strains organism accession active sitec length … buchnera aphidicola (baizongia pistaciae) bbp_381...

SUPPLEMENTARY INFORMATION In format provided by Heras et al. (MARCH 2009)

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Table S1. Homologues of DsbA in prokaryotic genomesa

Strains

Organism

Accession

% Identityb

Active Sitec

(CXXC) Length

iTOLd

1 Acinetobacter sp. ADP1 ACIAD0045 31.70% CPHC 206 N 2 Actinomyces naeslundii MG1 ANA_2158 21.60% CPFC 288 N 3 Aeromonas hydrophila ATCC7966 AHA_4216 37.10% CPHC 202 N 4 Agrobacterium tumefaciens C58 Cereon AGR_C_1464 33.30% CPHC 226 Y 5 Agrobacterium tumefaciens C58 UWash Atu0800 33.30% CPHC 226 Y 6 Alcanivorax borkumensis SK2 ABO_2649 30.30% CPHC 211 N 7 Anaplasma phagocytophilum HZ APH_0098 48.20% CAHC 227 N 8 Anaplasma marginale St Maries AM116 47.50% CSHC 272 N 9 Archaeoglobus fulgidus DSM4304 AF_1354 28.10% CGHC 305 N

10 Arthrobacter aurescens AAur_1365 26.10% CESC 222 N 11 Azoarcus sp. EbN1 ebA3617 27.60% CPHC 214 N 12 Bacillus anthracis A0039 BAAU0560 25.90% CPAC 217 Y 13 Bacillus anthracis Ames BA_0544 25.90% CPAC 217 Y 14 Bacillus anthracis Ames Ancestor GBAA0544 25.90% CPAC 217 Y 15 Bacillus anthracis CNEVA-9066 BACN0691 25.90% CPAC 217 Y 16 Bacillus anthracis Sterne BAS0513 25.90% CPAC 219 Y 17 Bacillus anthracis str. Kruger B BAKB0690 25.90% CPAC 217 Y 18 Bacillus anthracis Vollum BAVO0721 25.90% CPAC 217 Y 19 Bacillus anthracis Western North America USA6153 BAWN0576 25.90% CPAC 217 Y 20 Bacillus cereus ATCC14579 BC_0542 26.50% CPAC 216 Y 21 Bacillus cereus 10987 BCE_0598 27.10% CPAC 217 Y 22 Bacillus cereus Zk BCE33L0452 25.90% CPAC 219 N 23 Bacillus licheniformis ATCC 14580 BL03006 26.90% CPSC 231 N 24 Bacillus licheniformis ATCC14580 (DSM 13) BLi03538 26.90% CPSC 231 N 25 Bacillus subtilis 168 Bsu3345 21.80% CPSC 222 Y

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26 Bacillus thuringiensis Al Hakam BALH_0483 26.50% CPAC 218 N 27 Bacillus thuringiensis konkukian BT9727_0456 25.90% CPAC 219 N 28 Bartonella bacilliformis KC583 BARBAKC583_0417 40.30% CAHC 216 N 29 Bartonella henselae Houston-1 BH04560 37.30% CVHC 218 N 30 Bartonella quintana Toulouse BQ03750 38.70% CAPC 218 N 31 Baumannia cicadellinicola BCI_0257 44.90% CQHC 223 N 32 Bdellovibrio bacteriovorus Bd0789 29.40% CPYC 260 Y 33 Bordetella bronchiseptica RB50 BB4940 26.50% CPHC 209 Y 34 Bordetella parapertussis 12822 BPP4354 26.50% CPHC 209 Y 35 Bordetella pertussis Tohama I BP0113 25.70% CPHC 209 Y 36 Bradyrhizobium japonicum USDA 110 bll2497 37.60% CPHC 232 Y 37 Brucella abortus 9-941 BruAb1_0518 39.50% CPHC 217 N 38 Brucella melitensis 16M BMEI1440 39.50% CPHC 217 Y 39 Brucella melitensis biovar Abortus BAB1_0521 39.50% CPHC 217 Y 40 Brucella ovis ATCC25840 GBOORF0525 39.50% CPHC 244 N 41 Brucella suis 1330 BR_0496 39.50% CPHC 217 Y 42 Buchnera aphidicola (Baizongia pistaciae) bbp_381 32.90% CPYC 211 Y 43 Buchnera aphidicola Sg BUsg415 35.40% CPYC 219 Y 44 Buchnera sp. APS BU430 34.90% CPYC 212 Y 45 Burkholderia cenocepacia AU 1054 Bcen_2307 29.80% CPHC 212 N 46 Burkholderia cenocepacia HI2424 Bcen2424_2921 30.30% CPHC 212 N 47 Burkholderia mallei ATCC 23344 BMA_0086 29.30% CPHC 212 N 48 Burkholderia mallei SAVP1 BMASAVP1_A3097 29.30% CPHC 212 N 49 Burkholderia mallei NCTC 10247 BMA10247_2289 29.30% CPHC 212 N 50 Burkholderia mallei NCTC 10229 BMA10229_A1999 29.30% CPHC 212 N 51 Burkholderia pseudomallei 668 BURPS668_0408 29.30% CPHC 212 N 52 Burkholderia pseudomallei K96243 BPSL0381 29.30% CPHC 212 N 53 Burkholderia pseudomallei 1710b BURPS1710b_A0629 29.30% CPHC 212 N 54 Burkholderia sp. 383 Bcep18194_A6264 30.60% CPHC 212 N 55 Burkholderia thailandensis E264 BTH_I0353 29.30% CPHC 212 N




