A web supplement to the paper "Structural classification of bacterial response regulators:
Diversity of output domains and domain combinations" by Michael Y. Galperin,
published in the Journal of Bacteriology (2006) 188: 4169-4182.
Abstract in PubMed.
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PDF from PubMed Central.
Request reprint.
Additional links:
TM0468, query sequence for PSI-BLAST searches
PSSM for PSI-BLAST searches using TM0468 as a query
| Organism | GenBank entry |
No. genes | Stand- alone REC |
DNA-binding | RNA | Enzymatic | CheV | Other RRs |
All RRs |
|||||||||
| Actinobacteria | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | ||||||
| Bifidobacterium longum | AE014295 | 1727 | - | 5 | 4 | - | - | - | - | 1 | - | - | - | - | - | - | - | 10 |
| Corynebacterium diphtheriae | BX248353 | 2272 | - | 6 | 5 | - | - | - | - | - | - | - | - | - | - | - | - | 11 |
| Corynebacterium efficiens | BA000035 | 2950 | - | 6 | 7 | - | - | - | - | - | - | - | - | - | - | - | - | 13 |
| Corynebacterium glutamicum | BA000036 | 2993 | - | 8 | 6 | - | - | - | - | - | - | - | - | - | - | - | - | 14 |
| Corynebacterium jeikeium | CR931997 | 2137 | - | 6 | 3 | - | - | - | - | - | - | - | - | - | - | - | - | 9 |
| Leifsonia xyli | AE016822 | 2030 | 1 | 7 | 11 | - | - | - | - | 1 | - | - | - | - | - | - | 1 | 21 |
| Mycobacterium avium subsp. paratuberculosis | AE016958 | 4350 | 2 | 10 | 4 | - | - | - | - | 1 | - | - | - | - | - | - | 1 | 18 |
| Mycobacterium bovis | BX248333 | 3920 | - | 9 | 2 | - | - | - | - | 1 | - | - | - | - | - | - | - | 12 |
| Mycobacterium leprae | AL450380 | 1605 | - | 4 | - | - | - | - | - | 1 | - | - | - | - | - | - | - | 5 |
| Mycobacterium tuberculosis H37Rv | AL123456 | 3927 | 1 | 9 | 2 | - | - | - | - | 1 | - | - | - | - | - | - | - | 13 |
| Nocardia farcinica | AP006618 | 5936 | 2 | 10 | 17 | - | 1 | - | - | 1 | - | - | - | 1 | - | - | 1 | 33 |
| Propionibacterium acnes | AE017283 | 2297 | 1 | 5 | 6 | - | - | - | - | 1 | - | - | - | - | - | - | - | 13 |
| Streptomyces avermitilis | BA000030 | 7671 | 3 | 26 | 35 | - | 1 | - | - | 1 | - | - | - | 3 | - | - | 1 | 70 |
| Streptomyces coelicolor | AL645882 | 8154 | 3 | 21 | 53 | - | 1 | - | - | 1 | - | - | - | 2 | - | - | 3 | 84 |
| Symbiobacterium thermophilum | AP006840 | 3337 | 5 | 10 | 11 | 2 | 1 | - | - | 1 | 1 | - | - | - | 1 | - | 2 | 34 |
| Thermobifida fusca | CP000088 | 3110 | 2 | 8 | 13 | - | 1 | - | - | 1 | - | - | - | 1 | - | - | 2 | 28 |
| Tropheryma whipplei | BX072543 | 783 | - | 1 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Cyanobacteria | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Anabaena variabilis | CP000117 | 5657 | 21 | 14 | 16 | - | - | - | 1 | - | 5 | 1 | 14 | 3 | - | - | 13 | 88 |
