1 SPA0005 5114 5887 minus yaaA conserved hypothetical protein - 2 SPA0006 5881 7395 minus yaaJ putative amino-acid transport protein pseudogene SPA "Flexneri, both strains" 3 SPA0007 7664 8617 plus talB transaldolase B - 4 5 SPA0017 17036 17479 minus - putative membrane protein - 6 SPA0018 17860 19959 plus - putative chitinase pseudogene SPA 7 SPA0019 19991 23047 plus - putative hydroxymethyltransferase - "Typhi, new**" 8 SPA0020 23328 24032 plus - conserved hypothetical protein - 9 SPA0022 25105 25791 plus bcfB fimbrial chaperone - 10 SPA0023 25796 28417 plus bcfC fimbrial usher - Typhi CT18 only 11 SPA0024 28418 29425 plus bcfD fimbrial subunit - 12 SPA0025 29426 29971 plus bcfE fimbrial subunit - 13 SPA0026 29987 30505 plus bcfF fimbrial subunit pseudogene SPA 14 SPA0027 30498 31202 plus bcfG fimbrial chaperone - 15 16 SPA0035 38763 39524 minus - putative exported protein - 17 SPA0036 40118 41590 plus - putative secreted sulfatase pseudogene SPA 18 SPA0037 41692 42879 plus - possible sulfatase regulatory protein - 19 20 SPA0052 60130 61044 plus yaaF putative nucleoside hydrolase (IUNH family) - 21 SPA0053 61066 61752 minus citB transcriptional regulatory protein citb - "Flexneri, possibly syntenic" 22 SPA0054 61754 63373 minus citA sensor kinase cita - 23 24 SPA0065 73949 74770 plus dapB dihydrodipicolinate reductase - 25 SPA0066 74925 75177 plus - - SPA 26 SPA0067 75631 76779 plus carA carbamoyl-phosphate synthase small chain - 27 SPA0076 88447 89217 plus fixA FixA protein - 28 SPA0077 89233 90174 plus fixB FixB protein - "Flexneri, one strain" 29 SPA0078 90224 91510 plus fixC FixC protein - 30 SPA0079 91507 91794 plus fixX ferredoxin like protein FixX - 31 SPA0080 91942 93282 plus yaaU putative metabolite transport protein - "Typhi, possible" 32 SPA0081 93371 93601 plus - putative lipoprotein - 33 SPA0084 95019 95213 plus - putative membrane protein - 34 SPA0085 95707 97596 plus - putative sulfatase - "Typhi, new**" 35 SPA0086 98150 98681 plus yabF putative NAD(P)H oxidoreductase pseudogene SPA 36 SPA0087 98674 100536 plus kefC glutathione-regulated potassium-efflux system protein KefC - 37 38 SPA0100 116123 117331 plus - putative IS element transposase - STY not STM 39 SPA0101 117401 117898 minus - - - "Typhi, both strains" 40 SPA0102 118323 118742 plus - hypothetical protein - 41 SPA0103 118748 119443 minus araD L-ribulose-5-phosphate 4-epimerase - 42 SPA0104 119584 121086 minus araA L-arabinose isomerase - "Flexneri, one strain" 43 SPA0105 121097 122806 minus araB L-ribulokinase - 44 45 SPA0146 168357 169559 minus hofC protein transport protein HofC - 46 SPA0147 169549 170934 minus hofB protein transport protein HofB - "Flexneri, both strains" 47 SPA0148 170944 171381 minus ppdD prepilin peptidase dependent protein D precursor - 48 49 SPA0160 186274 187065 minus - probable secreted protein - 50 SPA0161 187078 188706 minus yacH putative exported protein - "Flexneri, both strains" 51 SPA0162 189095 191692 plus acnB aconitate hydratase 2 (citrate hydro-lyase 2) - 52 53 SPA0185 214375 214980 minus stk - - SPA unique 54 SPA0186 215257 215637 minus panD aspartate 1-decarboxylase - "Typhi, both strains" 55 SPA0187 215732 216586 minus panC pantoate:beta-alanine ligase - 56 57 SPA0196 225150 227672 plus mrcB penicillin-binding protein 1b; peptidoglycan synthetase - 58 SPA0197 227965 230192 plus fhuA "outer membrane protein receptor / transporter for ferrichrome, colicin M, and phages T1, T5, and phi80 pseudogene" SPA "Typhi, both strains" 59 SPA0198 230241 231038 plus fhuC ferrichrome transport ATP-binding protein FhuC - 60 61 SPA0201 234923 235483 plus stfA putative fimbrial subunit - 62 SPA0202 235569 238226 plus stfC putative fimbrial outer membrane usher pseudogene SPA "Flexneri, both strains" 63 SPA0203 238244 238996 plus stfD putative periplasmic fimbrial chaperone - "Flexneri, possibly syntenic" 64 SPA0204 239015 239527 plus stfE putaive minor fimbrial subunit - 65 SPA0205 239524 240000 plus stfF putative minor fimbrial subunit pseudogene SPA 66 SPA0206 240000 240530 plus stfG putative minor fimbrial subunit; putative adhesin - STM not STY 67 68 SPA0215 248764 250191 plus htrA protease DO precursor; heat shock protein HtrA - 69 SPA0216 250344 251501 plus yaeG conserved hypothetical protein - "Flexneri, both strains" 70 SPA0217 251590 251976 minus yaeH conserved hypothetical protein - 71 SPA0218 252223 253524 plus - putative inner membrane protein - "Typhi, both strains" 72 SPA0219 253561 254385 minus dapD "2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase" - 73 74 SPA0268 306079 306498 minus yfiG thioredoxin 2 - 75 SPA0269 306518 306690 plus - - SPA 76 SPA0270 306709 307746 plus yfiF putative RNA methyltransferase - 77 SPA0271 307862 308551 minus ung uracil-DNA glycosylase - "Typhi, both strains" 78 SPA0272 308870 309253 plus yfiD conserved hypothetical protein - 79 SPA0273 309315 309902 minus yfiK putative membrane protein - 80 SPA0274 309960 310904 plus yfiE "putative transcriptional regulator, LysR family" - "Typhi, both strains" 81 SPA0275 310922 312256 minus srmB ATP-dependent RNA helicase SrmB - 82 SPA0276 312386 313123 plus yfiC conserved hypothetical protein - 83 SPA0277 313108 314730 minus nadB L-aspartate oxidase (quinolinate synthetase B). - "Flexneri, both strains" 84 SPA0278 315155 315730 plus rpoE RNA polymerase sigma-E factor (sigma-24) - 85 86 SPA0292 327273 328190 plus - putative oxidoreductase - 87 SPA0293 328229 329077 minus yfhH putative transcriptional regulator - 88 SPA0294 329193 330086 plus - putative phophosugar binding protein - "Flexneri, possibly syntenic" 89 SPA0295 330097 331458 plus - putative PTS system IIBC component - 90 SPA0296 331462 332097 plus yfhB putative membrane protein pseudogene SPA 91 SPA0297 332122 332673 plus yfhC conserved hypothetical protein - 92 93 SPA0307 344571 346715 minus cadA lysine decarboxylase - 94 SPA0308 346798 348129 minus cadB probable cadaverine/lysine antiporter - "Flexneri, one strain" 95 SPA0309 348490 350033 minus cadC transcriptional activator cadC pseudogene SPA 96 SPA0310 350215 351405 minus hmpA flavohemoprotein (haemoglobin-like protein) - 97 SPA0314 355716 356354 plus - putative exported protein - 98 SPA0315 356345 357331 plus - putative inner membrane protein - "Typhi, both strains" 99 SPA0316 357332 358345 minus asrC anaerobic sulfite reductase subunit C - 100 101 SPA0335 373793 378727 plus - putative lipoprotein - 102 SPA0336 378728 381043 plus pbpC penicillin-binding protein 1C - "Flexneri, one strain" "YPE 3143, paralogue ?" 103 SPA0337 381173 383578 plus - putative anaerobic dimethylsulfoxide reductase pseudogene SPA "Typhi, both strains" 104 SPA0338 383575 384204 plus - putative anaerobic reductase component - 105 106 SPA0349 395121 395342 plus yfgJ conserved hypothetical protein - 107 SPA0350 395688 397843 plus sinH putative invasin pseudogene SPA "Typhi, both strains" 108 SPA0351 397901 398866 plus sinI putative exported protein - 109 SPA0352 398986 405378 plus ratA putative exported protein - 110 SPA0353 405448 412754 plus ratB putative outer membrane protein pseudogene SPA "Typhi, both strains" 111 SPA0354 413512 418620 plus shdA similar to the C-terminal region of AIDA; IcsA; subspecies I specific; Peyer's patch colonization and shedding factor pseudogene SPA "Typhi, both strains" 112 SPA0355 418782 420131 minus xseA exodeoxyribonuclease large subunit - 113 SPA0358 423493 423651 plus - hypothetical protein - STY not STM 114 SPA0359 423728 424415 minus - conserved hypothetical protein pseudogene SPA STY not STM 115 SPA0360 424644 425183 minus - putative exported protein - STY not STM 116 SPA0361 425199 425714 minus b2505 putative outer membrane lipoprotein - "Typhi, both strains" STY not STM 117 SPA0362 425997 426257 plus - hypothetical protein - 118 SPA0364 426562 428775 plus - putative membrane protein - 119 SPA0365 428811 430352 minus ppx exopolyphosphatase - "Flexneri, both strains" 120 SPA0366 430357 432423 minus ppk polyphosphate kinase - 121 122 SPA0373 437925 439388 minus - putative exported protein - 123 SPA0374 439596 440664 plus perM putative permease pseudogene SPA 124 SPA0375 441004 442128 plus - - - "Typhi, both strains" STY not STM 125 SPA0376 442196 443464 plus - putative permease - STY not STM 126 SPA0378 444656 445126 minus bcp bacterioferritin comigratory protein - 127 SPA0379 445126 445764 minus gcvR glycine cleavage system transcriptional repressor - "Flexneri, one strain" 128 SPA0380 445844 446722 plus dapA dihydrodipicolinate synthase - 129 130 SPA0388 454005 457118 minus acrD putative efflux pump - 131 SPA0389 457303 459005 minus narQ nitrate/nitrite sensor protein NarQ pseudogene SPA "Flexneri, both strains" 132 SPA0390 459191 461152 plus aegA putative oxidoreductase - "Typhi, possible" 133 SPA0391 461600 462898 minus - putative exported protein - 134 135 SPA0413 484221 484715 plus eutK ethanolamine utilization protein EutK - 136 SPA0414 484763 485815 plus yfeG ethanolamine operon transcriptional regulator - "Flexneri, both strains" 137 SPA0415 486014 486940 minus hemF coproporphyrinogen III oxidase - "Flexneri, one strain" 138 SPA0416 486943 487812 minus amiA probable N-acetylmuramoyl-L-alanine amidase - "Typhi, both strains" 139 SPA0417 488025 488450 plus - putative acetyltransferase - 140 141 SPA0423 492720 493553 plus cysU sulphate transport system permease protein CysT - 142 SPA0424 493553 494428 plus cysW sulphate transport system permease protein CysW - "Flexneri, one strain" 143 SPA0425 494418 495512 plus cysA sulphate transport ATP-binding protein CysA - 144 SPA0426 495633 496544 plus cysM cysteine synthase B - 145 SPA0427 496577 496954 minus yfeK putative exported protein - "Flexneri, both strains" 146 SPA0428 497013 497654 minus yfeJ putative GMP synthase - glutamine amidotransferase domain - 147 SPA0432 500309 500818 minus crr "pts system, glucose-specific IIA component" - 148 SPA0433 500859 502586 minus ptsI hypothetical protein - Typhi CT18 only 149 SPA0434 502635 502892 minus ptsH phosphocarrier protein HPr - 150 151 SPA0449 514147 514219 plus alaX tRNA-Ala - 152 SPA0450 514413 516602 plus yfeA putative membrane protein - "Flexneri, both strains" 153 SPA0451 516655 517679 minus nupC nucleoside permease NupC pseudogene SPA 154 SPA0452 518022 519263 plus mntH manganese transport protein MntH - 155 156 SPA0458 525741 526979 plus yfdZ putative aminotransferase - 157 SPA0459 527503 528423 minus ddg putative acyltransferase - "Flexneri, one strain" 158 SPA0460 528944 529186 plus - conserved hypothetical protein - YPE 3143 159 SPA0461 529424 530815 minus pgtP phosphoglycerate transporter protein - 160 SPA0462 531251 532444 plus pgtC phosphoglycerate transport regulatory protein PgtC precursor - 161 SPA0463 532441 534448 plus pgtB phosphoglycerate transport system sensor protein PgtB pseudogene SPA 162 SPA0464 534438 535685 plus pgtA phosphoglycerate transport system transcriptional regulatory protein PgtA - 163 SPA0465 535953 536891 plus pgtE outer membrane protease E - 164 SPA0466 537755 538302 plus - - SPA "Typhi, both strains" STY not STM 165 SPA0467 538372 540294 minus - putative lipopolysaccharide modification acyltransferase - STY not STM 166 SPA0468 540311 540565 minus gtrB2 bactoprenol glucosyl transferase - "Typhi, both strains" 167 SPA0469 540534 540923 minus gtrA bactoprenol-linked glucose transferase - 168 169 SPA0478 550602 551153 minus yfcN conserved hypothetical protein - 170 SPA0479 551319 552251 plus yfcB conserved hypothetical protein - "Flexneri, one strain" 171 SPA0480 552287 553372 plus aroC chorismate synthase - 172 SPA0482 554200 555009 plus yfcA putative membrane protein - 173 SPA0483 555009 555557 plus yfcM putative cytoplasmic protein - "Typhi, both strains" 174 SPA0484 555590 555865 plus yfcL conserved hypothetical protein - 175 176 SPA0552 626202 626513 plus elaB conserved hypothetical protein - 177 SPA0553 626614 627909 plus menF isochorismate synthase - 178 SPA0554 627995 629665 plus menD menaquinone biosynthesis protein - 179 180 SPA0558 632251 633618 plus menE O-succinylbenzoic acid-CoA ligase - 181 SPA0559 633716 633973 plus pmrD polymyxin B resistance protein - "Flexneri, possibly syntenic" 182 SPA0560 633968 634345 minus - putative membrane protein - 183 184 SPA0588 664224 664952 minus ubiG 3-demethylubiquinone-9 3-methyltransferase - 185 SPA0589 665035 665730 minus - hypothetical protein - Typhi CT18 only 186 SPA0590 665969 667294 plus - - - "Typhi, both strains" 187 SPA0591 667309 668511 plus - putative MR-MLE-family protein - 188 SPA0592 668921 671557 plus gyrA DNA gyrase subunit A - 189 SPA0593 671675 674521 plus rcsC sensor protein RcsC - "Flexneri, one strain" 190 SPA0594 674624 675274 minus rcsB regulator of capsule synthesis B component - 191 SPA0595 675291 677960 minus yojN putative two-component system sensor kinase - YPE 3143 192 SPA0596 678264 678620 minus - micF - 193 194 SPA0651 730904 732373 plus lysP lysine-specific permease - 195 SPA0652 732718 734709 plus cirA colicin I receptor precursor - "Flexneri, both strains" 196 SPA0653 734753 736075 minus - - - "Typhi, both strains" 197 SPA0654 736108 736995 minus - putative hydrolase - 198 SPA0655 737146 738579 plus - putative L-serine dehydratase pseudogene SPA 199 SPA0656 738584 738973 plus - putative DNA-binding protein - 200 SPA0657 738962 739819 minus yeiG putative esterase - "Flexneri, both strains" 201 SPA0658 740149 740817 plus folE GTP cyclohydrolase I - 202 SPA0661 743645 744643 plus mglB D-galactose-binding periplasmic protein precursor - 203 SPA0662 744777 746297 plus mglA "ABC superfamily (atp_bind), galactose (methyl-galactoside) transport protein pseudogene" SPA "Typhi, both strains" 204 SPA0663 746313 747323 plus mglC galactoside transport system permease protein MglC - 205 SPA0664 747398 748633 minus yeiA putative dihydropyrimidine dehydrogenase - "Typhi, both strains" "Flexneri, both strains" 206 SPA0665 748627 749868 minus - putative oxidoreductase - 207 208 SPA0678 760608 760805 minus - hypothetical protein - 209 SPA0679 760997 762433 plus yohG putative lipoprotein - "Flexneri, one strain" 210 SPA0680 762499 763260 plus yohF putative oxidoreductase - "Flexneri, both strains" 211 SPA0681 763309 763905 minus yohD putative membrane protein - 212 SPA0682 764037 764624 plus yohC putative membrane protein - 213 SPA0683 764790 765737 plus pbpG penicillin-binding protein 7 - "Typhi, both strains" 214 SPA0684 765796 767526 minus dld D-lactate dehydrogenase - 215 SPA0685 767793 770099 plus bglX periplasmic beta-glucosidase precursor - 216 SPA0686 770280 771197 plus yehZ putative periplasmic protein - YPE 3143 217 SPA0687 771201 772370 plus yehY putative permease transmembrane