56 Burkholderia vietnamiensis G4 Bcep1808_3016 30.30% CPHC 212 N 57 Campylobacter concisus 13826 CCC13826_2110 30.00% CPHC 213 N

Campylobacter concisus 13826 CCC13826_0002 24.90% CPFC 213 N 58 Campylobacter curvus 525.92 CCV52592_1147 24.40% CPFC 219 N

Campylobacter curvus 525.92 CCV52592_0856 31.00% CQHC 219 N 59 Campylobacter fetus subsp. fetus 82-40 CFF8240_0433 30.70% CPFC 228 N 60 Campylobacter jejuni NCTC 11168 Cj0872 22.90% CIHC 213 N 61 Campylobacter jejuni RM1221 CJE_0951 28.00% CTHC 220 Y

Campylobacter jejuni RM1221 CJE_0954 23.20% CIHC 223 Y 62 Campylobacter jejuni subsp. doylei 269.97 JJD26997_1021 23.40% CIHC 223 Y 63 Campylobacter jejuni subsp. jejuni 81-176 CJJ81176_0880 28.00% CTHC 220 Y

Campylobacter jejuni subsp. jejuni 81-176 CJJ81176_0883 23.20% CIHC 223 Y 64 Candidatus Blochmannia pennsylvanicus str. BPEN BPEN_646 46.70% CPHC 209 N 65 Candidatus Pelagibacter ubique HTCC1062 SAR11_0113 31.60% CGHC 171 N 66 Candidatus Protochlamydia amoebophila UWE25 pc1335 25.50% CKTC 175 N 67 Caulobacter crescentus CB15 CC_0374 29.30% CGHC 202 Y

Caulobacter crescentus CB15 CC_0375 27.10% CPHC 204 Y 68 Chlamydia muridanum TC_0449 24.70% CSAC 237 Y 69 Chlamydia pneumoniae AR39 CP_0536 28.60% CSAC 230 Y 70 Chlamydia pneumoniae CWL029 CPn0228 28.60% CSAC 233 Y 71 Chlamydia pneumoniae J138 CPj0228 28.60% CSAC 233 Y 72 Chlamydia pneumoniae TW183 CpB0234 28.60% CSAC 233 Y 73 Chlamydia trachomatis CTA_0193 24.10% CSAC 238 Y 74 Chlamydophila abortus S26 3 CAB563 22.00% CLAC 232 N 75 Chlamydophila felis Fe/C-56 CF0414 22.00% CSAC 212 N 76 Chlamydophila caviae GPIC CCA_00588 21.40% CAAC 232 Y 77 Chromobacterium violaceum ATCC12472 CV_3998 31.50% CIHC 203 Y 78 Chromohalobacter salexigens DSM 3043 Csal_3118 28.20% CPHC 210 N 79 Colwellia psychrerythraea 34H CPS_4348 35.40% CGHC 214 N 80 Corynebacterium efficiens CE0313 26.80% CPYC 253 Y