| Gloeobacter violaceus | BA000045 | 4430 | 7 | 10 | 15 | - | - | - | - | - | - | - | 1 | - | - | - | 6 | 39 |
| Nostoc sp. PCC 7120 | BA000019 | 6055 | 24 | 15 | 17 | - | - | - | 2 | - | 6 | 1 | 15 | 4 | - | - | 12 | 96 |
| Prochlorococcus marinus CCMP1375 | AE017126 | 1882 | - | 4 | 2 | - | - | - | - | - | - | - | - | - | - | - | - | 6 |
| Synechococcus elongatus PCC 6301 | AP008231 | 2525 | 5 | 8 | 1 | - | - | - | - | - | 2 | - | - | - | - | - | 3 | 19 |
| Synechococcus sp. WH 8102 | BX548020 | 2517 | - | 6 | 3 | - | - | - | - | - | - | - | - | - | - | - | - | 9 |
| Synechocystis sp. PCC 6803 | BA000022 | 3567 | 7 | 10 | 7 | - | - | - | 1 | - | 5 | 2 | 5 | 1 | - | - | 9 | 47 |
| Thermosynechococcus elongatus | BA000039 | 2475 | 4 | 7 | 4 | - | - | - | - | - | 2 | - | - | 1 | - | - | 6 | 24 | Alpha-proteobacteria | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Agrobacterium tumefaciens | AE008688 | 5402 | 14 | 22 | 8 | 5 | - | 1 | - | 1 | 2 | - | 1 | - | 1 | - | 3 | 58 |
| Anaplasma marginale | CP000030 | 949 | - | 1 | - | 1 | - | - | - | - | 1 | - | - | - | - | - | - | 3 |
| Bartonella henselae | BX897699 | 1488 | 2 | 6 | - | 2 | - | - | - | - | - | - | - | - | - | - | 1 | 11 |
| Bartonella quintana | BX897700 | 1142 | 2 | 6 | - | 2 | - | - | - | - | - | - | - | - | - | - | 1 | 11 |
| Bradyrhizobium japonicum | BA000040 | 8317 | 30 | 22 | 23 | 5 | - | 2 | - | 1 | 2 | 2 | 2 | - | 2 | - | 5 | 96 |
| Brucella abortus | AE017223 | 3085 | 3 | 10 | 3 | 3 | - | 1 | - | - | 1 | - | - | - | - | - | 1 | 22 |
| Brucella melitensis 16M | AE008917 | 3198 | 3 | 10 | 3 | 3 | - | 1 | - | - | 1 | - | - | - | - | - | 1 | 22 |
| Brucella suis 1330 | AE014291 | 3271 | 3 | 10 | 3 | 3 | - | 1 | - | - | 1 | - | - | - | - | - | 1 | 22 |
| Caulobacter crescentus | AE005673 | 3737 | 14 | 12 | 2 | 4 | - | 2 | - | 1 | 2 | - | - | - | 2 | - | 6 | 45 |
| Ehrlichia canis | CP000107 | 925 | - | 1 | - | 1 | - | - | - | - | 1 | - | - | - | - | - | - | 3 |
| Ehrlichia ruminantium | CR767821 | 888 | - | 1 | - | 1 | - | - | - | - | 1 | - | - | - | - | - | - | 3 |
| Gluconobacter oxydans | CP000009 | 2664 | 6 | 9 | 1 | 1 | - | - | - | - | - | - | 2 | - | 1 | - | 1 | 21 |
| Mesorhizobium loti | BA000012 | 7275 | 12 | 23 | 10 | 5 | - | 2 | - | 1 | 2 | - | 2 | - | 1 | - | 1 | 59 |
| Nitrobacter winogradskyi | CP000115 | 3122 | 8 | 8 | 3 | 3 | - | 1 | - | - | 2 | - | 1 | - | 1 | - | 2 | 29 |
| Pelagibacter ubique | CP000084 | 1354 | - | 3 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | 5 |
| Rhodopseudomonas palustris | BX571963 | 4813 | 18 | 11 | 8 | 4 | - | 1 | - | 1 | 2 | 2 | 2 | - | 2 | - | 3 | 54 |
| Rickettsia conorii | AE006914 | 1374 | - | 2 | - | 1 | - | - | - | - | 1 | - | - | - | - | - | - | 4 |
| Rickettsia felis | CP000053 | 1532 | - | 2 | - | 1 | - | - | - | - | 1 | - | - | - | - | - | - | 4 |
