 Bordetella pertussis Tohama I hypothetical protein NP_881677.1 3307747 R 257313 CDS NP_881678.1 33594034 2665811 complement(3309319..3310158) 1 NC_002929.2 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 3310158 2665811 BP3110 Bordetella pertussis Tohama I MerR family transcriptional regulator NP_881678.1 3309319 R 257313 CDS NP_881679.1 33594035 2665812 3310328..3311278 1 NC_002929.2 transposase for IS481 element; transposase 3311278 2665812 BP3111 Bordetella pertussis Tohama I transposase NP_881679.1 3310328 D 257313 CDS NP_881680.1 33594036 2665815 complement(3314655..3315605) 1 NC_002929.2 transposase for IS481 element; transposase 3315605 2665815 BP3114 Bordetella pertussis Tohama I transposase NP_881680.1 3314655 R 257313 CDS NP_881681.1 33594037 2665816 complement(3315789..3317000) 1 NC_002929.2 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 3317000 2665816 BP3115 Bordetella pertussis Tohama I hypothetical protein NP_881681.1 3315789 R 257313 CDS NP_881682.1 33594038 2665817 complement(3317016..3319967) 1 NC_002929.2 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 3319967 2665817 BP3116 Bordetella pertussis Tohama I modification methylase NP_881682.1 3317016 R 257313 CDS NP_881683.1 33594039 2665818 complement(3319969..3323088) 1 NC_002929.2 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 3323088 2665818 BP3117 Bordetella pertussis Tohama I restriction endonuclease NP_881683.1 3319969 R 257313 CDS NP_881684.1 33594040 2665819 complement(3323236..3324282) 1 NC_002929.2 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 3324282 2665819 BP3118 Bordetella pertussis Tohama I hypothetical protein NP_881684.1 3323236 R 257313 CDS NP_881685.1 33594041 2665820 complement(3324624..3325751) 1 NC_002929.2 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 3325751 2665820 BP3120 Bordetella pertussis Tohama I integrase NP_881685.1 3324624 R 257313 CDS NP_881686.1 33594042 2665821 complement(3326031..3327122) 1 NC_002929.2 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 3327122 2665821 BP3121 Bordetella pertussis Tohama I GTP-dependent nucleic acid-binding protein EngD NP_881686.1 3326031 R 257313 CDS NP_881687.1 33594043 2666965 complement(3327195..3327977) 1 NC_002929.2 no significant database matches; hypothetical protein 3327977 2666965 BP3122 Bordetella pertussis Tohama I hypothetical protein NP_881687.1 3327195 R 257313 CDS NP_881688.1 33594044 2666966 complement(3327974..3328570) 1 NC_002929.2 Enables the recycling of peptidyl-tRNAs produced at termination of translation; peptidyl-tRNA hydrolase 3328570 pth 2666966 pth Bordetella pertussis Tohama I peptidyl-tRNA hydrolase NP_881688.1 3327974 R 257313 CDS NP_881689.1 33594045 2666967 complement(3328699..3329325) 1 NC_002929.2 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 3329325 rplY 2666967 rplY Bordetella pertussis Tohama I 50S ribosomal protein L25 NP_881689.1 3328699 R 257313 CDS NP_881690.1 33594046 2666968 complement(3329436..3330386) 1 NC_002929.2 catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP; ribose-phosphate pyrophosphokinase 3330386 prsA 2666968 prsA Bordetella pertussis Tohama I ribose-phosphate pyrophosphokinase NP_881690.1 3329436 R 257313 CDS NP_881691.1 33594047 2666374 complement(3330595..3331494) 1 NC_002929.2 An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis; 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase 3331494 ipk 2666374 ipk Bordetella pertussis Tohama I 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase NP_881691.1 3330595 R 257313 CDS NP_881692.1 33594048 2666375 complement(3331543..3332142) 1 NC_002929.2 Incorporates lipoproteins in the outer membrane after they are released by the LolA protein; outer membrane lipoprotein LolB 3332142 lolB 2666375 lolB Bordetella pertussis Tohama I outer membrane lipoprotein LolB NP_881692.1 3331543 R 257313 CDS NP_881693.1 33594049 2666376 complement(3332139..3334025) 1 NC_002929.2 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 3334025 2666376 BP3128 Bordetella pertussis Tohama I hypothetical protein NP_881693.1 3332139 R 257313 CDS NP_881694.1 33594050 2666377 3334024..3334851 1 NC_002929.2 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 3334851 mutM 2666377 mutM Bordetella pertussis Tohama I formamidopyrimidine-DNA glycosylase NP_881694.1 3334024 D 257313 CDS NP_881695.1 33594051 2666378 3334942..3335895 1 NC_002929.2 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 3335895 2666378 BP3130 Bordetella pertussis Tohama I cyclase NP_881695.1 3334942 D 257313 CDS NP_881696.1 33594052 2666379 3335997..3337676 1 NC_002929.2 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 3337676 2666379 BP3131 Bordetella pertussis Tohama I FAD-dependent oxidoreductase NP_881696.1 3335997 D 257313 CDS NP_881697.1 33594053 2666380 3337688..3337897 1 NC_002929.2 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 3337897 2666380 BP3132 Bordetella pertussis Tohama I hypothetical protein NP_881697.1 3337688 D 257313 CDS NP_881698.1 33594054 2666381 complement(3337907..3338815) 1 NC_002929.2 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 3338815 2666381 BP3133 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881698.1 3337907 R 257313 CDS NP_881699.1 33594055 2666382 3338998..3340296 1 NC_002929.2 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 3340296 hmgA 2666382 hmgA Bordetella pertussis Tohama I homogentisate 1,2-dioxygenase NP_881699.1 3338998 D 257313 CDS NP_881700.1 33594056 2666383 3340405..3341718 1 NC_002929.2 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 3341718 fahA 2666383 fahA Bordetella pertussis Tohama I fumarylacetoacetase NP_881700.1 3340405 D 257313 CDS NP_881701.1 33594057 2666384 complement(3341844..3343805) 1 NC_002929.2 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 3343805 2666384 BP3136 Bordetella pertussis Tohama I sulfatase NP_881701.1 3341844 R 257313 CDS NP_881702.1 33594058 2666385 complement(3343885..3345207) 1 NC_002929.2 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 3345207 2666385 BP3137 Bordetella pertussis Tohama I two-component system sensor protein NP_881702.1 3343885 R 257313 CDS NP_881703.1 33594059 2667358 complement(3345204..3345914) 1 NC_002929.2 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 3345914 2667358 BP3138 Bordetella pertussis Tohama I two-component system response regulator NP_881703.1 3345204 R 257313 CDS NP_881704.1 33594060 2667359 complement(3345932..3347347) 1 NC_002929.2 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 3347347 2667359 BP3139 Bordetella pertussis Tohama I oxidoreductase NP_881704.1 3345932 R 257313 CDS NP_881705.1 33594061 2667360 complement(3347439..3348011) 1 NC_002929.2 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 3348011 2667360 BP3140 Bordetella pertussis Tohama I hypothetical protein NP_881705.1 3347439 R 257313 CDS NP_881706.1 33594062 2667361 3348329..3349711 1 NC_002929.2 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 3349711 pgm 2667361 pgm Bordetella pertussis Tohama I phosphoglucomutase NP_881706.1 3348329 D 257313 CDS NP_881707.1 33594063 2667362 3349718..3351283 1 NC_002929.2 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 3351283 pgi 2667362 pgi Bordetella pertussis Tohama I glucose-6-phosphate isomerase NP_881707.1 3349718 D 257313 CDS NP_881708.1 33594064 2667363 complement(3351291..3352421) 1 NC_002929.2 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 3352421 2667363 BP3143 Bordetella pertussis Tohama I glycosyltransferase NP_881708.1 3351291 R 257313 CDS NP_881709.1 33594065 2667364 complement(3352418..3353572) 1 NC_002929.2 Similar to Pseudomonas aeruginosa WbpT TR:Q9RHD1 (EMBL:AF035937) (383 aa) fasta scores: E(): 7.7e-49, 43.55% id in 388 aa; glycosyltransferase 3353572 2667364 BP3144 Bordetella pertussis Tohama I glycosyltransferase NP_881709.1 3352418 R 257313 CDS NP_881710.1 33594066 2667365 complement(3353569..3354690) 1 NC_002929.2 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 3354690 2667365 BP3145 Bordetella pertussis Tohama I glycosyltransferase NP_881710.1 3353569 R 257313 CDS NP_881711.1 33594067 2667366 complement(3354687..3356612) 1 NC_002929.2 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 3356612 2667366 BP3146 Bordetella pertussis Tohama I asparagine synthase NP_881711.1 3354687 R 257313 CDS NP_881712.1 33594068 2667367 complement(3356659..3357795) 1 NC_002929.2 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 3357795 2667367 BP3147 Bordetella pertussis Tohama I glycosyltransferase NP_881712.1 3356659 R 257313 CDS NP_881713.1 33594069 2667368 complement(3357796..3359166) 1 NC_002929.2 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 3359166 2667368 BP3148 Bordetella pertussis Tohama I hypothetical protein NP_881713.1 3357796 R 257313 CDS NP_881714.1 33594070 2665555 complement(3359168..3360193) 1 NC_002929.2 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 3360193 2665555 BP3149 Bordetella pertussis Tohama I UDP-N-acetylglucosamine C4 epimerase NP_881714.1 3359168 R 257313 CDS NP_881715.1 33594071 2665556 complement(3360205..3361479) 1 NC_002929.2 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 3361479 wbpO 2665556 wbpO Bordetella pertussis Tohama I polysaccharide biosynthesis protein NP_881715.1 3360205 R 257313 CDS NP_881716.1 33594072 2665557 complement(3361585..3362688) 1 NC_002929.2 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 3362688 2665557 BP3151 Bordetella pertussis Tohama I glycosyltransferase NP_881716.1 3361585 R 257313 CDS NP_881717.1 33594073 2665558 complement(3363417..3364085) 1 NC_002929.2 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 3364085 2665558 BP3152 Bordetella pertussis Tohama I hypothetical protein NP_881717.1 3363417 R 257313 CDS NP_881718.1 33594074 2665559 3364209..3364646 1 NC_002929.2 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 3364646 2665559 BP3153 Bordetella pertussis Tohama I hypothetical protein NP_881718.1 3364209 D 257313 CDS NP_881719.1 33594075 2665560 3364699..3365670 1 NC_002929.2 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 3365670 thyA 2665560 thyA Bordetella pertussis Tohama I thymidylate synthase NP_881719.1 3364699 D 257313 CDS NP_881720.1 33594076 2665561 3365695..3366198 1 NC_002929.2 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 3366198 folA 2665561 folA Bordetella pertussis Tohama I dihydrofolate reductase NP_881720.1 3365695 D 257313 CDS NP_881721.1 33594077 2665562 complement(3366162..3367619) 1 NC_002929.2 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 3367619 2665562 BP3156 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881721.1 3366162 R 257313 CDS NP_881722.1 33594078 2665563 3367802..3369127 1 NC_002929.2 catalyzes the formation of pyruvate and beta-alanine from L-alanine and 3-oxopropanoate; beta alanine--pyruvate transaminase 3369127 2665563 BP3157 Bordetella pertussis Tohama I beta alanine--pyruvate transaminase NP_881722.1 3367802 D 257313 CDS NP_881723.1 33594079 2665565 3370905..3372470 1 NC_002929.2 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 3372470 2665565 BP3159 Bordetella pertussis Tohama I peptide ABC transporter substrate-binding protein NP_881723.1 3370905 D 257313 CDS NP_881724.1 33594080 2665566 3372516..3373457 1 NC_002929.2 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 3373457 2665566 BP3160 Bordetella pertussis Tohama I ABC transporter permease NP_881724.1 3372516 D 257313 CDS NP_881725.1 33594081 2665567 3373460..3374347 1 NC_002929.2 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 3374347 2665567 BP3161 Bordetella pertussis Tohama I peptide ABC transporter permease NP_881725.1 3373460 D 257313 CDS NP_881726.1 33594082 2666184 3375935..3377410 1 NC_002929.2 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 3377410 2666184 BP3163 Bordetella pertussis Tohama I hypothetical protein NP_881726.1 3375935 D 257313 CDS NP_881727.1 33594083 2666185 3377509..3378459 1 NC_002929.2 transposase for IS481 element; transposase 3378459 2666185 BP3164 Bordetella pertussis Tohama I transposase NP_881727.1 3377509 D 257313 CDS NP_881728.1 33594084 2666181 complement(3378864..3379508) 1 NC_002929.2 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 3379508 ureG 2666181 ureG Bordetella pertussis Tohama I urease accessory protein NP_881728.1 3378864 R 257313 CDS NP_881730.1 33594086 2667492 complement(3380838..3382553) 1 NC_002929.2 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 3382553 ureC 2667492 ureC Bordetella pertussis Tohama I urease subunit alpha NP_881730.1 3380838 R 257313 CDS NP_881731.1 33594087 2667493 complement(3382550..3382858) 1 NC_002929.2 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 3382858 ureB 2667493 ureB Bordetella pertussis Tohama I urease subunit beta NP_881731.1 3382550 R 257313 CDS NP_881732.1 33594088 2667494 complement(3382875..3383483) 1 NC_002929.2 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 3383483 ureJ 2667494 ureJ Bordetella pertussis Tohama I urease accessory protein NP_881732.1 3382875 R 257313 CDS NP_881733.1 33594089 2666123 complement(3383537..3383839) 1 NC_002929.2 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 3383839 ureA 2666123 ureA Bordetella pertussis Tohama I urease subunit gamma NP_881733.1 3383537 R 257313 CDS NP_881734.1 33594090 2666124 complement(3383940..3384794) 1 NC_002929.2 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 3384794 ureD 2666124 ureD Bordetella pertussis Tohama I urease accessory protein NP_881734.1 3383940 R 257313 CDS NP_881736.1 33594092 2667512 complement(3386066..3386473) 1 NC_002929.2 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 3386473 2667512 BP3175 Bordetella pertussis Tohama I hypothetical protein NP_881736.1 3386066 R 257313 CDS NP_881737.1 33594093 2667513 complement(3386843..3387637) 1 NC_002929.2 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 3387637 2667513 BP3176 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881737.1 3386843 R 257313 CDS NP_881738.1 33594094 2667514 3387738..3388973 1 NC_002929.2 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 3388973 2667514 BP3177 Bordetella pertussis Tohama I methylaspartate ammonia-lyase NP_881738.1 3387738 D 257313 CDS NP_881739.1 33594095 2667515 3389042..3390058 1 NC_002929.2 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 3390058 2667515 BP3178 Bordetella pertussis Tohama I hypothetical protein NP_881739.1 3389042 D 257313 CDS NP_881740.1 33594096 2667516 3390070..3391446 1 NC_002929.2 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 3391446 2667516 BP3179 Bordetella pertussis Tohama I hypothetical protein NP_881740.1 3390070 D 257313 CDS NP_881741.1 33594097 2667517 3391443..3392639 1 NC_002929.2 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 3392639 2667517 BP3180 Bordetella pertussis Tohama I hypothetical protein NP_881741.1 3391443 D 257313 CDS NP_881742.1 33594098 2667518 complement(3392636..3394174) 1 NC_002929.2 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 3394174 2667518 BP3181 Bordetella pertussis Tohama I SpoVR family protein NP_881742.1 3392636 R 257313 CDS NP_881743.1 33594099 2667519 complement(3394171..3395430) 1 NC_002929.2 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 3395430 2667519 BP3182 Bordetella pertussis Tohama I hypothetical protein NP_881743.1 3394171 R 257313 CDS NP_881744.1 33594100 2667521 complement(3397371..3398321) 1 NC_002929.2 transposase for IS481 element; transposase 3398321 2667521 BP3185 Bordetella pertussis Tohama I transposase NP_881744.1 3397371 R 257313 CDS NP_881745.1 33594101 2667522 complement(3398420..3399370) 1 NC_002929.2 transposase for IS481 element; transposase 3399370 2667522 BP3186 Bordetella pertussis Tohama I transposase NP_881745.1 3398420 R 257313 CDS NP_881746.1 33594102 2667524 complement(3400137..3401231) 1 NC_002929.2 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 3401231 2667524 BP3188 Bordetella pertussis Tohama I hypothetical protein NP_881746.1 3400137 R 257313 CDS NP_881747.1 33594103 2667525 complement(3401224..3402558) 1 NC_002929.2 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 3402558 2667525 BP3189 Bordetella pertussis Tohama I coenzyme A ligase NP_881747.1 3401224 R 257313 CDS NP_881748.1 33594104 2667526 complement(3402512..3403195) 1 NC_002929.2 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 3403195 2667526 BP3190 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_881748.1 3402512 R 257313 CDS NP_881749.1 33594105 2667527 complement(3403221..3404384) 1 NC_002929.2 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 3404384 2667527 BP3191 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_881749.1 3403221 R 257313 CDS NP_881750.1 33594106 2667528 complement(3404381..3405382) 1 NC_002929.2 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 3405382 2667528 BP3192 Bordetella pertussis Tohama I ABC transporter permease NP_881750.1 3404381 R 257313 CDS NP_881751.1 33594107 2667529 complement(3405382..3406254) 1 NC_002929.2 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 3406254 2667529 BP3193 Bordetella pertussis Tohama I ABC transporter permease NP_881751.1 3405382 R 257313 CDS NP_881752.1 33594108 2667530 complement(3406251..3407000) 1 NC_002929.2 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 3407000 2667530 BP3194 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881752.1 3406251 R 257313 CDS NP_881753.1 33594109 2667531 complement(3406997..3407788) 1 NC_002929.2 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 3407788 2667531 BP3195 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881753.1 3406997 R 257313 CDS NP_881754.1 33594110 2667532 complement(3407785..3408924) 1 NC_002929.2 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 3408924 2667532 BP3196 Bordetella pertussis Tohama I amino acid binding protein NP_881754.1 3407785 R 257313 CDS NP_881755.1 33594111 2666120 3410019..3410801 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 3410801 2666120 BP3198 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_881755.1 3410019 D 257313 CDS NP_881756.1 33594112 2666121 3410805..3411194 1 NC_002929.2 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 3411194 2666121 BP3199 Bordetella pertussis Tohama I hypothetical protein NP_881756.1 3410805 D 257313 CDS NP_881757.1 33594113 2667594 3412334..3413197 1 NC_002929.2 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 3413197 2667594 BP3201 Bordetella pertussis Tohama I hydratase NP_881757.1 3412334 D 257313 CDS NP_881758.1 33594114 2667595 3413233..3414321 1 NC_002929.2 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 3414321 2667595 BP3202 Bordetella pertussis Tohama I hypothetical protein NP_881758.1 3413233 D 257313 CDS NP_881759.1 33594115 2667596 complement(3414318..3415268) 1 NC_002929.2 transposase for IS481 element; transposase 3415268 2667596 BP3203 Bordetella pertussis Tohama I transposase NP_881759.1 3414318 R 257313 CDS NP_881760.1 33594116 2667599 3419527..3420405 1 NC_002929.2 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 3420405 2667599 BP3207 Bordetella pertussis Tohama I fatty acid desaturase NP_881760.1 3419527 D 257313 CDS NP_881761.1 33594117 2667676 3422354..3423304 1 NC_002929.2 transposase for IS481 element; transposase 3423304 2667676 BP3210 Bordetella pertussis Tohama I transposase NP_881761.1 3422354 D 257313 CDS NP_881762.1 33594118 2667677 complement(3423301..3423768) 1 NC_002929.2 An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids; ribonuclease H 3423768 rnhA 2667677 rnhA Bordetella pertussis Tohama I ribonuclease H NP_881762.1 3423301 R 257313 CDS NP_881763.1 33594119 2667678 complement(3423811..3424581) 1 NC_002929.2 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 3424581 2667678 BP3212 Bordetella pertussis Tohama I hypothetical protein NP_881763.1 3423811 R 257313 CDS NP_881764.1 33594120 2667506 3424602..3425402 1 NC_002929.2 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 3425402 gloB 2667506 gloB Bordetella pertussis Tohama I hydroxyacylglutathione hydrolase NP_881764.1 3424602 D 257313 CDS NP_881765.1 33594121 2667507 3425413..3426822 1 NC_002929.2 