81 Corynebacterium diphtheriae DIP0397 29.40% CPFC 289 Y 82 Corynebacterium glutamicum ATCC 13032 Bielefeld cg0026 29.30% CPFC 248 Y 83 Corynebacterium glutamicum ATCC 13032 Kitasato NCgl0018 29.30% CPFC 254 Y 84 Coxiella burnetii Dugway 7E9-12 COXBU7E912_0953 27.00% CPNC 218 Y 85 Coxiella burnetii RSA 493 CBU_0889 27.00% CPNC 218 Y 86 Coxiella burnetii RSA 331 COXBURSA331_A1058 26.20% CPNC 218 Y 87 Dechloromonas aromatica RCB Daro_3864 25.90% CPHC 218 N 88 Deinococcus geothermalis DSM 11300 Dgeo_0692 26.00% CPNC 228 N 89 Deinococcus radiodurans R1 DR_0753 25.60% CPNC 262 Y

Deinococcus radiodurans R1 DR_0560 24.30% CPYC 376 Y 90 Desulfovibrio vulgaris DVU_0034 32.80% CPYC 261 Y 91 Ehrlichia canis Jake Ecaj_0776 41.20% CMHC 239 N

Ehrlichia canis Jake Ecaj_0710 29.30% CGYC 246 N 92 Ehrlichia chaffeensis Arkansas ECH_0234 47.00% CMHC 240 N 93 Ehrlichia ruminantium Gardel ERGA_CDS_07730 45.70% CMHC 241 N 94 Ehrlichia ruminantium Welgevonden France ERWE_CDS_07820 45.70% CMHC 241 N 95 Ehrlichia ruminantium Welgevonden South Africa Erum7420 45.70% CMHC 241 N 96 Enterococcus faecalis EF_0770 56.10% CPYC 172 Y 97 Erwinia carotovora atroseptica SCRI1043 ECA0020 69.70% CPHC 207 N 98 Erythrobacter litoralis HTCC2594 ELI_08595 35.60% CGTC 256 N 99 Escherichia coli 536 ECP_4070 99.00% CPHC 208 Y

Escherichia coli 536 ECP_3131 28.10% CPFC 222 Y 100 Escherichia coli CFT073 c_3786 28.20% CPFC 222 Y

Escherichia coli CFT073 c_4804 99.50% CPHC 208 Y 101 Escherichia coli K12-MG1655 b3860 100.00% CPHC 208 Y 102 Escherichia coli O157:H7 EDL933 Z5392 100.00% CPHC 208 N 103 Escherichia coli O157:H7 VT2-Sakai ECs4783 100.00% CPHC 208 N 104 Escherichia coli SMS-3-5 EcSMS35_4241 99.50% CPHC 208 N

Escherichia coli SMS-3-5 EcSMS35_3334 28.10% CPFC 222 N 105 Escherichia coli UTI89 UTI89_C4447 99.50% CPHC 208 Y




Escherichia coli UTI89 UTI89_C3474 28.20% CPFC 222 Y 106 Escherichia coli W3110 ECK3852:JW3832:b3860 100.00% CPHC 208 N 107 Francisella tularensis subsp. holarctica FTL_1550 30.00% CGKC 255 N

Francisella tularensis subsp. holarctica FTL_1096 30.00% CMYC 373 N 108 Francisella tularensis subsp. tularensis FSC 198 FTF0507 30.00% CGKC 255 N

Francisella tularensis subsp. tularensis FSC 198 FTF1103 30.00% CMYC 365 N 109 Francisella tularensis subsp. tularensis SCHU S4 FTT0507 30.00% CGKC 255 N

Francisella tularensis subsp. tularensis SCHU S4 FTT1103 30.00% CMYC 365 N 110 Geobacter metallireducens GS-15 Gmet_1380 28.90% CPFC 221 N 111 Gloeobacter violaceus PCC7421 glr1492 30.10% CPYC 261 Y 112 Gluconobacter oxydans 621H GOX2004 34.80% CTHC 211 N