component - 218 SPA0690 774006 774113 minus - hypothetical protein - 219 SPA0691 774173 774904 minus yehV putative transcriptional regulator - "Flexneri, both strains" 220 SPA0692 775127 776812 plus yehU putative two-component system sensor kinase - 221 SPA0693 776809 777528 plus yehT putative two-component system response regulator - 222 SPA0694 777575 778042 plus yehS conserved hypothetical protein - "Flexneri, one strain" 223 SPA0695 778099 778629 minus - putative lipoprotein - 224 225 SPA0700 783645 784178 plus stcA putative fimbrial subunit protein - 226 SPA0701 784240 784920 plus stcB putative fimbrial chaperone protein - "Flexneri, possibly syntenic" 227 SPA0702 784949 787435 plus stcC putative outer membrane usher protein - YPE 3143 228 SPA0703 787451 788473 plus stcD putative exported protein - SPA unique 229 SPA0706 790025 790825 plus thiD phosphomethylpyrimidine kinase - 230 SPA0707 790861 791607 plus yegW putative GntR-family transcriptional regulator - "Flexneri, one strain" 231 SPA0708 791581 792546 minus yegV putative sugar kinase - 232 SPA0711 795069 796121 plus fbaB fructose-bisphosphate aldolase class I - 233 SPA0712 796174 797073 minus yegS putative diacylglycerol kinase catalytic domain - "Typhi, both strains" 234 SPA0713 797638 797973 plus - putative membrane protein - 235 236 SPA0719 801926 802345 plus - putative exported protein - STY not STM 237 SPA0720 802782 803144 plus - - - "Typhi, both strains" STY not STM 238 SPA0721 803154 803456 plus - hypothetical protein - STY not STM 239 240 SPA0734 813532 814254 minus baeR putative two-component system response regulator - 241 SPA0735 814251 815654 minus baeS putative two-component system sensor kinase - YPE 3143 242 SPA0736 815654 817066 minus yegB putative transporter protein - 243 SPA0737 817063 820143 minus yegO putative RND-family transporter protein - 244 SPA0738 820144 823266 minus yegN putative RND-family transporter protein - "Flexneri, both strains" 245 SPA0739 823266 824578 minus - - SPA 246 SPA0740 824722 824858 minus - tp8 - 247 SPA0741 824923 826275 minus yegD conserved hypothetical protein - "Flexneri, both strains" 248 SPA0742 826409 827278 plus alkA DNA-3-methyladenine glycosidase II - 249 SPA0743 827246 830236 minus yegE putative membrane protein - "Flexneri, both strains" 250 SPA0744 830567 831208 plus udk uridine kinase - 251 252 SPA0750 837695 839854 plus wzc putative tyrosine-protein kinase - 253 SPA0751 839941 840783 plus wcaA hypothetical protein - Typhi CT18 only "Flexneri, both strains" 254 SPA0752 840786 841274 plus wcaB putative acetyltransferase - 255 SPA0753 841271 842488 plus wcaC putative glycosyltransferase - "Flexneri, one strain" 256 SPA0754 842463 843677 plus wcaD putative colanic acid polymerase - "Typhi, both strains" "Flexneri, both strains" 257 SPA0755 843690 844436 plus wcaE putative glycosyltransferase - "Flexneri, possibly syntenic" 258 SPA0756 844452 845006 plus wcaF putative acetyltransferase - 259 SPA0757 845030 846151 plus gmd "GDP-mannose 4,6-dehydratase" - YPE 3143 260 SPA0758 846154 847119 plus fcl GDP-fucose synthetase - YPE 3143 261 SPA0759 847122 847595 plus wcaH putative O-antigen biosynthesis protein - 262 SPA0760 847592 848815 plus wcaI putative glycosyltransferase - 263 SPA0761 848812 850254 plus manC mannose-1-phosphate guanylyltransferase - 264 SPA0762 850365 851735 plus manB phosphomannomutase - 265 SPA0763 851789 853183 plus wcaJ putative extracellular polysaccharide biosynthesis protein pseudogene SPA 266 SPA0764 853285 854763 plus wzxC putative transmembrane transport protein - 267 SPA0765 854785 856065 plus wcaK putative galactokinase in colanic acid gene cluster pseudogene SPA "Typhi, both strains" 268 SPA0766 856062 857201 plus wcaL putative glycosyl transferase in colanic acid gene cluster - 269 SPA0767 857212 858615 plus wcaM putative exported protein - 270 SPA0768 858664 859686 plus galF UTP-glucose-1-phosphate uridylyltransferase pseudogene SPA 271 SPA0769 860063 861148 plus rfbB "dTDP-glucose 4,6-dehydratase" - 272 SPA0774 864521 865294 plus rfbF glucose-1-phosphate cytidylyltransferase - 273 SPA0775 865299 866378 plus rfbG "CDP-glucose 4,6-dehydratase" - YPE 3143 274 SPA0776 866405 867718 plus rfbH putative dehydratase RfbH - 275 276 SPA0790 884854 886260 plus gnd "6-phosphogluconate dehydrogenase, decarboxylating" - 277 SPA0791 886497 887663 plus ugd UDP-glucose 6-dehydrogenase - "Flexneri, both strains" 278 SPA0792 887812 888789 plus cld polysaccharide chain length regulator - 279 280 SPA0804 899929 901359 minus sbcB exodeoxyribonuclease I - 281 SPA0805 901726 904069 minus sopA Secreted effector protein of Salmonella dublin pseudogene SPA "Typhi, both strains" 282 SPA0806 904688 906963 plus phsA thiosulfate reductase precursor pseudogene SPA 283 SPA0807 906978 907556 plus phsB thiosulfate reductase electron transport protein PhsB - 284 SPA0808 907553 908317 plus phsC thiosulfate reductase cytochrome b subunit - "Flexneri, possibly syntenic" 285 SPA0809 908441 909612 plus dacD "DD-carboxypeptidase, penicillin-binding protein 6b pseudogene" SPA "Typhi, both strains" 286 SPA0810 909763 910230 plus sbmC putative DNA gyrase inhibitory protein - 287 SPA0811 910349 911407 plus yeeA putative membrane protein - "Flexneri, both strains" 288 SPA0812 911652 911987 plus yeeX conserved hypothetical protein - 289 290 SPA0821 919405 920415 minus pduO conserved hypothetical protein - 291 SPA0822 920425 920700 minus pduN Propanediol utilization: polyhedral bodies - "Typhi, both strains" 292 SPA0823 920704 921195 minus pduM conserved hypothetical protein - 293 294 SPA0833 928696 928980 minus pduA putative propanediol utilization protein PduA - 295 SPA0834 929187 930306 plus pduF propanediol diffusion facilitator pseudogene SPA 296 SPA0835 930480 931427 plus pocR pdu/cob regulatory protein PocR - 297 SPA0836 931916 933404 plus cbiA "cobyrinic acid A,C-diamide synthase pseudogene" SPA 298 SPA0837 933401 934360 plus cbiB CbiB protein - 299 SPA0838 934371 935003 plus cbiC synthesis of vitamin B12 adenosyl cobalamide precursor - "Typhi, both strains" 300 SPA0839 935003 936142 plus cbiD CbiD protein - 301 302 SPA0844 939102 939827 plus cbiH precorrin-3 C17-methyltransferase - 303 SPA0845 939824 940615 plus cbiJ synthesis of vitamin B12 adenosyl cobalamide precursor - "Typhi, both strains" 304 SPA0846 940618 941409 plus cbiK synthesis of vitamin B12 adenosyl cobalamide precursor - "Typhi, both strains" 305 SPA0847 941406 942119 plus cbiL precorrin-2 C20-methyltransferase - 306 SPA0848 942116 942853 plus cbiM synthesis of vitamin B12 adenosyl cobalamide precursor - "Typhi, both strains" 307 SPA0849 942855 943136 plus cbiN putative cobalt transport protein CbiN - 308 SPA0852 944621 946141 plus cbiP putative cobyric acid synthase - 309 SPA0853 946138 946683 plus cobU cobinamide kinase and guanylyltransferase - "Flexneri, one strain" 310 SPA0854 946680 947423 plus cobS cobalamin (5'-phosphate) synthase - 311 SPA0858 949756 949828 minus - tRNA-Asn - 312 SPA0859 949988 951446 plus yeeO putative inner membrane protein pseudogene SPA 313 SPA0860 951587 951659 plus - tRNA-Asn - 314 315 SPA0871 957096 957257 plus - hypothetical protein - 316 SPA0872 957384 957803 plus umuD UmuD protein - "Typhi, both strains" 317 SPA0873 957806 959074 plus umuC UmuC protein - "Typhi, both strains" 318 SPA0874 959520 959732 plus cspB cold shock protein - 319 SPA0875 960192 961370 minus ompS outer membrane protein S1 - 320 SPA0876 962020 962331 plus - putative membrane protein pseudogene SPA 321 SPA0877 962411 963106 plus yedJ conserved hypothetical protein - "Flexneri, both strains" 322 SPA0878 963180 964610 plus dcm DNA-cytosine methyltransferase - 323 SPA0880 965050 965970 minus yedA putative membrane protein - 324 SPA0881 966146 967057 plus yedI putative inner membrane protein - "Typhi, both strains" 325 SPA0882 967074 967319 plus - conserved hypothetical protein - 326 327 SPA0890 972597 972866 minus fliQ flagellar biosynthetic protein FliQ - 328 SPA0891 972876 973613 minus fliP flagellar biosynthetic protein FliP - "Flexneri, one strain" 329 SPA0892 973613 973990 minus fliO flagellar protein FliO - 330 SPA0896 975981 977204 minus fliK flagellar hook-length control protein - 331 SPA0897 977201 977644 minus fliJ flagellar FliJ protein - "Flexneri, one strain" 332 SPA0898 977666 979036 minus fliI flagellum-specific ATP synthase - 333 SPA0900 979736 980731 minus fliG flagellar motor switch protein FliG - 334 SPA0901 980724 982415 minus fliF flagellar basal-body M-ring protein - "Flexneri, both strains" 335 SPA0902 982632 982946 plus fliE flagellar hook-basal body complex protein FliE - 336 337 SPA0911 989787 991274 plus fliC flagellin - 338 SPA0912 991353 992557 plus fliB N-methylation of lysine residues in flagellin pseudogene SPA "Typhi, both strains" "YPE 3143, paralogue ?" 339 SPA0913 992784 993473 plus fliA RNA polymerase sigma transcription factor for flagellar operon - "Flexneri, both strains" 340 SPA0914 993532 994083 plus fliZ FliZ protein - 341 SPA0915 994230 995030 plus fliY cystine-binding periplasmic protein precursor - "Flexneri, one strain" 342 SPA0916 995184 996170 plus yedO putative deaminase - 343 344 SPA0927 1002773 1002856 plus leuZ tRNA-Leu - 345 SPA0928 1003109 1003441 plus - putative inner membrane protein - "Typhi, new**" YPE 3143 346 SPA0929 1003661 1005094 plus - putative exported protein - 347 SPA0930 1005307 1005633 plus - putative glucose-6-phosphate dehydrogenase - "Typhi, new**" 348 SPA0931 1005872 1006537 plus yecA conserved hypothetical protein - 349 350 SPA0937 1010791 1011348 plus araH putative intracellular protease/amidase - 351 SPA0938 1011460 1011642 plus - - - "Typhi, both strains" 352 SPA0939 1011865 1012668 plus otsB trehalose phosphatase - 353 SPA0940 1012643 1014064 plus otsA trehalose-6-phosphate synthase - "Flexneri, both strains" 354 SPA0941 1014082 1014510 minus yecG conserved hypothetical protein - 355 SPA0942 1014507 1014623 minus - hypothetical protein - 356 SPA0943 1015297 1015647 plus flhD flagellar transcriptional activator FlhD - "Flexneri, one strain" YPE 3143 357 SPA0944 1015644 1016228 plus flhC flagellar transcriptional activator - 358 359 SPA0948 1020208 1020711 plus cheW purine binding chemotaxis protein - 360 SPA0949 1020948 1022312 plus tar methyl-accepting chemotaxis protein II pseudogene SPA YPE 3143 361 SPA0950 1022473 1023339 plus cheR chemotaxis protein methyltransferase - 362 SPA0954 1025641 1026792 plus flhB flagellar biosynthetic protein FlhB - 363 SPA0955 1026785 1028863 plus flhA flagellar biosynthesis protein FlhA - "Flexneri, both strains" 364 SPA0956 1028863 1029255 plus flhE flagellar protein FlhE precursor - 365 SPA0958 1030206 1031342 plus - conserved hypothetical protein - 366 SPA0959 1031396 1033267 minus - - - "Typhi, both strains" 367 SPA0960 1033456 1035189 minus argS arginyl-tRNA synthetase - 368 369 SPA0965 1038748 1039143 minus yecN putative membrane protein - 370 SPA0966 1039196 1040014 minus yecE conserved hypothetical protein - "Flexneri, both strains" 371 SPA0967 1040011 1040577 minus yecD putative hydrolase - "Flexneri, both strains" 372 SPA0968 1040902 1042674 plus aspS aspartyl-tRNA synthetase - 373 SPA0969 1042777 1043229 plus ntpA DATP pyrophosphohydrolase - 374 SPA0970 1043259 1043999 plus yebC conserved hypothetical protein - "Flexneri, one strain" 375 SPA0971 1044036 1044557 plus ruvC crossover junction endodeoxyribonuclease - 376 SPA0972 1044559 1045158 minus yebB conserved hypothetical protein - "Flexneri, one strain" 377 SPA0973 1045386 1046060 plus - putative membrane protein - STY not STM 378 379 SPA0982 1054751 1055620 minus hexR putative hex-regulon repressor - 380 SPA0983 1055962 1057437 plus zwf glucose 6-phosphate dehydrogenase - "Flexneri, one strain" 381 SPA0984 1057672 1059483 plus edd 6-phosphogluconate dehydratase - 382 SPA0986 1060262 1061440 minus purT phosphoribosylglycinamide formyltransferase 2 - 383 SPA0987 1061571 1061861 plus yebG conserved hypothetical protein pseudogene SPA "Flexneri, one strain" 384 SPA0988 1061929 1062282 plus yebF putative exported protein - 385 SPA0992 1066059 1066715 minus - conserved hypothetical protein - 386 SPA0993 1066823 1067053 minus holE "DNA polymerase III, theta subunit" - "Flexneri, one strain" 387 SPA0994 1067191 1067565 plus yobA putative cation resistance protein - 388 SPA0997 1068872 1068988 plus - hypothetical protein - 389 SPA0998 1069194 1070035 minus - - SPA 390 SPA0999 1071090 1071422 plus - - - SPA unique 391 SPA1001 1073710 1074459 minus - - - SPA unique 392 SPA1002 1075444 1075773 minus - putative phage integrase protein - "Typhi, both strains" 393 SPA1003 1076236 1076631 plus - - - STY not STM 394 395 SPA1011 1083950 1084318 minus - putative cytoplasmic protein - 396 SPA1012 1084442 1085590 plus - - SPA "Typhi, both strains" 397 SPA1013 1085783 1085923 minus - hypothetical protein - 398 SPA1017 1088316 1088723 minus - conserved hypothetical protein - 399 SPA1018 1089406 1090128 plus sopE2 TypeIII-secreted protein effector: invasion-associated protein - Typhi CT18 only 400 SPA1019 1090413 1090577 plus - hypothetical protein - 401 SPA1020 1090804 1091451 plus pphA serine/threonine protein phosphatase 1 - "Flexneri, both strains" 402 SPA1021 1091470 1091661 minus yebW putative secreted protein - 403 SPA1022 1091772 1092011 minus - conserved hypothetical protein - 404 SPA1023 1092125 1093564 minus yebU conserved hypothetical protein - "Flexneri, one strain" 405 SPA1024 1093642 1096281 minus - conserved hypothetical protein - 406 SPA1026 1097569 1098153 plus yebR conserved hypothetical protein - 407 SPA1027 1098251 1098930 plus proQ ProP effector pseudogene SPA 408 SPA1028 1098950 1100998 plus prc tail-specific protease precursor - 409 SPA1029 1101192 1102073 plus htpX heat shock protein - 410 SPA1030 1102121 1103494 minus - putative transport protein - "Typhi, both strains" 411 SPA1031 1103670 1104461 plus kdgR transcriptional regulator KdgR - 412 413 SPA1066 1133093 1133623 minus dsbB disulfide bond formation protein B - 414 SPA1067 1133765 1135309 minus nhaB regulator of intracellular pH; Na+/H+ antiporter - YPE4088 415 SPA1068 1135529 1136248 plus fadR fatty acid-fatty acyl responsive DNA-binding protein - 416 417 SPA1074 1143510 1144121 plus mltE membrane-bound lytic murein transglycosylase E - 418 SPA1075 1144133 1144868 minus ycgR conserved hypothetical protein pseudogene SPA 419 SPA1076 1145037 1145291 plus ymgE putative membrane protein - 420 SPA1077 1145354 1147066 minus treA "trehalase, periplasmic" - "Typhi, both strains" 421 SPA1078 1147280 1148605 minus - glutamate dehydrogenase homolog - 422 SPA1080 1149051 1150187 minus appB probable