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 3426822 2667507 BP3214 Bordetella pertussis Tohama I membrane-bound lytic murein transglycosylase D precursor NP_881765.1 3425413 D 257313 CDS NP_881766.1 33594122 2667508 3426917..3427702 1 NC_002929.2 Catalyzes a key regulatory step in fatty acid biosynthesis; enoyl-(acyl carrier protein) reductase 3427702 fabI 2667508 fabI Bordetella pertussis Tohama I enoyl-(acyl carrier protein) reductase NP_881766.1 3426917 D 257313 CDS NP_881767.1 33594123 2667509 3427942..3428958 1 NC_002929.2 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 3428958 2667509 BP3216 Bordetella pertussis Tohama I transposase for IS1663 NP_881767.1 3427942 D 257313 CDS NP_881768.1 33594124 2667510 complement(3429066..3429458) 1 NC_002929.2 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 3429458 2667510 BP3217 Bordetella pertussis Tohama I hypothetical protein NP_881768.1 3429066 R 257313 CDS NP_881769.1 33594125 2667502 3429596..3430276 1 NC_002929.2 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 3430276 2667502 BP3218 Bordetella pertussis Tohama I hypothetical protein NP_881769.1 3429596 D 257313 CDS NP_881770.1 33594126 2667503 complement(3430281..3431279) 1 NC_002929.2 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 3431279 2667503 BP3219 Bordetella pertussis Tohama I hypothetical protein NP_881770.1 3430281 R 257313 CDS NP_881771.1 33594127 2667504 complement(3431348..3432298) 1 NC_002929.2 transposase for IS481 element; transposase 3432298 2667504 BP3220 Bordetella pertussis Tohama I transposase NP_881771.1 3431348 R 257313 CDS NP_881772.1 33594128 2667495 3433803..3434504 1 NC_002929.2 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 3434504 ompR 2667495 ompR Bordetella pertussis Tohama I two component response regulator NP_881772.1 3433803 D 257313 CDS NP_881773.1 33594129 2667496 3434504..3435928 1 NC_002929.2 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 3435928 2667496 BP3223 Bordetella pertussis Tohama I two-component sensor kinase NP_881773.1 3434504 D 257313 CDS NP_881774.1 33594130 2667497 complement(3435945..3437000) 1 NC_002929.2 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 3437000 2667497 BP3224 Bordetella pertussis Tohama I cytochrome oxidase NP_881774.1 3435945 R 257313 CDS NP_881775.1 33594131 2667498 complement(3436997..3438337) 1 NC_002929.2 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 3438337 2667498 BP3225 Bordetella pertussis Tohama I transmembrane cytochrome oxidase NP_881775.1 3436997 R 257313 CDS NP_881776.1 33594132 2667499 3438453..3440216 1 NC_002929.2 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 3440216 glnS 2667499 glnS Bordetella pertussis Tohama I glutaminyl-tRNA synthetase NP_881776.1 3438453 D 257313 CDS NP_881777.1 33594133 2667500 3440328..3441206 1 NC_002929.2 blocks the formation of polar Z-ring septums; septum formation inhibitor 3441206 minC 2667500 minC Bordetella pertussis Tohama I septum formation inhibitor NP_881777.1 3440328 D 257313 CDS NP_881778.1 33594134 2667501 3441319..3442134 1 NC_002929.2 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 3442134 minD 2667501 minD Bordetella pertussis Tohama I septum site-determining protein NP_881778.1 3441319 D 257313 CDS NP_881779.1 33594135 2667486 3442138..3442389 1 NC_002929.2 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 3442389 minE 2667486 minE Bordetella pertussis Tohama I cell division topological specificity factor MinE NP_881779.1 3442138 D 257313 CDS NP_881780.1 33594136 2667487 complement(3442474..3443490) 1 NC_002929.2 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 3443490 2667487 BP3230 Bordetella pertussis Tohama I transposase for IS1663 NP_881780.1 3442474 R 257313 CDS NP_881781.1 33594137 2667488 complement(3443821..3444042) 1 NC_002929.2 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 3444042 osmB 2667488 osmB Bordetella pertussis Tohama I osmotically inducible lipoprotein B NP_881781.1 3443821 R 257313 CDS NP_881782.1 33594138 2667352 complement(3446403..3447269) 1 NC_002929.2 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 3447269 2667352 BP3234 Bordetella pertussis Tohama I hypothetical protein NP_881782.1 3446403 R 257313 CDS NP_881783.1 33594139 2667353 3447433..3447948 1 NC_002929.2 hypothetical protein 3447948 2667353 BP3235 Bordetella pertussis Tohama I hypothetical protein NP_881783.1 3447433 D 257313 CDS NP_881784.1 33594140 2667355 complement(3449106..3450677) 1 NC_002929.2 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 3450677 2667355 BP3237 Bordetella pertussis Tohama I peptide ABC transporter substrate-binding protein NP_881784.1 3449106 R 257313 CDS NP_881785.1 33594141 2667356 complement(3450795..3451730) 1 NC_002929.2 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 3451730 2667356 BP3238 Bordetella pertussis Tohama I glycosyl transferase family protein NP_881785.1 3450795 R 257313 CDS NP_881786.1 33594142 2667357 3451856..3452863 1 NC_002929.2 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 3452863 2667357 BP3239 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881786.1 3451856 D 257313 CDS NP_881787.1 33594143 2667658 complement(3452932..3453147) 1 NC_002929.2 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 3453147 2667658 BP3239A Bordetella pertussis Tohama I hypothetical protein NP_881787.1 3452932 R 257313 CDS NP_881788.1 33594144 2667659 3453431..3459148 1 NC_002929.2 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 3459148 uvrA2 2667659 uvrA2 Bordetella pertussis Tohama I excinuclease ABC subunit NP_881788.1 3453431 D 257313 CDS NP_881789.1 33594145 2667660 3459154..3460281 1 NC_002929.2 catalyzes the formation of 4-amino-4-deoxychorismate from chorismate and glutamine; aminodeoxychorismate synthase 3460281 2667660 BP3241 Bordetella pertussis Tohama I aminodeoxychorismate synthase NP_881789.1 3459154 D 257313 CDS NP_881790.1 33594146 2667661 3460337..3460963 1 NC_002929.2 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 3460963 2667661 BP3242 Bordetella pertussis Tohama I hypothetical protein NP_881790.1 3460337 D 257313 CDS NP_881791.1 33594147 2667662 3461235..3462251 1 NC_002929.2 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 3462251 2667662 BP3243 Bordetella pertussis Tohama I transposase for IS1663 NP_881791.1 3461235 D 257313 CDS NP_881792.1 33594148 2667663 complement(3462382..3463092) 1 NC_002929.2 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 3463092 2667663 BP3244 Bordetella pertussis Tohama I oxidoreductase NP_881792.1 3462382 R 257313 CDS NP_881793.1 33594149 2667664 complement(3463089..3464078) 1 NC_002929.2 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 3464078 2667664 BP3245 Bordetella pertussis Tohama I hypothetical protein NP_881793.1 3463089 R 257313 CDS NP_881794.1 33594150 2667665 3464174..3465805 1 NC_002929.2 activates fatty acids by binding to coenzyme A; acyl-CoA synthetase 3465805 2667665 BP3246 Bordetella pertussis Tohama I acyl-CoA synthetase NP_881794.1 3464174 D 257313 CDS NP_881795.1 33594151 2667666 3465808..3466545 1 NC_002929.2 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 3466545 2667666 BP3247 Bordetella pertussis Tohama I transcriptional regulator NP_881795.1 3465808 D 257313 CDS NP_881796.1 33594152 2667667 complement(3466701..3467564) 1 NC_002929.2 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 3467564 2667667 BP3248 Bordetella pertussis Tohama I hypothetical protein NP_881796.1 3466701 R 257313 CDS NP_881797.1 33594153 2667668 3467842..3469062 1 NC_002929.2 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 3469062 2667668 BP3249 Bordetella pertussis Tohama I inner membrane efflux protein NP_881797.1 3467842 D 257313 CDS NP_881798.1 33594154 2667669 3469059..3469718 1 NC_002929.2 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 3469718 2667669 BP3250 Bordetella pertussis Tohama I hypothetical protein NP_881798.1 3469059 D 257313 CDS NP_881799.1 33594155 2667670 3469790..3470422 1 NC_002929.2 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 3470422 pdxH 2667670 pdxH Bordetella pertussis Tohama I pyridoxamine 5'-phosphate oxidase NP_881799.1 3469790 D 257313 CDS NP_881800.1 33594156 2667671 3470452..3470970 1 NC_002929.2 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 3470970 2667671 BP3252 Bordetella pertussis Tohama I monooxygenase component NP_881800.1 3470452 D 257313 CDS NP_881801.1 33594157 2667672 3470981..3472090 1 NC_002929.2 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 3472090 2667672 BP3253 Bordetella pertussis Tohama I hypothetical protein NP_881801.1 3470981 D 257313 CDS NP_881802.1 33594158 2667673 3472137..3472991 1 NC_002929.2 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 3472991 purU 2667673 purU Bordetella pertussis Tohama I formyltetrahydrofolate deformylase NP_881802.1 3472137 D 257313 CDS NP_881803.1 33594159 2667674 complement(3472993..3473895) 1 NC_002929.2 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 3473895 2667674 BP3255 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881803.1 3472993 R 257313 CDS NP_881804.1 33594160 2667430 complement(3475118..3476068) 1 NC_002929.2 transposase for IS481 element; transposase 3476068 2667430 BP3257 Bordetella pertussis Tohama I transposase NP_881804.1 3475118 R 257313 CDS NP_881805.1 33594161 2667433 complement(3478987..3479775) 1 NC_002929.2 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 3479775 trpC 2667433 trpC Bordetella pertussis Tohama I indole-3-glycerol phosphate synthase NP_881805.1 3478987 R 257313 CDS NP_881806.1 33594162 2667434 complement(3479772..3480803) 1 NC_002929.2 Catalyzes the conversion of N-(5-phospho-D-ribosyl)-anthranilate and diphosphate to anthranilate and 5-phospho-alpha-D-ribose 1-diphosphate; anthranilate phosphoribosyltransferase 3480803 trpD 2667434 trpD Bordetella pertussis Tohama I anthranilate phosphoribosyltransferase NP_881806.1 3479772 R 257313 CDS NP_881807.1 33594163 2667534 complement(3480822..3481385) 1 NC_002929.2 TrpG; with TrpE catalyzes the formation of anthranilate and glutamate from chorismate and glutamine; TrpG provides the glutamine amidotransferase activity; anthranilate synthase component II 3481385 trpG 2667534 trpG Bordetella pertussis Tohama I anthranilate synthase component II NP_881807.1 3480822 R 257313 CDS NP_881808.1 33594164 2667535 complement(3481441..3482961) 1 NC_002929.2 with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine; anthranilate synthase component I 3482961 trpE 2667535 trpE Bordetella pertussis Tohama I anthranilate synthase component I NP_881808.1 3481441 R 257313 CDS NP_881809.1 33594165 2667536 complement(3483225..3483929) 1 NC_002929.2 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 3483929 gph 2667536 gph Bordetella pertussis Tohama I phosphoglycolate phosphatase NP_881809.1 3483225 R 257313 CDS NP_881810.1 33594166 2667478 complement(3483937..3484674) 1 NC_002929.2 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 3484674 rpe 2667478 rpe Bordetella pertussis Tohama I ribulose-phosphate 3-epimerase NP_881810.1 3483937 R 257313 CDS NP_881811.1 33594167 2667479 3484759..3485154 1 NC_002929.2 protein associated with Co2+ and Mg2+ efflux; ApaG protein 3485154 apaG 2667479 apaG Bordetella pertussis Tohama I ApaG protein NP_881811.1 3484759 D 257313 CDS NP_881812.1 33594168 2667480 3485197..3486486 1 NC_002929.2 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 3486486 2667480 BP3268 Bordetella pertussis Tohama I membrane-bound transglycosylase NP_881812.1 3485197 D 257313 CDS NP_881813.1 33594169 2667481 3486483..3487652 1 NC_002929.2 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 3487652 2667481 BP3269 Bordetella pertussis Tohama I ubiquinone biosynthesis hydroxylase family protein NP_881813.1 3486483 D 257313 CDS NP_881814.1 33594170 2667482 3487649..3488488 1 NC_002929.2 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) 3488488 2667482 BP3270 Bordetella pertussis Tohama I thiol:disulfide interchange protein (periplasmic) NP_881814.1 3487649 D 257313 CDS NP_881815.1 33594171 2667483 3488548..3489483 1 NC_002929.2 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 3489483 2667483 BP3271 Bordetella pertussis Tohama I 2-hydroxyacid dehydrogenase NP_881815.1 3488548 D 257313 CDS NP_881816.1 33594172 2667484 complement(3489496..3490446) 1 NC_002929.2 transposase for IS481 element; transposase 3490446 2667484 BP3272 Bordetella pertussis Tohama I transposase NP_881816.1 3489496 R 257313 CDS NP_881817.1 33594173 2667485 complement(3490545..3491507) 1 NC_002929.2 TtcA; YdaO; catalyzes the thiolation of cytosine 32 in specific tRNAs; C32 tRNA thiolase 3491507 2667485 BP3273 Bordetella pertussis Tohama I C32 tRNA thiolase NP_881817.1 3490545 R 257313 CDS NP_881818.1 33594174 2666894 complement(3491539..3491898) 1 NC_002929.2 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 3491898 folB 2666894 folB Bordetella pertussis Tohama I dihydroneopterin aldolase NP_881818.1 3491539 R 257313 CDS NP_881819.1 33594175 2666895 3492023..3492925 1 NC_002929.2 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 3492925 2666895 BP3275 Bordetella pertussis Tohama I oxidoreductase NP_881819.1 3492023 D 257313 CDS NP_881820.1 33594176 2666896 complement(3492927..3494699) 1 NC_002929.2 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 3494699 2666896 BP3276 Bordetella pertussis Tohama I hypothetical protein NP_881820.1 3492927 R 257313 CDS NP_881821.1 33594177 2666897 3494683..3495510 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 3495510 2666897 BP3277 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_881821.1 3494683 D 257313 CDS NP_881822.1 33594178 2666899 complement(3496834..3497784) 1 NC_002929.2 transposase for IS481 element; transposase 3497784 2666899 BP3279 Bordetella pertussis Tohama I transposase NP_881822.1 3496834 R 257313 CDS NP_881823.1 33594179 2666900 3498636..3498956 1 NC_002929.2 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 3498956 2666900 BP3281 Bordetella pertussis Tohama I inner membrane ATP synthase NP_881823.1 3498636 D 257313 CDS NP_881824.1 33594180 2666842 3499029..3499910 1 NC_002929.2 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 3499910 atpB 2666842 atpB Bordetella pertussis Tohama I ATP synthase F0F1 subunit A NP_881824.1 3499029 D 257313 CDS NP_881825.1 33594181 2666843 3500027..3500269 1 NC_002929.2 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 3500269 atpE 2666843 atpE Bordetella pertussis Tohama I ATP synthase F0F1 subunit C NP_881825.1 3500027 D 257313 CDS NP_881826.1 33594182 2666853 3500407..3500877 1 NC_002929.2 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 3500877 atpF 2666853 atpF Bordetella pertussis Tohama I ATP synthase F0F1 subunit B NP_881826.1 3500407 D 257313 CDS NP_881827.1 33594183 2666854 3500890..3501429 1 NC_002929.2 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 3501429 atpH 2666854 atpH Bordetella pertussis Tohama I ATP synthase F0F1 subunit delta NP_881827.1 3500890 D 257313 CDS NP_881828.1 33594184 2666855 3501464..3503005 1 NC_002929.2 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 3503005 atpA 2666855 atpA Bordetella pertussis Tohama I ATP synthase F0F1 subunit alpha NP_881828.1 3501464 D 257313 CDS NP_881829.1 33594185 2666856 3503104..3504009 1 NC_002929.2 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 3504009 atpG 2666856 atpG Bordetella pertussis Tohama I ATP synthase F0F1 subunit gamma NP_881829.1 3503104 D 257313 CDS NP_881830.1 33594186 2667372 3504052..3505452 1 NC_002929.2 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 3505452 atpD 2667372 atpD Bordetella pertussis Tohama I ATP synthase F0F1 subunit beta NP_881830.1 3504052 D 257313 CDS NP_881831.1 33594187 2667373 3505462..3505884 1 NC_002929.2 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 3505884 atpC 2667373 atpC Bordetella pertussis Tohama I ATP synthase F0F1 subunit epsilon NP_881831.1 3505462 D 257313 CDS NP_881832.1 33594188 2667374 3506067..3506951 1 NC_002929.2 hypothetical protein 3506951 2667374 BP3290 Bordetella pertussis Tohama I hypothetical protein NP_881832.1 3506067 D 257313 CDS NP_881833.1 33594189 2667375 3507027..3508103 1 NC_002929.2 catalyzes the formation of coproporphyrinogen from uroporphyrinogen III; uroporphyrinogen decarboxylase 3508103 hemE 2667375 hemE Bordetella pertussis Tohama I uroporphyrinogen decarboxylase NP_881833.1 3507027 D 257313 CDS NP_881834.1 33594190 2667376 3508470..3510512 1 NC_002929.2 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 3510512 2667376 BP3292 Bordetella pertussis Tohama I primosomal protein NP_881834.1 3508470 D 257313 CDS NP_881835.1 33594191 2667377 3510555..3512624 1 NC_002929.2 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 3512624 rep 2667377 rep Bordetella pertussis Tohama I ATP-dependent DNA helicase NP_881835.1 3510555 D 257313 CDS NP_881836.1 33594192 2667378 3512723..3513673 1 NC_002929.2 transposase for IS481 element; transposase 3513673 2667378 BP3294 Bordetella pertussis Tohama I transposase NP_881836.1 3512723 D 257313 CDS NP_881837.1 33594193 2667379 complement(3513802..3514935) 1 NC_002929.2 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 3514935 2667379 BP3295 Bordetella pertussis Tohama I peptidase NP_881837.1 3513802 R 257313 CDS NP_881838.1 33594194 2667380 complement(3514979..3515884) 1 NC_002929.2 hypothetical protein 3515884 2667380 BP3296 Bordetella pertussis Tohama I hypothetical protein NP_881838.1 3514979 R 257313 CDS NP_881839.1 33594195 2667382 complement(3517584..3518504) 1 NC_002929.2 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 3518504 2667382 BP3298 Bordetella pertussis Tohama I binding-protein-dependent transport permease NP_881839.1 3517584 R 257313 CDS NP_881840.1 33594196 2667383 complement(3518512..3519489) 1 NC_002929.2 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 3519489 2667383 BP3299 Bordetella pertussis Tohama I binding-protein-dependent transport permease NP_881840.1 3518512 R 257313 CDS NP_881841.1 33594197 2667384 complement(3519548..3520582) 1 NC_002929.2 hypothetical protein 3520582 2667384 BP3300 Bordetella pertussis Tohama I hypothetical protein NP_881841.1 3519548 R 257313 CDS NP_881842.1 33594198 2667386 complement(3522557..3522793) 1 NC_002929.2 hypothetical protein 3522793 2667386 BP3302 Bordetella pertussis Tohama I hypothetical protein NP_881842.1 3522557 R 257313 CDS NP_881843.1 33594199 2667387 complement(3522920..3523783) 1 NC_002929.2 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 3523783 2667387 BP3303 Bordetella pertussis Tohama I hypothetical protein NP_881843.1 3522920 R 257313 CDS NP_881844.1 33594200 2667388 3523872..3524693 1 NC_002929.2 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA; enoyl-CoA hydratase 3524693 2667388 BP3304 Bordetella pertussis Tohama I enoyl-CoA hydratase NP_881844.1 3523872 D 257313 CDS NP_881845.1 33594201 2666472 complement(3524773..3525510) 1 NC_002929.2 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 3525510 2666472 BP3305 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase NP_881845.1 3524773 R 257313 CDS NP_881846.1 33594202 2666473 complement(3525507..3526499) 1 NC_002929.2 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 3526499 2666473 BP3306 Bordetella pertussis Tohama I hypothetical protein NP_881846.1 3525507 R 257313 CDS NP_881847.1 33594203 2666474 3526652..3527275 1 NC_002929.2 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 3527275 2666474 BP3307 Bordetella pertussis Tohama I TetR family transcriptional repressor NP_881847.1 3526652 D 257313 CDS NP_881848.1 33594204 2666475 3527320..3528468 1 NC_002929.2 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 3528468 2666475 BP3308 Bordetella pertussis Tohama I acyl-CoA dehydrogenase NP_881848.1 3527320 D 257313 CDS NP_881849.1 33594205 2666466 3530792..3531742 1 NC_002929.2 transposase for IS481 element; transposase 3531742 2666466 BP3311 Bordetella pertussis Tohama I transposase NP_881849.1 3530792 D 257313 CDS NP_881850.1 33594206 2666467 3532083..3533033 1 NC_002929.2 transposase for IS1002 element; transposase 3533033 2666467 BP3312 