Gluconobacter oxydans 621H GOX2005 33.30% CSHC 275 N 113 Granulibacter bethesdensis CGDNIH1 GbCGDNIH1_1863 34.80% CTHC 225 N 114 Haemophilus ducreyi 35000HP HD_0638 43.50% CPHC 212 Y 115 Haemophilus influenzae 86 028NP NTHI1012 45.70% CPHC 205 Y 116 Haemophilus influenzae KW20 Rd HI_0846 45.70% CPHC 205 Y 117 Haemophilus somnus 129PT HS_0308 38.20% CIHC 202 N 118 Hahella chejuensis KCTC 2396 HCH_01016 35.60% CPHC 201 N 119 Haloarcula marismortui ATCC 43049 pNG6070 24.00% CPYC 328 N 120 Haloquadratum walsbyi DSM 16790 HQ1806A 30.40% CPHC 227 N 121 Hyphomonas neptunium ATCC 15444 HNE_1916 30.80% CPAC 223 N 122 Idiomarina loihiensis L2TR IL2571 36.00% CVHC 204 N 123 Jannaschia sp. CCS1 Jann_0397 26.60% CPHC 227 N 124 Klebsiella pneumoniae Kp342 GKPORF_B3511 81.70% CPHC 207 N 125 Legionella pneumophila Lens lpl0122 27.90% CPWC 204 N 126 Legionella pneumophila Paris lpp0137 27.40% CPWC 204 N 127 Legionella pneumophila Philadelphia 1 lpg0123 27.90% CPWC 217 N 128 Leptospira interrogans serovar lai str. 56601 LA2138 28.40% CPFC 348 Y 129 Leptospira interrogans Copenhageni Fiocruz L1-130 LIC_11782 28.40% CPFC 348 Y 130 Listeria innocua lin1051 25.30% CPFC 176 Y




131 Listeria monocytogenes EGD lmo1059 93.20% CPFC 176 Y 132 Listeria monocytogenes F2365 LMOf2365_1080 93.20% CPFC 176 Y 133 Magnetococcus sp. MC-1 NT01MC4626 29.60% CPHC 207 N

Magnetococcus sp. MC-1 NT01MC1147 32.20% CPYC 335 N 134 Magnetospirillum magneticum AMB-1 amb3982 36.40% CPHC 201 N 135 Mannheimia succiniciproducens MBEL55E MS2059 44.00% CPHC 219 N 136 Mesorhizobium loti MAFF303099 mlr7525 37.10% CPHC 250 N 137 Mesorhizobium sp. BNC1 Meso_0767 37.40% CPHC 229 N

Mesorhizobium sp. BNC1 Meso_4114 34.30% CPHC 210 N 138 Methylibium petroleiphilum PM1 Mpe_A0151 28.00% CPHC 214 N 139 Methylobacillus flagellatus KT Mfla_2675 29.60% CPHC 211 N 140 Methylococcus capsulatus Bath MCA_2602 30.30% CPHC 216 N 141 Mycobacterium sp. MCS Mmcs_0486 26.40% CPFC 613 Y

Mycobacterium sp. MCS Mmcs_1468 28.40% CEGC 313 Y 142 Mycobacterium bovis subsp. bovis AF2122/97 Mb2993c 31.00% CPAC 255 Y 143 Mycobacterium tuberculosis H37Rv Rv2969c 31.00% CPAC 255 Y 144 Mycobacterium tuberculosis CDC1551 MT_3047 31.00% CPAC 261 Y 145 Mycobacterium leprae TN ML1667 26.40% CPGC 264 Y 146 Myxococcus xanthus DK 1622 MXAN_3206 21.60% CPFC 551 N

Myxococcus xanthus DK 1622 MXAN_4966 31.00% CPFC 361 N 147 Neisseria gonorrhoeae FA1090 (Oklahoma) NGO1548 26.10% CVHC 214 N

Neisseria gonorrhoeae FA1090 (Oklahoma) NGO1717 25.80% CPHC 234 N 148 Neisseria meningitidis MC58 NMB_0294 30.80% CPHC 231 Y

Neisseria meningitidis MC58 NMB_0407 25.60% CVHC 214 Y Neisseria meningitidis MC58 NMB_0278 25.80% CPHC 232 Y

149 Neisseria meningitidis Z2491 NMA2078 26.00% CVHC 214 Y Neisseria meningitidis Z2491 NMA2191 30.80% CPHC 231 Y Neisseria meningitidis Z2491 NMA2209 25.80% CPHC 232 Y

150 Neorickettsia sennetsu Miyayama NSE_0900 34.00% CTHC 230 N 151 Nitrobacter hamburgensis X14 Nham_3229 40.10% CPHC 220 N