cytochrome oxidase subunit II - 423 SPA1081 1150199 1151743 minus appC "probable third cytochrome oxidase, subunit I" - "Typhi, both strains" 424 SPA1082 1151818 1152666 minus hyaF hydrogenase-1 operon protein HyaF - 425 SPA1086 1154400 1156193 minus hyaB hydrogenase-1 large chain (nifE hydrogenase) - 426 SPA1087 1156190 1157297 minus hyaA uptake hydrogenase small subunit pseudogene SPA "Typhi, both strains" 427 SPA1088 1157792 1159057 plus - hypothetical protein - 428 429 SPA1102 1171772 1172872 minus chaA putative calcium/proton antiporter - 430 SPA1103 1173139 1173369 plus chaB cation transport regulator ChaB pseudogene SPA 431 SPA1104 1173449 1173802 minus ychN conserved hypothetical protein - 432 433 SPA1111 1185242 1185952 plus narJ respiratory nitrate reductase 1 delta chain - 434 SPA1112 1185952 1186629 plus narI respiratory nitrate reductase 1 gamma chain - "Flexneri, one strain" 435 SPA1113 1186871 1188400 plus - putative secreted protein - 436 437 SPA1121 1189532 1189861 plus - hypothetical protein - 438 SPA1122 1189922 1190764 minus purU formyltetrahydrofolate deformylase - YPE 3143 439 SPA1123 1190815 1191273 minus ychJ putative cytoplasmic protein - "Typhi, both strains" 440 SPA1124 1191384 1192289 plus ychK conserved hypothetical protein - 441 442 SPA1132 1202857 1203777 plus oppB oligopeptide transport system permease protein OppB - 443 SPA1133 1203792 1204700 plus oppC "ABC superfamily (membrane), oligopeptide transport protein" - "Typhi, both strains" 444 SPA1134 1204712 1205719 plus oppD oligopeptide transport ATP-binding protein OppD - 445 446 SPA1152 1219273 1220631 minus trpC indole-3-glycerol phosphate synthase - 447 SPA1153 1220635 1222230 minus trpD anthranilate synthase component II; anthranilate phosphoribosyltransferase - YPE4088 448 SPA1154 1222230 1223792 minus trpE anthranilate synthase component I - 449 SPA1156 1224942 1225562 plus yciO conserved hypothetical protein - 450 SPA1157 1225663 1226538 plus yciL putative pseudouridine synthase - "Flexneri, one strain" 451 SPA1158 1226625 1227215 minus btuR COB(I) alamin adenosyltransferase - 452 453 SPA1173 1243516 1243704 minus - - - 454 SPA1174 1243817 1245799 minus yciR conserved hypothetical protein - "Flexneri, both strains" 455 SPA1175 1246061 1247995 minus rnb exoribonuclease II - 456 SPA1177 1249417 1250205 minus fabI enoyl-[acyl-carrier-protein] reductase (NADH) - 457 SPA1178 1250811 1252192 plus - hypothetical protein pseudogene SPA 458 SPA1179 1252659 1253366 plus - conserved hypothetical protein - 459 SPA1183 1256195 1256596 plus - integrase - STY not STM 460 SPA1184 1256562 1256711 minus - - SPA 461 SPA1185 1256574 1256704 plus - - SPA 462 SPA1186 1256896 1257780 minus - - - STY not STM 463 SPA1187 1258090 1258503 plus - - - "Typhi, new**" STY not STM 464 SPA1188 1259094 1259519 plus - hypothetical periplasmic protein - "Typhi, both strains" STY not STM 465 SPA1189 1259879 1260270 plus - - SPA "Typhi, both strains" STY not STM 466 SPA1190 1260314 1260451 plus - hypothetical protein - STY not STM 467 468 SPA1205 1273162 1274775 plus mppA periplasmic murein peptide-binding protein MppA - 469 SPA1206 1274872 1275800 minus - putative oxidoreductase pseudogene SPA 470 SPA1207 1275919 1276824 plus - putative transcriptional regulator - 471 472 SPA1211 1279570 1279806 plus - putative lipoprotein - 473 SPA1212 1280019 1281317 minus - hypothetical protein pseudogene SPA 474 SPA1213 1281516 1282367 minus - putative transcriptional regulator - 475 SPA1214 1282665 1283510 plus - putative lipoprotein - 476 SPA1215 1283585 1285568 plus - - SPA 477 SPA1216 1285595 1286422 plus - putative exported protein - 478 479 SPA1221 1288969 1290000 minus ynaI putative membrane protein - 480 SPA1222 1290239 1290493 plus ynaJ putative membrane protein - "Flexneri, one strain" 481 SPA1223 1290548 1291495 minus ydaA conserved hypothetical protein - 482 SPA1225 1292594 1293109 minus ogt O6-methylguanine-DNA-alkyltransferase - 483 SPA1226 1293374 1293937 plus ydaL conserved hypothetical protein - "Flexneri, both strains" 484 SPA1227 1294348 1295502 plus - putative chemo-receptor protein pseudogene SPA 485 SPA1228 1295648 1296631 plus - putative membrane transport protein - 486 SPA1229 1296971 1297044 plus - C0343 - 487 SPA1230 1297118 1298491 plus dbpA "ATP-dependent RNA helicase, stimulated by 23S rRNA" - "Typhi, both strains" 488 SPA1231 1298535 1299470 minus ydaO conserved hypothetical protein - 489 SPA1232 1300158 1301990 plus - hypothetical protein - "Typhi, new**" STY not STM 490 SPA1233 1302265 1302603 plus - putative multidrug transporter - 491 SPA1234 1302656 1303090 minus ynaF conserved hypothetical protein - "Flexneri, one strain" 492 SPA1235 1303435 1303545 plus - IS063 - 493 SPA1236 1303572 1307096 minus nifJ probable pyruvate-flavodoxin oxidoreductase - "Flexneri, one strain" 494 SPA1237 1307483 1307638 plus - conserved hypothetical protein - 495 SPA1238 1307682 1308092 minus hslJ heat shock protein - "Flexneri, possibly syntenic" 496 SPA1239 1308203 1309192 minus ldhA D-lactate dehydrogenase - 497 SPA1240 1309432 1312068 plus ydbH putative periplasmic protein - Typhi TY2 only 498 SPA1241 1312068 1312259 plus ynbE putative lipoprotein - 499 500 SPA1245 1313982 1317884 plus hrpA ATP-dependent helicase HrpA - 501 SPA1246 1317948 1319255 plus ydcF putative inner membrane protein - "Flexneri, both strains" 502 SPA1247 1319475 1321130 plus ydcG putative exported protein - 503 504 SPA1260 1331007 1332020 plus tehA tellurite resistance protein TehA - 505 SPA1261 1332007 1332603 plus tehB tellurite resistance protein TehB - "Flexneri, one strain" 506 SPA1262 1332759 1333427 plus - putative lipoprotein - 507 SPA1263 1333481 1334311 minus - putative benzoate membrane transport protein pseudogene SPA 508 SPA1264 1334637 1336601 plus ydcP putative peptidase - 509 SPA1265 1336602 1336832 minus yncJ conserved hypothetical protein - 510 SPA1266 1337106 1338055 minus sifB putative virulence effector protein pseudogene SPA 511 SPA1267 1338584 1338982 plus ugtL putative membrane protein - 512 513 SPA1278 1351377 1351892 minus yncA putative acetyltransferase - 514 SPA1279 1352071 1353141 plus yncB putative NADP-dependent oxidoreductase - "Flexneri, one strain" 515 SPA1280 1353475 1354140 plus yncC putative regulatory protein - 516 517 SPA1287 1361886 1362779 minus yddE conserved hypothetical protein - 518 SPA1288 1362885 1363565 minus narV "nitrate reductase 2, gamma subunit" - Typhi TY2 only 519 SPA1289 1363562 1364243 minus narW respiratory nitrate reductase 2 delta chain pseudogene SPA Typhi TY2 only 520 SPA1290 1364243 1365787 minus narY respiratory nitrate reductase 2 beta chain - 521 SPA1291 1365784 1369524 minus narZ respiratory nitrate reductase 2 alpha chain - "Flexneri, both strains" 522 SPA1292 1369616 1371004 minus narU nitrite extrusion protein - 523 SPA1294 1371914 1373401 plus smvA methyl viologen resistance protein SmvA - 524 SPA1295 1373426 1373746 minus - putative cytoplasmic protein - "Typhi, both strains" 525 SPA1296 1373950 1375038 minus nmpC new outer membrane protein; predicted bacterial porin - STM not STY 526 SPA1297 1375561 1376385 minus yddG putative permease - "Flexneri, one strain" STM not STY 527 SPA1298 1376720 1379767 plus fdnG putative molybdopterin oxidoreductases - YPE 3143 528 SPA1299 1379781 1380665 plus fdnH "formate dehydrogenase-N, Fe-S beta subunit, nitrate-inducible" - 529 530 SPA1306 1386108 1387025 minus hlyE haemolysin HlyE - STY not STM 531 SPA1307 1387154 1387859 minus - hypothetical protein SPA STY not STM 532 SPA1308 1388562 1388891 plus - putative secreted protein - 533 534 SPA1312 1394314 1396389 plus - putative glycogen debranching protein homolog - 535 SPA1313 1396503 1397705 minus - putative aminotransferase - "Typhi, both strains" 536 SPA1314 1397718 1399146 minus - putative transport protein (pseudogene) pseudogene SPA "Typhi, both strains" 537 SPA1315 1400194 1401087 minus - - - 538 SPA1317 1402003 1403106 plus hyaA uptake hydrogenase small subunit - 539 SPA1318 1403109 1404911 plus hyaB hydrogenase-1 large subunit - "Typhi, both strains" 540 SPA1319 1404862 1405605 plus hyaC Ni/Fe-hydrogenase 1 b-type cytochrome subunit HyaC2 - 541 SPA1320 1405611 1406219 plus hyaD hydrogenase 1 maturation protease - 542 SPA1321 1406226 1406525 plus - hydrogenase isoenzymes formation protein pseudogene SPA 543 SPA1322 1406522 1406932 plus hyaE hydrogenase-1 operon protein HyaE2 - 544 SPA1325 1408899 1409240 plus - putative hydrogenase - STM not STY 545 SPA1326 1409381 1410499 minus - putative outer membrane protein - "Typhi, both strains" 546 SPA1327 1411216 1411758 plus - putative exported protein - 547 SPA1332 1415827 1416699 plus yneJ putative regulatory protein - 548 SPA1333 1416815 1418005 plus ydeA putative membrane transport protein - "Flexneri, one strain" 549 SPA1334 1418052 1418717 minus marC putative membrane protein - 550 SPA1339 1420622 1420744 plus - - - 551 SPA1340 1421093 1421485 minus ydeI putative periplasmic protein - "Typhi, possible" 552 SPA1341 1421912 1422439 plus ydeJ conserved hypothetical protein - 553 554 SPA1346 1427009 1427212 plus ydfZ conserved hypothetical protein - 555 SPA1347 1427279 1428745 minus ydfI putative mannitol dehydrogenase - Typhi TY2 only 556 SPA1348 1428889 1430268 minus ydfJ putative membrane transport protein - 557 SPA1349 1430322 1431341 minus rspB putative dehydrogenase - "Typhi, possible" 558 SPA1350 1431352 1432566 minus rspA starvation sensing protein RspA - 559 SPA1352 1433167 1433508 plus ynfB putative secreted protein - 560 SPA1353 1433544 1434104 plus speG spermidine N1-acetyltransferase - "Flexneri, both strains" 561 SPA1354 1434145 1434864 minus ynfC conserved hypothetical protein - "Flexneri, one strain" 562 SPA1355 1434962 1435267 plus ynfD putative outer membrane protein - "Typhi, both strains" 563 SPA1356 1435424 1437862 plus dmsA putative dimethyl sulfoxide reductase subunit - "Typhi, both strains" 564 SPA1357 1437873 1438490 plus dmsB anaerobic dimethyl sulfoxide reductase chain B - 565 566 SPA1363 1442609 1443757 plus - putative ABC transporter ATP/GTP-binding protein - 567 SPA1364 1443893 1445178 plus - putative voltage gated chloride channel protein pseudogene SPA 568 SPA1365 1445134 1445829 minus ynfK putative dethiobiotin synthetase - 569 SPA1366 1445955 1447175 minus mlc putative regulatory protein - 570 SPA1367 1447303 1448202 minus ynfL putative regulatory protein - YPE 3143 571 SPA1368 1448322 1449575 plus ynfM putative membrane transport protein - "Flexneri, both strains" 572 SPA1369 1449934 1450221 plus asr putative secreted stress response protein - 573 SPA1370 1450490 1451311 plus - putative secreted protein - 574 SPA1371 1451350 1451678 minus ydgE putative membrane transporter pseudogene SPA 575 SPA1372 1451665 1452027 minus ydgF putative conserved membrane protein - 576 577 SPA1380 1460256 1460987 plus rstA putative two-component response regulator - SPA1381 1461052 1461409 minus - - SPA SPA1382 1461466 1462617 plus ompN outer membrane protein - SPA1389 1471586 1473094 plus ydgA conserved hypothetical protein - SPA1390 1473800 1474801 plus add adenosine deaminase pseudogene SPA SPA1391 1474875 1475987 minus ydgJ putative oxidoreductase - SPA1408 1491462 1491929 plus slyB outer membrane lipoprotein SlyB precursor - SPA1409 1491977 1492411 minus slyA transcriptional regulator - "Flexneri, one strain" SPA1410 1492612 1492848 plus ydhI conserved hypothetical protein - SPA1427 1508105 1508746 minus ribE riboflavin synthase alpha chain - SPA1428 1508963 1510336 plus ydhE hypothetical integral membrane protein - "Flexneri, one strain" SPA1429 1510488 1510561 plus - tRNA-Val - SPA1466 1538574 1539194 minus ttrR putative two-component response regulator - SPA1467 1539169 1540917 minus ttrS hypothetical protein - Typhi CT18 only SPA1468 1541111 1541864 plus ttrB tetrathionate reductase subunit B pseudogene SPA SPA1469 1541865 1542887 plus ttrC tetrathionate reductase subunit C (membrane protein) - SPA1470 1542880 1545942 plus ttrA tetrathionate reductase subunit A - SPA1471 1546265 1547491 plus orf408 "putative regulatory protein, deoR family pseudogene" SPA "Typhi, both strains" SPA1472 1547503 1548285 plus orf245 Orf 245 protein - SPA1473 1548298 1549191 plus orf32 putative hydrolase or acyltransferase - "Typhi, both strains" SPA1474 1549213 1550556 plus orf48 putative amino acid permease - SPA1478 1553316 1553555 plus lppB major outer membrane lipoprotein - SPA1479 1553621 1554622 minus ynhG putative LysM domain - "Typhi, both strains" YPE 3143 SPA1480 1554777 1555193 minus ynhA conserved hypothetical protein - "Flexneri, one strain" SPA1481 1555206 1556425 minus sufS putative amintransferase pseudogene SPA SPA1482 1556422 1557693 minus sufD pseudogene of conserved hypothetical protein required for stability of iron-sulfur component of FhuF SPA SPA1483 1557668 1558414 minus sufC putative ABC transport ATP-binding subunit - SPA1513 1589076 1589282 minus - hypothetical protein - SPA1514 1589455 1590309 minus - putative DNA/RNA non-specific endonuclease - "Typhi, both strains" SPA1515 1590306 1590620 minus - putative membrane protein - SPA1517 1591771 1592529 minus ydiY putative outer membrane protein - SPA1518 1592818 1593750 plus pfkB 6-phosphofructokinase isozyme - "Flexneri, one strain" SPA1519 1593847 1594137 plus ydiZ conserved hypothetical protein - SPA1525 1598868 1599110 minus cedA cell division activator CedA - SPA1526 1599475 1601727 plus katE catalase HPII - "Flexneri, one strain" SPA1527 1601771 1602529 minus celG conserved hypothetical protein - SPA1528 1602542 1603897 minus celF phospho-beta-glucosidase B - SPA1529 1604022 1604861 minus celD putative cel operon repressor - "Flexneri, both strains" SPA1530 1604874 1605221 minus celC phosphoenolpyruvate dependent phosphotransferase enzyme III-cellobiose - SPA1531 1605272 1606630 minus celB "PTS system, cellobiose-specific IIC component" - "Flexneri, one strain" SPA1532 1606713 1607033 minus celA "PTS system, cellobiose-specific IIB component" - SPA1539 1612920 1614398 minus astD succinylglutamic semialdehyde dehydrogenase - SPA1540 1614395 1615429 minus astA arginine succinyltransferase - Typhi TY2 only SPA1541 1615420 1616646 minus astC succinylornithine transaminase - "Flexneri, both strains" SPA1542 1617092 1617898 plus xthA exodeoxyribonuclease III - SPA1544 1618347 1618622 minus - putative exported protein - SPA1545 1618861 1620204 plus gdhA NADP-specific glutamate dehydrogenase - "Flexneri, one strain" SPA1546 1620234 1622183 minus topB DNA topoisomerase III - "Flexneri, one strain" SPA1547 1622188 1623231 minus selD selenophosphate synthase - SPA1554 1629151 1630146 plus gapA