Bordetella pertussis Tohama I transposase NP_881850.1 3532083 D 257313 CDS NP_881851.1 33594207 2666468 3533132..3534082 1 NC_002929.2 transposase for IS481 element; transposase 3534082 2666468 BP3313 Bordetella pertussis Tohama I transposase NP_881851.1 3533132 D 257313 CDS NP_881852.1 33594208 2666953 3534349..3534876 1 NC_002929.2 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 3534876 2666953 BP3314 Bordetella pertussis Tohama I blue copper protein NP_881852.1 3534349 D 257313 CDS NP_881853.1 33594209 2666954 3534919..3536694 1 NC_002929.2 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 3536694 copA 2666954 copA Bordetella pertussis Tohama I copper resitance protein NP_881853.1 3534919 D 257313 CDS NP_881854.1 33594210 2666958 3536702..3537568 1 NC_002929.2 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 3537568 copB 2666958 copB Bordetella pertussis Tohama I copper resistance protein NP_881854.1 3536702 D 257313 CDS NP_881855.1 33594211 2666959 complement(3537575..3538300) 1 NC_002929.2 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 3538300 2666959 BP3317 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase NP_881855.1 3537575 R 257313 CDS NP_881856.1 33594212 2666109 complement(3539479..3540273) 1 NC_002929.2 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 3540273 2666109 BP3319 Bordetella pertussis Tohama I IclR family transcriptional regulator NP_881856.1 3539479 R 257313 CDS NP_881857.1 33594213 2666110 3540563..3541153 1 NC_002929.2 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 3541153 2666110 BP3320 Bordetella pertussis Tohama I hypothetical protein NP_881857.1 3540563 D 257313 CDS NP_881858.1 33594214 2666111 complement(3541187..3542515) 1 NC_002929.2 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 3542515 2666111 BP3321 Bordetella pertussis Tohama I amidase NP_881858.1 3541187 R 257313 CDS NP_881859.1 33594215 2666112 complement(3542590..3543735) 1 NC_002929.2 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 3543735 2666112 BP3322 Bordetella pertussis Tohama I binding-protein-dependent transport protein NP_881859.1 3542590 R 257313 CDS NP_881860.1 33594216 2666113 3543847..3544797 1 NC_002929.2 transposase for IS481 element; transposase 3544797 2666113 BP3323 Bordetella pertussis Tohama I transposase NP_881860.1 3543847 D 257313 CDS NP_881861.1 33594217 2666115 3545529..3545906 1 NC_002929.2 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 3545906 phhB 2666115 phhB Bordetella pertussis Tohama I pterin-4-alpha-carbinolamine dehydratase NP_881861.1 3545529 D 257313 CDS NP_881862.1 33594218 2666409 complement(3545891..3546592) 1 NC_002929.2 hypothetical protein 3546592 2666409 BP3326 Bordetella pertussis Tohama I hypothetical protein NP_881862.1 3545891 R 257313 CDS NP_881863.1 33594219 2666410 complement(3546736..3547428) 1 NC_002929.2 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 3547428 2666410 BP3327 Bordetella pertussis Tohama I nucleotidyl transferase NP_881863.1 3546736 R 257313 CDS NP_881864.1 33594220 2666411 complement(3547428..3548531) 1 NC_002929.2 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 3548531 2666411 BP3328 Bordetella pertussis Tohama I hypothetical protein NP_881864.1 3547428 R 257313 CDS NP_881865.1 33594221 2666412 3548641..3551013 1 NC_002929.2 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 3551013 2666412 BP3329 Bordetella pertussis Tohama I outer membrane (permeability) protein NP_881865.1 3548641 D 257313 CDS NP_881866.1 33594222 2666413 3551010..3552569 1 NC_002929.2 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 3552569 2666413 BP3330 Bordetella pertussis Tohama I peptidyl-prolyl cis-trans isomerase NP_881866.1 3551010 D 257313 CDS NP_881867.1 33594223 2666417 3552594..3553391 1 NC_002929.2 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 3553391 ksgA 2666417 ksgA Bordetella pertussis Tohama I dimethyladenosine transferase NP_881867.1 3552594 D 257313 CDS NP_881868.1 33594224 2666418 complement(3553423..3554568) 1 NC_002929.2 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 3554568 garK 2666418 garK Bordetella pertussis Tohama I glycerate kinase NP_881868.1 3553423 R 257313 CDS NP_881869.1 33594225 2666419 3554649..3556115 1 NC_002929.2 catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase 3556115 pykA 2666419 pykA Bordetella pertussis Tohama I pyruvate kinase NP_881869.1 3554649 D 257313 CDS NP_881870.1 33594226 2666420 complement(3556118..3557347) 1 NC_002929.2 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 3557347 2666420 BP3334 Bordetella pertussis Tohama I hypothetical protein NP_881870.1 3556118 R 257313 CDS NP_881871.1 33594227 2666414 complement(3559485..3560435) 1 NC_002929.2 transposase for IS481 element; transposase 3560435 2666414 BP3336 Bordetella pertussis Tohama I transposase NP_881871.1 3559485 R 257313 CDS NP_881872.1 33594228 2666407 complement(3562617..3563411) 1 NC_002929.2 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 3563411 2666407 BP3339 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881872.1 3562617 R 257313 CDS NP_881873.1 33594229 2666408 complement(3563408..3564457) 1 NC_002929.2 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 3564457 2666408 BP3340 Bordetella pertussis Tohama I ABC transporter permease NP_881873.1 3563408 R 257313 CDS NP_881874.1 33594230 2666266 complement(3564457..3565146) 1 NC_002929.2 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 3565146 2666266 BP3341 Bordetella pertussis Tohama I hypothetical protein NP_881874.1 3564457 R 257313 CDS NP_881875.1 33594231 2666267 complement(3565233..3565730) 1 NC_002929.2 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 3565730 2666267 BP3342 Bordetella pertussis Tohama I peptidoglycan-associated lipoprotein NP_881875.1 3565233 R 257313 CDS NP_881876.1 33594232 2666268 complement(3565762..3567078) 1 NC_002929.2 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 3567078 tolB 2666268 tolB Bordetella pertussis Tohama I translocation protein TolB NP_881876.1 3565762 R 257313 CDS NP_881877.1 33594233 2666269 complement(3567095..3568069) 1 NC_002929.2 No significant database matches. Contains possible coiled-coil region at residues 131-202.; proline-rich inner membrane protein 3568069 2666269 BP3344 Bordetella pertussis Tohama I proline-rich inner membrane protein NP_881877.1 3567095 R 257313 CDS NP_881878.1 33594234 2666270 complement(3568106..3568564) 1 NC_002929.2 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 3568564 2666270 BP3345 Bordetella pertussis Tohama I TolR-like translocation protein NP_881878.1 3568106 R 257313 CDS NP_881879.1 33594235 2666271 complement(3568564..3569244) 1 NC_002929.2 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 3569244 2666271 BP3346 Bordetella pertussis Tohama I TolQ-like translocation protein NP_881879.1 3568564 R 257313 CDS NP_881880.1 33594236 2666244 complement(3569247..3569675) 1 NC_002929.2 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 3569675 2666244 BP3347 Bordetella pertussis Tohama I hypothetical protein NP_881880.1 3569247 R 257313 CDS NP_881881.1 33594237 2666245 complement(3569728..3571458) 1 NC_002929.2 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro); prolyl-tRNA synthetase 3571458 proS 2666245 proS Bordetella pertussis Tohama I prolyl-tRNA synthetase NP_881881.1 3569728 R 257313 CDS NP_881882.1 33594238 2666246 3571524..3572096 1 NC_002929.2 hydrolyzes diadenosine polyphosphate; dinucleoside polyphosphate hydrolase 3572096 nudH 2666246 nudH Bordetella pertussis Tohama I dinucleoside polyphosphate hydrolase NP_881882.1 3571524 D 257313 CDS NP_881883.1 33594239 2666287 3572077..3572763 1 NC_002929.2 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 3572763 2666287 BP3350 Bordetella pertussis Tohama I two component response regulator NP_881883.1 3572077 D 257313 CDS NP_881885.1 33594241 2666289 3573119..3573790 1 NC_002929.2 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 3573790 2666289 BP3352 Bordetella pertussis Tohama I hypothetical protein NP_881885.1 3573119 D 257313 CDS NP_881886.1 33594242 2666290 3574119..3574340 1 NC_002929.2 no significant database matches.; phage-like hypothetical protein 3574340 2666290 BP3353 Bordetella pertussis Tohama I phage-like hypothetical protein NP_881886.1 3574119 D 257313 CDS NP_881887.1 33594243 2666291 3574340..3574621 1 NC_002929.2 no significant database matches; hypothetical protein 3574621 2666291 BP3354 Bordetella pertussis Tohama I hypothetical protein NP_881887.1 3574340 D 257313 CDS NP_881888.1 33594244 2666292 complement(3574618..3575133) 1 NC_002929.2 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 3575133 2666292 BP3355 Bordetella pertussis Tohama I hypothetical protein NP_881888.1 3574618 R 257313 CDS NP_881889.1 33594245 2666293 complement(3575133..3575684) 1 NC_002929.2 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 3575684 2666293 BP3356 Bordetella pertussis Tohama I phage lysozyme NP_881889.1 3575133 R 257313 CDS NP_881890.1 33594246 2666294 complement(3575663..3575905) 1 NC_002929.2 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 3575905 2666294 BP3357 Bordetella pertussis Tohama I hypothetical protein NP_881890.1 3575663 R 257313 CDS NP_881891.1 33594247 2666295 complement(3575910..3576722) 1 NC_002929.2 no significant database matches; hypothetical protein 3576722 2666295 BP3358 Bordetella pertussis Tohama I hypothetical protein NP_881891.1 3575910 R 257313 CDS NP_881892.1 33594248 2666296 complement(3576722..3576982) 1 NC_002929.2 no significant database matches; hypothetical protein 3576982 2666296 BP3359 Bordetella pertussis Tohama I hypothetical protein NP_881892.1 3576722 R 257313 CDS NP_881893.1 33594249 2666297 complement(3577204..3577620) 1 NC_002929.2 no significant database matches; hypothetical protein 3577620 2666297 BP3361 Bordetella pertussis Tohama I hypothetical protein NP_881893.1 3577204 R 257313 CDS NP_881894.1 33594250 2666298 complement(3577625..3581581) 1 NC_002929.2 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 3581581 2666298 BP3362 Bordetella pertussis Tohama I hypothetical protein NP_881894.1 3577625 R 257313 CDS NP_881895.1 33594251 2666299 complement(3581574..3581963) 1 NC_002929.2 Similar to Bacteriophage D3 Orf25 TR:Q9MC96 (EMBL:AF165214) (135 aa) fasta scores: E(): 0.0012, 32.03% id in 128 aa; hypothetical protein 3581963 2666299 BP3363 Bordetella pertussis Tohama I hypothetical protein NP_881895.1 3581574 R 257313 CDS NP_881896.1 33594252 2666300 complement(3581960..3582493) 1 NC_002929.2 Similar to Bacteriophage D3 Orf22 TR:Q9MC99 (EMBL:AF165214) (163 aa) fasta scores: E(): 0.41, 23.12% id in 173 aa; hypothetical protein 3582493 2666300 BP3364 Bordetella pertussis Tohama I hypothetical protein NP_881896.1 3581960 R 257313 CDS NP_881897.1 33594253 2666301 complement(3582561..3582920) 1 NC_002929.2 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 3582920 2666301 BP3365 Bordetella pertussis Tohama I hypothetical protein NP_881897.1 3582561 R 257313 CDS NP_881898.1 33594254 2666302 complement(3582930..3585542) 1 NC_002929.2 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 3585542 2666302 BP3366 Bordetella pertussis Tohama I phage tail protein NP_881898.1 3582930 R 257313 CDS NP_881899.1 33594255 2666303 complement(3585568..3585858) 1 NC_002929.2 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 3585858 2666303 BP3367 Bordetella pertussis Tohama I hypothetical protein NP_881899.1 3585568 R 257313 CDS NP_881900.1 33594256 2666304 complement(3585876..3586205) 1 NC_002929.2 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 3586205 2666304 BP3368 Bordetella pertussis Tohama I hypothetical protein NP_881900.1 3585876 R 257313 CDS NP_881901.1 33594257 2666305 complement(3586215..3586733) 1 NC_002929.2 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 3586733 2666305 BP3369 Bordetella pertussis Tohama I hypothetical protein NP_881901.1 3586215 R 257313 CDS NP_881902.1 33594258 2666306 complement(3586988..3587488) 1 NC_002929.2 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 3587488 2666306 BP3370 Bordetella pertussis Tohama I hypothetical protein NP_881902.1 3586988 R 257313 CDS NP_881903.1 33594259 2666307 complement(3587496..3587918) 1 NC_002929.2 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 3587918 2666307 BP3371 Bordetella pertussis Tohama I hypothetical protein NP_881903.1 3587496 R 257313 CDS NP_881904.1 33594260 2666308 complement(3587915..3588313) 1 NC_002929.2 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 3588313 2666308 BP3372 Bordetella pertussis Tohama I hypothetical protein NP_881904.1 3587915 R 257313 CDS NP_881905.1 33594261 2666309 complement(3588310..3588705) 1 NC_002929.2 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 3588705 2666309 BP3373 Bordetella pertussis Tohama I hypothetical protein NP_881905.1 3588310 R 257313 CDS NP_881906.1 33594262 2666310 complement(3588705..3588905) 1 NC_002929.2 no significant database matches; hypothetical protein 3588905 2666310 BP3374 Bordetella pertussis Tohama I hypothetical protein NP_881906.1 3588705 R 257313 CDS NP_881907.1 33594263 2666311 complement(3588907..3589437) 1 NC_002929.2 hypothetical protein 3589437 2666311 BP3375 Bordetella pertussis Tohama I hypothetical protein NP_881907.1 3588907 R 257313 CDS NP_881908.1 33594264 2666312 complement(3589452..3589703) 1 NC_002929.2 hypothetical protein 3589703 2666312 BP3376 Bordetella pertussis Tohama I hypothetical protein NP_881908.1 3589452 R 257313 CDS NP_881909.1 33594265 2666449 complement(3591757..3592359) 1 NC_002929.2 hypothetical protein 3592359 2666449 BP3380 Bordetella pertussis Tohama I hypothetical protein NP_881909.1 3591757 R 257313 CDS NP_881910.1 33594266 2666450 complement(3592482..3592724) 1 NC_002929.2 hypothetical protein 3592724 2666450 BP3381 Bordetella pertussis Tohama I hypothetical protein NP_881910.1 3592482 R 257313 CDS NP_881911.1 33594267 2666451 complement(3592730..3593785) 1 NC_002929.2 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 3593785 2666451 BP3382 Bordetella pertussis Tohama I hypothetical protein NP_881911.1 3592730 R 257313 CDS NP_881912.1 33594268 2666452 complement(3593814..3595232) 1 NC_002929.2 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 3595232 2666452 BP3383 Bordetella pertussis Tohama I hypothetical protein NP_881912.1 3593814 R 257313 CDS NP_881913.1 33594269 2666453 complement(3595235..3596512) 1 NC_002929.2 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 3596512 2666453 BP3384 Bordetella pertussis Tohama I phage terminase NP_881913.1 3595235 R 257313 CDS NP_881914.1 33594270 2666454 complement(3596499..3596948) 1 NC_002929.2 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 3596948 2666454 BP3385 Bordetella pertussis Tohama I hypothetical protein NP_881914.1 3596499 R 257313 CDS NP_881915.1 33594271 2666455 complement(3597624..3598574) 1 NC_002929.2 transposase for IS481 element; transposase 3598574 2666455 BP3386 Bordetella pertussis Tohama I transposase NP_881915.1 3597624 R 257313 CDS NP_881916.1 33594272 2666457 3598828..3599526 1 NC_002929.2 no significant database matches; phage-related membrane protein 3599526 2666457 BP3388 Bordetella pertussis Tohama I phage-related membrane protein NP_881916.1 3598828 D 257313 CDS NP_881917.1 33594273 2666458 3599519..3599839 1 NC_002929.2 no significant database matches; hypothetical protein 3599839 2666458 BP3389 Bordetella pertussis Tohama I hypothetical protein NP_881917.1 3599519 D 257313 CDS NP_881918.1 33594274 2666459 3600319..3600930 1 NC_002929.2 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 3600930 2666459 BP3390 Bordetella pertussis Tohama I phage repressor protein NP_881918.1 3600319 D 257313 CDS NP_881919.1 33594275 2666460 3600996..3601208 1 NC_002929.2 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 3601208 2666460 BP3391 Bordetella pertussis Tohama I hypothetical protein NP_881919.1 3600996 D 257313 CDS NP_881920.1 33594276 2666461 complement(3601460..3602410) 1 NC_002929.2 transposase for IS481 element; transposase 3602410 2666461 BP3392 Bordetella pertussis Tohama I transposase NP_881920.1 3601460 R 257313 CDS NP_881921.1 33594277 2666462 complement(3602509..3603309) 1 NC_002929.2 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 3603309 2666462 BP3393 Bordetella pertussis Tohama I hypothetical protein NP_881921.1 3602509 R 257313 CDS NP_881922.1 33594278 2666463 3603308..3603754 1 NC_002929.2 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 3603754 2666463 BP3394 Bordetella pertussis Tohama I hypothetical protein NP_881922.1 3603308 D 257313 CDS NP_881923.1 33594279 2666464 complement(3603766..3605199) 1 NC_002929.2 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 3605199 2666464 BP3395 Bordetella pertussis Tohama I ATP-dependent RNA helicase NP_881923.1 3603766 R 257313 CDS NP_881924.1 33594280 2666465 complement(3605406..3605735) 1 NC_002929.2 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 3605735 2666465 BP3396 Bordetella pertussis Tohama I hypothetical protein NP_881924.1 3605406 R 257313 CDS NP_881925.1 33594281 2667067 complement(3605738..3606487) 1 NC_002929.2 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 3606487 2667067 BP3397 Bordetella pertussis Tohama I hypothetical protein NP_881925.1 3605738 R 257313 CDS NP_881926.1 33594282 2667068 3606670..3607590 1 NC_002929.2 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids; branched-chain amino acid aminotransferase 3607590 ilvE 2667068 ilvE Bordetella pertussis Tohama I branched-chain amino acid aminotransferase NP_881926.1 3606670 D 257313 CDS NP_881927.1 33594283 2667069 3607637..3607849 1 NC_002929.2 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 3607849 2667069 BP3399 Bordetella pertussis Tohama I hypothetical protein NP_881927.1 3607637 D 257313 CDS NP_881928.1 33594284 2667070 3607872..3608294 1 NC_002929.2 hypothetical protein 3608294 2667070 BP3400 Bordetella pertussis Tohama I hypothetical protein NP_881928.1 3607872 D 257313 CDS NP_881929.1 33594285 2667071 3608311..3609411 1 NC_002929.2 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 3609411 2667071 BP3401 Bordetella pertussis Tohama I hypothetical protein NP_881929.1 3608311 D 257313 CDS NP_881930.1 33594286 2667072 complement(3609508..3611025) 1 NC_002929.2 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 3611025 2667072 BP3402 Bordetella pertussis Tohama I hypothetical protein NP_881930.1 3609508 R 257313 CDS NP_881931.1 33594287 2667073 3611032..3611940 1 NC_002929.2 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 3611940 2667073 BP3403 Bordetella pertussis Tohama I UTP-glucose-1-phosphate uridylyltransferase NP_881931.1 3611032 D 257313 CDS NP_881932.1 33594288 2667074 complement(3611962..3612843) 1 NC_002929.2 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 3612843 2667074 BP3404 Bordetella pertussis Tohama I hypothetical protein NP_881932.1 3611962 R 257313 CDS NP_881933.1 33594289 2667075 complement(3612925..3614019) 1 NC_002929.2 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 3614019 ompQ 2667075 ompQ Bordetella pertussis Tohama I outer membrane porin protein OmpQ NP_881933.1 3612925 R 257313 CDS NP_881934.1 33594290 2667077 complement(3614313..3615263) 1 NC_002929.2 transposase for IS481 element; transposase 3615263 2667077 BP3406 Bordetella pertussis Tohama I transposase NP_881934.1 3614313 R 257313 CDS NP_881935.1 33594291 2666179 3616378..3617328 1 NC_002929.2 transposase for IS481 element; transposase 3617328 2666179 BP3408 Bordetella pertussis Tohama I transposase NP_881935.1 3616378 D 257313 CDS NP_881936.1 33594292 2666469 complement(3617412..3617771) 1 NC_002929.2 hypothetical protein 3617771 2666469 BP3409 Bordetella pertussis Tohama I hypothetical protein NP_881936.1 3617412 R 257313 CDS NP_881937.1 33594293 2666470 complement(3618153..3619190) 1 NC_002929.2 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 3619190 2666470 BP3410 Bordetella pertussis Tohama I hypothetical protein NP_881937.1 3618153 R 257313 CDS NP_881938.1 33594294 2666471 3619507..3620847 1 NC_002929.2 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 