152 Nitrobacter winogradskyi Nb-255 Nwi_2607 39.00% CPHC 220 N 153 Nitrosococcus oceani ATCC 19707 Noc_0551 29.40% CPHC 220 N 154 Nitrosomonas europaea ATCC 19718 NE0366 24.00% CPHC 216 Y 155 Nitrosospira multiformis ATCC 25196 Nmul_A2454 27.80% CPHC 215 N 156 Nostoc sp PCC7120 all0902 27.20% CPYC 248 Y 157 Novosphingobium aromaticivorans DSM 12444 Saro_0956 28.70% CSHC 249 N 158 Oligotropha carboxidovorans none NT02OC2996 39.40% CPHC 217 N 159 Pasteurella multocida PM70 PM1801 48.10% CPHC 206 Y 160 Photobacterium profundum SS9 PBPRA3590 40.20% CPHC 200 Y

Photobacterium profundum SS9 PBPRA2138 26.10% CGHC 244 Y Photobacterium profundum SS9 PBPRB1982 28.60% CTHC 208 Y

161 Photorhabdus luminescens TTO1 plu0381 60.10% CPHC 207 Y 162 Polaromonas sp. JS666 Bpro_4488 25.40% CPHC 220 N 163 Pseudoalteromonas atlantica T6c Patl_3575 35.00% CPHC 207 N 164 Pseudoalteromonas haloplanktis TAC125 PSHAa0248 33.90% CPHC 207 N

Pseudoalteromonas haloplanktis TAC125 PSHAa0249 33.70% CPAC 212 N 165 Pseudomonas aeruginosa PAO1 PA5489 31.50% CPHC 211 Y 166 Pseudomonas entomophila L48 PSEEN0081 31.80% CPHC 211 N 167 Pseudomonas fluorescens Pf-5 PFL_0085 32.20% CPHC 209 N 168 Pseudomonas fluorescens PfO-1 Pfl_0052 30.70% CPHC 213 N 169 Pseudomonas putida KT2440 PP_0127 31.40% CPHC 210 N 170 Pseudomonas syringae DC3000 PSPTO_0341 35.00% CPHC 214 Y 171 Pseudomonas syringae pv B728a Psyr_0268 36.10% CPHC 214 Y 172 Pseudomonas syringae pv phaseolicola PSPPH_0257 35.60% CPHC 214 Y 173 Psychrobacter arcticum 273-4 Psyc_0120 30.40% CPHC 206 N 174 Psychrobacter cryohalolentis K5 Pcryo_0129 30.40% CPHC 206 N 175 Ralstonia eutropha JMP134 Reut_A0129 31.20% CPHC 211 N 176 Ralstonia metallidurans CH34 Rmet_0098 31.70% CPHC 212 N 177 Ralstonia solanacearum GMI1000 RSc0285 29.70% CPHC 218 Y

Ralstonia solanacearum GMI1000 RSp0898 26.00% CPHC 225 Y




178 Renibacterium salmoninarum ATCC 33209 RSal33209_0448 25.10% CLFC 302 N 179 Rhizobium etli CFN 42 RHE_CH00999 34.20% CPHC 259 N 180 Rhodobacter sphaeroides 2 4 1 RSP_1464 32.70% CPHC 228 N 181 Rhodoferax ferrireducens DSM 15236 Rfer_0775 26.20% CPHC 224 N 182 Rhodopseudomonas palustris BisB5 RPD_1197 40.10% CSHC 222 Y 183 Rhodopseudomonas palustris BisB18 RPC_4372 39.50% CSHC 233 Y 184 Rhodopseudomonas palustris CGA009 RPA4487 40.50% CSHC 224 Y 185 Rhodopseudomonas palustris HaA2 RPB_1068 38.70% CSHC 224 Y 186 Rhodospirillum rubrum ATCC 11170 Rru_A3249 27.60% CPHC 217 N 187 Rickettsia bellii RML369-C RBE_1288 25.80% CPHC 259 N 188 Rickettsia conorii Malish 7 RC0029 30.70% CPHC 277 Y 189 Rickettsia felis URRWXCal2 RF_0032 32.10% CPHC 278 N 190 Rickettsia prowazekii Madrid E RP025 31.00% CPHC 272 Y 191 Rickettsia typhi Wilmington RT0103 29.00% CPHC 270 N 192 Roseobacter denitrificans OCh 114 RD1_0295 31.20% CPHC 223 N 193 Rubrobacter xylanophilus DSM 9941 Rxyl_1822 25.70% CPYC 230 N 194 Saccharophagus degradans 2-40 Sde_0077 26.80% CGHC 293 N 195 Salmonella enterica Choleraesuis SCH_3890 86.10% CPHC 207 Y