glyceraldehyde 3-phosphate dehydrogenase A - SPA1555 1630475 1631359 plus yeaD putative enzymes related to aldose 1-epimerase - "Typhi, both strains" SPA1556 1631458 1632315 minus - putative oxidoreductase - SPA1557 1632412 1633608 minus - arylsulfatase regulator - Typhi TY2 only SPA1558 1633898 1634644 minus mipA putative outer membrane protein - SPA1559 1635070 1637003 plus yeaG putative Ser protein kinase pseudogene SPA SPA1560 1637126 1638412 plus yeaH conserved hypothetical protein - SPA1561 1639083 1640576 plus yeaJ putative Methyl-accepting chemotaxis protein; Diguanylate cyclase/phosphodiesterase domain 1 - "Typhi, both strains" "Flexneri, both strains" SPA1562 1640617 1641144 plus yeaK conserved hypothetical protein - SPA1564 1641454 1641900 plus yeaL putative membrane protein - SPA1565 1641880 1642674 minus yeaM putative transcriptional regulator - "Flexneri, both strains" SPA1566 1642775 1643959 plus yeaN putative membrane protein - SPA1580 1649828 1650676 minus - putative transcriptional regulator - SPA1581 1650745 1651338 minus - putative regulatory protein - "Typhi, both strains" SPA1582 1651483 1652271 minus aadA aminoglycoside-resistance protein - SPA1594 1661501 1662463 minus - hypothetical protein - SPA1595 1662431 1662628 plus - putative secreted protein pseudogene SPA SPA1596 1662951 1663124 minus - hypothetical protein - SPA1597 1663379 1663452 minus - tRNA-Arg - SPA1598 1663676 1663832 plus - - SPA SPA1599 1663843 1664400 minus pagC outer membrane invasion protein - SPA1620 1680804 1682267 plus phoQ "sensor protein PhoQ, regulator of virulence determinants" - SPA1621 1682348 1683469 plus ycfD conserved hypothetical protein - "Flexneri, both strains" SPA1622 1683509 1684843 minus - hypothetical protein - SPA1626 1688639 1689649 plus sifA putative virulence determinant - SPA1627 1689965 1690744 plus potC spermidine/putrescine transport system permease protein PotC - "Typhi, both strains" SPA1628 1690769 1691815 plus potD spermidine/putrescine-binding periplasmic protein precursor - SPA1646 1709429 1709788 minus ycfF putative protein kinase C inhibitor - SPA1647 1710130 1712304 plus fhuE "outer membrane receptor for Fe(III)-coprogen, Fe(III)-ferrioxamine B and Fe(III)-rhodotrulic acid uptake pseudogene" SPA "Typhi, both strains" "Flexneri, both strains" SPA1648 1712389 1713822 minus ptsG "PTS system, glucose-specific IIBC component" - SPA1666 1727316 1730519 plus rne ribonuclease E - SPA1667 1730778 1731731 minus flgL flagellar hook-associated protein 3 - "Flexneri, both strains" SPA1668 1731746 1733407 minus flgK flagellar hook-associated protein 1 - "Flexneri, both strains" SPA1669 1733472 1734422 minus flgJ flagellar protein FlgJ - SPA1672 1736284 1737066 minus flgG flagellar basal-body rod protein FlgG (distal rod protein) - SPA1673 1737080 1737835 minus flgF putative flagellar basal-body rod protein FlgF (proximal rod protein) - "Flexneri, both strains" "YPE 3143, paralogue ?" SPA1674 1737856 1739067 minus flgE flagellar hook protein FlgE - SPA1675 1739094 1739792 minus flgD flagellar hook formation protein FlgD - SPA1676 1739804 1740208 minus flgC putative flagellar basal-body rod protein FlgC (proximal rod protein) - "Flexneri, one strain" SPA1677 1740212 1740628 minus flgB putative flagellar basal-body rod protein FlgB (proximal rod protein) - SPA1686 1747878 1748525 plus grxB glutaredoxin 2 - SPA1687 1748583 1749210 plus yceB conserved hypothetical protein SPA SPA1688 1749314 1750360 plus pyrC dihydroorotase - SPA1689 1750434 1750679 plus dinI damage-inducible protein - SPA1690 1750969 1751223 plus yceP conserved hypothetical protein - YPE 3143 SPA1691 1751336 1752454 plus solA putative sarcosine oxidase - SPA1692 1752495 1752608 plus yceO conserved hypothetical protein - SPA1693 1752871 1753443 plus yceJ putative cytochrome - "Typhi, both strains" SPA1694 1753440 1754015 plus yceI putative exported protein - SPA1696 1755339 1756259 plus htrB lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.-) (heat shock protein) - SPA1697 1756414 1757628 plus yceE putative membrane transport protein - "Flexneri, one strain" SPA1698 1757710 1758084 plus msyB acidic protein MsyB; multicopy suppressor of SecY - SPA1706 1766403 1766729 minus csgC conserved hypothetical protein - SPA1707 1766791 1767246 minus csgA major curlin subunit precursor - "Flexneri, both strains" SPA1708 1767288 1767743 minus csgB nucleation component of curlin monomers - SPA1710 1769153 1769548 plus csgE assembly/transport component in curli production - SPA1711 1769575 1769991 plus csgF assembly/transport component in curli production pseudogene SPA SPA1712 1770018 1770851 plus csgG assembly/transport component in curli production - "Flexneri, both strains" SPA1713 1770890 1771420 minus ycdZ putative membrane protein - SPA1715 1772051 1772788 minus ycdX conserved hypothetical protein - SPA1716 1772873 1773811 minus ycdW putative 2-hydroxyacid dehydrogenase in phoh-csgg intergenic region - "Flexneri, both strains" SPA1717 1774048 1774132 plus serX tRNA-Ser - SPA1720 1776966 1777658 minus - putative secreted protein - SPA1721 1777704 1778851 minus - - SPA SPA1722 1779369 1780049 plus - conserved hypothetical protein - SPA1723 1780386 1781882 plus - putative sodium/glucose cotransporter - "Typhi, new**" SPA1724 1782168 1783049 plus - putative transcriptional regulator - SPA1725 1783155 1784009 minus phoH PhoH protein (phosphate starvation-inducible protein PsiH) - "Flexneri, one strain" SPA1726 1784835 1786343 minus putP sodium/proline symporter (proline permease) - SPA1735 1795252 1795875 minus scsC "secreted protein, suppressor for copper-sensitivity C precursor" - SPA1736 1795872 1797758 minus scsB "membrane protein, suppressor for copper-sensitivity B precursor pseudogene" SPA SPA1737 1797807 1798169 minus scsA "membrane protein, suppressor for copper-sensitivity A" - SPA1747 1806499 1807350 minus hpcB "3,4-dihydroxyphenylacetate 2,3-dioxygenase" - SPA1748 1807352 1808818 minus hpaE 4-hydroxyphenylacetate catabolism - "Typhi, both strains" SPA1749 1808815 1810103 minus hpaG "4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase [includes: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase pseudogene" SPA YPE 3143 SPA1750 1810378 1810818 plus hpcR homoprotocatechuate degradative operon repressor - SPA1753 1813461 1813871 minus - putative exported protein - SPA1754 1814007 1814687 plus copR response regulator - "Flexneri, one strain" SPA1755 1814680 1816044 plus copS histidine kinase - SPA1756 1816217 1817686 plus pipD putative secreted peptidase pseudogene SPA SPA1757 1817795 1817905 plus - hypothetical protein - SPA1767 1824469 1824750 minus yccX putative acylphosphatase - SPA1768 1824799 1825578 minus - "bacterial regulatory protein, AraC family" - "Typhi, both strains" SPA1769 1825604 1826151 minus - - SPA "Typhi, both strains" SPA1770 1826366 1827577 plus yccW conserved hypothetical protein - SPA1778 1834618 1835223 minus yccR conserved hypothetical protein - SPA1779 1835440 1835949 plus sulA cell division inhibitor - "Flexneri, one strain" SPA1780 1836306 1837358 plus ompA outer membrane protein A - SPA1795 1855729 1857165 minus - putative ion:amino acid symporter - SPA1796 1857411 1858625 minus - putatiave diaminopropionate ammonia lyase - "Typhi, both strains" SPA1797 1858943 1859404 plus - putative transcriptional regulator - SPA1811 1877823 1878005 minus ycaR conserved hypothetical protein - SPA1812 1878057 1879289 minus ycaQ putative cytoplasmic protein - "Typhi, both strains" SPA1813 1879333 1880310 minus lpxK tetraacyldisaccharide 4'-kinase - SPA1814 1880307 1882055 minus msbA probable transport ATP-binding protein MsbA - SPA1815 1882092 1884356 minus ycaI putative competence-related protein pseudogene SPA "Flexneri, both strains" SPA1816 1884586 1884870 minus himD integration host factor beta-subunit (IHF-beta) - SPA1821 1889927 1890979 minus serC phosphoserine aminotransferase - SPA1822 1891201 1891893 minus ycaP putative membrane protein - "Flexneri, one strain" SPA1823 1892030 1893790 plus ycaO conserved hypothetical protein - SPA1825 1895112 1897394 plus pflB formate acetyltransferase 1 - SPA1826 1897471 1898429 minus sopD2 possible secreted protein pseudogene SPA "Typhi, both strains" SPA1827 1898560 1898886 plus - putative cytoplasmic protein - SPA1829 1900095 1901516 minus ycaM probable transport protein - SPA1830 1901734 1902882 minus ycaD probable transport protein - "Flexneri, one strain" SPA1831 1903095 1903202 minus - hypothetical protein - SPA1832 1903232 1904095 minus dmsC anaerobic dimethyl sulfoxide reductase chain C pseudogene SPA SPA1833 1904097 1904714 minus dmsB anaerobic dimethyl sulfoxide reductase chain B - SPA1852 1926069 1926266 plus - hypothetical protein - STY not STM SPA1853 1926461 1927349 plus - - SPA SPA1854 1928696 1930972 minus clpA ATP-dependent Clp protease ATP-binding subunit ClpA - SPA1874 1951375 1952043 plus artM arginine transport system permease protein ArtM - SPA1875 1952280 1953011 plus artJ arginine-binding periplasmic protein 2 precursor - "YPE 3143, paralogue ?" SPA1876 1953229 1954716 minus - probable sulfatase - SPA1898 1973458 1974216 plus deoR deoxyribose operon repressor - SPA1899 1974261 1975463 minus dacC D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 6 precursor) - "Flexneri, one strain" SPA1900 1975707 1976333 plus yliJ glutathione s-transferase family protein - SPA1901 1976330 1977463 minus yliI putative oxidoreductase - "Flexneri, one strain" SPA1902 1977581 1977964 minus yliH conserved hypothetical protein - SPA1907 1983077 1984948 minus yliA hypothetical ABC transporter ATP-binding protein - SPA1908 1984959 1985843 minus ybiK putative L-asparaginase - "Flexneri, one strain" SPA1909 1986104 1987339 plus moeA molybdopterin biosynthesis MoeA protein - SPA1918 1998127 1998600 minus - transcriptional regulator (iron dependant repressor family) - SPA1919 1999179 2000759 plus ybiP putative membrane protein - "Flexneri, one strain" SPA1920 2000822 2001337 minus ompX outer membrane protein x precursor - SPA1921 2001690 2002577 plus ybiF putative membrane protein pseudogene SPA SPA1922 2002880 2003383 plus dps DNA protection during starvation protein - SPA1923 2003860 2004606 plus glnH glutamine-binding periplasmic protein precursor - "Typhi, both strains" SPA1924 2004752 2005411 plus glnP glutamine transport system permease protein GlnP - SPA1925 2005408 2006130 plus glnQ glutamine transport ATP-binding protein GlnQ - SPA1926 2006249 2008471 plus ybiO putative membrane protein - "Flexneri, one strain" SPA1927 2008468 2009394 minus ybiN putative SAM-dependent methyltransferase - "Typhi, both strains" SPA1928 2009599 2009865 plus ybiI hypothetical Zinc-finger containing protein - SPA1930 2010150 2010410 plus ybiJ putative exported protein - SPA1931 2010566 2011540 minus ybiB putative transferase - "Typhi, both strains" SPA1932 2011570 2013714 minus dinG LexA regulated (SOS) repair enzyme - "Typhi, both strains" SPA1933 2013921 2015282 minus rhlE putative ATP-dependent RNA helicase rhlE - SPA1934 2015512 2016186 plus ybiH hypothetical tetR-family transcriptional regulator - SPA1942 2023756 2024718 plus ybhN putative membrane protein - SPA1943 2024721 2024963 minus - - - "Typhi, both strains" SPA1944 2025153 2025860 minus ybhM putative membrane protein - SPA1945 2026007 2026711 minus ybhL putative permease - "Typhi, both strains" SPA1946 2026759 2027211 minus moaE "molybdopterin converting factor, subunit 2" - SPA1951 2029859 2030767 plus ybhK conserved hypothetical protein - SPA1952 2030862 2033127 minus slrP leucine-rich repeat protein pseudogene SPA "Typhi, both strains" SPA1953 2033135 2033308 minus - hypothetical protein - SPA1961 2041895 2043415 minus hutH histidine ammonia-lyase - SPA1962 2043417 2045102 minus hutU urocanate hydratase pseudogene SPA SPA1963 2045299 2046024 minus hutC histidine utilization repressor - SPA1978 2060550 2061698 plus galK galactokinase - SPA1979 2061692 2062732 plus galM aldose 1-epimerase (mutarotase) - YPE 3143 SPA1980 2062956 2063708 plus gpmA phosphoglycerate mutase 1 - SPA1982 2064575 2065654 minus - ABC transporter permease (FecCD_family) - SPA1983 2065807 2066859 minus aroG phospho-2-dehydro-3-deoxyheptonate aldolase (DAHP synthetase) phenylalanine repressible - "YPE 3143, paralogue ?" SPA1984 2067179 2067565 plus ybgS probable secreted protein - SPA2016 2096670 2096807 minus - hypothetical protein - SPA2017 2096875 2098824 minus - putative glycosyl transferase - "Typhi, both strains" SPA2018 2098828 2099661 minus - conserved hypothetical protein - SPA2019 2099854 2101632 minus - "putative glycosyltransferase, cell wall biogenesis" - "Typhi, both strains" SPA2020 2101726 2102436 minus - putative polysaccharide export ABC transporter ATP-binding protein - SPA2021 2103339 2104472 minus - galactosyltransferase - SPA2022 2105377 2106555 minus - UDP-galactopyranose mutase - "Typhi, possible" SPA2023 2106814 2107554 minus - hypothetical protein - SPA2024 2107564 2107890 minus - - SPA SPA2025 2108350 2108916 minus - probable DNA recombinase - SPA2027 2109430 2110164 minus ybgL conserved hypothetical protein - SPA2028 2110154 2111086 minus ybgK conserved hypothetical protein - "Flexneri, both strains" SPA2029 2111080 2111736 minus ybgJ conserved hypothetical protein - YPE 3143 SPA2030 2111752 2112495 minus ybgI conserved hypothetical protein - SPA2035 2116508 2118187 plus kdpA potassium-transporting ATPase A chain - SPA2036 2118208 2120256 plus kdpB "P-type ATPase, high-affinity potassium transport system, B chain" - "Flexneri, both strains" SPA2037 2120262 2120849 plus kdpC potassium-transporting ATPase C chain - SPA2038 2120846 2123530 plus kdpD sensor protein KdpD - "Flexneri, both strains" SPA2039 2123527 2124204 plus kdpE KDP operon transcriptional regulatory protein - "Flexneri, both strains" SPA2040 2124967 2127165 plus speF "ornithine decarboxylase isozyme, inducible" - "Typhi, both strains" "Flexneri, both strains" SPA2041 2127162 2128481 plus potE putrescine-ornithine antiporter - SPA2059 2147847 2149067 plus nagC N-acetylglucosamine repressor - SPA2060 2149114 2149866 plus nagD NagD protein - "Flexneri, both strains" SPA2061 2150156 2151819 plus asnB asparagine synthetase B pseudogene SPA SPA2062 2152041 2152114 plus metU tRNA-Met - SPA2079 2163619 2164554 plus ybeK probable nucleoside hydrolase - SPA2080 2164586 2165137 plus - putative cytoplasmic protein - "Typhi, both strains" SPA2081 2165425 2165898 minus ybeL conserved hypothetical protein - SPA2102 2187674 2187877 minus tatE sec-independent protein translocase protein TatE - SPA2103 2188006 2188794 minus ybeM putative hydrolase - "Typhi, both