3620847 2666471 BP3411 Bordetella pertussis Tohama I Xaa-Pro aminopeptidase NP_881938.1 3619507 D 257313 CDS NP_881939.1 33594295 2666836 complement(3620857..3621309) 1 NC_002929.2 hypothetical protein 3621309 2666836 BP3412 Bordetella pertussis Tohama I hypothetical protein NP_881939.1 3620857 R 257313 CDS NP_881940.1 33594296 2666837 3621406..3622587 1 NC_002929.2 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 3622587 2666837 BP3413 Bordetella pertussis Tohama I hypothetical protein NP_881940.1 3621406 D 257313 CDS NP_881941.1 33594297 2666838 3622647..3623678 1 NC_002929.2 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 3623678 2666838 BP3414 Bordetella pertussis Tohama I hypothetical protein NP_881941.1 3622647 D 257313 CDS NP_881942.1 33594298 2666839 3623719..3623958 1 NC_002929.2 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 3623958 fis 2666839 fis Bordetella pertussis Tohama I DNA-binding protein NP_881942.1 3623719 D 257313 CDS NP_881943.1 33594299 2666840 3624028..3625617 1 NC_002929.2 involved in de novo purine biosynthesis; bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase 3625617 purH 2666840 purH Bordetella pertussis Tohama I bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase NP_881943.1 3624028 D 257313 CDS NP_881944.1 33594300 2666841 3625617..3626165 1 NC_002929.2 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 3626165 ruvC 2666841 ruvC Bordetella pertussis Tohama I Holliday junction resolvase NP_881944.1 3625617 D 257313 CDS NP_881945.1 33594301 2665635 3626246..3626818 1 NC_002929.2 plays an essential role in ATP-dependent branch migration of the Holliday junction; Holliday junction DNA helicase RuvA 3626818 ruvA 2665635 ruvA Bordetella pertussis Tohama I Holliday junction DNA helicase RuvA NP_881945.1 3626246 D 257313 CDS NP_881946.1 33594302 2665636 complement(3626837..3627748) 1 NC_002929.2 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 3627748 2665636 BP3419 Bordetella pertussis Tohama I hypothetical protein NP_881946.1 3626837 R 257313 CDS NP_881947.1 33594303 2665637 complement(3627822..3628790) 1 NC_002929.2 catalyzes the formation of 2-oxobutanoate from L-threonine or the formation of pyruvate from serine; serine/threonine dehydratase 3628790 2665637 BP3420 Bordetella pertussis Tohama I serine/threonine dehydratase NP_881947.1 3627822 R 257313 CDS NP_881948.1 33594304 2665638 3628913..3629986 1 NC_002929.2 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 3629986 ruvB 2665638 ruvB Bordetella pertussis Tohama I Holliday junction DNA helicase RuvB NP_881948.1 3628913 D 257313 CDS NP_881949.1 33594305 2666767 complement(3629991..3631811) 1 NC_002929.2 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 3631811 2666767 BP3422 Bordetella pertussis Tohama I ATP-dependent DNA helicase NP_881949.1 3629991 R 257313 CDS NP_881950.1 33594306 2666768 complement(3631888..3632838) 1 NC_002929.2 transposase for IS481 element; transposase 3632838 2666768 BP3423 Bordetella pertussis Tohama I transposase NP_881950.1 3631888 R 257313 CDS NP_881951.1 33594307 2666773 3633396..3634046 1 NC_002929.2 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 3634046 2666773 BP3425 Bordetella pertussis Tohama I carbonic anhydrase NP_881951.1 3633396 D 257313 CDS NP_881952.1 33594308 2666774 complement(3634068..3635486) 1 NC_002929.2 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 3635486 2666774 BP3426 Bordetella pertussis Tohama I amidase NP_881952.1 3634068 R 257313 CDS NP_881955.1 33594311 2666771 3637049..3637930 1 NC_002929.2 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 3637930 2666771 BP3429 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_881955.1 3637049 D 257313 CDS NP_881956.1 33594312 2666594 3637947..3638654 1 NC_002929.2 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 3638654 2666594 BP3430 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter ATP-binding protein NP_881956.1 3637947 D 257313 CDS NP_881957.1 33594313 2666595 3638657..3639415 1 NC_002929.2 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 3639415 2666595 BP3431 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter ATP-binding protein NP_881957.1 3638657 D 257313 CDS NP_881958.1 33594314 2666024 3639625..3641367 1 NC_002929.2 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 3641367 cysI 2666024 cysI Bordetella pertussis Tohama I sulfite reductase NP_881958.1 3639625 D 257313 CDS NP_881959.1 33594315 2666025 3641360..3641884 1 NC_002929.2 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 3641884 2666025 BP3433 Bordetella pertussis Tohama I hypothetical protein NP_881959.1 3641360 D 257313 CDS NP_881960.1 33594316 2666026 complement(3641924..3642718) 1 NC_002929.2 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 3642718 2666026 BP3434 Bordetella pertussis Tohama I hypothetical protein NP_881960.1 3641924 R 257313 CDS NP_881961.1 33594317 2666027 3642865..3643959 1 NC_002929.2 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 3643959 2666027 BP3435 Bordetella pertussis Tohama I hypothetical protein NP_881961.1 3642865 D 257313 CDS NP_881962.1 33594318 2666032 3644058..3645008 1 NC_002929.2 transposase for IS481 element; transposase 3645008 2666032 BP3436 Bordetella pertussis Tohama I transposase NP_881962.1 3644058 D 257313 CDS NP_881963.1 33594319 2666033 3645064..3645876 1 NC_002929.2 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 3645876 2666033 BP3437 Bordetella pertussis Tohama I hypothetical protein NP_881963.1 3645064 D 257313 CDS NP_881964.1 33594320 2666034 3646035..3646883 1 NC_002929.2 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 3646883 2666034 BP3438 Bordetella pertussis Tohama I IclR family transcriptional regulator NP_881964.1 3646035 D 257313 CDS NP_881965.1 33594321 2666936 3647084..3651478 1 NC_002929.2 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 3651478 dnt 2666936 dnt Bordetella pertussis Tohama I dermonecrotic toxin NP_881965.1 3647084 D 257313 CDS NP_881966.1 33594322 2666937 complement(3651572..3652549) 1 NC_002929.2 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 3652549 2666937 BP3440 Bordetella pertussis Tohama I hypothetical protein NP_881966.1 3651572 R 257313 CDS NP_881967.1 33594323 2666938 3652936..3653514 1 NC_002929.2 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 3653514 2666938 BP3441 Bordetella pertussis Tohama I hypothetical protein NP_881967.1 3652936 D 257313 CDS NP_881968.1 33594324 2666939 complement(3653662..3654711) 1 NC_002929.2 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 3654711 pyrD 2666939 pyrD Bordetella pertussis Tohama I dihydroorotate dehydrogenase 2 NP_881968.1 3653662 R 257313 CDS NP_881969.1 33594325 2666940 complement(3654752..3655486) 1 NC_002929.2 Conjugates Arg from its aminoacyl-tRNA to the N-termini of proteins containing an N-terminal aspartate or glutamate; arginyl-tRNA-protein transferase 3655486 2666940 BP3443 Bordetella pertussis Tohama I arginyl-tRNA-protein transferase NP_881969.1 3654752 R 257313 CDS NP_881970.1 33594326 2666942 complement(3656281..3656862) 1 NC_002929.2 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 3656862 2666942 BP3445 Bordetella pertussis Tohama I NUDIX hydrolase NP_881970.1 3656281 R 257313 CDS NP_881971.1 33594327 2666943 complement(3656859..3657770) 1 NC_002929.2 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 3657770 2666943 BP3446 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881971.1 3656859 R 257313 CDS NP_881972.1 33594328 2666944 3657886..3658287 1 NC_002929.2 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 3658287 2666944 BP3447 Bordetella pertussis Tohama I hypothetical protein NP_881972.1 3657886 D 257313 CDS NP_881973.1 33594329 2666945 complement(3658305..3658907) 1 NC_002929.2 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 3658907 2666945 BP3448 Bordetella pertussis Tohama I hypothetical protein NP_881973.1 3658305 R 257313 CDS NP_881974.1 33594330 2666946 complement(3658965..3659348) 1 NC_002929.2 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 3659348 2666946 BP3449 Bordetella pertussis Tohama I hypothetical protein NP_881974.1 3658965 R 257313 CDS NP_881975.1 33594331 2666948 complement(3660047..3660997) 1 NC_002929.2 transposase for IS481 element; transposase 3660997 2666948 BP3451 Bordetella pertussis Tohama I transposase NP_881975.1 3660047 R 257313 CDS NP_881976.1 33594332 2666949 complement(3661146..3661856) 1 NC_002929.2 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 3661856 2666949 BP3452 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_881976.1 3661146 R 257313 CDS NP_881977.1 33594333 2666950 complement(3661928..3663589) 1 NC_002929.2 catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; also known as acetolactate synthase large subunit; thiamine pyrophosphate protein 3663589 2666950 BP3453 Bordetella pertussis Tohama I thiamine pyrophosphate protein NP_881977.1 3661928 R 257313 CDS NP_881978.1 33594334 2666951 complement(3663664..3664629) 1 NC_002929.2 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 3664629 2666951 BP3454 Bordetella pertussis Tohama I lipoprotein NP_881978.1 3663664 R 257313 CDS NP_881979.1 33594335 2666952 complement(3664684..3665592) 1 NC_002929.2 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 3665592 2666952 BP3455 Bordetella pertussis Tohama I taurine dioxygenase NP_881979.1 3664684 R 257313 CDS NP_881980.1 33594336 2664806 complement(3665898..3668186) 1 NC_002929.2 catalyzes the oxidative decarboxylation of malate to form pyruvate; malic enzyme 3668186 maeB 2664806 maeB Bordetella pertussis Tohama I malic enzyme NP_881980.1 3665898 R 257313 CDS NP_881981.1 33594337 2664807 3668328..3669299 1 NC_002929.2 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 3669299 2664807 BP3457 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881981.1 3668328 D 257313 CDS NP_881982.1 33594338 2664808 3669551..3670492 1 NC_002929.2 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 3670492 2664808 BP3458 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_881982.1 3669551 D 257313 CDS NP_881983.1 33594339 2664809 3670492..3671325 1 NC_002929.2 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 3671325 2664809 BP3459 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_881983.1 3670492 D 257313 CDS NP_881984.1 33594340 2664810 3671329..3673179 1 NC_002929.2 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 3673179 2664810 BP3460 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_881984.1 3671329 D 257313 CDS NP_881985.1 33594341 2664812 3674859..3676394 1 NC_002929.2 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 3676394 2664812 BP3462 Bordetella pertussis Tohama I hypothetical protein NP_881985.1 3674859 D 257313 CDS NP_881986.1 33594342 2664813 complement(3676488..3677429) 1 NC_002929.2 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 3677429 2664813 BP3463 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_881986.1 3676488 R 257313 CDS NP_881987.1 33594343 2664814 3677540..3678340 1 NC_002929.2 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 3678340 2664814 BP3464 Bordetella pertussis Tohama I hypothetical protein NP_881987.1 3677540 D 257313 CDS NP_881988.1 33594344 2664815 complement(3678402..3678908) 1 NC_002929.2 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 3678908 2664815 BP3465 Bordetella pertussis Tohama I hypothetical protein NP_881988.1 3678402 R 257313 CDS NP_881989.1 33594345 2664816 complement(3678905..3679243) 1 NC_002929.2 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 3679243 2664816 BP3466 Bordetella pertussis Tohama I ArsR family transcriptional regulator NP_881989.1 3678905 R 257313 CDS NP_881990.1 33594346 2664817 3679672..3682191 1 NC_002929.2 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 3682191 2664817 BP3467 Bordetella pertussis Tohama I hypothetical protein NP_881990.1 3679672 D 257313 CDS NP_881991.1 33594347 2664818 3682188..3682574 1 NC_002929.2 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 3682574 2664818 BP3468 Bordetella pertussis Tohama I hypothetical protein NP_881991.1 3682188 D 257313 CDS NP_881992.1 33594348 2664819 complement(3682582..3683715) 1 NC_002929.2 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 3683715 2664819 BP3469 Bordetella pertussis Tohama I transporter NP_881992.1 3682582 R 257313 CDS NP_881993.1 33594349 2664820 complement(3683779..3684030) 1 NC_002929.2 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 3684030 fdx 2664820 fdx Bordetella pertussis Tohama I ferredoxin NP_881993.1 3683779 R 257313 CDS NP_881994.1 33594350 2664821 complement(3684085..3684594) 1 NC_002929.2 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA; phosphopantetheine adenylyltransferase 3684594 coaD 2664821 coaD Bordetella pertussis Tohama I phosphopantetheine adenylyltransferase NP_881994.1 3684085 R 257313 CDS NP_881995.1 33594351 2664822 complement(3684615..3685235) 1 NC_002929.2 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 3685235 2664822 BP3472 Bordetella pertussis Tohama I hypothetical protein NP_881995.1 3684615 R 257313 CDS NP_881996.1 33594352 2664823 3685305..3686414 1 NC_002929.2 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 3686414 ftsY 2664823 ftsY Bordetella pertussis Tohama I cell division protein NP_881996.1 3685305 D 257313 CDS NP_881997.1 33594353 2664825 complement(3688242..3689063) 1 NC_002929.2 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 3689063 2664825 BP3476 Bordetella pertussis Tohama I binding-protein-dependent transport system permease NP_881997.1 3688242 R 257313 CDS NP_881998.1 33594354 2664826 complement(3689060..3689959) 1 NC_002929.2 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 3689959 2664826 BP3477 Bordetella pertussis Tohama I binding-protein-dependent transport system inner membrane protein NP_881998.1 3689060 R 257313 CDS NP_881999.1 33594355 2664828 complement(3690426..3691376) 1 NC_002929.2 transposase for IS481 element; transposase 3691376 2664828 BP3478 Bordetella pertussis Tohama I transposase NP_881999.1 3690426 R 257313 CDS NP_882000.1 33594356 2664829 complement(3691769..3692776) 1 NC_002929.2 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 3692776 2664829 BP3481 Bordetella pertussis Tohama I phosphonate ABC transporter substrate-binding protein NP_882000.1 3691769 R 257313 CDS NP_882001.1 33594357 2664830 complement(3692925..3693752) 1 NC_002929.2 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 3693752 2664830 BP3482 Bordetella pertussis Tohama I transcriptional regulator NP_882001.1 3692925 R 257313 CDS NP_882002.1 33594358 2664831 complement(3693758..3694555) 1 NC_002929.2 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 3694555 2664831 BP3483 Bordetella pertussis Tohama I haloacid dehalogenase NP_882002.1 3693758 R 257313 CDS NP_882003.1 33594359 2664832 3694701..3695876 1 NC_002929.2 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 3695876 ribB 2664832 ribB Bordetella pertussis Tohama I bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein NP_882003.1 3694701 D 257313 CDS NP_882004.1 33594360 2664833 3695890..3696411 1 NC_002929.2 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 3696411 ribH 2664833 ribH Bordetella pertussis Tohama I 6,7-dimethyl-8-ribityllumazine synthase NP_882004.1 3695890 D 257313 CDS NP_882005.1 33594361 2664834 3696419..3696883 1 NC_002929.2 Regulates rRNA biosynthesis by transcriptional antitermination; transcription antitermination protein NusB 3696883 nusB 2664834 nusB Bordetella pertussis Tohama I transcription antitermination protein NusB NP_882005.1 3696419 D 257313 CDS NP_882006.1 33594362 2664835 3696923..3697939 1 NC_002929.2 catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP; thiamine monophosphate kinase 3697939 thiL 2664835 thiL Bordetella pertussis Tohama I thiamine monophosphate kinase NP_882006.1 3696923 D 257313 CDS NP_882007.1 33594363 2664836 3697972..3698478 1 NC_002929.2 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 3698478 2664836 BP3488 Bordetella pertussis Tohama I phosphatidylglycerophosphatase NP_882007.1 3697972 D 257313 CDS NP_882008.1 33594364 2664837 3698475..3699041 1 NC_002929.2 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 3699041 2664837 BP3489 Bordetella pertussis Tohama I hypothetical protein NP_882008.1 3698475 D 257313 CDS NP_882009.1 33594365 2664928 complement(3699179..3700000) 1 NC_002929.2 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 3700000 pyrF 2664928 pyrF Bordetella pertussis Tohama I orotidine 5'-phosphate decarboxylase NP_882009.1 3699179 R 257313 CDS NP_882010.1 33594366 2664929 complement(3700008..3701327) 1 NC_002929.2 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 3701327 ndh 2664929 ndh Bordetella pertussis Tohama I NADH dehydrogenase NP_882010.1 3700008 R 257313 CDS NP_882011.1 33594367 2664930 complement(3701378..3701776) 1 NC_002929.2 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 3701776 dgkA 2664930 dgkA Bordetella pertussis Tohama I diacylglycerol kinase NP_882011.1 3701378 R 257313 CDS NP_882012.1 33594368 2664891 complement(3701865..3702755) 1 NC_002929.2 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 3702755 brkB 2664891 brkB Bordetella pertussis Tohama I serum resistance protein NP_882012.1 3701865 R 257313 CDS NP_882013.1 33594369 2664892 3703057..3706089 1 NC_002929.2 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 3706089 brkA 2664892 brkA Bordetella pertussis Tohama I serum resistance protein NP_882013.1 3703057 D 257313 CDS NP_882014.1 33594370 2664893 complement(3706193..3707836) 1 NC_002929.2 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 3707836 groEL 2664893 groEL Bordetella pertussis Tohama I molecular chaperone GroEL NP_882014.1 3706193 R 257313 CDS NP_882015.1 33594371 2664894 complement(3707869..3708156) 1 NC_002929.2 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 3708156 groES 2664894 groES Bordetella pertussis Tohama I co-chaperonin GroES NP_882015.1 3707869 R 257313 CDS NP_882016.1 33594372 2664895 complement(3708490..3709119) 1 NC_002929.2 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 3709119 2664895 BP3497 Bordetella pertussis Tohama I hypothetical protein NP_882016.1 3708490 R 257313 CDS NP_882017.1 33594373 2664896 complement(3709116..3709817) 1 NC_002929.2 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 3709817 2664896 BP3498 Bordetella pertussis Tohama I hypothetical protein NP_882017.1 3709116 R 257313 CDS NP_882018.1 33594374 2664897 complement(3709866..3710501) 1 NC_002929.2 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 3710501 2664897 BP3499 Bordetella pertussis Tohama I hypothetical protein NP_882018.1 3709866 R 257313 CDS NP_882019.1 33594375 2664898 complement(3710545..3712254) 1 NC_002929.2 proposed role in polysaccahride synthesis; FAD-binding dehydrogenase 3712254 2664898 BP3500 Bordetella pertussis Tohama I FAD-binding dehydrogenase NP_882019.1 3710545 R 257313 CDS NP_882020.1 33594376 2664899 complement(3712316..3713266) 1 NC_002929.2 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 3713266 2664899 BP3501 Bordetella pertussis Tohama I hypothetical protein NP_882020.1 3712316 R 257313 CDS NP_882021.1 33594377 2664900 complement(3713872..3714885) 1 NC_002929.2 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 3714885 2664900 BP3503 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_882021.1 3713872 R 257313 CDS NP_882022.1 33594378 2664901 3714933..3716678 1 NC_002929.2 proposed role in polysaccahride synthesis; FAD-binding dehydrogenase 3716678 2664901 BP3504 Bordetella pertussis Tohama I FAD-binding dehydrogenase NP_882022.1 3714933 D 257313 CDS NP_882023.1 33594379 2664902 3716909..3717859 1 NC_002929.2 transposase for IS481 element; transposase 3717859 2664902 BP3505 Bordetella pertussis Tohama I transposase NP_882023.1 3716909 D 257313 CDS NP_882024.1 33594380 2664903 3717941..3718588 1 NC_002929.2 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 3718588 2664903 BP3506 Bordetella pertussis Tohama I hypothetical protein NP_882024.1 3717941 D 257313 CDS NP_882025.1 33594381 2664904 complement(3718603..3720030) 