| Rickettsia prowazekii | AJ235269 | 835 | - | 2 | - | 1 | - | - | - | - | 1 | - | - | - | - | - | - | 4 |
| Rickettsia typhi | AE017197 | 838 | - | 2 | - | 1 | - | - | - | - | 1 | - | - | - | - | - | - | 4 |
| Silicibacter pomeroyi | CP000031 | 4252 | 2 | 9 | 5 | 5 | - | 1 | - | - | 1 | - | - | 1 | - | - | 2 | 26 |
| Sinorhizobium meliloti | AL591688 | 6205 | 15 | 16 | 12 | 5 | 1 | 1 | - | 1 | 1 | - | - | - | 2 | - | 3 | 57 |
| Wolbachia endosymbiont of Brugia malayi | AE017321 | 805 | - | 1 | - | - | - | - | - | - | 1 | - | - | - | - | - | - | 2 |
| Wolbachia endosymbiont of Drosophila | AE017196 | 1195 | - | 1 | - | - | - | - | - | - | 1 | - | - | - | - | - | - | 2 |
| Zymomonas mobilis | AE008692 | 1998 | 2 | 6 | - | 1 | 1 | - | - | - | - | - | - | - | 2 | - | 1 | 13 | Beta-proteobacteria | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Azoarcus sp. EbN1 | CR555306 | 4609 | 6 | 11 | 13 | 10 | 1 | - | - | - | 5 | - | - | - | - | - | 1 | 47 |
| Bordetella bronchiseptica | BX470250 | 4994 | 2 | 18 | 7 | 2 | - | 2 | - | - | 1 | - | - | - | 1 | - | - | 33 |
| Bordetella parapertussis | BX470249 | 4185 | 2 | 16 | 5 | 2 | - | 2 | - | - | 1 | - | - | - | 1 | - | - | 29 |
| Bordetella pertussis | BX470248 | 3436 | 1 | 13 | 4 | 1 | - | 2 | - | - | - | - | - | - | 1 | - | - | 22 |
| Burkholderia mallei | CP000011 | 4764 | 6 | 14 | 5 | 5 | - | 2 | - | 1 | - | 2 | 1 | - | 1 | - | 1 | 38 |
| Burkholderia pseudomallei | BX571965 | 5728 | 3 | 15 | 11 | 1 | - | 2 | - | - | - | 1 | 1 | - | 1 | - | 3 | 38 |
| Chromobacterium violaceum | AE016825 | 4407 | 6 | 10 | 7 | 5 | 4 | 1 | - | 1 | 9 | 5 | - | 2 | 3 | 3 | 9 | 65 |
| Dechloromonas aromatica | CP000089 | 4171 | 16 | 17 | 12 | 14 | 2 | 1 | - | 1 | 12 | 7 | 2 | 1 | 2 | 2 | 9 | 98 |
| Neisseria gonorrhoeae | AE004969 | 2002 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Neisseria meningitidis | AE002098 | 2079 | - | 1 | 1 | 1 | - | 1 | - | - | - | - | - | - | - | - | 1 | 5 |
| Nitrosomonas europaea | AL954747 | 2461 | 3 | 7 | - | 4 | - | 1 | - | - | 3 | - | - | - | 1 | - | - | 19 |
| Ralstonia eutropha | CP000090 | 6446 | 7 | 22 | 17 | 5 | 1 | 2 | - | 1 | 1 | 1 | 2 | - | 2 | 1 | 6 | 68 |
| Ralstonia solanacearum | AL646052 | 5116 | 7 | 27 | 14 | 5 | 1 | 2 | - | 1 | 1 | - | 1 | - | 1 | 1 | 3 | 64 |
| Thiobacillus denitrificans | CP000116 | 2827 | 5 | 7 | 8 | 7 | 1 | 1 | - | 1 | 5 | 1 | - | - | 1 | 1 | - | 38 | Delta-proteobacteria | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Bdellovibrio bacteriovorus | BX842601 | 3587 | 13 | 9 | 2 | 6 | - | 1 | - | - | 1 | - | 1 | - | 2 | - | 6 | 41 |
| Desulfotalea psychrophila | CR522870 | 3234 | 5 | 3 | 1 | 11 | - | - | - | - | 2 | 3 | - | - | 2 | - | 4 | 31 |
| Desulfovibrio vulgaris | AE017285 | 3531 | 20 | 2 | 3 | 23 | 2 | - | - | - | 2 | 5 | 4 | 1 | 2 | 3 | 9 | 76 |