strains" SPA2104 2188885 2189268 plus crcB putative membrane protein - SPA2107 2190674 2192059 plus dcuC C4-dicarboxylate anaerobic carrier - SPA2108 2192113 2192793 minus dpiA transcriptional regulatory protein DpiA - "Flexneri, both strains" SPA2109 2192762 2194423 minus dpiB sensor kinase DpiB pseudogene SPA SPA2110 2194859 2195884 plus citC [citrate (pro-3S)-lyase] ligase - SPA2113 2197092 2198621 plus citF citrate lyase alpha chain - SPA2114 2198757 2199176 plus citX conserved hypothetical protein - "Flexneri, one strain" SPA2115 2199148 2200044 plus citG CitG protein - SPA2116 2200082 2201587 plus citT citrate carrier - "Flexneri, both strains" SPA2117 2201697 2202503 plus rna ribonuclease I precursor - SPA2118 2202738 2203148 plus rnk regulator of nucleoside diphosphate kinase - SPA2119 2203231 2204468 minus ybdR hypothetical zinc-dependant alcohol dehydrogenase pseudogene SPA SPA2120 2204691 2205119 plus ybdQ conserved hypothetical protein - SPA2128 2213547 2214449 plus ybdO putative lysR-family transcriptional regulator - SPA2129 2214615 2215850 plus ybdN conserved hypothetical protein - "Flexneri, both strains" SPA2130 2215823 2216440 plus ybdM conserved hypothetical protein - "Flexneri, both strains" SPA2131 2216441 2217601 minus ybdL putative aminotransferase - SPA2138 2223442 2225055 minus entE "2,3-dihydroxybenzoate-AMP ligase" - SPA2139 2225062 2226231 minus entC isochorismate synthase EntC - "Flexneri, both strains" SPA2140 2226546 2227502 plus fepB ferrienterobactin-binding periplasmic protein precursor - SPA2144 2230913 2231707 plus fepC ferric enterobactin transport ATP-binding protein FepC - SPA2145 2231760 2232896 minus fepE ferric enterobactin (enterochelin) transporter - "Typhi, both strains" "Flexneri, both strains" SPA2146 2233146 2237030 minus entF enterobactin synthetase component F - SPA2155 2244347 2244715 plus ybdF conserved hypothetical protein - SPA2156 2244812 2245465 plus nfnB oxygen-insensitive NAD(P)H nitroreductase - "Flexneri, one strain" SPA2157 2245732 2247702 minus apeE outer membrane esterase - SPA2159 2249302 2250696 minus pheP phenylalanine-specific permease - SPA2160 2251022 2252197 plus - putative ATPase involved in DNA repair - "Typhi, new**" SPA2161 2252276 2252836 minus ykgB putative membrane protein - SPA2164 2254783 2255637 plus ykgD hypothetical araC-family transcriptional regulator - SPA2165 2255618 2255899 minus silA putative inner membrane proton/cation antiporter - "Typhi, both strains" SPA2166 2256198 2256443 plus - possible copper-binding protein - SPA2168 2257205 2258131 plus gtrB bactoprenol glucosyltransferase - SPA2169 2258112 2259764 plus - putative membrane protein pseudogene SPA SPA2170 2260150 2260368 plus - putative transposase - "Typhi, both strains" SPA2171 2260403 2260817 plus - - SPA "Typhi, both strains" SPA2172 2260936 2261009 minus - tRNA-Arg - SPA2175 2262352 2263074 plus fimY fimbriae Y protein - SPA2176 2263678 2264310 plus fimZ probable transcriptional regulator (FimXZ protein) - "Flexneri, possibly syntenic" SPA2177 2264356 2264874 minus fimF fimbria-like protein FimF precursor - SPA2180 2268549 2269241 minus fimC fimbrial chaperone protein - SPA2181 2269285 2269818 minus fimI hypothetical protein - Typhi CT18 only SPA2182 2269893 2270450 minus fimA "type-1 fimbrial protein, a chain precursor" - SPA2191 2277341 2278234 minus arcC carbamate kinase - SPA2192 2278238 2279047 minus ylbF conserved hypothetical protein - "Flexneri, one strain" SPA2193 2279059 2280318 minus ylbE conserved hypothetical protein - SPA2194 2280328 2281901 minus fdrA FdrA protein pseudogene SPA SPA2195 2282217 2283266 plus allD ureidoglycolate dehydrogenase - SPA2200 2287927 2289288 minus allB putative allantoinase - SPA2201 2289367 2290821 minus - - SPA "Typhi, both strains" SPA2202 2290917 2292164 minus - probable metabolite transport protein - SPA2206 2295863 2296681 minus allR negative regulator of allantoin and glyoxylate utilization operons - SPA2207 2296760 2297242 minus allA ureidoglycolate hydrolase - "Typhi, both strains" SPA2208 2297469 2298395 plus ybbS hypothetical lysR-family transcriptional regulator - SPA2213 2302390 2303523 minus - outer membrane protein - SPA2214 2303709 2306123 minus ybbP putative membrane protein - "Flexneri, one strain" SPA2215 2306120 2306806 minus ybbA hypothetical ABC transporter ATP-binding protein - SPA2216 2306777 2307391 plus tesA acyl-coA thioesterase I - "Flexneri, both strains" SPA2217 2307546 2308316 plus ybbO hypothetical oxidoreductase - SPA2220 2310082 2310759 minus ybbL putative ABC transporter ATP-binding protein - SPA2221 2310879 2311643 plus ybbK putative membrane protein pseudogene SPA SPA2222 2311640 2312092 plus ybbJ putative membrane protein - SPA2227 2317183 2317662 plus ybaK conserved hypothetical protein - SPA2228 2317779 2319431 minus ushA UDP-sugar hydrolase 5'-nucleotidase - "Typhi, both strains" YPE 3143 YPE4088 SPA2229 2319603 2320823 plus fsr fosmidomycin resistance protein - SPA2239 2332678 2333229 minus apt adenine phosphoribosyltransferase - SPA2240 2333382 2333759 minus ybaN putative membrane protein - YPE 3143 SPA2241 2333828 2334355 plus priC primosomal replication protein N - "Typhi, both strains" SPA2242 2334369 2334536 plus ybaM conserved hypothetical protein - SPA2243 2334606 2335529 plus - conserved hypothetical protein - "Typhi, both strains" SPA2244 2335571 2338933 minus aefA integral membrane protein AefA - SPA2249 2345110 2345328 plus hha haemolysin expression modulating protein - SPA2250 2345507 2346058 plus maA maltose O-acetyltransferase - "Flexneri, both strains" SPA2251 2346174 2346644 plus ylaC putative membrane protein - SPA2265 2358058 2358876 minus cof conserved hypothetical protein - SPA2266 2358977 2360677 plus ybaE putative solute-binding protein - "Flexneri, one strain" SPA2267 2360742 2361437 plus ybaX conserved hypothetical protein - SPA2278 2373033 2374508 plus ampG AmpG protein - SPA2279 2374961 2375917 plus cyoA cytochrome o ubiquinol oxidase subunit II - "Flexneri, both strains" SPA2280 2375928 2377919 plus cyoB cytochrome o ubiquinol oxidase subunit I - "Flexneri, both strains" SPA2281 2377909 2378523 plus cyoC cytochrome o ubiquinol oxidase subunit III - SPA2284 2379802 2380956 minus - conserved hypothetical protein - SPA2285 2381283 2382794 minus - putative periplasmic protein - "Typhi, new**" SPA2286 2382969 2383103 plus - transposase - STM not STY SPA2301 2396558 2398420 plus dxs 1-deoxyxylulose-5-phosphate synthase - SPA2302 2398477 2399451 plus yajO putative oxidoreductase - "Flexneri, one strain" SPA2303 2399555 2400070 minus pgpA phosphatidylglycerophosphatase A - SPA2307 2402103 2403206 minus ribD riboflavin biosynthesis protein RibD - SPA2308 2403210 2403659 minus ybaD hypothetical protein - Typhi CT18 only SPA2309 2403811 2404350 plus yajI putative lipoprotein - SPA2310 2404650 2405513 plus tsx nucleoside-specific channel-forming protein tsx precursor - SPA2311 2405568 2405894 plus - hypothetical protein - "Typhi, both strains" SPA2312 2406142 2406489 minus yajD conserved hypothetical protein - SPA2319 2412423 2413487 minus queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase - SPA2320 2413581 2414162 plus yajB conserved hypothetical protein - "Flexneri, one strain" SPA2321 2414372 2414974 plus - probable peroxidase - SPA2327 2422466 2423668 plus sbcD exonuclease SbcD - SPA2328 2423665 2426805 plus sbcC exonuclease SbcC - YPE 3143 SPA2329 2426978 2428150 plus araJ "MFS family, arabinose polymer transporter" - "Typhi, both strains" SPA2330 2428170 2429078 minus yajF hypothetical ROK-family protein - "Flexneri, one strain" SPA2331 2429321 2430115 plus rdgC recombination associated protein RdgC - SPA2332 2430158 2430442 minus yaiE conserved hypothetical protein - SPA2333 2430513 2431190 minus aroM "protein of aro operon, regulated by aroR" - Typhi TY2 only SPA2334 2431441 2431632 minus yaiA conserved hypothetical protein - SPA2342 2437618 2438331 minus - hypothetical protein - SPA2343 2438409 2439497 plus ddlA D-alanine:D-alanine ligase A pseudogene SPA SPA2344 2439523 2439738 minus yaiZ putative membrane protein - SPA2348 2443028 2444185 plus ampH penicillin-binding protein AmpH - SPA2349 2444230 2444853 minus yaiV conserved hypothetical protein - "Flexneri, one strain" SPA2350 2444939 2447884 minus yaiU putative flagellin structural protein - "Flexneri, both strains" SPA2351 2448397 2449371 plus hemB delta-aminolevulinic acid dehydratase - SPA2356 2455338 2456963 plus prpR propionate catabolism operon regulatory protein - SPA2357 2457099 2457374 minus yahO probable secreted protein - "Typhi, both strains" SPA2358 2457606 2458238 plus yahN RhtC-like transporter - SPA2360 2460533 2461537 minus - AraC-family transcriptional regulator - SPA2361 2461572 2461859 minus - hypothetical protein pseudogene SPA SPA2362 2461876 2462886 minus - probable terminal oxidase subunit II - SPA2364 2464403 2464504 minus - hypothetical protein - SPA2365 2464781 2467750 minus res DNA restriction (DNA helicase - "Typhi, both strains" SPA2366 2467763 2469721 minus mod type III restriction-modification system StyLTI enzyme mod - SPA2368 2471256 2471411 plus - hypothetical protein pseudogene SPA SPA2368 2471357 2471824 plus - hypothetical protein - SPA2370 2472406 2472765 minus - probable lipoprotein - SPA2373 2473843 2474367 minus - possible outer membrane protein - SPA2374 2474707 2475256 minus - hypothetical protein pseudogene SPA SPA2375 2475289 2475972 minus - possible transmembrane regulator - SPA2380 2480417 2481178 plus stbB fimbrial chaperone protein - SPA2381 2481162 2483723 plus stbC outer membrane fimbrial usher protein - Typhi TY2 only SPA2382 2483728 2485053 plus stbD putative fimbrial protein - SPA2387 2488061 2489518 plus gtrC O-antigen conversion: translocase - SPA unique SPA2388 2489577 2491580 minus gp9 tailspike - "Typhi, both strains" SPA unique SPA2389 2491716 2491964 plus mnt regulatory - SPA unique SPA2427 2523352 2523852 plus ORF109 - - STY not STM SPA2428 2524618 2525703 plus eaa1 unknown - Typhi TY2 only STY not STM SPA2429 2525624 2525980 plus - - - SPA unique SPA2449 2545813 2546532 plus - possible outer membrane adhesin - SPA2450 2547495 2548112 minus - hypothetical protein pseudogene SPA STY not STM SPA2451 2548252 2548707 minus tinR transcriptional regulator - STY not STM SPA2455 2553364 2554074 minus tcfA putative fimbrial protein - STY not STM SPA2456 2555289 2555666 plus - - - "Typhi, both strains" STY not STM SPA2457 2555725 2555892 minus - - - "Typhi, both strains" SPA2458 2555967 2556092 minus - hypothetical protein - SPA2460 2557976 2558797 minus ybeJ putative xylanase/chitin deacetylase - SPA2461 2559205 2559669 minus safD putative fimbrial structural subunit pseudogene SPA SPA2462 2559697 2562207 minus safC outer-membrane fimbrial usher protein - SPA2463 2562231 2562971 minus safB periplasmic fimbrial chaperone protein - SPA2464 2563672 2564166 minus safA probable lipoprotein - "Typhi, both strains" SPA2465 2564946 2565227 minus - - - "Typhi, both strains" SPA2466 2565453 2565650 minus - - - "Typhi, both strains" SPA2467 2565703 2566017 plus - hypothetical protein - SPA2468 2566054 2566362 minus - - SPA SPA2469 2568786 2569097 minus - - - SPA unique SPA2476 2578952 2579425 minus - probable secreted protein - STY not STM SPA2477 2579410 2579879 minus - hypothetical protein pseudogene SPA STY not STM SPA2478 2579922 2580689 minus - hypothetical protein - SPA2479 2580689 2584549 minus - putative inner membrane protein - "Typhi, both strains" SPA2480 2584583 2585014 minus - putative shiga-like toxin A subunit - STM not STY SPA2491 2592217 2592342 minus - - - SPA2492 2592670 2594178 minus - - - "Typhi, both strains" SPA2493 2594202 2594744 minus - conserved hypothetical protein - SPA2497 2598133 2598204 plus - hypothetical protein - SPA2498 2598213 2599115 plus - hypothetical protein pseudogene SPA SPA2499 2599102 2599926 plus - hypothetical protein - SPA2502 2602313 2603308 plus - hypothetical protein - SPA2503 2603319 2604362 plus - putative cytoplasmic protein - "Typhi, new**" SPA2504 2604686 2604759 minus - tRNA-Asp - SPA2525 2625513 2625851 plus yfiA putative sigma(54) modulation protein - SPA2526 2626102 2627262 plus pheA chorismate mutase-P/prephenate dehydratase - YPE 3143 YPE4088 SPA2527 2627223 2628131 minus - conserved hypothetical protein - SPA2530 2630830 2631348 plus yfiR putative exported protein - SPA2531 2631341 2632561 plus yfiN putative membrane protein - "Flexneri, possibly syntenic" SPA2532 2632718 2633065 minus rplS 50S ribosomal subunit protein L19 - SPA2562 2668329 2669501 minus - probable major tail sheath protein - SPA2563 2669604 2669822 minus pin inversion of adjacent DNA; at locus of e14 element - "Typhi, both strains" SPA2564 2670036 2670758 plus sopE invasion-associated secreted protein. - STY not STM SPA2565 2670956 2671363 minus - putative phage tail fibre protein - SPA2566 2671370 2672989 minus - probable phage tail fiber protein - "Typhi, both strains" SPA2567 2672986 2673591 minus - putative phage tail protein - STM not STY SPA2587 2687144 2687362 minus - hypothetical protein - SPA2588 2687458 2687691 minus - - - "Typhi, both strains" SPA2589 2687703 2687891 minus - hypothetical protein - "Typhi, both strains" SPA2590 2688059 2690461 minus - conserved hypothetical protein - SPA2605 2702343 2702870 minus - - - SPA2606 2702888 2703922 minus - - SPA SPA2607 2704925 2705500 minus - - - SPA unique SPA2627 2729053 2730573 minus fljB Flagellar synthesis: phase 2 flagellin (filament structural protein) - "Typhi, both strains (deletion)" SPA2628 2730665 2731236 plus hin H inversion: regulation of flagellar gene expression by site-specific inversion of DNA pseudogene SPA "Typhi, both strains (deletion)" STM not STY SPA2629 2732199 2733314 plus iroB putative glycosyltransferase - SPA2633 2739414 2741588 minus iroN TonB-dependent outer membrane siderophore receptor protein - SPA2634 2741935 2742177 plus - hypothetical protein pseudogene SPA SPA2635 2742119 2742451 minus - putative inner membrane protein - SPA2638 2745421 2746317 plus mig-14 putative transcriptional regulator - SPA2639 2747040 2748053 minus nxiA putative nickel transporter - "Typhi, both strains" SPA2640 2748186 2749601 minus tctE putative two-component system sensor kinase - SPA2647 2754671 2755939 plus ygaF putative GAB DTP gene cluster repressor - SPA2648 2755961 2757409 plus gabD succinate-semialdehyde dehydrogenase - "Flexneri, both strains" SPA2649 2757424 2758707 plus gabT 4-aminobutyrate aminotransferase - SPA2650 2758897 2760237 plus gabP GabA permease (4-amino butyrate transport carrier) - Typhi TY2 only SPA2651 2760279 2760956 