1 NC_002929.2 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 3720030 2664904 BP3507 Bordetella pertussis Tohama I hypothetical protein NP_882025.1 3718603 R 257313 CDS NP_882026.1 33594382 2664905 complement(3720196..3720801) 1 NC_002929.2 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 3720801 2664905 BP3508 Bordetella pertussis Tohama I hypothetical protein NP_882026.1 3720196 R 257313 CDS NP_882027.1 33594383 2664907 3721089..3722039 1 NC_002929.2 transposase for IS481 element; transposase 3722039 2664907 BP3510 Bordetella pertussis Tohama I transposase NP_882027.1 3721089 D 257313 CDS NP_882028.1 33594384 2664908 complement(3722231..3722497) 1 NC_002929.2 No significan database matches; hypothetical protein 3722497 2664908 BP3511 Bordetella pertussis Tohama I hypothetical protein NP_882028.1 3722231 R 257313 CDS NP_882029.1 33594385 2664909 3722863..3723063 1 NC_002929.2 hypothetical protein 3723063 2664909 BP3512 Bordetella pertussis Tohama I hypothetical protein NP_882029.1 3722863 D 257313 CDS NP_882030.1 33594386 2664910 3723080..3723337 1 NC_002929.2 hypothetical protein 3723337 2664910 BP3513 Bordetella pertussis Tohama I hypothetical protein NP_882030.1 3723080 D 257313 CDS NP_882031.1 33594387 2664912 complement(3724951..3725925) 1 NC_002929.2 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 3725925 2664912 BP3515 Bordetella pertussis Tohama I hypothetical protein NP_882031.1 3724951 R 257313 CDS NP_882032.1 33594388 2664913 3726257..3726856 1 NC_002929.2 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 3726856 2664913 BP3517 Bordetella pertussis Tohama I hypothetical protein NP_882032.1 3726257 D 257313 CDS NP_882033.1 33594389 2664914 3726844..3728274 1 NC_002929.2 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 3728274 2664914 BP3518 Bordetella pertussis Tohama I phospholipase D NP_882033.1 3726844 D 257313 CDS NP_882034.1 33594390 2664915 complement(3728284..3729234) 1 NC_002929.2 transposase for IS481 element; transposase 3729234 2664915 BP3519 Bordetella pertussis Tohama I transposase NP_882034.1 3728284 R 257313 CDS NP_882035.1 33594391 2664916 complement(3729333..3730283) 1 NC_002929.2 transposase for IS481 element; transposase 3730283 2664916 BP3520 Bordetella pertussis Tohama I transposase NP_882035.1 3729333 R 257313 CDS NP_882036.1 33594392 2664917 complement(3730382..3732043) 1 NC_002929.2 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 3732043 2664917 BP3521 Bordetella pertussis Tohama I hypothetical protein NP_882036.1 3730382 R 257313 CDS NP_882037.1 33594393 2664918 complement(3732119..3733426) 1 NC_002929.2 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 3733426 2664918 BP3522 Bordetella pertussis Tohama I hypothetical protein NP_882037.1 3732119 R 257313 CDS NP_882038.1 33594394 2664919 complement(3733487..3734434) 1 NC_002929.2 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 3734434 2664919 BP3523 Bordetella pertussis Tohama I hypothetical protein NP_882038.1 3733487 R 257313 CDS NP_882039.1 33594395 2664920 3734559..3735002 1 NC_002929.2 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 3735002 2664920 BP3524 Bordetella pertussis Tohama I acetyltransferase NP_882039.1 3734559 D 257313 CDS NP_882040.1 33594396 2666314 3735342..3735953 1 NC_002929.2 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 3735953 2666314 BP3525 Bordetella pertussis Tohama I hypothetical protein NP_882040.1 3735342 D 257313 CDS NP_882041.1 33594397 2666315 3736455..3738935 1 NC_002929.2 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 3738935 rnr 2666315 rnr Bordetella pertussis Tohama I ribonuclease R NP_882041.1 3736455 D 257313 CDS NP_882042.1 33594398 2666316 3739060..3739797 1 NC_002929.2 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 3739797 2666316 BP3527 Bordetella pertussis Tohama I tRNA/rRNA methyltransferase NP_882042.1 3739060 D 257313 CDS NP_882043.1 33594399 2666317 3739851..3741095 1 NC_002929.2 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 3741095 2666317 BP3528 Bordetella pertussis Tohama I hypothetical protein NP_882043.1 3739851 D 257313 CDS NP_882044.1 33594400 2666318 3741136..3741816 1 NC_002929.2 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 3741816 2666318 BP3529 Bordetella pertussis Tohama I hydroxylase NP_882044.1 3741136 D 257313 CDS NP_882045.1 33594401 2666319 3742137..3742409 1 NC_002929.2 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 3742409 hupB 2666319 hupB Bordetella pertussis Tohama I DNA-binding protein HU-beta NP_882045.1 3742137 D 257313 CDS NP_882046.1 33594402 2664931 3742906..3743706 1 NC_002929.2 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 3743706 tonB 2664931 tonB Bordetella pertussis Tohama I siderophore-mediated iron transport protein NP_882046.1 3742906 D 257313 CDS NP_882047.1 33594403 2664932 3743708..3744685 1 NC_002929.2 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 3744685 exbB 2664932 exbB Bordetella pertussis Tohama I MotA/TolQ/ExbB proton channel family protein NP_882047.1 3743708 D 257313 CDS NP_882048.1 33594404 2664921 3744685..3745152 1 NC_002929.2 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 3745152 exbD 2664921 exbD Bordetella pertussis Tohama I biopolymer transport protein ExbD/TolR NP_882048.1 3744685 D 257313 CDS NP_882049.1 33594405 2664922 3745235..3745906 1 NC_002929.2 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 3745906 basR 2664922 basR Bordetella pertussis Tohama I response regulator protein NP_882049.1 3745235 D 257313 CDS NP_882050.1 33594406 2664923 3745965..3747083 1 NC_002929.2 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 3747083 2664923 BP3535 Bordetella pertussis Tohama I sensor kinase NP_882050.1 3745965 D 257313 CDS NP_882051.1 33594407 2664933 3747080..3748990 1 NC_002929.2 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 3748990 kup 2664933 kup Bordetella pertussis Tohama I potassium uptake protein NP_882051.1 3747080 D 257313 CDS NP_882052.1 33594408 2664934 complement(3749075..3750412) 1 NC_002929.2 catalyzes the formation of arginosuccinate from citrulline and aspartate in arginine biosynthesis; argininosuccinate synthase 3750412 argG 2664934 argG Bordetella pertussis Tohama I argininosuccinate synthase NP_882052.1 3749075 R 257313 CDS NP_882053.1 33594409 2665146 complement(3750563..3751504) 1 NC_002929.2 catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation; ornithine carbamoyltransferase 3751504 argF 2665146 argF Bordetella pertussis Tohama I ornithine carbamoyltransferase NP_882053.1 3750563 R 257313 CDS NP_882054.1 33594410 2665147 complement(3751556..3752737) 1 NC_002929.2 catalyzes the formation of N-acetyl-l-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine; acetylornithine aminotransferase 3752737 argD 2665147 argD Bordetella pertussis Tohama I acetylornithine aminotransferase NP_882054.1 3751556 R 257313 CDS NP_882055.1 33594411 2665159 3752947..3753237 1 NC_002929.2 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 3753237 2665159 BP3540 Bordetella pertussis Tohama I hypothetical protein NP_882055.1 3752947 D 257313 CDS NP_882056.1 33594412 2665160 complement(3753242..3754150) 1 NC_002929.2 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 3754150 2665160 BP3541 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_882056.1 3753242 R 257313 CDS NP_882057.1 33594413 2665161 complement(3754262..3754987) 1 NC_002929.2 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 3754987 2665161 BP3542 Bordetella pertussis Tohama I short chain dehydrogenase NP_882057.1 3754262 R 257313 CDS NP_882058.1 33594414 2665162 complement(3755134..3756087) 1 NC_002929.2 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 3756087 2665162 BP3543 Bordetella pertussis Tohama I D-isomer specific 2-hydroxyacid dehydrogenase NP_882058.1 3755134 R 257313 CDS NP_882059.1 33594415 2665163 complement(3756190..3757161) 1 NC_002929.2 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 3757161 2665163 BP3544 Bordetella pertussis Tohama I lipoprotein NP_882059.1 3756190 R 257313 CDS NP_882060.1 33594416 2665164 complement(3757242..3757433) 1 NC_002929.2 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 3757433 2665164 BP3545 Bordetella pertussis Tohama I hypothetical protein NP_882060.1 3757242 R 257313 CDS NP_882061.1 33594417 2665165 3757641..3758558 1 NC_002929.2 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 3758558 2665165 BP3546 Bordetella pertussis Tohama I hypothetical protein NP_882061.1 3757641 D 257313 CDS NP_882062.1 33594418 2665166 3758555..3759391 1 NC_002929.2 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 3759391 2665166 BP3547 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_882062.1 3758555 D 257313 CDS NP_882063.1 33594419 2665167 3759490..3760440 1 NC_002929.2 transposase for IS481 element; transposase 3760440 2665167 BP3548 Bordetella pertussis Tohama I transposase NP_882063.1 3759490 D 257313 CDS NP_882064.1 33594420 2665169 3761747..3762574 1 NC_002929.2 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 3762574 2665169 BP3550 Bordetella pertussis Tohama I AraC family transcriptional regulator NP_882064.1 3761747 D 257313 CDS NP_882065.1 33594421 2665170 complement(3762642..3763160) 1 NC_002929.2 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 3763160 ahpD 2665170 ahpD Bordetella pertussis Tohama I antioxidant protein NP_882065.1 3762642 R 257313 CDS NP_882066.1 33594422 2665171 complement(3763216..3763764) 1 NC_002929.2 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 3763764 ahpC 2665171 ahpC Bordetella pertussis Tohama I alkyl hydroperoxide reductase NP_882066.1 3763216 R 257313 CDS NP_882067.1 33594423 2665173 complement(3765257..3765991) 1 NC_002929.2 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 3765991 ompR 2665173 ompR Bordetella pertussis Tohama I osmolarity response regulator NP_882067.1 3765257 R 257313 CDS NP_882068.1 33594424 2665174 3766121..3767368 1 NC_002929.2 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 3767368 2665174 BP3555 Bordetella pertussis Tohama I acetyltransferase NP_882068.1 3766121 D 257313 CDS NP_882069.1 33594425 2665175 3767355..3768251 1 NC_002929.2 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 3768251 2665175 BP3556 Bordetella pertussis Tohama I bacteriophage-related DNA polymerase NP_882069.1 3767355 D 257313 CDS NP_882070.1 33594426 2665176 complement(3768270..3769580) 1 NC_002929.2 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 3769580 2665176 BP3557 Bordetella pertussis Tohama I lysophospholipid transporter LplT NP_882070.1 3768270 R 257313 CDS NP_882071.1 33594427 2665177 3769843..3773370 1 NC_002929.2 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 3773370 2665177 BP3558 Bordetella pertussis Tohama I chromosome partition protein NP_882071.1 3769843 D 257313 CDS NP_882072.1 33594428 2665178 3773415..3774473 1 NC_002929.2 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 3774473 2665178 BP3559 Bordetella pertussis Tohama I hypothetical protein NP_882072.1 3773415 D 257313 CDS NP_882073.1 33594429 2665183 3774473..3776563 1 NC_002929.2 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 3776563 ligA 2665183 ligA Bordetella pertussis Tohama I DNA ligase NP_882073.1 3774473 D 257313 CDS NP_882074.1 33594430 2665184 complement(3776648..3777424) 1 NC_002929.2 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 3777424 2665184 BP3561 Bordetella pertussis Tohama I peptidyl-prolyl cis-trans isomerase NP_882074.1 3776648 R 257313 CDS NP_882075.1 33594431 2665185 complement(3777450..3777734) 1 NC_002929.2 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 3777734 2665185 BP3562 Bordetella pertussis Tohama I BolA-like protein NP_882075.1 3777450 R 257313 CDS NP_882076.1 33594432 2665186 complement(3777756..3778325) 1 NC_002929.2 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 3778325 2665186 BP3563 Bordetella pertussis Tohama I intracellular septation protein NP_882076.1 3777756 R 257313 CDS NP_882077.1 33594433 2665187 complement(3778322..3778723) 1 NC_002929.2 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 3778723 msrB 2665187 msrB Bordetella pertussis Tohama I methionine sulfoxide reductase B NP_882077.1 3778322 R 257313 CDS NP_882078.1 33594434 2665188 3778775..3779452 1 NC_002929.2 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 3779452 2665188 BP3565 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_882078.1 3778775 D 257313 CDS NP_882079.1 33594435 2665189 3779449..3780048 1 NC_002929.2 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 3780048 2665189 BP3566 Bordetella pertussis Tohama I cobalt transport protein NP_882079.1 3779449 D 257313 CDS NP_882080.1 33594436 2665190 3780092..3780649 1 NC_002929.2 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 3780649 2665190 BP3567 Bordetella pertussis Tohama I BioY family protein NP_882080.1 3780092 D 257313 CDS NP_882081.1 33594437 2665191 3780882..3782045 1 NC_002929.2 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 3782045 2665191 BP3568 Bordetella pertussis Tohama I hypothetical protein NP_882081.1 3780882 D 257313 CDS NP_882082.1 33594438 2665192 3782207..3783232 1 NC_002929.2 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 3783232 2665192 BP3569 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_882082.1 3782207 D 257313 CDS NP_882083.1 33594439 2665193 3783238..3785034 1 NC_002929.2 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 3785034 2665193 BP3570 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter NP_882083.1 3783238 D 257313 CDS NP_882084.1 33594440 2665194 complement(3785081..3785920) 1 NC_002929.2 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids; aminotransferase 3785920 2665194 BP3571 Bordetella pertussis Tohama I aminotransferase NP_882084.1 3785081 R 257313 CDS NP_882085.1 33594441 2665195 complement(3785952..3786950) 1 NC_002929.2 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 3786950 2665195 BP3572 Bordetella pertussis Tohama I glycine/betaine ABC transporter substrate-binding protein NP_882085.1 3785952 R 257313 CDS NP_882086.1 33594442 2665196 complement(3787046..3788023) 1 NC_002929.2 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 3788023 2665196 BP3573 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_882086.1 3787046 R 257313 CDS NP_882087.1 33594443 2665197 complement(3788020..3788907) 1 NC_002929.2 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 3788907 2665197 BP3574 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_882087.1 3788020 R 257313 CDS NP_882088.1 33594444 2665198 complement(3788999..3790213) 1 NC_002929.2 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 3790213 2665198 BP3575 Bordetella pertussis Tohama I hypothetical protein NP_882088.1 3788999 R 257313 CDS NP_882089.1 33594445 2665199 complement(3790272..3790982) 1 NC_002929.2 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 3790982 2665199 BP3576 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_882089.1 3790272 R 257313 CDS NP_882090.1 33594446 2665236 complement(3790979..3791752) 1 NC_002929.2 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 3791752 2665236 BP3577 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_882090.1 3790979 R 257313 CDS NP_882091.1 33594447 2665237 complement(3792011..3792646) 1 NC_002929.2 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 3792646 nth 2665237 nth Bordetella pertussis Tohama I endonuclease III NP_882091.1 3792011 R 257313 CDS NP_882092.1 33594448 2665238 complement(3792643..3793284) 1 NC_002929.2 Involved in the electron transport chain; ferredoxin 3793284 2665238 BP3579 Bordetella pertussis Tohama I ferredoxin NP_882092.1 3792643 R 257313 CDS NP_882093.1 33594449 2665239 complement(3793340..3794563) 1 NC_002929.2 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 3794563 2665239 BP3580 Bordetella pertussis Tohama I intracellular PHB depolymerase NP_882093.1 3793340 R 257313 CDS NP_882094.1 33594450 2665240 complement(3794709..3795506) 1 NC_002929.2 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 3795506 2665240 BP3581 Bordetella pertussis Tohama I ferredoxin--NADP reductase NP_882094.1 3794709 R 257313 CDS NP_882095.1 33594451 2665241 complement(3795552..3795875) 1 NC_002929.2 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 3795875 2665241 BP3582 Bordetella pertussis Tohama I ferredoxin NP_882095.1 3795552 R 257313 CDS NP_882096.1 33594452 2665243 3796000..3797217 1 NC_002929.2 catalyzes the formation of nictonate and 5-phospho-alpha-D-ribose 1-diphosphate from nicotinate D-ribonucleotide and diphosphate; nicotinate phosphoribosyltransferase 3797217 pncB 2665243 pncB Bordetella pertussis Tohama I nicotinate phosphoribosyltransferase NP_882096.1 3796000 D 257313 CDS NP_882097.1 33594453 2665244 3797269..3797619 1 NC_002929.2 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 3797619 2665244 BP3584 Bordetella pertussis Tohama I hypothetical protein NP_882097.1 3797269 D 257313 CDS NP_882098.1 33594454 2665245 complement(3797778..3798287) 1 NC_002929.2 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 3798287 2665245 BP3585 Bordetella pertussis Tohama I hypothetical protein NP_882098.1 3797778 R 257313 CDS NP_882099.1 33594455 2665246 complement(3798284..3799117) 1 NC_002929.2 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 3799117 2665246 BP3586 Bordetella pertussis Tohama I hypothetical protein NP_882099.1 3798284 R 257313 CDS NP_882100.1 33594456 2665247 3799201..3801414 1 NC_002929.2 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 3801414 relA 2665247 relA Bordetella pertussis Tohama I GTP pyrophosphokinase NP_882100.1 3799201 D 257313 CDS NP_882101.1 33594457 2665248 3801470..3802642 1 NC_002929.2 catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine; acetylornithine deacetylase 3802642 2665248 BP3588 Bordetella pertussis Tohama I acetylornithine deacetylase NP_882101.1 3801470 D 257313 CDS NP_882102.1 33594458 2665249 3802752..3803951 1 NC_002929.2 catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate; tryptophan synthase subunit beta 3803951 trpB 2665249 trpB Bordetella pertussis Tohama I tryptophan synthase subunit beta NP_882102.1 3802752 D 257313 CDS NP_882103.1 33594459 2665250 3803955..3804812 1 NC_002929.2 catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis; tryptophan synthase subunit alpha 3804812 trpA 2665250 trpA Bordetella pertussis Tohama I tryptophan synthase subunit alpha NP_882103.1 3803955 D 257313 CDS NP_882104.1 33594460 2665251 3804849..3805727 1 NC_002929.2 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits; acetyl-CoA carboxylase subunit beta 3805727 accD 2665251 accD Bordetella pertussis Tohama I acetyl-CoA carboxylase subunit beta NP_882104.1 3804849 D 257313 CDS NP_882105.1 33594461 2667252 3806721..3807671 1 NC_002929.2 transposase for IS481 element; transposase 3807671 2667252 BP3593 Bordetella pertussis Tohama I transposase NP_882105.1 3806721 D 257313 CDS NP_882106.1 33594462 2667253 complement(3807668..3811441) 1 NC_002929.2 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 3811441 metH 2667253 metH Bordetella pertussis Tohama I B12-dependent methionine synthase NP_882106.1 3807668 R 257313 CDS NP_882107.1 33594463 2667254 3811778..3813667 1 NC_002929.2 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 3813667 2667254 BP3595 Bordetella pertussis Tohama I outer membrane protein NP_882107.1 3811778 D 257313 CDS NP_882108.1 33594464 2667255 3813679..3814572 1 NC_002929.2 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 3814572 2667255 BP3596 Bordetella pertussis Tohama I cobalmin ABC transporter substrate-binding protein NP_882108.1 3813679 D 257313 CDS NP_882109.1 33594465 2667256 3814676..3815473 1 NC_002929.2 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 3815473 thiG 2667256 thiG Bordetella pertussis Tohama I thiazole synthase NP_882109.1 3814676 D 257313 CDS NP_882110.1 33594466 2667257 3815470..3816321 1 NC_002929.2 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 3816321 thiD 2667257 thiD Bordetella pertussis Tohama I phosphomethylpyrimidine kinase NP_882110.1 3815470 D 257313 CDS NP_882111.1 