| Geobacter sulfurreducens | AE017180 | 3446 | 23 | 7 | 4 | 26 | - | - | - | 1 | 10 | 4 | 2 | 1 | 3 | 1 | 9 | 91 | Epsilon-proteobacteria | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Campylobacter jejuni | AL111168 | 1634 | 1 | 6 | - | 1 | - | - | - | - | 1 | - | 1 | - | - | 1 | 1 | 12 |
| Helicobacter hepaticus | AE017125 | 1875 | 1 | 3 | - | 1 | - | - | - | - | - | - | - | - | - | 3 | 2 | 10 |
| Helicobacter pylori | AE000511 | 1576 | 1 | 3 | - | 1 | - | - | - | - | - | - | - | - | - | 3 | 1 | 9 |
| Wolinella succinogenes | BX571656 | 2044 | 3 | 20 | - | 1 | - | - | - | - | 4 | 1 | 4 | 2 | - | 4 | 9 | 48 | Gamma-proteobacteria | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Acinetobacter sp. ADP1 | CR543861 | 3325 | 2 | 9 | 2 | 3 | 1 | - | - | 1 | - | - | - | - | - | - | - | 18 |
| Blochmannia floridanus | BX248583 | 583 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Blochmannia pennsylvanicus | CP000016 | 610 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Buchnera aphidicola | BA000003 | 574 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Colwellia psychrerythraea | CP000083 | 4910 | 5 | 22 | 8 | 11 | 3 | 1 | - | 1 | 5 | 2 | 1 | - | 1 | 1 | 6 | 67 |
| Coxiella burnetii | AE016828 | 2046 | 1 | 3 | 4 | - | - | - | - | - | - | - | - | - | - | - | - | 8 |
| Erwinia carotovora | BX950851 | 4472 | 1 | 12 | 8 | 2 | 2 | - | - | - | - | - | - | - | 1 | 1 | 1 | 28 |
| Escherichia coli K12 | U00096 | 4242 | 1 | 14 | 9 | 4 | 2 | - | - | - | - | - | - | - | 1 | - | 1 | 32 |
| Escherichia coli O157:H7 | BA000007 | 5253 | 1 | 15 | 10 | 3 | 2 | - | - | - | - | - | - | - | 1 | - | 1 | 33 |
| Francisella tularensis | AJ749949 | 1804 | - | 2 | - | - | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Haemophilus ducreyi | AE017143 | 1717 | - | 2 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | 3 |
| Haemophilus influenzae | L42023 | 1711 | - | 4 | 1 | - | - | - | - | - | - | - | - | - | - | - | 1 | 6 |
| Idiomarina loihiensis | AE017340 | 2640 | 4 | 7 | 5 | 4 | 2 | 1 | - | - | 1 | 2 | - | 1 | 1 | 1 | 2 | 31 |
| Legionella pneumophila | AE017354 | 2942 | 3 | 3 | 2 | 2 | - | - | - | - | 1 | - | - | - | - | - | 2 | 13 |
| Mannheimia succiniciproducens | AE016827 | 2384 | - | 3 | 2 | - | - | - | - | - | - | - | - | - | - | - | - | 5 |
| Methylococcus capsulatus | AE017282 | 2959 | 2 | 7 | 2 | 4 | - | 1 | - | 1 | 2 | - | - | 2 | 1 | - | - | 22 |
| Pasteurella multocida | AE004439 | 2015 | - | 5 | 3 | 1 | - | - | - | - | - | - | - | - | - | - | - | 9 |
| Photobacterium profundum | CR354531 | 5480 | 6 | 20 | 8 | 7 | 3 | - | - | - | 4 | - | 1 | - | 2 | 2 | 6 | 59 |
| Photorhabdus luminescens | BX470251 | 4683 | 1 | 7 | 7 | 2 | 1 | - | - | - | - | - | - | - | 1 | - | 1 | 20 |