plus ygaE putative transcriptional regulator - SPA2652 2760978 2761457 minus ygaU putative LysM domain - "Typhi, both strains" SPA2653 2761527 2761685 minus yqaE conserved hypothetical protein - SPA2659 2764585 2764986 minus ygaC conserved hypothetical protein - SPA2660 2765558 2766892 minus - - - "Typhi, both strains" SPA2661 2766981 2767412 plus - conserved hypothetical protein - SPA2663 2767684 2767929 plus nrdH putative glutaredoxin - SPA2664 2767926 2768336 plus nrdI NrdI protein - YPE4088 SPA2665 2768309 2770453 plus nrdE ribonucleoside-diphosphate reductase 2 alpha chain - SPA2666 2770464 2771423 plus nrdF ribonucleoside-diphosphate reductase 2 beta chain pseudogene SPA SPA2667 2771778 2772980 plus proV "ABC superfamily (atp_bind), glycine/betaine/proline transport protein" - "Typhi, both strains" SPA2668 2772973 2774037 plus proW glycine betaine/L-proline transport system permease protein P - SPA2669 2774107 2775102 plus proX glycine betaine-binding periplasmic protein precursor - "Flexneri, one strain" SPA2670 2775267 2776451 plus - putative transmembrane transport protein - SPA2671 2776948 2777478 plus emrR putative transcriptional regulator - SPA2672 2777605 2778777 plus emrA multidrug resistance protein A - "Flexneri, both strains" SPA2673 2778794 2780332 plus emrB multidrug resistance protein B - SPA2674 2780381 2781751 minus - putative glycoporin pseudogene SPA SPA2675 2782097 2782612 minus luxS autoinducer-2 production protein LuxS - SPA2684 2786372 2786557 minus csrA carbon storage regulator - SPA2685 2786792 2789422 minus alaS alanyl-tRNA synthetase - "Typhi, both strains" SPA2686 2789658 2790158 minus oraA putative regulatory protein RecX - SPA2689 2792397 2793476 minus mltB membrane-bound lytic transglycosylase B precursor - SPA2690 2793730 2794293 plus srlA "PTS system, glucitol/sorbitol-specific IIBC component" - "Flexneri, both strains" SPA2691 2794290 2795261 plus srlE "PTS system, glucitol/sorbitol-specific IIBC component" - SPA2758 2858924 2859367 plus invH cell adherance/invasion protein - SPA2759 2859762 2859980 plus - - - "Typhi, both strains" SPA2760 2860250 2860531 plus - hypothetical protein - SPA2761 2860531 2861055 plus - hypothetical protein - SPA2762 2861128 2861555 minus - - SPA "Typhi, both strains" SPA2763 2861782 2862438 plus pphB possible serine/threonine protein phosphatase pseudogene SPA SPA2764 2862608 2862793 minus - hypothetical protein - SPA2773 2871770 2872408 minus ygbL possible sugar aldolase - SPA2774 2872405 2873667 minus - - - "Typhi, both strains" SPA2775 2873661 2874584 minus ygbJ 3-hydroxyisobutyrate dehydrogenase - "Typhi, both strains" SPA2776 2874781 2875545 plus ygbI DeoR-family trancriptional regulator - "Flexneri, both strains" SPA2777 2875564 2875968 minus slyA putative regulatory protein - SPA2778 2876139 2878160 plus - - - "Typhi, new**" SPA2779 2878171 2878407 plus - conserved hypothetical protein - SPA2780 2878452 2879444 minus rpoS RNA polymerase sigma subunit RpoS (sigma-38) - "Flexneri, one strain" SPA2781 2879507 2880640 minus nlpD lipoprotein NlpD precursor - SPA2791 2887349 2888257 minus cysD ATP sulfurylase (ATP:sulfate adenyltransferase) - SPA2792 2888508 2889554 plus iap alkaline phosphatase isozyme conversion protein pseudogene SPA SPA2793 2889987 2890280 minus ygbF conserved hypothetical protein - SPA2798 2893720 2894322 minus - hypothetical protein - STY not STM SPA2799 2894339 2895874 minus - hypothetical protein pseudogene SPA SPA2800 2896232 2898438 plus - conserved hypothetical protein pseudogene SPA SPA2801 2899311 2900264 plus sopD possible secreted protein - SPA2802 2900352 2901086 minus cysH 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase - YPE 3143 SPA2803 2901162 2902874 minus cysI sulfite reductase (NADPH) hemoprotein alpha subunit - SPA2805 2905109 2905471 plus ptpS putative 6-pyruvoyl tetrahydrobiopterin synthase - SPA2806 2905559 2906355 minus - conserved hypothetical protein pseudogene SPA SPA2807 2906961 2907632 minus ygcF conserved hypothetical protein - SPA2811 2911014 2911814 minus mazG conserved hypothetical protein - SPA2812 2912423 2913010 plus steA putative fimbrial subunit - "Typhi, both strains" SPA2813 2913144 2915789 plus steB outer membrane usher protein - SPA2814 2915802 2916575 plus steC periplasmic fimbrial chaperone - "Flexneri, possibly syntenic" SPA2815 2916601 2917101 plus steD fimbrial subunit - SPA2823 2925521 2928277 plus barA sensor protein - SPA2824 2928321 2929463 minus - conserved hypothetical protein - "Typhi, both strains" SPA2825 2929541 2930878 minus ygcX probable glucarate dehydratase 1 - SPA2826 2930875 2932232 minus gudT "putative MFS superfamily, D-glucarate permease pseudogene" SPA SPA2827 2932713 2933162 minus - conserved hypothetical protein - SPA2840 2945850 2947625 plus fucI L-fuculose isomerase - SPA2841 2947726 2949144 plus fucK L-fuculose kinase - "Flexneri, both strains" SPA2842 2949146 2949568 plus fucU fuscose operon fucU protein - SPA2864 2974440 2975003 minus ppdB prepilin peptidase dependent protein B precursor - SPA2865 2974994 2975464 minus ppdA prepilin peptidase dependent protein A precursor - "Flexneri, possibly syntenic" SPA2866 2975649 2976443 minus thyA thymidylate synthetase - SPA2888 2999529 3000011 plus - conserved hypothetical protein - SPA2889 3000153 3001382 plus - probable amino acid transport protein - "Typhi, both strains" SPA2890 3001413 3001685 minus yohL conserved hypothetical protein - SPA2891 3001811 3002635 plus yohM putative inner membrane protein - "Typhi, both strains" "Flexneri, both strains" SPA2892 3002850 3003608 minus - hypothetical protein - SPA2893 3003595 3004107 minus - hypothetical protein - SPA2894 3004252 3005319 minus - - - "Flexneri, possibly syntenic" SPA2895 3005316 3006059 minus stdC probable fimbrial chaperone protein - SPA2896 3006100 3008589 minus stdB probable outer membrane fimbrial usher protein - "YPE 3143, paralogue ?" SPA2897 3008709 3009293 minus stdA probable fimbrial protein - SPA2898 3010011 3010610 minus - conserved hypothetical protein - SPA2899 3010690 3011227 minus - outer membrane protein (associated with virulence) pseudogene SPA SPA2900 3011905 3012363 minus tnpA transposase for insertion sequence element IS200 - SPA2902 3013142 3013369 minus - hypothetical protein (assiciated with virulence) - SPA2903 3013578 3013829 plus - endonuclease fragment - "Typhi, both strains" SPA2904 3014110 3014910 plus - conserved hypothetical protein - SPA2908 3016839 3018356 minus lysS lysyl tRNA synthetase (LysRS) - SPA2909 3018366 3019464 minus prfB peptide chain release factor 2 - "Flexneri, one strain" SPA2910 3019569 3021302 minus recJ single-stranded DNA-specific exonuclease - SPA2917 3025634 3026293 minus yqfA putative membrane protein - SPA2918 3026458 3026769 minus yqfB conserved hypothetical protein - "Flexneri, both strains" SPA2919 3026928 3028361 plus bglA 6-phospho-beta-glucosidase - SPA2936 3044370 3045116 minus yggE conserved hypothetical protein - SPA2937 3045210 3045845 minus yggA possible membrane transport protein - SPA2938 3046046 3046906 minus yggB putative membrane protein - SPA2940 3048310 3049473 minus pgk phosphoglycerate kinase - SPA2941 3049495 3050541 minus epd D-erythrose 4-phosphate dehydrogenase - "Flexneri, one strain" SPA2942 3050915 3051340 plus - conserved hypothetical protein - SPA2969 3074840 3075886 minus ansB L-asparaginase - SPA2970 3076075 3076791 minus yggN conserved hypothetical protein - YPE 3143 SPA2971 3076844 3077170 minus yggL conserved hypothetical protein - SPA2976 3080814 3082070 plus nupG nucleoside permease - SPA2977 3082132 3084258 minus speC ornithine decarboxylase isozyme - "Typhi, both strains" SPA2978 3084692 3085399 plus yqgA putative membrane protein - SPA3009 3114186 3114896 minus - hypothetical protein - SPA3010 3114896 3115948 minus - "possible ABC-transport protein, periplasmic-binding component pseudogene" SPA SPA3011 3116024 3116272 minus hybG hydrogenase-2 component protein - SPA3016 3119309 3120487 minus hybB probable hydrogenase-2 cytochrome b subunit - SPA3017 3120477 3121463 minus hybA hydrogenase-2 small subunit - "Flexneri, one strain" SPA3018 3121466 3122584 minus hyb0 hydrogenase-2 small chain protein - SPA3019 3122774 3123061 minus yghW conserved hypothetical protein - SPA3020 3123146 3124789 minus - - - "Typhi, both strains" SPA3021 3125096 3125590 minus yqhA putative membrane protein - SPA3032 3132897 3134060 plus yqhD probable alcohol dehydrogenase - SPA3033 3134166 3134993 plus yqhE "2,5-diketo-D-gluconate reductase A" - "Typhi, both strains" SPA3034 3135181 3136644 plus - possible membrane transport protein - SPA3039 3142511 3143494 minus - hypothetical protein - STY not STM SPA3040 3144116 3144807 minus - - SPA STY not STM SPA3041 3145047 3146459 minus sufI SufI protein - SPA3047 3152034 3153383 plus ygiY probable two-component system sensor histidine kinase - SPA3048 3153490 3154071 plus mdaB NADPH specific quinone oxidoreductase (drug modulator) - "Typhi, both strains" SPA3049 3154103 3154417 plus ygiN conserved hypothetical protein - SPA3064 3169342 3169698 plus yqiC conserved hypothetical protein - SPA3065 3169773 3169976 minus glgS glycogen synthesis protein GlgS - "Flexneri, one strain" SPA3066 3170240 3170860 plus - putative membrane protein - SPA3079 3186724 3188706 plus rpoD RNA polymerase sigma-70 factor - SPA3080 3188830 3189336 minus mug G/U mismatch-specific DNA glycosylase - "Flexneri, both strains" SPA3081 3189462 3189534 plus ileX tRNA-Met - SPA3082 3189617 3190384 minus yqjH conserved hypothetical protein - "Flexneri, both strains" SPA3083 3190619 3191263 plus yqjI conserved hypothetical protein - SPA3084 3191260 3192825 minus cheM methyl-accepting chemotaxis protein II - "YPE 3143, paralogue ?" SPA3085 3193213 3194733 minus air aerotaxis receptor protein - "Flexneri, both strains" SPA3086 3195253 3196542 plus oat probable aminotransferase - SPA3087 3196713 3198731 plus fadH "2,4-dieonyl-coa reductase" - "Typhi, both strains" SPA3088 3198812 3199948 minus ygjO conserved hypothetical protein - SPA3096 3206314 3206697 plus yqjB putative exported protein - SPA3097 3206842 3207210 plus yqjC putative exported protein - "Flexneri, both strains" SPA3098 3207252 3207557 plus yqjD conserved hypothetical protein - SPA3100 3207955 3208254 plus yqjK conserved hypothetical protein - SPA3101 3208399 3208884 plus yqjF putative membrane protein - "Flexneri, one strain" SPA3102 3208952 3209938 plus yqjG conserved hypothetical protein - SPA3105 3211467 3212168 plus yhaK conserved hypothetical protein - SPA3106 3212192 3212348 plus yhaL putative cytoplasmic protein pseudogene SPA SPA3107 3212461 3213771 minus yhaN conserved hypothetical protein - SPA3108 3213797 3215128 minus yhaO putative HAAAP family transport protein pseudogene SPA "Typhi, both strains" SPA3109 3215443 3216807 minus tdcG L-serine dehydratase - SPA3111 3219205 3220413 minus tdcD propionate kinase - SPA3112 3220480 3221811 minus tdcC "HAAAP family, L-threonine/ L-serine permease, anaerobically inducible" - "Typhi, both strains" SPA3113 3221832 3222821 minus tdcB catabolic threonine dehydratase - SPA3117 3226559 3227443 minus garR 2-hydroxy-3-oxopropionate reductase - SPA3118 3227475 3228245 minus garL 5-keto-4-deoxy-D-glucarate aldolase - "Flexneri, both strains" SPA3119 3228776 3230343 plus garD D-galactarate dehydratase pseudogene SPA SPA3120 3230583 3231530 minus - possible carbohydrate kinase - SPA3125 3235928 3236734 plus - PTS-transport family phosphoryl transfer protein - SPA3126 3236932 3238203 plus gatZ putative tagatose 6-phosphate kinase 1 - "Typhi, both strains" SPA3127 3238218 3238682 plus gatA "PTS system, galactitol-specific IIA component" - SPA3144 3251389 3252267 plus yhbV conserved hypothetical protein - SPA3145 3252445 3253451 plus yhbW possible monooxygenase pseudogene SPA SPA3146 3253542 3254786 minus mtr probable amino acid permease - SPA3187 3291877 3293310 plus rpoN RNA polymerase sigma-54 factor (sigma-N) - SPA3188 3293333 3293620 plus yhbH probable sigma(54) modulation protein - YPE 3143 SPA3189 3293738 3294229 plus ptsN nitrogen regulatory IIA protein - SPA3192 3295643 3296275 plus yrbL conserved hypothetical protein - SPA3193 3296350 3297078 minus mtgA monofunctional biosynthetic peptidoglycan transglycosylase - "Flexneri, both strains" SPA3194 3297075 3297728 minus yhbL conserved hypothetical protein - SPA3204 3312367 3313242 minus nanK possible kinase - SPA3205 3313239 3313928 minus nanE putative ManNAc-6P epimerase - "Typhi, both strains" SPA3206 3313975 3315465 minus nanT putative sialic acid transporter - SPA3214 3321414 3321818 plus yhcB conserved hypothetical protein - SPA3215 3321975 3323342 plus degQ serine protease - "Flexneri, one strain" SPA3216 3323435 3324505 plus degS serine protease - SPA3222 3329383 3330282 minus ttdA tartrate dehydratase - SPA3223 3330315 3331667 minus - possible membrane transport protein pseudogene SPA SPA3224 3331794 3332399 minus - possible transcriptional regulator - SPA3252 3362785 3363081 plus fis Fis DNA-binding protein - SPA3253 3363167 3364050 plus ccrM DNA adenine methyltransferase pseudogene SPA SPA3254 3364106 3364297 plus yhdU putative periplasmic protein - "Flexneri, possibly syntenic" SPA3255 3364448 3366547 plus - putative membrane domain involved in signal transduction; Diguanylate cyclase/phosphodiesterase domain 1; Diguanylate cyclase/phosphodiesterase domain 2 - SPA3256 3366550 3367212 minus envR transcriptional repressor for envCD (acrEF) (TetR/AcrR family) - STM not STY SPA3257 3367626 3368783 plus acrE transmembrane protein affecting septum formation and cell membrane permeability - "Typhi, both strains" SPA3258 3368795 3371908 plus acrF "RND family, multidrug transport protein, acriflavin resistance protein F" - "Typhi, both strains" SPA3259 3372145 3372366 plus yhdV possible lipoprotein - SPA3324 3415405 3415956 minus yheR putative oxidoreductase - SPA3325 3416222 3418129 plus yheS probable ABC transporter ATP-binding protein - YPE 3143 SPA3326 3418190 3418432 minus - hypothetical protein pseudogene SPA SPA3327 3418515 3418826 minus - conserved hypothetical protein - SPA3328 3419015 3420091 plus yheT putative hydrolase. Alpha/beta-hydrolase fold - "Typhi, both strains" SPA3329 3420088 3420306 plus yheU conserved hypothetical protein - SPA3332 3422035 3422667 plus crp "cyclic AMP receptor protein,catabolite gene activator" - SPA3333 3422716 3424803 plus yhfK putative inner membrane protein - "Typhi, both strains" SPA3334 3424846 3426063 minus argD acetylornithine aminotransferase - YPE 3143 SPA3335 3426149 3426712 minus pabA "para-aminobenzoate synthase, glutamine amidotransferase