33594467 2667258 3816383..3817063 1 NC_002929.2 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 3817063 2667258 BP3599 Bordetella pertussis Tohama I protein-L-isoaspartate O-methyltransferase NP_882111.1 3816383 D 257313 CDS NP_882112.1 33594468 2667260 complement(3818407..3818895) 1 NC_002929.2 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 3818895 2667260 BP3602 Bordetella pertussis Tohama I cytidylyltransferase NP_882112.1 3818407 R 257313 CDS NP_882113.1 33594469 2667261 3819177..3820193 1 NC_002929.2 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 3820193 2667261 BP3603 Bordetella pertussis Tohama I transposase for IS1663 NP_882113.1 3819177 D 257313 CDS NP_882114.1 33594470 2667262 3820385..3821488 1 NC_002929.2 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 3821488 2667262 BP3604 Bordetella pertussis Tohama I hypothetical protein NP_882114.1 3820385 D 257313 CDS NP_882115.1 33594471 2667263 3821575..3822339 1 NC_002929.2 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 3822339 2667263 BP3605 Bordetella pertussis Tohama I hypothetical protein NP_882115.1 3821575 D 257313 CDS NP_882116.1 33594472 2667264 3822461..3823651 1 NC_002929.2 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 3823651 2667264 BP3606 Bordetella pertussis Tohama I voltage-gated potassium channel NP_882116.1 3822461 D 257313 CDS NP_882117.1 33594473 2667265 complement(3823648..3824598) 1 NC_002929.2 transposase for IS481 element; transposase 3824598 2667265 BP3607 Bordetella pertussis Tohama I transposase NP_882117.1 3823648 R 257313 CDS NP_882118.1 33594474 2667266 3825356..3825733 1 NC_002929.2 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 3825733 rpsL 2667266 rpsL Bordetella pertussis Tohama I 30S ribosomal protein S12 NP_882118.1 3825356 D 257313 CDS NP_882119.1 33594475 2667267 3825897..3826367 1 NC_002929.2 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit; 30S ribosomal protein S7 3826367 rpsG 2667267 rpsG Bordetella pertussis Tohama I 30S ribosomal protein S7 NP_882119.1 3825897 D 257313 CDS NP_882120.1 33594476 2667268 3826385..3828487 1 NC_002929.2 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene; elongation factor G 3828487 fusA 2667268 fusA Bordetella pertussis Tohama I elongation factor G NP_882120.1 3826385 D 257313 CDS NP_882121.1 33594477 2667269 3828564..3829754 1 NC_002929.2 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 3829754 tuf 2667269 tuf Bordetella pertussis Tohama I elongation factor Tu NP_882121.1 3828564 D 257313 CDS NP_882122.1 33594478 2665255 3829818..3830129 1 NC_002929.2 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 3830129 rpsJ 2665255 rpsJ Bordetella pertussis Tohama I 30S ribosomal protein S10 NP_882122.1 3829818 D 257313 CDS NP_882123.2 161610757 2665256 3830487..3831176 1 NC_002929.2 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 3831176 rplC 2665256 rplC Bordetella pertussis Tohama I 50S ribosomal protein L3 NP_882123.2 3830487 D 257313 CDS NP_882124.1 33594480 2665257 3831181..3831798 1 NC_002929.2 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 3831798 rplD 2665257 rplD Bordetella pertussis Tohama I 50S ribosomal protein L4 NP_882124.1 3831181 D 257313 CDS NP_882125.1 33594481 2665258 3831795..3832091 1 NC_002929.2 binds third domain of 23S rRNA and protein L29; part of exit tunnel; 50S ribosomal protein L23 3832091 rplW 2665258 rplW Bordetella pertussis Tohama I 50S ribosomal protein L23 NP_882125.1 3831795 D 257313 CDS NP_882126.1 33594482 2665259 3832092..3832919 1 NC_002929.2 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 3832919 rplB 2665259 rplB Bordetella pertussis Tohama I 50S ribosomal protein L2 NP_882126.1 3832092 D 257313 CDS NP_882127.1 33594483 2665260 3832932..3833207 1 NC_002929.2 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA; 30S ribosomal protein S19 3833207 rpsS 2665260 rpsS Bordetella pertussis Tohama I 30S ribosomal protein S19 NP_882127.1 3832932 D 257313 CDS NP_882128.1 33594484 2665261 3833211..3833540 1 NC_002929.2 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 3833540 rplV 2665261 rplV Bordetella pertussis Tohama I 50S ribosomal protein L22 NP_882128.1 3833211 D 257313 CDS NP_882129.1 33594485 2665262 3833550..3834341 1 NC_002929.2 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 3834341 rpsC 2665262 rpsC Bordetella pertussis Tohama I 30S ribosomal protein S3 NP_882129.1 3833550 D 257313 CDS NP_882130.1 33594486 2665263 3834344..3834760 1 NC_002929.2 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e; 50S ribosomal protein L16 3834760 rplP 2665263 rplP Bordetella pertussis Tohama I 50S ribosomal protein L16 NP_882130.1 3834344 D 257313 CDS NP_882131.1 33594487 2665264 3834771..3834962 1 NC_002929.2 one of the stabilizing components for the large ribosomal subunit; 50S ribosomal protein L29 3834962 rpmC 2665264 rpmC Bordetella pertussis Tohama I 50S ribosomal protein L29 NP_882131.1 3834771 D 257313 CDS NP_882132.1 33594488 2665265 3834964..3835245 1 NC_002929.2 primary binding protein; helps mediate assembly; involved in translation fidelity; 30S ribosomal protein S17 3835245 rpsQ 2665265 rpsQ Bordetella pertussis Tohama I 30S ribosomal protein S17 NP_882132.1 3834964 D 257313 CDS NP_882133.1 33594489 2665266 complement(3835412..3836275) 1 NC_002929.2 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 3836275 2665266 BP3623 Bordetella pertussis Tohama I hydrolase NP_882133.1 3835412 R 257313 CDS NP_882134.1 33594490 2665267 complement(3836362..3837789) 1 NC_002929.2 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 3837789 2665267 BP3624 Bordetella pertussis Tohama I aldehyde dehydrogenase NP_882134.1 3836362 R 257313 CDS NP_882135.1 33594491 2665268 3838682..3839050 1 NC_002929.2 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase; 50S ribosomal protein L14 3839050 rplN 2665268 rplN Bordetella pertussis Tohama I 50S ribosomal protein L14 NP_882135.1 3838682 D 257313 CDS NP_882136.1 33594492 2664867 3839061..3839381 1 NC_002929.2 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel; 50S ribosomal protein L24 3839381 rplX 2664867 rplX Bordetella pertussis Tohama I 50S ribosomal protein L24 NP_882136.1 3839061 D 257313 CDS NP_882137.1 33594493 2664868 3839394..3839933 1 NC_002929.2 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 3839933 rplE 2664868 rplE Bordetella pertussis Tohama I 50S ribosomal protein L5 NP_882137.1 3839394 D 257313 CDS NP_882138.1 33594494 2664872 3839946..3840251 1 NC_002929.2 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 3840251 rpsN 2664872 rpsN Bordetella pertussis Tohama I 30S ribosomal protein S14 NP_882138.1 3839946 D 257313 CDS NP_882139.1 33594495 2664873 3840262..3840657 1 NC_002929.2 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; 30S ribosomal protein S8 3840657 rpsH 2664873 rpsH Bordetella pertussis Tohama I 30S ribosomal protein S8 NP_882139.1 3840262 D 257313 CDS NP_882140.1 33594496 2664874 3840668..3841201 1 NC_002929.2 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 3841201 rplF 2664874 rplF Bordetella pertussis Tohama I 50S ribosomal protein L6 NP_882140.1 3840668 D 257313 CDS NP_882141.1 33594497 2664875 3841223..3841585 1 NC_002929.2 binds 5S rRNA along with protein L5 and L25; 50S ribosomal protein L18 3841585 rplR 2664875 rplR Bordetella pertussis Tohama I 50S ribosomal protein L18 NP_882141.1 3841223 D 257313 CDS NP_882142.1 33594498 2664876 3841601..3842125 1 NC_002929.2 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 3842125 rpsE 2664876 rpsE Bordetella pertussis Tohama I 30S ribosomal protein S5 NP_882142.1 3841601 D 257313 CDS NP_882143.1 33594499 2664877 3842129..3842314 1 NC_002929.2 L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7; 50S ribosomal protein L30 3842314 rpmD 2664877 rpmD Bordetella pertussis Tohama I 50S ribosomal protein L30 NP_882143.1 3842129 D 257313 CDS NP_882144.1 33594500 2664878 3842324..3842764 1 NC_002929.2 late assembly protein; 50S ribosomal protein L15 3842764 rplO 2664878 rplO Bordetella pertussis Tohama I 50S ribosomal protein L15 NP_882144.1 3842324 D 257313 CDS NP_882145.1 33594501 2664879 3842779..3844104 1 NC_002929.2 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 3844104 secY 2664879 secY Bordetella pertussis Tohama I preprotein translocase subunit SecY NP_882145.1 3842779 D 257313 CDS NP_882146.1 33594502 2664880 3844114..3844332 1 NC_002929.2 stimulates the activities of the other two initiation factors, IF-2 and IF-3; translation initiation factor IF-1 3844332 infA 2664880 infA Bordetella pertussis Tohama I translation initiation factor IF-1 NP_882146.1 3844114 D 257313 CDS NP_882147.1 33594503 2664881 3844367..3844480 1 NC_002929.2 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 3844480 rpmJ 2664881 rpmJ Bordetella pertussis Tohama I 50S ribosomal protein L36 NP_882147.1 3844367 D 257313 CDS NP_882148.1 33594504 2664882 3844522..3844887 1 NC_002929.2 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 3844887 rpsM 2664882 rpsM Bordetella pertussis Tohama I 30S ribosomal protein S13 NP_882148.1 3844522 D 257313 CDS NP_882149.1 33594505 2664883 3844903..3845304 1 NC_002929.2 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 3845304 rpsK 2664883 rpsK Bordetella pertussis Tohama I 30S ribosomal protein S11 NP_882149.1 3844903 D 257313 CDS NP_882150.1 33594506 2664884 3845316..3845939 1 NC_002929.2 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 3845939 rpsD 2664884 rpsD Bordetella pertussis Tohama I 30S ribosomal protein S4 NP_882150.1 3845316 D 257313 CDS NP_882151.1 33594507 2664869 3846153..3847139 1 NC_002929.2 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 3847139 rpoA 2664869 rpoA Bordetella pertussis Tohama I DNA-directed RNA polymerase subunit alpha NP_882151.1 3846153 D 257313 CDS NP_882152.1 33594508 2664870 3847298..3847693 1 NC_002929.2 is a component of the macrolide binding site in the peptidyl transferase center; 50S ribosomal protein L17 3847693 rplQ 2664870 rplQ Bordetella pertussis Tohama I 50S ribosomal protein L17 NP_882152.1 3847298 D 257313 CDS NP_882153.1 33594509 2664885 3848279..3848620 1 NC_002929.2 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 3848620 cutA 2664885 cutA Bordetella pertussis Tohama I divalent cation tolerance protein NP_882153.1 3848279 D 257313 CDS NP_882154.1 33594510 2664886 3848631..3850568 1 NC_002929.2 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 3850568 2664886 BP3646 Bordetella pertussis Tohama I thiol:disulfide interchange protein NP_882154.1 3848631 D 257313 CDS NP_882155.1 33594511 2664887 3850690..3851646 1 NC_002929.2 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 3851646 2664887 BP3647 Bordetella pertussis Tohama I hypothetical protein NP_882155.1 3850690 D 257313 CDS NP_882156.1 33594512 2664888 complement(3851643..3852659) 1 NC_002929.2 catalyzes the formation of porphobilinogen from 5-aminolevulinate; delta-aminolevulinic acid dehydratase 3852659 hemB 2664888 hemB Bordetella pertussis Tohama I delta-aminolevulinic acid dehydratase NP_882156.1 3851643 R 257313 CDS NP_882157.1 33594513 2664889 complement(3852656..3853279) 1 NC_002929.2 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 3853279 engB 2664889 engB Bordetella pertussis Tohama I ribosome biogenesis GTP-binding protein YsxC NP_882157.1 3852656 R 257313 CDS NP_882158.1 33594514 2664890 3853503..3854204 1 NC_002929.2 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 3854204 2664890 BP3650 Bordetella pertussis Tohama I cytochrome C NP_882158.1 3853503 D 257313 CDS NP_882159.1 33594515 2664953 3854325..3856418 1 NC_002929.2 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 3856418 2664953 BP3651 Bordetella pertussis Tohama I hypothetical protein NP_882159.1 3854325 D 257313 CDS NP_882160.1 33594516 2664954 3856428..3857762 1 NC_002929.2 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 3857762 2664954 BP3652 Bordetella pertussis Tohama I cytochrome c asssembly protein NP_882160.1 3856428 D 257313 CDS NP_882161.1 33594517 2664955 complement(3857833..3859122) 1 NC_002929.2 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 3859122 lysA 2664955 lysA Bordetella pertussis Tohama I diaminopimelate decarboxylase NP_882161.1 3857833 R 257313 CDS NP_882162.1 33594518 2664956 3859336..3859665 1 NC_002929.2 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 3859665 cyaY 2664956 cyaY Bordetella pertussis Tohama I hypothetical protein NP_882162.1 3859336 D 257313 CDS NP_882163.1 33594519 2664957 complement(3859722..3862166) 1 NC_002929.2 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 3862166 2664957 BP3655 Bordetella pertussis Tohama I penicillin-binding protein 1A NP_882163.1 3859722 R 257313 CDS NP_882164.1 33594520 2664958 3862280..3862915 1 NC_002929.2 catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis; shikimate kinase 3862915 aroK 2664958 aroK Bordetella pertussis Tohama I shikimate kinase NP_882164.1 3862280 D 257313 CDS NP_882165.1 33594521 2664959 3862915..3863991 1 NC_002929.2 catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis; 3-dehydroquinate synthase 3863991 aroB 2664959 aroB Bordetella pertussis Tohama I 3-dehydroquinate synthase NP_882165.1 3862915 D 257313 CDS NP_882166.1 33594522 2664960 3863988..3865142 1 NC_002929.2 dGTPase family type 2 subfamily; presumably hydrolyzes dGTP to deoxyguanosine and triphosphate; deoxyguanosinetriphosphate triphosphohydrolase-like protein 3865142 2664960 BP3658 Bordetella pertussis Tohama I deoxyguanosinetriphosphate triphosphohydrolase-like protein NP_882166.1 3863988 D 257313 CDS NP_882167.1 33594523 2664961 complement(3865316..3865975) 1 NC_002929.2 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 3865975 2664961 BP3659 Bordetella pertussis Tohama I glutathione S-transferase NP_882167.1 3865316 R 257313 CDS NP_882168.1 33594524 2664962 complement(3866031..3868889) 1 NC_002929.2 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 3868889 uvrA 2664962 uvrA Bordetella pertussis Tohama I excinuclease ABC subunit A NP_882168.1 3866031 R 257313 CDS NP_882169.1 33594525 2664963 3869045..3870229 1 NC_002929.2 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 3870229 2664963 BP3661 Bordetella pertussis Tohama I transporter NP_882169.1 3869045 D 257313 CDS NP_882170.1 33594526 2664964 3870462..3870962 1 NC_002929.2 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 3870962 ssb 2664964 ssb Bordetella pertussis Tohama I single-strand binding protein NP_882170.1 3870462 D 257313 CDS NP_882171.1 33594527 2664965 3871135..3873324 1 NC_002929.2 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 3873324 bfrC 2664965 bfrC Bordetella pertussis Tohama I ferric siderophore receptor NP_882171.1 3871135 D 257313 CDS NP_882172.1 33594528 2664966 3873340..3873858 1 NC_002929.2 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 3873858 2664966 BP3664 Bordetella pertussis Tohama I hypothetical protein NP_882172.1 3873340 D 257313 CDS NP_882173.1 33594529 2664973 3874594..3875610 1 NC_002929.2 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 3875610 2664973 BP3666 Bordetella pertussis Tohama I hypothetical protein NP_882173.1 3874594 D 257313 CDS NP_882174.1 33594530 2664974 3875664..3876458 1 NC_002929.2 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 3876458 2664974 BP3667 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_882174.1 3875664 D 257313 CDS NP_882175.1 33594531 2664975 complement(3876563..3877396) 1 NC_002929.2 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 3877396 2664975 BP3668 Bordetella pertussis Tohama I transcriptional regulator NP_882175.1 3876563 R 257313 CDS NP_882176.1 33594532 2664976 3877676..3879166 1 NC_002929.2 Catalyzes the hydrolytic cleavage of a carbon-halogen bond in N-ethylammeline; N-ethylammeline chlorohydrolase 3879166 2664976 BP3669 Bordetella pertussis Tohama I N-ethylammeline chlorohydrolase NP_882176.1 3877676 D 257313 CDS NP_882177.1 33594533 2664968 3879205..3880191 1 NC_002929.2 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 3880191 2664968 BP3670 Bordetella pertussis Tohama I hypothetical protein NP_882177.1 3879205 D 257313 CDS NP_882178.1 33594534 2664969 3880344..3881489 1 NC_002929.2 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 3881489 2664969 BP3671 Bordetella pertussis Tohama I glycosyl transferase family protein NP_882178.1 3880344 D 257313 CDS NP_882179.1 33594535 2664970 3881496..3882314 1 NC_002929.2 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 3882314 2664970 BP3672 Bordetella pertussis Tohama I hypothetical protein NP_882179.1 3881496 D 257313 CDS NP_882180.1 33594536 2664971 3882473..3883444 1 NC_002929.2 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 3883444 2664971 BP3673 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_882180.1 3882473 D 257313 CDS NP_882181.1 33594537 2664972 3883503..3884471 1 NC_002929.2 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 3884471 2664972 BP3674 Bordetella pertussis Tohama I taurine ABC transporter substrate-binding protein NP_882181.1 3883503 D 257313 CDS NP_882182.1 33594538 2664977 3884535..3885305 1 NC_002929.2 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 3885305 2664977 BP3675 Bordetella pertussis Tohama I ABC transporter permease NP_882182.1 3884535 D 257313 CDS NP_882183.1 33594539 2664978 3885314..3886084 1 NC_002929.2 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 3886084 2664978 BP3676 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_882183.1 3885314 D 257313 CDS NP_882184.1 33594540 2664979 3886112..3887428 1 NC_002929.2 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 3887428 2664979 BP3677 Bordetella pertussis Tohama I hypothetical protein NP_882184.1 3886112 D 257313 CDS NP_882186.1 33594542 2664981 complement(3887750..3888394) 1 NC_002929.2 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 3888394 2664981 BP3679 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_882186.1 3887750 R 257313 CDS NP_882187.1 33594543 2664982 complement(3888430..3890607) 1 NC_002929.2 catalyzes the formation of malate from glyoxylate and acetyl-CoA; malate synthase G 3890607 glcB 2664982 glcB Bordetella pertussis Tohama I malate synthase G NP_882187.1 3888430 R 257313 CDS NP_882188.1 33594544 2664984 complement(3891613..3892740) 1 NC_002929.2 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 3892740 2664984 BP3682 Bordetella pertussis Tohama I dehydrogenase NP_882188.1 3891613 R 257313 CDS NP_882189.1 33594545 2664985 complement(3892966..3893139) 1 NC_002929.2 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 3893139 2664985 BP3683 Bordetella pertussis Tohama I hypothetical protein NP_882189.1 3892966 R 257313 CDS NP_882190.1 33594546 2664986 complement(3893405..3894331) 1 NC_002929.2 catalyzes the conversion of 4-Hydroxybenzoate into 3-octaprenyl-4-hydroxybenzoate, as part of the ubiquinone biosynthesis pathway; 4-hydroxybenzoate octaprenyltransferase 3894331 ubiA 2664986 ubiA Bordetella pertussis Tohama I 4-hydroxybenzoate octaprenyltransferase NP_882190.1 3893405 R 257313 CDS NP_882191.1 33594547 2664987 complement(3894418..3895617) 1 NC_002929.2 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 3895617 2664987 BP3685 Bordetella pertussis Tohama I aminotransferase NP_882191.1 3894418 R 257313 CDS NP_882192.1 33594548 2664988 3895756..3896250 1 NC_002929.2 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 3896250 2664988 BP3686 Bordetella pertussis Tohama I hypothetical protein NP_882192.1 3895756 D 257313 CDS NP_882193.1 33594549 2664989 3896532..3897365 1 NC_002929.2 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 3897365 2664989 BP3687 Bordetella pertussis Tohama I dihydrodipicolinate synthase NP_882193.1 3896532 D 257313 CDS NP_882194.1 33594550 2664991 complement(3898820..3899371) 1 NC_002929.2 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 3899371 2664991 BP3689 Bordetella pertussis Tohama I LysM domain/BON superfamily protein NP_882194.1 3898820 R 257313 CDS NP_882195.1 33594551 2664992 complement(3899411..3899611) 1 NC_002929.2 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 3899611 2664992 BP3690 Bordetella pertussis