Salmonella enterica Choleraesuis SCH_3137 28.90% CPFC 223 Y 196 Salmonella enterica Paratyphi ATCC9150 SPA3838 86.10% CPHC 207 Y

Salmonella enterica Paratyphi ATCC9150 SPA4310 33.30% CPPC 221 Y Salmonella enterica Paratyphi ATCC9150 SPA3061 28.90% CPFC 223 Y

197 Salmonella enterica serovar Typhi CT18 STY3883 85.60% CPHC 207 Y Salmonella enterica serovar Typhi CT18 STY3371 28.90% CPFC 223 Y

198 Salmonella enterica serovar Typhi Ty2 t3623 85.60% CPHC 207 Y Salmonella enterica serovar Typhi Ty2 t3113 28.90% CPFC 223 Y

199 Salmonella typhimurium LT2 SGSC1412 STM3997 86.10% CPHC 207 Y Salmonella typhimurium LT2 SGSC1412 PSLT011 34.00% CPPC 217 Y Salmonella typhimurium LT2 SGSC1412 STM3193 28.90% CPFC 223 Y Salmonella typhimurium LT2 SGSC1412 STM1115 31.00% CPYC 207 Y




200 Shewanella denitrificans OS217 Sden_0285 36.60% CGHC 203 N 201 Shewanella oneidensis MR-1 SO_0333 38.30% CPHC 202 Y

Shewanella oneidensis MR-1 SO_2860 32.10% CPHC 207 Y Shewanella oneidensis MR-1 SO_3718 28.90% CHNC 250 Y Shewanella oneidensis MR-1 SO_3871 29.00% CPFC 203 Y

202 Shewanella sp. MR-4 Shewmr4_3642 34.10% CPHC 203 Y Shewanella sp. MR-4 Shewmr4_3063 29.40% CHNC 250 Y Shewanella sp. MR-4 Shewmr4_1512 32.40% CPHC 207 Y

203 Shewanella sp. MR-7 Shewmr7_1579 32.20% CPHC 207 Y Shewanella sp. MR-7 Shewmr7_0909 29.40% CHNC 250 Y Shewanella sp. MR-7 Shewmr7_0302 34.10% CPHC 203 Y

204 Shigella boydii Sb227 SBO_3872 100.00% CPHC 208 N 205 Shigella dysenteriae Sd197 SDY_3885 99.50% CPHC 208 N 206 Shigella flexneri 5 str. 8401 SFV_3641 100.00% CPHC 208 N 207 Shigella flexneri 2a 2457T S3816 99.50% CPHC 208 Y 208 Shigella flexneri 2a str. 301 AAN45366.1 99.50% CPHC 208 Y 209 Shigella sonnei Ss046 SSO_4032 100.00% CPHC 208 N 210 Silicibacter pomeroyi DSS-3 SPO_3446 30.10% CPHC 222 N 211 Silicibacter sp. TM1040 TM1040_2643 30.50% CPHC 233 N 212 Sinorhizobium meliloti 1021 SMc00023 34.50% CPHC 269 N 213 Sodalis glossinidius str. morsitans SG2236 67.30% CANC 207 N 214 Staphylococcus aureus MW2 MW2331 93.50% CPYC 199 Y 215 Staphylococcus aureus Mu50 SAV2409 93.50% CPYC 199 Y 216 Staphylococcus aureus N315 SA2197 93.50% CPYC 199 Y 217 Staphylococcus aureus NCTC 8325 SAOUHSC_02694 94.00% CPYC 199 N 218 Staphylococcus aureus RF122 SAB2289c 93.50% CPYC 199 N 219 Staphylococcus aureus subsp. aureus COL SACOL2407 94.00% CPYC 199 N 220 Staphylococcus aureus subsp. aureus MRSA252 SAR2499 93.00% CPYC 199 N 221 Staphylococcus aureus subsp. aureus MSSA476 SAS2300 93.50% CPYC 199 N 222 Staphylococcus aureus subsp. aureus USA300-FPR3757 SAUSA300_2354 94.00% CPYC 199 N