component II" - SPA3343 3433787 3435160 plus cysG siroheme synthase - SPA3344 3439234 3441453 plus bigA putative surface-exposed virulence protein - "Typhi, both strains" SPA3345 3441646 3441815 plus yhfL conserved hypothetical protein pseudogene SPA SPA3346 3441961 3442965 minus trpS tryptophanyl-tRNA synthetase - SPA3353 3448924 3450162 minus hofQ type II secretion system protein - SPA3354 3450077 3450478 minus yrfA conserved hypothetical protein - "Flexneri, possibly syntenic" SPA3355 3450468 3450941 minus yrfB putative membrane protein - SPA3356 3450925 3451464 minus yrfC putative membrane protein - SPA3357 3451464 3452242 minus yrfD conserved hypothetical protein pseudogene SPA SPA3358 3452339 3454915 plus mrcA penicillin-binding protein 1A - SPA3368 3466265 3466738 plus greB transcription elongation factor GreB - SPA3369 3466837 3469167 plus yhgF putative transcription accessory protein - "Typhi, both strains" SPA3370 3469604 3469831 plus feoA putative ferrous iron transport protein - SPA3378 3477551 3479629 minus malQ 4-alpha-glucanotransferase - SPA3379 3479639 3482032 minus malP maltodextrin phosphorylase - YPE 3143 YPE4088 SPA3380 3482626 3485331 plus malT MalT regulatory protein - "Flexneri, both strains" SPA3381 3485405 3486163 minus glpR glycerol-3-phosphate regulon repressor - SPA3395 3504412 3505107 minus yhhW conserved hypothetical protein - SPA3396 3505231 3506268 minus yhhX putative oxidoreductase pseudogene SPA SPA3397 3506522 3506615 minus - sraI - SPA3402 3510502 3511536 plus - puative phophotriesterase - SPA3403 3511581 3513323 minus ggt gamma-glutamyltranspeptidase precursor - "YPE 3143, paralogue ?" SPA3404 3513449 3513865 plus yhhA hypothetical protein - SPA3405 3513862 3514602 minus ugpQ glycerophosphoryl diester phosphodiesterase - SPA3406 3514599 3515669 minus ugpC sn-Glycerol-3-phosphate transport ATP-binding protein - "Flexneri, both strains" SPA3407 3515672 3516517 minus ugpE sn-Glycerol-3-phosphate transport system permease protein - SPA3417 3525122 3525247 plus - hypothetical protein - SPA3418 3525331 3526434 minus livJ "ABC superfamily (bind_prot), branched-chain amino acid transporter, high-affinity" - "Typhi, both strains" SPA3419 3526756 3527610 minus rpoH RNA polymerase sigma-32 factor - SPA3435 3542169 3542570 plus nikR nickel responsive regulator - SPA3436 3542672 3543796 minus yhhJ putative ABC superfamily (atp_bind/membrane) transport protein - "Typhi, both strains" SPA3437 3543796 3546537 minus yhiH hypothetical ABC transporter ATP-binding protein - SPA3442 3551282 3551929 plus - putative DNA-binding protein - STY not STM SPA3443 3551984 3553225 plus - - - "Typhi, both strains" STY not STM SPA3444 3553511 3553627 minus - hypothetical protein - STY not STM SPA3448 3557519 3557953 plus uspA universal stress protein A - SPA3449 3558283 3559755 plus yhiP putative PTR2 family transport protein - "Flexneri, both strains" SPA3450 3559847 3560605 minus yhiQ conserved hypothetical protein - SPA3455 3565259 3566611 plus gor glutathione reductase - SPA3456 3566755 3566982 minus - - - "Typhi, both strains" SPA3457 3566921 3567772 minus - putative phosphosugar-binding protein - SPA3462 3572890 3573492 minus yhjB hypothetical luxR-family transcriptional regulator - SPA3463 3574123 3575023 plus yhjC hypothetical lysR-family transcriptional regulator pseudogene SPA SPA3464 3575096 3576124 plus yhjD putative membrane protein - SPA3465 3576475 3577797 plus yhjE hypothetical metabolite transport protein - SPA3466 3577968 3579895 minus yhjG putative inner membrane protein pseudogene SPA SPA3467 3580005 3580772 minus yhjH conserved hypothetical protein - SPA3471 3585135 3587108 minus yhjK conserved hypothetical protein - SPA3472 3587315 3590746 minus yhjL putative TPR-repeat-containing protein - "Typhi, both strains" "Flexneri, both strains" SPA3473 3590839 3591948 minus yhjM probable endoglucanase precursor - SPA3474 3591952 3594252 minus yhjN putative polysaccharide biosynthesis protein subunit B - SPA3475 3594263 3596887 minus yhjO putative polysaccharide biosynthesis protein catalytic subunit pseudogene SPA "Flexneri, one strain" SPA3476 3596884 3597636 minus yhjQ conserved hypothetical protein - SPA3487 3608041 3609648 minus dppA periplasmic dipeptide transport protein precursor - SPA3488 3610205 3611530 minus - putative xanthine permease - "Typhi, both strains" SPA3489 3611588 3612712 minus - hypothetical protein - SPA3491 3614032 3614105 minus proK tRNA-Pro - SPA3492 3614196 3615887 minus yhjW putative membrane protein pseudogene SPA SPA3493 3616118 3616822 minus yhjY putative membrane protein - SPA3499 3622326 3623036 minus yiaF conserved hypothetical protein - SPA3500 3623433 3623840 plus yiaG putative DNA-binding protein pseudogene SPA SPA3501 3624053 3624265 plus cspA cold shock protein - SPA3508 3630850 3631152 minus - putative lipoprotein - SPA3509 3631318 3632313 plus yiaH putative inner membrane protein - "Typhi, both strains" SPA3510 3632336 3632689 minus yiaB putative membrane protein - SPA3511 3632864 3634318 minus xylB xylulose kinase - SPA3512 3634418 3635695 minus xylA D-xylose isomerase Possible SPA "Flexneri, both strains" SPA3513 3636058 3637236 plus xylR xylose operon regulatory protein - "Flexneri, both strains" SPA3514 3637297 3638121 minus bax putative exported amidase - SPA3519 3643545 3644543 plus yiaK putative carboxylic acid dehydrogenase - SPA3520 3644555 3645019 plus yiaL conserved hypothetical protein - "Flexneri, one strain" SPA3521 3645043 3645975 plus - hypothetical protein pseudogene SPA SPA3522 3646114 3646587 plus yiaM putative membrane protein - "Flexneri, both strains" SPA3523 3646590 3647867 plus yiaN putative membrane protein - SPA3524 3647879 3648865 plus yiaO putative dicarboxylate-binding periplasmic protein - "Typhi, both strains" SPA3525 3648869 3650335 plus lyxK putative L-xylulose kinase Possible SPA SPA3526 3650332 3650994 plus yiaQ putative hexulose-6-phosphate synthase - SPA3532 3657724 3658605 plus - putative sugar kinase - SPA3533 3658853 3660703 minus selB selenocysteine-specific elongation factor - YPE 3143 SPA3534 3660700 3662091 minus selA L-seryl-tRNA(Ser) selenium transferase - "Typhi, both strains" SPA3535 3662190 3662798 minus yibF putative glutathione transferase - SPA3536 3663274 3665190 plus mtlA mannitol-specific enzyme II of phosphotransferase system - SPA3537 3665219 3665322 plus - - SPA SPA3538 3665411 3666559 plus mtlD mannitol-1-phosphate dehydrogenase - SPA3539 3666556 3667145 plus mtlR mannitol operon repressor pseudogene SPA SPA3540 3667155 3667364 minus - hypothetical protein - SPA3542 3668504 3669187 plus - putative lipoprotein - SPA3543 3669231 3673558 plus sapB putative inner membrane protein pseudogene SPA SPA3544 3673857 3675512 plus lldP L-lactate permease - "Flexneri, one strain" SPA3545 3675509 3676285 plus lctR putative L-lactate dehydrogenase operon regulator - SPA3549 3679401 3680597 plus - putative racemase - SPA3550 3680671 3681981 plus - - - "Typhi, both strains" SPA3551 3682064 3682885 minus cysE serine acetyltransferase - SPA3557 3687063 3688346 plus yibP conserved hypothetical protein - SPA3558 3688350 3689312 plus yigQ putative exported protein - YPE 3143 SPA3559 3689299 3690333 minus yibD putative glycosyl transferase - SPA3599 3730602 3732311 plus yicH putative exported protein - SPA3600 3732414 3734732 minus yicI putative glycosyl hydrolase pseudogene SPA SPA3601 3734744 3736126 minus yicJ sodium:galactoside family symporter - "Flexneri, both strains" SPA3602 3736414 3736504 plus selC tRNA-SeC(p) - SPA3604 3737729 3738325 plus - hypothetical protein - STY not STM SPA3605 3738363 3739406 plus - - SPA "Typhi, both strains" SPA3606 3739441 3740424 plus rhuM putative DNA-binding protein - SPA3607 3742142 3742750 plus rmbA conserved hypothetical protein - SPA3608 3742825 3745677 plus misL putative autotransported protein - "Typhi, both strains" SPA3609 3745772 3746236 minus fidL putative exported protein - SPA3610 3746247 3747104 minus marT putative transcriptional regulatory protein - "Typhi, both strains" SPA3611 3747889 3748569 plus slsA conserved hypothetical protein - SPA3612 3748892 3749371 minus cigR putative inner membrane protein - "Typhi, both strains" SPA3613 3749686 3752412 minus mgtB "Magnesium transport ATPase, P-type 2" - SPA3622 3760046 3760471 minus - putative PTS system protein - SPA3623 3760690 3763488 minus - "putative NtrC family transcriptional regulators, ATPase domain" - "Typhi, both strains" SPA3624 3763685 3763978 plus - putative secreted protein - SPA3626 3765517 3766710 minus yicM putative inner membrane transport protein - SPA3627 3766881 3767285 plus - - SPA "Typhi, both strains" SPA3628 3767269 3767592 plus - putative DNA-binding protein - SPA3629 3767683 3767952 minus - putative PTS system phosphocarrier protein - SPA3630 3767962 3768822 minus - - - "Typhi, both strains" SPA3631 3768885 3770369 minus - putative carbohydrate kinase - SPA3636 3773667 3774119 minus yicN putative exported protein - SPA3637 3774312 3775703 minus uhpT hexosephosphate transport protein pseudogene SPA SPA3638 3775846 3777174 minus uhpC regulatory protein pseudogene SPA SPA3639 3777184 3778674 minus uhpB two-component system sensor histidine kinase pseudogene SPA YPE 3143 SPA3640 3778685 3779275 minus uhpA Two-component system response regulator protein - SPA3647 3785911 3786009 minus ivbL ilvBN operon attenuator peptide - SPA3648 3786825 3787685 plus - - - "Typhi, both strains" SPA3649 3787888 3789033 plus emrD multidrug resistance protein D - SPA3651 3790109 3791032 minus dsdC D-serine deaminase activator - SPA3652 3791258 3792595 plus dsdX DsdX permease - "Flexneri, one strain" SPA3653 3792613 3793935 plus dsdA D-serine dehydratase - SPA3655 3794544 3794906 minus yidG conserved hypothetical protein - SPA3656 3794896 3795243 minus yidH putative inner membrane protein - "Typhi, both strains" SPA3657 3795686 3797347 minus yidE putative membrane protein - SPA3660 3798794 3799129 plus yidQ putative lipoprotein - SPA3661 3799131 3800357 minus yidR putative ATP/GTP-binding protein - YPE 3143 SPA3662 3800479 3801427 minus ccmH cytochrome c-type biogenesis protein H1 pseudogene SPA SPA3663 3801424 3801981 minus dsbE thiol:disulfide interchange protein - SPA3670 3806659 3808059 minus yhjA probable cytochrome c peroxidase - SPA3671 3808249 3808881 minus torD TorD protein - "Flexneri, possibly syntenic" SPA3672 3808874 3811426 minus torA trimethylamine-N-oxide reductase precursor - "Flexneri, both strains" SPA3673 3811416 3812600 minus torC hypothetical protein - Typhi CT18 only SPA3674 3812730 3813422 plus torR "response regulator in multi-component regualtory system wtih TorS (sensory kinase) and TorT (periplasmic sensor), regulates tor operon (TorR family)" - "Typhi, both strains" SPA3675 3813395 3814435 minus torT Solute binding receptor protein - SPA3676 3814515 3817250 plus torS Two-component sensor protein histidine protein kinase. - "Flexneri, one strain" SPA3677 3817276 3818613 minus dgoT "MFS family, D-galactonate transport protein" - STM not STY SPA3678 3818698 3820460 minus dgoA 2-oxo-3-deoxygalactonate 6-phosphate aldolase and galactonate dehydratase pseudogene SPA "Flexneri, both strains" STM not STY SPA3679 3820806 3823220 minus gyrB DNA gyrase subunit B - SPA3688 3831711 3832898 plus yidY putative membrane transport protein - SPA3689 3832924 3833826 plus yidZ putative LysR-family transcriptional regulator - "Flexneri, both strains" SPA3690 3833984 3834739 plus yieE conserved hypothetical protein - SPA3720 3866680 3867099 plus rbsD high affinity ribose transport protein RbsD - SPA3721 3867107 3868612 plus rbsA high affinity ribose transport protein - "Flexneri, both strains" SPA3722 3868618 3869584 plus rbsC high affinity ribose transport protein pseudogene SPA SPA3723 3869609 3870499 plus rbsB D-ribose-binding periplasmic protein - "Flexneri, both strains" SPA3724 3870632 3871561 plus rbsK ribokinase - SPA3725 3871565 3872564 plus rbsR ribose operon repressor pseudogene SPA SPA3726 3872530 3873957 minus yieO putative MFS family tranport protein (1st mdule) - "Typhi, both strains" SPA3727 3873969 3874673 minus yieP hypothetical 20.8 kDa protein in rbsr-rrsc intergenic region - SPA3734 3880308 3880380 plus trpT tRNA-Trp - SPA3735 3880485 3881321 minus yifA possible LysR-family transcriptional regulatory protein - "Flexneri, one strain" SPA3736 3881440 3881778 plus yifE conserved hypothetical protein - SPA3737 3881886 3882344 minus tnpA transposase - SPA3738 3882598 3884034 minus yifB "putative magnesium chelatase, subunit ChlI" - "Typhi, both strains" "Flexneri, both strains" SPA3739 3884386 3884484 plus ilvL ilvGMEDA operon attenuator peptide - SPA3750 3895339 3895767 plus - hypothetical protein - STY not STM SPA3751 3895795 3896490 plus - probable uridine phosphorylase Possible SPA STY not STM SPA3752 3896490 3897218 plus - putative membrane transport protein - SPA3753 3897318 3899342 plus rep ATP-dependent DNA helicase - SPA3754 3899382 3900863 minus gppA "guanosine-5'-triphosphate,3'-diphosphate pyrophosphatase (guanosine pentaphosphatase)" - YPE 3143 YPE4088 SPA3755 3900982 3902249 minus rhlB putative ATP-dependent RNA helicase pseudogene SPA SPA3756 3902393 3902722 plus trxA thioredoxin - SPA3785 3929151 3929504 minus - putative membrane protein - SPA3786 3929528 3930051 minus - - SPA SPA3787 3930237 3930440 plus yifL putative lipoprotein - SPA3805 3946779 3947732 minus metR trans-activator of metE and metH - SPA3806 3947981 3950245 plus metE 5-methyltetrahydropteroyltriglutamate- homocysteine methyltransferase - "Typhi, both strains" SPA3807 3950589 3951932 plus - putative regulatory protein - SPA3808 3952012 3952824 minus ysgA putative hydrolase - "Flexneri, one strain" SPA3809 3953083 3953844 plus udp uridine phosphorylase - SPA3815 3958981 3959529 plus tatB sec-independent protein translocase protein - SPA3816 3959532 3960311 plus tatC sec-independent protein translocase protein - "Flexneri, one strain" SPA3817 3960353 3961135 plus tatD putative deoxyribonuclease - YPE 3143 SPA3818 3961143 3961631 minus rfaH transcriptional activator - SPA3820 3963381 3964082 plus ubiB flavin reductase - SPA3821 3964336 3966169 plus - - SPA SPA3822 3966366 3967529 minus fadA small (beta) subunit of the fatty acid-oxidizing multienzyme complex - SPA3824 3969917 3971248 plus pepQ proline dipeptidase - SPA3825 3971248 3971862 plus yigZ conserved hypothetical protein - YPE 3143 SPA3826 3971901 3973352 plus trkH trk system potassium uptake protein - SPA3852 3998046 3998924 minus - hypothetical protein - SPA3853 3998921 4000162 minus - - - "Typhi, both strains" SPA3854 4000164 4001039 minus - hypothetical protein - SPA3856 4002070 4002918 minus - hypothetical protein - SPA3857 4003075 4003767 minus yshA conserved hypothetical protein - "Flexneri, one strain" SPA3858 4003835 4005256 minus yihO putative membrane permease - SPA3859 4005302 4006684 minus yihP putative membrane permease - "Flexneri, one strain" SPA3860 4006730 4008766 minus yihQ putative glycosyl hydrolase - SPA3861 4008810 4009667 minus yihR conserved hypothetical protein - "Typhi, possible" SPA3862 4009671 4010912 minus yihS putative isomerase - "Typhi, both strains" SPA3863 4010928 4011806 minus yihT putative aldolase - SPA3867 4014804 4015403 plus yihX putative haloacid dehalogenase-like hydrolase - SPA3868 4015397 4016265 plus rbn ribonuclease BN pseudogene SPA SPA3869 4016262 4016699 plus yihZ conserved hypothetical protein - SPA3878 4021885 4022787 minus fdoH formate dehydrogenase-O beta subunit - SPA3879 4022800 4025845 minus fdoG "formate dehydrogenase-O, major subunit pseudogene" SPA YPE 3143 YPE4088 SPA3880 4026040 4026876 plus fdhD FdhD protein - SPA3887 4031844 4032992 minus - alcohol dehydrogenase - SPA3888 4033119 4033946 minus rhaD rhamnulose-1-phosphate aldolase - "Typhi, both strains" SPA3889 4034089 4035348 minus rhaA L-rhamnose isomerase - SPA3892 4038091 4038939 plus rhaR L-rhamnose operon transcriptional activator - SPA3893 4038936 4039970 minus rhaT L rhamnose-proton symporter - "Flexneri, one strain" SPA3894 4040601 4041272 plus - conserved hypothetical protein - SPA3896 4042729 4043244 minus - possible membrane transport protein - SPA3897 4043263 4044246 minus - putative dicarboxylate-binding periplasmic protein - "Typhi, both strains" SPA3898 4044575 4045195 plus sodA manganese superoxide dismutase - SPA3903 4048631 4049131 plus cpxP extracytoplasmic stress protein for protein-mediated toxicities - SPA3904 4049280 4050182 plus yiiP putative transmembrane efflux protein - "Flexneri, one strain" SPA3905 4050367 4051329 plus pfkA 6-phosphofructokinase - SPA3907 4052623 4053378 plus cdh CDP-diglyceride hydrolase - SPA3908 4053643 4054977 plus - putative membrane protein pseudogene SPA SPA3909 4054988 4055947 plus - putative carbohydrate kinase - SPA3911 4057051 4057782 plus - putative GntR-family regulatory protein - SPA3912 4057880 4058050 plus - - - "Typhi, both strains" SPA3913 4058066 4058197 plus - CDP-diacylglycerol phosphotidylhydrolase paralog - "Typhi, both strains" SPA3914 4058287 4058637 minus - - - SPA3915 4058651 4060243 minus ydeV putative sugar kinase - "Flexneri, both strains" SPA3916 4060332 4061291 minus ydeW putative regulatory protein - YPE 3143 SPA3917 4061547 4063082 plus ego putative ABC transporter ATP-binding protein - SPA3918 4063076 4064119 plus ydeY putative ABC transporter permease protein - SPA3919 4064119 4065117 plus ydeZ "putative ABC transporter, membrane component" - "Flexneri, both strains" SPA3920 4065146 4066168 plus yneA "putative ABC transport protein, solute-binding component" - SPA3921 4066197 4067072 plus yneB putative aldolase - "Flexneri, one strain" SPA3922 4067116 4067445 plus yneC conserved hypothetical protein - SPA3925 4069191 4069787 minus yiiQ conserved hypothetical protein - SPA3926 4069888 4070315 plus yiiR putative membrane protein pseudogene SPA "Flexneri, both strains" SPA3927 4070425 4071171 minus fpr ferredoxin--NADP reductase - SPA3928 4071268 4072368 minus glpX putative glycerol metabolic protein - YPE 3143 SPA3929 4072390 4073898 minus glpK glycerol kinase - YPE 3143 SPA3930 4073919 4074764 minus glpF glycerol uptake facilitator protein - SPA3940 4084065 4084727 minus - hypothetical protein - SPA3941 4084928 4086718 minus - - - "Typhi, both strains" SPA3942 4087174 4087491 minus metJ repressor of the methionine regulon - SPA3943 4087756 4088916 plus metB cystathionine gamma-synthase - YPE 3143 YPE4088 SPA3944 4088919 4091351 plus metL bifunctional aspartokinase II/homoserine dehydrogenase IIcan I write - SPA3947 4094820 4096376 plus - hypothetical protein - SPA3948 4096620 4097880 plus - putative serine hydroxymethyltransferase pseudogene SPA STY not STM SPA3949 4097877 4098983 plus - alanine racemase - STY not STM SPA3952 4101743 4103923 plus katG catalase (hydroperoxidase I) - SPA3953 4104030 4105133 minus gldA glycerol dehydrogenase - "Flexneri, both strains" SPA3954 4105145 4105807 minus talC putative transaldolase - "Flexneri, one strain" SPA3955 4106062 4106898 minus yijO putative AraC-family transcriptional regulator - SPA4019 4172329 4172766 minus yjaB putative acetyltransferase - SPA4020 4172923 4173852 plus metA homoserine O-succinyltransferase - "Flexneri, one strain" SPA4021 4174121 4175722 plus aceB malate synthase A - "Flexneri, both strains" SPA4022 4175754 4177058 plus aceA isocitrate lyase - SPA4023 4177160 4178911 plus aceK isocitrate dehydrogenase kinase/phosphatase pseudogene SPA "Flexneri, both strains" SPA4024 4178875 4179282 minus - putative cytoplasmic protein - STM not STY SPA4025 4179293 4180117 minus iclR acetate operon repressor - YPE 3143 SPA4026 4180422 4184105 plus metH B12-dependent homocysteine-N5-methyltetrahydrofolate transmethylase - SPA4074 4233406 4234794 plus - putative integral membrane protein - SPA4075 4234784 4236103 plus - putative type-I secretion protein - "Typhi, both strains" SPA4076 4236100 4237377 plus - putative type-I secretion protein - SPA4079 4253461 4253742 minus yjcB putative membrane protein - SPA4080 4254305 4255906 plus yjcC putative exported protein - "Flexneri, both strains" SPA4081 4255894 4256217 minus soxS regulatory protein SoxS - SPA4090 4263432 4265081 minus yjcG Sodium:solute symporter family protein - SPA4091 4265078 4265388 minus yjcH putative membrane protein pseudogene SPA SPA4092 4265634 4267592 minus acs acetyl-coenzyme A synthetase - "Flexneri, both strains" SPA4093 4267779 4267925 plus - hypothetical protein - SPA4102 4276407 4277096 minus yjcO putative exported protein - SPA4103 4277273 4279420 minus fdhF formate dehydrogenase H - "Flexneri, both strains" SPA4104 4279786 4280694 minus lpxO putative membrane-bound beta-hydroxylase - SPA4118 4297298 4298944 minus fumB fumarate hydratase class I - SPA4119 4299040 4300380 minus dcuB anaerobic C4-dicarboxylate transporter - "YPE 3143, paralogue ?" SPA4120 4300527 4300793 minus - hypothetical protein - SPA4121 4301110 4301829 minus dcuR two-component response regulator - SPA4122 4301826 4303440 minus dcuS two-component sensor kinase pseudogene SPA SPA4123 4303796 4306225 plus dmsA "putative anaerobic dimethyl sulfoxide reductase, subunit A pseudogene" SPA "Typhi, both strains" SPA4124 4306239 4306865 plus dmsB anaerobic dimethyl sulfoxide reductase subunit B - "Typhi, both strains" SPA4125 4306858 4307631 plus dmsC putative dimethyl sulfoxide reductase subunit C - SPA4161 4335834 4336811 plus yjeA lysyl-tRNA synthetase - SPA4162 4337037 4338539 plus yjeM putative amino acid permease - "Flexneri, both strains" SPA4163 4338547 4338924 plus yjeN conserved hypothetical protein - STY not STM SPA4164 4339061 4342363 minus yjeP putative membrane protein pseudogene SPA SPA4165 4342406 4343374 minus psd phosphatidylserine decarboxylase proenzyme - SPA4167 4344625 4345170 plus orn oligoribonuclease - SPA4168 4345232 4345951 minus artJ probable arginine-binding periplasmic protein - "YPE 3143, paralogue ?" SPA4169 4346248 4346320 plus - tRNA-Gly - SPA4187 4364286 4364690 plus yjfI conserved hypothetical protein - SPA4188 4364705 4365403 plus yjfJ "putative Phage shock protein A, IM30, suppresses sigma54-dependent transcription" - "Typhi, both strains" SPA4189 4365403 4365510 plus - - - "Typhi, both strains" SPA4190 4365627 4366310 plus yjfK conserved hypothetical protein - SPA4191 4366328 4366726 plus yjfL putative membrane protein - "Flexneri, one strain" SPA4192 4366736 4367374 plus yjfM conserved hypothetical protein - SPA4193 4367377 4368540 plus yjfC conserved hypothetical protein - SPA4194 4368625 4370247 plus aidB probable acyl Co-A dehydrogenase - "Flexneri, one strain" SPA4195 4370311 4370631 minus yjfN hypothetical protein - SPA4213 4382107 4382742 minus ytfB conserved hypothetical protein - SPA4214 4382920 4383582 plus fklB probable FkbP-type peptidyl-prolyl cis-trans isomerase - "Flexneri, one strain" SPA4215 4383878 4385281 plus cycA D-serine/D-alanine/glycine transporter - SPA4216 4385619 4386758 plus - putative exported protein - STY not STM SPA4217 4386773 4388161 plus - putative exported protein pseudogene SPA STY not STM SPA4218 4388228 4388890 minus ytfE conserved hypothetical protein - SPA4235 4408074 4409072 minus fbp "fructose-1,6-bisphosphatase" - SPA4236 4409247 4411050 plus mpl murein peptide ligase pseudogene SPA SPA4237 4411157 4411708 minus yjga conserved hypothetical protein - SPA4238 4411804 4413156 plus pmbA putative PmbA protein - SPA4239 4413254 4413640 plus cybC soluble cytochrome b562 - "Flexneri, one strain" SPA4240 4413918 4414256 plus - hypothetical protein - SPA4256 4428431 4429378 minus treR trehalose operon repressor - SPA4257 4429762 4432470 plus mgtA "Mg(2+) transport ATPase, P-type pseudogene" SPA SPA4258 4432586 4433032 minus - putative membrane protein - SPA4274 4445059 4445574 minus yjgM putative acetyltransferase - SPA4275 4445757 4446944 plus yjgN putative innner membrane protein - "Flexneri, possibly syntenic" SPA4276 4447086 4449941 minus valS valyl-tRNA synthetase - SPA4281 4454762 4455760 minus idnR regulatory protein - SPA4282 4455824 4457143 minus idnT "GntP family, L-idonate transport protein" - "Typhi, both strains" SPA4283 4457205 4457969 minus idnO 5-keto-D-gluconate-5-reductase - STM not STY SPA4285 4459242 4459772 plus idnK "D-gluconate kinase, thermosensitive" - STM not STY SPA4286 4459800 4460819 minus yjgB putative alcohol dehydrogenase - "Typhi, both strains" SPA4287 4461042 4461123 plus - tRNA-Leu - SPA4293 4465253 4465498 minus - - - SPA4294 4465495 4466229 minus - - SPA SPA unique SPA4295 4466771 4467101 plus - phage DNA binding protein pseudogene SPA STY not STM SPA4296 4467214 4467585 plus cI phage immunity repressor protein - SPA4298 4467806 4468126 plus - hypothetical P4 phage protein - STY not STM SPA4299 4468141 4470474 plus - hypothetical protein - Typhi TY2 only STY not STM SPA4300 4470742 4470891 plus - - - SPA4301 4471027 4471185 plus - - - SPA unique SPA4302 4471199 4472053 minus - - SPA SPA4303 4472050 4472348 minus - - SPA SPA4304 4472704 4473201 plus sefA fimbrial structural protein - "Typhi, both strains" STY not STM SPA4305 4473323 4474075 plus sefB fimbrial chaperone protein - STY not STM SPA4306 4474080 4476524 plus sefC outer membrane fimbrial usher protein - STY not STM SPA4307 4476999 4477643 minus sefR fimbrial regulator - "Typhi, both strains" STY not STM SPA4308 4478392 4478601 plus pefI pefI protein pseudogene SPA STY not STM SPA4309 4478586 4478936 plus - putative GerE-family regulatory protein - SPA4310 4479168 4479833 plus - - - "Typhi, both strains" SPA4311 4480020 4480859 plus - putative outer membrane protein - SPA4312 4481122 4481388 plus - - - "Typhi, both strains" SPA4313 4481469 4482146 plus - - - "Typhi, both strains" SPA4314 4482333 4488653 minus yjiU "orf, hypothetical protein" - STY not STM SPA4317 4492546 4493421 plus - hypothetical protein - STY not STM SPA4318 4493583 4493792 plus - hypothetical protein pseudogene SPA SPA4319 4493901 4494626 minus yeeN conserved hypothetical protein - SPA4333 4507229 4507690 minus yjiG putative membrane protein - SPA4334 4507687 4508571 minus yjiH putative membrane protein - "Typhi, new**" SPA4335 4508715 4509089 minus - putative membrane protein - SPA4337 4510633 4511949 minus yjiN putative membrane protein - SPA4338 4511992 4513232 minus yjiO putative MFS family transport protein pseudogene SPA SPA4339 4513711 4514676 plus - putative membrane protein - SPA4340 4514857 4516227 plus - - - "Typhi, both strains" SPA4341 4516322 4516465 minus - hypothetical protein - SPA4343 4516671 4517372 minus - putative membrane protein - SPA4344 4517446 4517841 minus yjiW conserved hypothetical protein - "Flexneri, one strain" SPA4345 4518006 4519394 minus hsdS subunit S of type I restriction-modification system - SPA4346 4519391 4520977 minus hsdM "DNA methylase M, host modification" - "Typhi, both strains" "Flexneri, one strain" SPA4347 4521135 4524644 minus hsdR subunit R of type I restriction-modification system - "Flexneri, one strain" SPA4348 4524842 4525756 plus mrr mrr restriction system protein - SPA4353 4527925 4530075 minus cstA probable carbon starvation protein - SPA4354 4530442 4532103 plus tsr "methyl-accepting chemotaxis protein I, serine sensor receptor" - "Typhi, both strains" SPA4355 4532268 4534520 minus mdoB putative phosphoglycerol transferase - SPA4359 4536733 4537206 minus yjjB putative membrane protein - SPA4360 4537197 4538108 minus yjjP putative membrane protein - "Flexneri, one strain" SPA4361 4538686 4539411 plus yjjQ conserved hypothetical regulatory protein - "Flexneri, one strain" SPA4362 4539423 4540046 plus bglJ conserved hypothetical regulatory protein - SPA4381 4553982 4554779 plus deoC deoxyribose-phosphate aldolase - SPA4382 4554906 4556228 plus deoA thymidine phosphorylase - YPE 3143 SPA4383 4556280 4557503 plus deoB phosphopentomutase - SPA4385 4558639 4559130 plus yafM conserved hypothetical protein - STY not STM SPA4386 4559215 4560231 minus lplA lipoate-protein ligase A - "Flexneri, both strains" SPA4387 4560265 4560909 minus smp putative membrane protein - SPA4389 4562078 4563460 plus radA putative DNA repair protein - SPA4390 4563584 4564843 plus nadR conserved hypothetical transcriptional regulator - YPE4088 SPA4391 4564961 4566628 minus yjjK conserved hypothetical ABC transporter - YPE 3143 YPE4088 SPA4392 4566891 4568774 plus slt lytic murein transglycosylase - SPA4393 4568832 4569158 plus trpR probable trp operon repressor - SPA4394 4569260 4569775 minus yjjX putative cytoplasmic protein - "Typhi, both strains" "Flexneri, both strains" SPA4395 4569824 4570471 plus gpmB probable phosphoglycerate mutase 2 - SPA4400 4574206 4575555 plus creD inner membrane protein CreD - SPA4401 4575613 4576698 minus sthE putative major fimbrial subunit - "Typhi, both strains" SPA4402 4576739 4577296 minus sthD putative fimbrial subunit - SPA4403 4577314 4579851 minus sthC putative fimbrial usher protein - "Typhi, both strains" SPA4404 4579897 4580580 minus sthB putative fimbrial chaperone protein - SPA4406 4581530 4582201 minus - putative transcriptional regulator protein - SPA4407 4582401 4582900 minus - putative secreted protein pseudogene SPA SPA4408 4583167 4583883 minus arcA global response regulator - deleted sseJ SPA "Typhi, both" deleted trg SPA "Typhi, both" YPE 3143 YPE4088