Tohama I hypothetical protein NP_882195.1 3899411 R 257313 CDS NP_882196.1 33594552 2664935 complement(3899622..3900569) 1 NC_002929.2 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 3900569 2664935 BP3691 Bordetella pertussis Tohama I prolyl iminopeptidase NP_882196.1 3899622 R 257313 CDS NP_882197.1 33594553 2664936 complement(3900570..3901334) 1 NC_002929.2 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 3901334 trmB 2664936 trmB Bordetella pertussis Tohama I tRNA (guanine-N(7)-)-methyltransferase NP_882197.1 3900570 R 257313 CDS NP_882198.1 33594554 2664937 3901428..3902327 1 NC_002929.2 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 3902327 2664937 BP3693 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_882198.1 3901428 D 257313 CDS NP_882199.1 33594555 2664939 3903635..3904582 1 NC_002929.2 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 3904582 2664939 BP3695 Bordetella pertussis Tohama I hydroxymethylglutaryl-CoA lyase NP_882199.1 3903635 D 257313 CDS NP_882200.1 33594556 2664940 3904630..3905469 1 NC_002929.2 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 3905469 2664940 BP3696 Bordetella pertussis Tohama I hypothetical protein NP_882200.1 3904630 D 257313 CDS NP_882201.1 33594557 2664942 complement(3906183..3907133) 1 NC_002929.2 transposase for IS481 element; transposase 3907133 2664942 BP3698 Bordetella pertussis Tohama I transposase NP_882201.1 3906183 R 257313 CDS NP_882202.1 33594558 2664943 3907272..3908102 1 NC_002929.2 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 3908102 2664943 BP3699 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_882202.1 3907272 D 257313 CDS NP_882203.1 33594559 2664924 complement(3908115..3909107) 1 NC_002929.2 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 3909107 2664924 BP3700 Bordetella pertussis Tohama I hypothetical protein NP_882203.1 3908115 R 257313 CDS NP_882204.1 33594560 2664925 complement(3909288..3910337) 1 NC_002929.2 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 3910337 2664925 BP3701 Bordetella pertussis Tohama I taurine ABC transporter substrate-binding protein NP_882204.1 3909288 R 257313 CDS NP_882205.1 33594561 2664926 complement(3910391..3911182) 1 NC_002929.2 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 3911182 2664926 BP3702 Bordetella pertussis Tohama I GntR family transcriptional regulator NP_882205.1 3910391 R 257313 CDS NP_882206.1 33594562 2664927 complement(3911244..3912041) 1 NC_002929.2 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 3912041 2664927 BP3703 Bordetella pertussis Tohama I transport system permease NP_882206.1 3911244 R 257313 CDS NP_882207.1 33594563 2664944 complement(3912038..3913090) 1 NC_002929.2 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 3913090 2664944 BP3704 Bordetella pertussis Tohama I taurine ABC transporter substrate-binding protein NP_882207.1 3912038 R 257313 CDS NP_882208.1 33594564 2664945 complement(3913118..3913987) 1 NC_002929.2 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 3913987 2664945 BP3705 Bordetella pertussis Tohama I taurine ABC transporter ATP-binding protein NP_882208.1 3913118 R 257313 CDS NP_882209.1 33594565 2664946 complement(3914507..3915280) 1 NC_002929.2 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 3915280 2664946 BP3706 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase family protein NP_882209.1 3914507 R 257313 CDS NP_882210.1 33594566 2664948 complement(3915282..3916247) 1 NC_002929.2 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 3916247 2664948 BP3707 Bordetella pertussis Tohama I hypothetical protein NP_882210.1 3915282 R 257313 CDS NP_882211.1 33594567 2664949 complement(3916300..3917304) 1 NC_002929.2 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 3917304 2664949 BP3708 Bordetella pertussis Tohama I zinc-binding dehydrogenase NP_882211.1 3916300 R 257313 CDS NP_882212.1 33594568 2664950 complement(3917301..3918494) 1 NC_002929.2 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 3918494 2664950 BP3709 Bordetella pertussis Tohama I racemase NP_882212.1 3917301 R 257313 CDS NP_882213.1 33594569 2664951 3918785..3919498 1 NC_002929.2 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 3919498 2664951 BP3710 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_882213.1 3918785 D 257313 CDS NP_882214.1 33594570 2664952 complement(3919523..3920290) 1 NC_002929.2 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 3920290 nudC 2664952 nudC Bordetella pertussis Tohama I NADH pyrophosphatase NP_882214.1 3919523 R 257313 CDS NP_882215.1 33594571 2665017 complement(3920371..3921315) 1 NC_002929.2 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 3921315 2665017 BP3712 Bordetella pertussis Tohama I oxidoreductase NP_882215.1 3920371 R 257313 CDS NP_882216.1 33594572 2665018 complement(3921312..3922616) 1 NC_002929.2 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 3922616 2665018 BP3713 Bordetella pertussis Tohama I amidase NP_882216.1 3921312 R 257313 CDS NP_882217.1 33594573 2665019 complement(3922613..3923458) 1 NC_002929.2 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 3923458 2665019 BP3714 Bordetella pertussis Tohama I zinc-binding dehydrogenase NP_882217.1 3922613 R 257313 CDS NP_882218.1 33594574 2665020 3923527..3924441 1 NC_002929.2 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 3924441 2665020 BP3715 Bordetella pertussis Tohama I LysR family transcriptional regulator NP_882218.1 3923527 D 257313 CDS NP_882219.1 33594575 2665021 complement(3924457..3925602) 1 NC_002929.2 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 3925602 2665021 BP3716 Bordetella pertussis Tohama I hypothetical protein NP_882219.1 3924457 R 257313 CDS NP_882220.1 33594576 2665022 complement(3925599..3926822) 1 NC_002929.2 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 3926822 2665022 BP3717 Bordetella pertussis Tohama I hypothetical protein NP_882220.1 3925599 R 257313 CDS NP_882221.1 33594577 2665023 complement(3926819..3928417) 1 NC_002929.2 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 3928417 2665023 BP3718 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter ATP-binding protein NP_882221.1 3926819 R 257313 CDS NP_882222.1 33594578 2665024 complement(3928414..3929376) 1 NC_002929.2 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 3929376 2665024 BP3719 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_882222.1 3928414 R 257313 CDS NP_882223.1 33594579 2665025 complement(3929373..3930242) 1 NC_002929.2 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 3930242 2665025 BP3720 Bordetella pertussis Tohama I branched-chain amino acid ABC transporter permease NP_882223.1 3929373 R 257313 CDS NP_882224.1 33594580 2665026 complement(3930242..3930880) 1 NC_002929.2 hypothetical protein 3930880 2665026 BP3721 Bordetella pertussis Tohama I hypothetical protein NP_882224.1 3930242 R 257313 CDS NP_882225.1 33594581 2665027 complement(3930939..3932300) 1 NC_002929.2 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 3932300 2665027 BP3722 Bordetella pertussis Tohama I (Fe-S)-binding protein NP_882225.1 3930939 R 257313 CDS NP_882226.1 33594582 2665028 complement(3932541..3932774) 1 NC_002929.2 hypothetical protein 3932774 2665028 BP3723 Bordetella pertussis Tohama I hypothetical protein NP_882226.1 3932541 R 257313 CDS NP_882227.1 33594583 2665029 3933117..3934085 1 NC_002929.2 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 3934085 2665029 BP3724 Bordetella pertussis Tohama I hypothetical protein NP_882227.1 3933117 D 257313 CDS NP_882228.1 33594584 2665030 3934187..3935092 1 NC_002929.2 catalyzes the formation of pyridine-2,3-dicarboxylate and 5-phospho-alpha-D-ribose 1-diphosphate from nictinate D-ribonucleotide; nicotinate-nucleotide pyrophosphorylase 3935092 nadC 2665030 nadC Bordetella pertussis Tohama I nicotinate-nucleotide pyrophosphorylase NP_882228.1 3934187 D 257313 CDS NP_882229.1 33594585 2665031 3935191..3936141 1 NC_002929.2 transposase for IS481 element; transposase 3936141 2665031 BP3726 Bordetella pertussis Tohama I transposase NP_882229.1 3935191 D 257313 CDS NP_882230.1 33594586 2665032 complement(3936138..3937199) 1 NC_002929.2 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 3937199 2665032 BP3727 Bordetella pertussis Tohama I glycosyl transferase family protein NP_882230.1 3936138 R 257313 CDS NP_882231.1 33594587 2664999 complement(3937196..3938518) 1 NC_002929.2 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 3938518 rkpK 2664999 rkpK Bordetella pertussis Tohama I UDP-glucose 6-dehydrogenase NP_882231.1 3937196 R 257313 CDS NP_882232.1 33594588 2665000 complement(3938630..3940015) 1 NC_002929.2 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 3940015 2665000 BP3729 Bordetella pertussis Tohama I hypothetical protein NP_882232.1 3938630 R 257313 CDS NP_882233.1 33594589 2665001 complement(3940012..3941385) 1 NC_002929.2 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 3941385 glmU 2665001 glmU Bordetella pertussis Tohama I UDP-N-acetylglucosamine synthesis bifunctional protein NP_882233.1 3940012 R 257313 CDS NP_882234.1 33594590 2664994 complement(3941460..3942173) 1 NC_002929.2 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 3942173 2664994 BP3731 Bordetella pertussis Tohama I hypothetical protein NP_882234.1 3941460 R 257313 CDS NP_882235.1 33594591 2664995 complement(3942389..3943033) 1 NC_002929.2 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 3943033 2664995 BP3732 Bordetella pertussis Tohama I hypothetical protein NP_882235.1 3942389 R 257313 CDS NP_882236.1 33594592 2664996 3943161..3943382 1 NC_002929.2 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 3943382 2664996 BP3733 Bordetella pertussis Tohama I hypothetical protein NP_882236.1 3943161 D 257313 CDS NP_882237.1 33594593 2664997 complement(3943554..3944156) 1 NC_002929.2 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 3944156 2664997 BP3734 Bordetella pertussis Tohama I SCO1/SenC family protein NP_882237.1 3943554 R 257313 CDS NP_882238.1 33594594 2664998 complement(3944176..3945069) 1 NC_002929.2 converts protoheme IX and farnesyl diphosphate to heme O; protoheme IX farnesyltransferase 3945069 2664998 BP3735 Bordetella pertussis Tohama I protoheme IX farnesyltransferase NP_882238.1 3944176 R 257313 CDS NP_882239.1 33594595 2665002 complement(3945080..3946111) 1 NC_002929.2 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 3946111 2665002 BP3736 Bordetella pertussis Tohama I cytochrome oxidase assembly protein NP_882239.1 3945080 R 257313 CDS NP_882240.1 33594596 2665003 complement(3946114..3946734) 1 NC_002929.2 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 3946734 2665003 BP3737 Bordetella pertussis Tohama I hypothetical protein NP_882240.1 3946114 R 257313 CDS NP_882241.1 33594597 2665004 complement(3946760..3947500) 1 NC_002929.2 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 3947500 2665004 BP3738 Bordetella pertussis Tohama I hypothetical protein NP_882241.1 3946760 R 257313 CDS NP_882242.1 33594598 2665005 3947567..3947767 1 NC_002929.2 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 3947767 2665005 BP3739 Bordetella pertussis Tohama I hypothetical protein NP_882242.1 3947567 D 257313 CDS NP_882243.1 33594599 2665006 complement(3947877..3948752) 1 NC_002929.2 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 3948752 coIII 2665006 coIII Bordetella pertussis Tohama I cytochrome c oxidase subunit III NP_882243.1 3947877 R 257313 CDS NP_882244.1 33594600 2665007 complement(3948789..3949013) 1 NC_002929.2 hypothetical protein 3949013 2665007 BP3741 Bordetella pertussis Tohama I hypothetical protein NP_882244.1 3948789 R 257313 CDS NP_882245.1 33594601 2665008 complement(3949027..3949149) 1 NC_002929.2 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 3949149 2665008 BP3742 Bordetella pertussis Tohama I hypothetical protein NP_882245.1 3949027 R 257313 CDS NP_882246.1 33594602 2665009 complement(3949184..3950791) 1 NC_002929.2 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 3950791 ctaD 2665009 ctaD Bordetella pertussis Tohama I cytochrome c oxidase polypeptide I NP_882246.1 3949184 R 257313 CDS NP_882247.1 33594603 2665010 complement(3950902..3952080) 1 NC_002929.2 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 3952080 2665010 BP3744 Bordetella pertussis Tohama I bifunctional N-acetyl glucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyl transferase GlmU NP_882247.1 3950902 R 257313 CDS NP_882248.1 33594604 2665011 3952328..3953161 1 NC_002929.2 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 3953161 2665011 BP3745 Bordetella pertussis Tohama I hypothetical protein NP_882248.1 3952328 D 257313 CDS NP_882249.1 33594605 2665012 complement(3953265..3955808) 1 NC_002929.2 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 3955808 2665012 BP3746 Bordetella pertussis Tohama I sodium/hydrogen exchanger family protein NP_882249.1 3953265 R 257313 CDS NP_882250.1 33594606 2665013 3955986..3956798 1 NC_002929.2 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 3956798 2665013 BP3747 Bordetella pertussis Tohama I hypothetical protein NP_882250.1 3955986 D 257313 CDS NP_882251.1 33594607 2665014 complement(3957192..3958115) 1 NC_002929.2 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 3958115 rpoH 2665014 rpoH Bordetella pertussis Tohama I RNA polymerase factor sigma-32 NP_882251.1 3957192 R 257313 CDS NP_882252.1 33594608 2665015 complement(3958223..3958861) 1 NC_002929.2 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 3958861 2665015 BP3749 Bordetella pertussis Tohama I hypothetical protein NP_882252.1 3958223 R 257313 CDS NP_882253.1 33594609 2665016 complement(3958972..3959820) 1 NC_002929.2 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 3959820 2665016 BP3750 Bordetella pertussis Tohama I esterase NP_882253.1 3958972 R 257313 CDS NP_882254.1 33594610 2665033 complement(3959822..3960928) 1 NC_002929.2 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 3960928 adhI 2665033 adhI Bordetella pertussis Tohama I alcohol dehydrogenase NP_882254.1 3959822 R 257313 CDS NP_882255.1 33594611 2665034 3961112..3961876 1 NC_002929.2 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 3961876 2665034 BP3752 Bordetella pertussis Tohama I hypothetical protein NP_882255.1 3961112 D 257313 CDS NP_882256.1 33594612 2665035 3962221..3966960 1 NC_002929.2 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 3966960 gltB 2665035 gltB Bordetella pertussis Tohama I glutamate synthase NP_882256.1 3962221 D 257313 CDS NP_882257.2 161610756 2665036 3966969..3968435 1 NC_002929.2 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 3968435 gltD 2665036 gltD Bordetella pertussis Tohama I glutamate synthase NP_882257.2 3966969 D 257313 CDS NP_882258.1 33594614 2665037 3968727..3969365 1 NC_002929.2 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 3969365 2665037 BP3755 Bordetella pertussis Tohama I outer membrane protein NP_882258.1 3968727 D 257313 CDS NP_882259.1 33594615 2665038 3969447..3970430 1 NC_002929.2 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 3970430 2665038 BP3756 Bordetella pertussis Tohama I hypothetical protein NP_882259.1 3969447 D 257313 CDS NP_882260.1 33594616 2665039 3970585..3971421 1 NC_002929.2 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 3971421 2665039 BP3757 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_882260.1 3970585 D 257313 CDS NP_882261.1 33594617 2665040 3971418..3972203 1 NC_002929.2 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 3972203 2665040 BP3758 Bordetella pertussis Tohama I hypothetical protein NP_882261.1 3971418 D 257313 CDS NP_882262.1 33594618 2665041 3972216..3972722 1 NC_002929.2 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 3972722 2665041 BP3759 Bordetella pertussis Tohama I mce related protein NP_882262.1 3972216 D 257313 CDS NP_882263.1 33594619 2665042 3972822..3973613 1 NC_002929.2 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 3973613 2665042 BP3760 Bordetella pertussis Tohama I lipoprotein NP_882263.1 3972822 D 257313 CDS NP_882264.1 33594620 2665043 3973647..3974270 1 NC_002929.2 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 3974270 2665043 BP3761 Bordetella pertussis Tohama I hypothetical protein NP_882264.1 3973647 D 257313 CDS NP_882265.1 33594621 2665045 3975186..3976001 1 NC_002929.2 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 3976001 2665045 BP3764 Bordetella pertussis Tohama I polysaccharide ABC transporter permease NP_882265.1 3975186 D 257313 CDS NP_882266.1 33594622 2665048 3976001..3976252 1 NC_002929.2 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 3976252 2665048 BP3765 Bordetella pertussis Tohama I BolA-like protein NP_882266.1 3976001 D 257313 CDS NP_882267.1 33594623 2665049 3976252..3977520 1 NC_002929.2 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 3977520 murA 2665049 murA Bordetella pertussis Tohama I UDP-N-acetylglucosamine 1-carboxyvinyltransferase NP_882267.1 3976252 D 257313 CDS NP_882268.1 33594624 2665050 3977517..3978188 1 NC_002929.2 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 3978188 hisG 2665050 hisG Bordetella pertussis Tohama I ATP phosphoribosyltransferase NP_882268.1 3977517 D 257313 CDS NP_882269.1 33594625 2665051 3978239..3979543 1 NC_002929.2 catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer; histidinol dehydrogenase 3979543 hisD 2665051 hisD Bordetella pertussis Tohama I histidinol dehydrogenase NP_882269.1 3978239 D 257313 CDS NP_882270.1 33594626 2665052 3979540..3980637 1 NC_002929.2 catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis; histidinol-phosphate aminotransferase 3980637 hisC 2665052 hisC Bordetella pertussis Tohama I histidinol-phosphate aminotransferase NP_882270.1 3979540 D 257313 CDS NP_882271.1 33594627 2665053 3980630..3981226 1 NC_002929.2 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 3981226 hisB 2665053 hisB Bordetella pertussis Tohama I imidazoleglycerol-phosphate dehydratase NP_882271.1 3980630 D 257313 CDS NP_882272.1 33594628 2665054 3981258..3981935 1 NC_002929.2 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 3981935 hisH 2665054 hisH Bordetella pertussis Tohama I imidazole glycerol phosphate synthase subunit HisH NP_882272.1 3981258 D 257313 CDS NP_882273.1 33594629 2665055 3981999..3982739 1 NC_002929.2 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 3982739 hisA 2665055 hisA Bordetella pertussis Tohama I 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase NP_882273.1 3981999 D 257313 CDS NP_882274.1 33594630 2665056 3982736..3983545 1 NC_002929.2 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 3983545 hisF 2665056 hisF Bordetella pertussis Tohama I imidazole glycerol phosphate synthase subunit HisF NP_882274.1 3982736 D 257313 CDS NP_882275.1 33594631 2665060 3983542..3983946 1 NC_002929.2 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 3983946 hisI 2665060 hisI Bordetella pertussis Tohama I phosphoribosyl-AMP cyclohydrolase NP_882275.1 3983542 D 257313 CDS NP_882276.1 33594632 2665061 3983943..3984290 1 NC_002929.2 catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribolsyl)-ATP in histidine biosynthesis; phosphoribosyl-ATP pyrophosphatase 3984290 hisE 2665061 hisE Bordetella pertussis Tohama I phosphoribosyl-ATP pyrophosphatase NP_882276.1 3983943 D 257313 CDS NP_882277.1 33594633 2665062 3984305..3984673 1 NC_002929.2 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 3984673 2665062 BP3776 Bordetella pertussis Tohama I MttA/Hcf106 family protein NP_882277.1 3984305 D 257313 CDS NP_882278.1 33594634 2665063 3984689..3984916 1 NC_002929.2 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 3984916 tatA 2665063 tatA Bordetella pertussis Tohama I twin arginine translocase A NP_882278.1 3984689 D 257313 CDS NP_882279.1 33594635 2665064 3984989..3985432 1 NC_002929.2 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 3985432 tatB 2665064 tatB Bordetella pertussis Tohama I Sec-independent protein translocase NP_882279.1 3984989 D 257313 CDS NP_882280.1 33594636 2665065 3985429..3986229 1 NC_002929.2 