223 Staphylococcus epidermidis ATCC 12228 SE_1987 55.10% CPYC 198 Y 224 Staphylococcus epidermidis RP62A SERP1999 54.60% CPYC 198 Y 225 Staphylococcus haemolyticus JCSC1435 SH0644 46.40% CPYC 198 N 226 Staphylococcus saprophyticus ATCC15305 SSP0489 46.20% CPYC 201 N 227 Streptomyces avermitilis SAV6806 29.10% CPDC 176 Y

Streptomyces avermitilis SAV6140 26.60% CPVC 279 Y Streptomyces avermitilis SAV6179 36.20% CPAC 276 Y

228 Streptomyces coelicolor A3(2) SCO5993 22.50% CPFC 270 Y Streptomyces coelicolor A3(2) SCO2067 24.70% CPGC 266 Y

229 Symbiobacterium thermophilum IAM14863 STH2058 27.30% CPHC 260 N 230 Thermobifida fusca YX Tfu_1523 26.40% CPYC 279 N 231 Thermus thermophilus HB8 TTHA0823 29.60% CPHC 211 Y 232 Thermus thermophilus HB8 TTHA0610 33.30% CPYC 287 Y 233 Thermus thermophilus HB27 TT_C0471 29.60% CPHC 211 Y 234 Thiobacillus denitrificans ATCC 25259 Tbd_2784 24.50% CPHC 216 N 235 Thiomicrospira crunogena XCL-2 Tcr_0050 28.30% CPHC 207 N 236 Vibrio cholerae El Tor N16961 VC_0034 39.50% CPHC 200 Y 237 Vibrio cholerae O395 VC0395_A2485 39.50% CPHC 200 Y 238 Vibrio fischeri ES114 VF2553 39.10% CPHC 200 N

Vibrio fischeri ES114 VF0646 38.20% CPHC 199 N 239 Vibrio parahaemolyticus RIMD 2210633 VPA1271 39.50% CPHC 199 Y

Vibrio parahaemolyticus RIMD 2210633 VP3054 39.00% CPHC 200 Y Vibrio parahaemolyticus RIMD 2210633 VPA0994 32.40% CPYC 262 Y

240 Vibrio vulnificus CMCP6 VV1_1036 38.60% CPHC 201 Y Vibrio vulnificus CMCP6 VV2_1424 37.90% CPHC 200 Y Vibrio vulnificus CMCP6 VV2_0525 24.60% CGHC 197 Y

241 Vibrio vulnificus YJ016 VVA0259 37.90% CPHC 200 Y Vibrio vulnificus YJ016 VV3236 38.60% CPHC 201 Y Vibrio vulnificus YJ016 VVA1074 24.40% CGHC 210 Y

242 Wigglesworthia glossinidia brevipalpis dsbA 33.00% CSYC 209 Y




243 Wolbachia pipientis wBm WB_0663 78.40% CYHC 234 N 244 Wolbachia pipientis wMel WD_1055 93.20% CYHC 234 Y

Wolbachia pipientis wMel WD_1312 27.50% CGHC 252 Y 245 Xanthomonas axonopodis pv. citri 306 XAC0723 27.50% CPHC 216 Y

Xanthomonas axonopodis pv. citri 306 XAC0722 27.30% CPAC 272 Y 246 Xanthomonas campestris 8004 XC_0764 26.30% CPAC 252 Y

Xanthomonas campestris 8004 XC_0765 24.30% CPHC 216 Y 247 Xanthomonas campestris pv. armoraciae 756C XCAORF_3738 26.30% CPAC 273 Y

Xanthomonas campestris pv. armoraciae 756C XCAORF_3737 24.30% CPHC 216 Y 248 Xanthomonas campestris pv. campestris ATCC33913 XCC3400 26.30% CPAC 273 Y

Xanthomonas campestris pv. campestris ATCC33913 XCC3399 24.30% CPHC 216 Y 249 Xanthomonas campestris pv. vesicatoria str. 85-10 XCV2315 29.30% CPHC 214 Y

Xanthomonas campestris pv. vesicatoria str. 85-10 XCV0779 26.70% CPHC 216 Y Xanthomonas campestris pv. vesicatoria str. 85-10 XCV0778 26.60% CPAC 271 Y