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 3986229 tatC 2665065 tatC Bordetella pertussis Tohama I Sec-independent protein translocase NP_882280.1 3985429 D 257313 CDS NP_882281.1 33594637 2665067 3987011..3987991 1 NC_002929.2 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 3987991 2665067 BP3782 Bordetella pertussis Tohama I hypothetical protein NP_882281.1 3987011 D 257313 CDS NP_882282.1 33594638 2665068 3988258..3989067 1 NC_002929.2 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 3989067 ptxA 2665068 ptxA Bordetella pertussis Tohama I toxin subunit 1 NP_882282.1 3988258 D 257313 CDS NP_882283.1 33594639 2665069 3989107..3989787 1 NC_002929.2 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 3989787 ptxB 2665069 ptxB Bordetella pertussis Tohama I toxin subunit 2 NP_882283.1 3989107 D 257313 CDS NP_882284.1 33594640 2665406 3989781..3990239 1 NC_002929.2 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 3990239 ptxD 2665406 ptxD Bordetella pertussis Tohama I toxin subunit 4 NP_882284.1 3989781 D 257313 CDS NP_882285.1 33594641 2665407 3990212..3990613 1 NC_002929.2 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 3990613 ptxE 2665407 ptxE Bordetella pertussis Tohama I toxin subunit 5 NP_882285.1 3990212 D 257313 CDS NP_882286.1 33594642 2665408 3990696..3991379 1 NC_002929.2 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 3991379 ptxC 2665408 ptxC Bordetella pertussis Tohama I toxin subunit 3 NP_882286.1 3990696 D 257313 CDS NP_882287.1 33594643 2665409 3991435..3991743 1 NC_002929.2 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 3991743 ptlA 2665409 ptlA Bordetella pertussis Tohama I toxin transport protein NP_882287.1 3991435 D 257313 CDS NP_882288.1 33594644 2665410 3991762..3992076 1 NC_002929.2 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 3992076 ptlB 2665410 ptlB Bordetella pertussis Tohama I toxin transport protein NP_882288.1 3991762 D 257313 CDS NP_882289.1 33594645 2665411 3992073..3994547 1 NC_002929.2 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 3994547 2665411 BP3790 Bordetella pertussis Tohama I secretion system protein NP_882289.1 3992073 D 257313 CDS NP_882290.1 33594646 2665412 3994555..3995946 1 NC_002929.2 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 3995946 2665412 BP3791 Bordetella pertussis Tohama I hypothetical protein NP_882290.1 3994555 D 257313 CDS NP_882291.1 33594647 2665413 3995943..3996128 1 NC_002929.2 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 3996128 2665413 BP3792 Bordetella pertussis Tohama I secretion system protein NP_882291.1 3995943 D 257313 CDS NP_882292.1 33594648 2665414 3996107..3996808 1 NC_002929.2 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 3996808 2665414 BP3793 Bordetella pertussis Tohama I secretion system protein NP_882292.1 3996107 D 257313 CDS NP_882293.1 33594649 2665402 3996805..3997626 1 NC_002929.2 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 3997626 2665402 BP3794 Bordetella pertussis Tohama I secretion system protein NP_882293.1 3996805 D 257313 CDS NP_882294.1 33594650 2665403 3997607..3998731 1 NC_002929.2 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 3998731 2665403 BP3795 Bordetella pertussis Tohama I secretion system protein NP_882294.1 3997607 D 257313 CDS NP_882295.1 33594651 2665404 3998724..3999743 1 NC_002929.2 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 3999743 2665404 BP3796 Bordetella pertussis Tohama I secretion system protein NP_882295.1 3998724 D 257313 CDS NP_882296.1 33594652 2665405 complement(3999949..4000839) 1 NC_002929.2 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 4000839 2665405 BP3797 Bordetella pertussis Tohama I hypothetical protein NP_882296.1 3999949 R 257313 CDS NP_882297.1 33594653 2665070 4000982..4001875 1 NC_002929.2 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 4001875 2665070 BP3798 Bordetella pertussis Tohama I AraC family transcriptional regulator NP_882297.1 4000982 D 257313 CDS NP_882298.1 33594654 2665071 4001958..4002332 1 NC_002929.2 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 4002332 2665071 BP3799 Bordetella pertussis Tohama I hypothetical protein NP_882298.1 4001958 D 257313 CDS NP_882299.1 33594655 2665072 4002310..4003719 1 NC_002929.2 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 4003719 2665072 BP3800 Bordetella pertussis Tohama I hypothetical protein NP_882299.1 4002310 D 257313 CDS NP_882300.1 33594656 2665073 4003712..4005094 1 NC_002929.2 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 4005094 2665073 BP3801 Bordetella pertussis Tohama I hypothetical protein NP_882300.1 4003712 D 257313 CDS NP_882301.1 33594657 2665074 4005429..4007033 1 NC_002929.2 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 4007033 2665074 BP3802 Bordetella pertussis Tohama I peptide ABC transporter substrate-binding protein NP_882301.1 4005429 D 257313 CDS NP_882302.1 33594658 2665075 4007111..4008082 1 NC_002929.2 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 4008082 2665075 BP3803 Bordetella pertussis Tohama I transport system permease NP_882302.1 4007111 D 257313 CDS NP_882303.1 33594659 2665076 4008093..4009019 1 NC_002929.2 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 4009019 2665076 BP3804 Bordetella pertussis Tohama I transport system permease NP_882303.1 4008093 D 257313 CDS NP_882304.1 33594660 2665078 complement(4009410..4010360) 1 NC_002929.2 transposase for IS481 element; transposase 4010360 2665078 BP3806 Bordetella pertussis Tohama I transposase NP_882304.1 4009410 R 257313 CDS NP_882305.1 33594661 2665079 4010530..4011756 1 NC_002929.2 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 4011756 argJ 2665079 argJ Bordetella pertussis Tohama I bifunctional ornithine acetyltransferase/N-acetylglutamate synthase NP_882305.1 4010530 D 257313 CDS NP_882306.1 33594662 2665080 4011956..4012822 1 NC_002929.2 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 4012822 2665080 BP3808 Bordetella pertussis Tohama I hypothetical protein NP_882306.1 4011956 D 257313 CDS NP_882307.1 33594663 2665081 4012815..4013777 1 NC_002929.2 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 4013777 2665081 BP3809 Bordetella pertussis Tohama I hypothetical protein NP_882307.1 4012815 D 257313 CDS NP_882308.1 33594664 2665082 4013878..4014828 1 NC_002929.2 transposase for IS1002 element; transposase 4014828 2665082 BP3810 Bordetella pertussis Tohama I transposase NP_882308.1 4013878 D 257313 CDS NP_882309.1 33594665 2665083 4014927..4015877 1 NC_002929.2 transposase for IS481 element; transposase 4015877 2665083 BP3811 Bordetella pertussis Tohama I transposase NP_882309.1 4014927 D 257313 CDS NP_882310.1 33594666 2665087 complement(4015874..4017358) 1 NC_002929.2 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 4017358 2665087 BP3812 Bordetella pertussis Tohama I outer membrane efflux protein NP_882310.1 4015874 R 257313 CDS NP_882311.1 33594667 2665088 complement(4017364..4020471) 1 NC_002929.2 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 4020471 2665088 BP3813 Bordetella pertussis Tohama I AcrB/AcrD/AcrF family protein NP_882311.1 4017364 R 257313 CDS NP_882312.1 33594668 2665084 complement(4020468..4023536) 1 NC_002929.2 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 4023536 2665084 BP3814 Bordetella pertussis Tohama I AcrB/AcrD/AcrF family protein NP_882312.1 4020468 R 257313 CDS NP_882313.1 33594669 2665085 complement(4023533..4024783) 1 NC_002929.2 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 4024783 2665085 BP3815 Bordetella pertussis Tohama I HlyD family secretion protein NP_882313.1 4023533 R 257313 CDS NP_882314.1 33594670 2667572 complement(4024964..4025725) 1 NC_002929.2 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 4025725 2667572 BP3816 Bordetella pertussis Tohama I hypothetical protein NP_882314.1 4024964 R 257313 CDS NP_882315.1 33594671 2667573 complement(4025758..4026402) 1 NC_002929.2 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis; dephospho-CoA kinase 4026402 coaE 2667573 coaE Bordetella pertussis Tohama I dephospho-CoA kinase NP_882315.1 4025758 R 257313 CDS NP_882316.1 33594672 2667574 complement(4026411..4027391) 1 NC_002929.2 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 4027391 2667574 BP3818 Bordetella pertussis Tohama I type 4 prepilin-like proteins leader peptide processing enzyme NP_882316.1 4026411 R 257313 CDS NP_882317.1 33594673 2667575 4027491..4028234 1 NC_002929.2 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 4028234 2667575 BP3819 Bordetella pertussis Tohama I hypothetical protein NP_882317.1 4027491 D 257313 CDS NP_882318.1 33594674 2667576 complement(4028317..4028664) 1 NC_002929.2 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 4028664 2667576 BP3820 Bordetella pertussis Tohama I regulatory protein NP_882318.1 4028317 R 257313 CDS NP_882319.1 33594675 2667577 complement(4028762..4029604) 1 NC_002929.2 catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine; pantoate--beta-alanine ligase 4029604 panC 2667577 panC Bordetella pertussis Tohama I pantoate--beta-alanine ligase NP_882319.1 4028762 R 257313 CDS NP_882320.1 33594676 2667562 complement(4029649..4030536) 1 NC_002929.2 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 4030536 2667562 BP3822 Bordetella pertussis Tohama I hypothetical protein NP_882320.1 4029649 R 257313 CDS NP_882321.1 33594677 2667563 complement(4030563..4030751) 1 NC_002929.2 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 4030751 2667563 BP3823 Bordetella pertussis Tohama I hypothetical protein NP_882321.1 4030563 R 257313 CDS NP_882322.1 33594678 2667564 4030849..4032306 1 NC_002929.2 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 4032306 2667564 BP3824 Bordetella pertussis Tohama I hypothetical protein NP_882322.1 4030849 D 257313 CDS NP_882323.1 33594679 2667565 4032293..4033819 1 NC_002929.2 Converts glycerol and ADP to glycerol-3-phosphate and ADP; glycerol kinase 4033819 glpK 2667565 glpK Bordetella pertussis Tohama I glycerol kinase NP_882323.1 4032293 D 257313 CDS NP_882324.1 33594680 2665089 complement(4033838..4034305) 1 NC_002929.2 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 4034305 2665089 BP3826 Bordetella pertussis Tohama I hypothetical protein NP_882324.1 4033838 R 257313 CDS NP_882325.1 33594681 2665090 complement(4034305..4035327) 1 NC_002929.2 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 4035327 2665090 BP3827 Bordetella pertussis Tohama I hypothetical protein NP_882325.1 4034305 R 257313 CDS NP_882326.1 33594682 2665091 complement(4035448..4036188) 1 NC_002929.2 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 4036188 2665091 BP3828 Bordetella pertussis Tohama I amino acid ABC transporter ATP-binding protein NP_882326.1 4035448 R 257313 CDS NP_882327.1 33594683 2665092 complement(4036243..4037343) 1 NC_002929.2 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 4037343 2665092 BP3829 Bordetella pertussis Tohama I amino acid ABC transporter permease NP_882327.1 4036243 R 257313 CDS NP_882328.1 33594684 2665093 complement(4037345..4038535) 1 NC_002929.2 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 4038535 2665093 BP3830 Bordetella pertussis Tohama I amino acid ABC transporter permease NP_882328.1 4037345 R 257313 CDS NP_882329.1 33594685 2665094 complement(4038655..4039671) 1 NC_002929.2 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 4039671 2665094 BP3831 Bordetella pertussis Tohama I amino acid ABC transporter substrate-binding protein NP_882329.1 4038655 R 257313 CDS NP_882330.1 33594686 2664844 4039990..4040661 1 NC_002929.2 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 4040661 ftsE 2664844 ftsE Bordetella pertussis Tohama I cell division ATP-binding protein NP_882330.1 4039990 D 257313 CDS NP_882331.1 33594687 2664845 4040658..4041566 1 NC_002929.2 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 4041566 2664845 BP3833 Bordetella pertussis Tohama I permease NP_882331.1 4040658 D 257313 CDS NP_882332.1 33594688 2664846 4041778..4042425 1 NC_002929.2 catalyzes the conversion of glutamine residues to glutamate on methyl-accepting chemotaxis receptors; chemoreceptor glutamine deamidase CheD 4042425 2664846 BP3834 Bordetella pertussis Tohama I chemoreceptor glutamine deamidase CheD NP_882332.1 4041778 D 257313 CDS NP_882333.1 33594689 2664848 4046277..4047353 1 NC_002929.2 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 4047353 mutY 2664848 mutY Bordetella pertussis Tohama I A/G-specific adenine glycosylase NP_882333.1 4046277 D 257313 CDS NP_882334.1 33594690 2664849 complement(4047364..4048173) 1 NC_002929.2 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 4048173 2664849 BP3837 Bordetella pertussis Tohama I hypothetical protein NP_882334.1 4047364 R 257313 CDS NP_882335.1 33594691 2664850 4048263..4049036 1 NC_002929.2 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 4049036 2664850 BP3838 Bordetella pertussis Tohama I ubiE/COQ5 methyltransferase family protein NP_882335.1 4048263 D 257313 CDS NP_882336.1 33594692 2664851 4049219..4050169 1 NC_002929.2 transposase for IS481 element; transposase 4050169 2664851 BP3839 Bordetella pertussis Tohama I transposase NP_882336.1 4049219 D 257313 CDS NP_882337.1 33594693 2664853 4051070..4052224 1 NC_002929.2 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 4052224 2664853 BP3841 Bordetella pertussis Tohama I CAIB/BAIF family protein NP_882337.1 4051070 D 257313 CDS NP_882338.1 33594694 2664854 4052264..4053676 1 NC_002929.2 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 4053676 2664854 BP3842 Bordetella pertussis Tohama I hypothetical protein NP_882338.1 4052264 D 257313 CDS NP_882339.1 33594695 2664855 4053699..4054667 1 NC_002929.2 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 4054667 2664855 BP3843 Bordetella pertussis Tohama I lipoprotein NP_882339.1 4053699 D 257313 CDS NP_882340.1 33594696 2664856 4054669..4055493 1 NC_002929.2 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 4055493 2664856 BP3844 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase NP_882340.1 4054669 D 257313 CDS NP_882341.1 33594697 2664857 4055517..4056251 1 NC_002929.2 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 4056251 2664857 BP3845 Bordetella pertussis Tohama I nitroreductase family protein NP_882341.1 4055517 D 257313 CDS NP_882342.1 33594698 2664858 complement(4056332..4057018) 1 NC_002929.2 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 4057018 2664858 BP3846 Bordetella pertussis Tohama I TetR family transcriptional regulator NP_882342.1 4056332 R 257313 CDS NP_882343.1 33594699 2664859 4057192..4058199 1 NC_002929.2 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 4058199 2664859 BP3847 Bordetella pertussis Tohama I hydroxymethylglutaryl-CoA lyase NP_882343.1 4057192 D 257313 CDS NP_882344.1 33594700 2664860 4058196..4058975 1 NC_002929.2 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 4058975 2664860 BP3848 Bordetella pertussis Tohama I enoyl-CoA hydratase/isomerase NP_882344.1 4058196 D 257313 CDS NP_882345.1 33594701 2664861 4059033..4060295 1 NC_002929.2 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 4060295 2664861 BP3849 Bordetella pertussis Tohama I hypothetical protein NP_882345.1 4059033 D 257313 CDS NP_882346.1 33594702 2664863 complement(4060842..4061792) 1 NC_002929.2 transposase for IS481 element; transposase 4061792 2664863 BP3851 Bordetella pertussis Tohama I transposase NP_882346.1 4060842 R 257313 CDS NP_882347.1 33594703 2664864 4061915..4063363 1 NC_002929.2 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 4063363 katA 2664864 katA Bordetella pertussis Tohama I catalase NP_882347.1 4061915 D 257313 CDS NP_882348.1 33594704 2664865 complement(4063424..4064305) 1 NC_002929.2 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 4064305 2664865 BP3853 Bordetella pertussis Tohama I ABC transporter permease NP_882348.1 4063424 R 257313 CDS NP_882349.1 33594705 2664866 complement(4064302..4065117) 1 NC_002929.2 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 4065117 2664866 BP3854 Bordetella pertussis Tohama I ABC transporter ATP-binding protein NP_882349.1 4064302 R 257313 CDS NP_882350.1 33594706 2665104 complement(4065119..4066162) 1 NC_002929.2 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 4066162 2665104 BP3855 Bordetella pertussis Tohama I taurine ABC transporter substrate-binding protein NP_882350.1 4065119 R 257313 CDS NP_882351.1 33594707 2665105 complement(4066206..4067129) 1 NC_002929.2 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 4067129 2665105 BP3856 Bordetella pertussis Tohama I taurine catabolism dioxygenase NP_882351.1 4066206 R 257313 CDS NP_882352.1 33594708 2665106 complement(4067259..4068458) 1 NC_002929.2 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 4068458 2665106 BP3857 Bordetella pertussis Tohama I hydrolase NP_882352.1 4067259 R 257313 CDS NP_882353.1 33594709 2665107 complement(4068516..4069532) 1 NC_002929.2 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 4069532 2665107 BP3858 Bordetella pertussis Tohama I transport ATP-binding protein NP_882353.1 4068516 R 257313 CDS NP_882354.1 33594710 2665108 complement(4069529..4070530) 1 NC_002929.2 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 4070530 2665108 BP3859 Bordetella pertussis Tohama I transport system ATP-binding protein NP_882354.1 4069529 R 257313 CDS NP_882355.1 33594711 2665109 complement(4070557..4071477) 1 NC_002929.2 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 4071477 2665109 BP3860 Bordetella pertussis Tohama I transport system permease NP_882355.1 4070557 R 257313 CDS NP_882356.1 33594712 2665110 complement(4071474..4072448) 1 NC_002929.2 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 4072448 2665110 BP3861 Bordetella pertussis Tohama I transport system permease NP_882356.1 4071474 R 257313 CDS NP_882357.1 33594713 2665111 complement(4072468..4074054) 1 NC_002929.2 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 4074054 2665111 BP3862 Bordetella pertussis Tohama I peptide ABC transporter substrate-binding protein NP_882357.1 4072468 R 257313 CDS NP_882358.1 33594714 2665112 4074171..4075523 1 NC_002929.2 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 4075523 trmE 2665112 trmE Bordetella pertussis Tohama I tRNA modification GTPase TrmE NP_882358.1 4074171 D 257313 CDS NP_882359.1 33594715 2665113 complement(4075468..4076706) 1 NC_002929.2 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 4076706 2665113 BP3864 Bordetella pertussis Tohama I hypothetical protein NP_882359.1 4075468 R 257313 CDS NP_882360.1 33594716 2665114 4077300..4077980 1 NC_002929.2 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 4077980 2665114 BP3865 Bordetella pertussis Tohama I response regulator protein NP_882360.1 4077300 D 257313 CDS NP_882361.1 33594717 2665115 4077967..4079430 1 NC_002929.2 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 4079430 2665115 BP3866 Bordetella pertussis Tohama I sensor kinase NP_882361.1 4077967 D 257313 CDS NP_882362.1 33594718 2665116 4079551..4080555 1 NC_002929.2 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 4080555 2665116 BP3867 Bordetella pertussis Tohama I hypothetical protein NP_882362.1 4079551 D 257313 CDS NP_882363.1 33594719 2665117 4080606..4081097 1 NC_002929.2 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 4081097 2665117 BP3868 Bordetella pertussis Tohama I hypothetical protein NP_882363.1 4080606 D 257313 CDS NP_882364.1 33594720 2665118 4081094..4082617 1 NC_002929.2 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 4082617 2665118 BP3869 Bordetella pertussis Tohama I hypothetical protein NP_882364.1 4081094 D 257313 CDS NP_882365.1 33594721 2665119 complement(4082693..4083859) 1 NC_002929.2 catalyzes the transfer of an amino moiety; aminotransferase 4083859 2665119 BP3870 Bordetella pertussis Tohama I aminotransferase NP_882365.1 4082693 R 257313 CDS NP_882366.1 33594722 2665120 4084259..4084465 1 NC_002929.2 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 4084465 2665120 BP3871 Bordetella pertussis Tohama I cold shock-like protein NP_882366.1 4084259 D 257313 CDS