250 Xanthomonas oryzae KACC10331 XOO3883 27.10% CPHC 216 N Xanthomonas oryzae KACC10331 XOO3884 26.60% CPAC 287 N

251 Xanthomonas oryzae pv. oryzicola BLS256 XOCORF_0776 27.70% CPHC 216 N Xanthomonas oryzae pv. oryzicola BLS256 XOCORF_0775 26.60% CPAC 271 N

252 Xanthomonas oryzae pv. oryzae MAFF 311018 XOO3665 27.10% CPHC 216 N Xanthomonas oryzae pv. oryzae MAFF 311018 XOO3666 26.60% CPAC 271 N

253 Xanthomonas vasicola pv. musacearum NT01XV2554 27.50% CPHC 216 N Xanthomonas vasicola pv. musacearum NT01XV2555 26.60% CPAC 271 N

254 Xylella fastidiosa 9a5c XF1437 25.30% CPAC 260 Y Xylella fastidiosa 9a5c XF1436 23.60% CPHC 193 Y

255 Xylella fastidiosa Temecula1 PD_0659 25.30% CPAC 259 N Xylella fastidiosa Temecula1 PD_0658 23.40% CPHC 215 N

256 Yersinia pestis Angola YpAngola_A0022 70.70% CPHC 207 N 257 Yersinia pestis Antiqua JGI YPA_3526 70.70% CPHC 207 N 258 Yersinia pestis biovar Medievalis 91001 YP0017 70.70% CPHC 207 Y 259 Yersinia pestis CO92 YPO0015 70.70% CPHC 207 Y




260 Yersinia pestis KIM y3812 70.70% CPHC 207 Y 261 Yersinia pestis Nepal516 YPN_0243 70.70% CPHC 207 N 262 Yersinia pseudotuberculosis IP 31758 YpsIP31758_0020 70.70% CPHC 207 N 263 Yersinia pseudotuberculosis IP32953 YPTB0017 70.70% CPHC 207 N 264 Zymomonas mobilis ZM4 ZMO1675 31.40% CPHC 256 N

aDsbA from Escherichia coli K-12, Staphylococcus aureus (GenBank ID: AAG41993.1) and Wolbachia pipientis wMel (GenBank ID: AE017196.1) were used to search the publicly available and complete prokaryotic genomes using the comprehensive microbial resource (CMR) available at the J Craig Venter Institute (http://cmr.jcvi.org/tigr-scripts/CMR/CmrHomePage.cgi) using the default settings (P value < 0.0002). In addition, and in order to obtain a more complete representation of the distribution of DsbA proteins in bacteria, we used DsbA sequences from Deinococcus radiodurans (AAF10332.1 and AAF10140.1), then from Bacillus cereus (AAS39533.1), and then from Listeria innocua (CAC96282.1) to search the genomes of all organisms shown in Fig 4 that lacked DsbA proteins according to our initial search criteria. All DsbA sequences included in the table were manually checked for the presence of the inserted alpha helical domain in the TRX-fold, characteristic of DsbA-like proteins, by counting the number of residues between the catalytic CXXC domain and the conserved cis-proline residue. In the majority of sequences examined, this value fell within the range 112–132 residues (similar to that of experimentally characterized DsbA homologues. 117 to 131 residues). Where this value deviated from this range, we also analyzed the sequences by secondary structure prediction and 3D homology searches (tools incorporated in the XtalPred web server (Slabinski et al., 2007)). Sequences were retained only where a DsbA was identified as the closest structural homologue and the secondary structure prediction indicated the presence of an inserted alpha-helical domain. b% identity to the specific DsbA sequence utilized in the search: black (E. coli K-12), blue (S. aureus GenBank ID: AAG41993.1), red (W. pipientis GenBank ID: AE017196.1), magenta (D. radiodurans AAF10332.1), orange (D. radiodurans AAF10140.1), green (B. cereus AAS39533.1) or light blue (L. innocua CAC96282.1). cThe redox active site of DsbA-like proteins comprises a CXXC motif. The identity of the X-X residues for each DsbA homologue is shown. d The iTOL (Interactive Tree of Life) column indicates which organisms are (Y) or are not (N) shown in the phylogenetic tree in Figure 4.




REFERENCE Slabinski, L. et al. XtalPred: a web server for prediction of protein crystallizability. Bioinformatics 23, 3403-5 (2007).


strains organism accession active sitec length … buchnera aphidicola (baizongia pistaciae) bbp_381...

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