| Pseudomonas aeruginosa | AE004091 | 5567 | 6 | 24 | 16 | 8 | 1 | 1 | - | 1 | 5 | 2 | - | 2 | 4 | 1 | 2 | 73 |
| Pseudomonas fluorescens | CP000076 | 6137 | 11 | 29 | 18 | 9 | 1 | 1 | - | - | 7 | 3 | 2 | 2 | 2 | 3 | 4 | 92 |
| Pseudomonas putida | AE015451 | 5350 | 11 | 25 | 11 | 8 | 1 | 1 | - | 1 | 3 | 1 | 2 | 2 | 2 | 3 | 4 | 75 |
| Pseudomonas syringae | AE016853 | 5608 | 11 | 19 | 12 | 8 | 1 | 1 | - | 1 | 5 | - | 1 | 2 | 3 | 3 | 4 | 71 |
| Psychrobacter arcticum | CP000082 | 2120 | 3 | 7 | 3 | 1 | - | - | - | - | - | - | - | - | - | - | - | 14 |
| Salmonella enterica subsp. enterica serovar Paratyphi | CP000026 | 4093 | 1 | 13 | 11 | 4 | 1 | - | - | - | - | - | - | - | 1 | 1 | 1 | 33 |
| Salmonella enterica subsp. enterica serovar Typhi | AL513382 | 4758 | 1 | 12 | 11 | 4 | 1 | - | - | - | - | - | - | - | 1 | 1 | 1 | 32 |
| Salmonella typhimurium LT2 | AE006468 | 4527 | 1 | 13 | 11 | 4 | 1 | - | - | - | - | - | - | - | 1 | 1 | 1 | 33 |
| Shewanella oneidensis | AE014299 | 4467 | 5 | 18 | 8 | 5 | 1 | 1 | - | - | 3 | 4 | 1 | 1 | 3 | 3 | 4 | 57 |
| Shigella flexneri | AE005674 | 4441 | 2 | 13 | 5 | 3 | 2 | - | - | - | - | - | - | - | 1 | - | 1 | 27 |
| Shigella sonnei | CP000038 | 4461 | 1 | 14 | 8 | 4 | 2 | - | - | - | - | - | - | - | 1 | - | 1 | 31 |
| Vibrio cholerae | AE003852 | 3835 | 6 | 12 | 6 | 7 | 2 | - | - | - | 2 | 3 | - | 1 | 2 | 4 | 4 | 49 |
| Vibrio fischeri | CP000020 | 3802 | 2 | 13 | 5 | 5 | 2 | - | - | - | 2 | - | - | 1 | 1 | 3 | 5 | 39 |
| Vibrio parahaemolyticus | BA000031 | 4832 | 3 | 16 | 11 | 10 | 2 | - | - | - | 2 | - | - | 1 | 1 | 4 | 5 | 55 |
| Vibrio vulnificus | AE016795 | 5024 | 4 | 12 | 10 | 9 | 2 | - | - | - | 6 | 3 | - | 1 | 2 | 4 | 7 | 60 |
| Wigglesworthia glossinidia | BA000021 | 617 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | 1 |
| Xanthomonas axonopodis | AE008923 | 4427 | 14 | 11 | 10 | 4 | 3 | 1 | - | - | 5 | 2 | 1 | - | 2 | 1 | 3 | 57 |
| Xanthomonas campestris | AE008922 | 4181 | 16 | 11 | 8 | 5 | 2 | 1 | - | 1 | 5 | 2 | 1 | - | 2 | 1 | 2 | 57 |
| Xanthomonas oryzae | AE013598 | 4637 | 12 | 12 | 5 | 4 | 1 | 1 | - | - | 5 | 2 | 1 | - | 2 | 1 | 4 | 50 |
| Xylella fastidiosa 9a5c | AE003849 | 2832 | 4 | 5 | 2 | 2 | 1 | 1 | - | - | 1 | 1 | 1 | - | - | - | 1 | 19 |
| Yersinia pestis | AL590842 | 4067 | - | 6 | 1 | 1 | 1 | - | - | - | - | - | - | - | 1 | - | 1 | 11 |
| Yersinia pseudotuberculosis | BX936398 | 4038 | 1 | 14 | 7 | 3 | 1 | - | - | - | - | - | - | - | 1 | - | 1 | 28 | Firmicutes | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Bacillus anthracis str. Ames | AE016879 | 5311 | 4 | 31 | 8 | - | 3 | - | - | - | - | - | - | 1 | - | - | 3 | 50 |
| Bacillus cereus ATCC 14579 | AE016877 | 5255 | 2 | 28 | 9 | - | 2 | - | - | - | - | - | - | 1 | - | 1 | 3 | 46 |
| Bacillus clausii | AP006627 | 4096 | 2 | 15 | 13 | 1 | 1 | - | 6 | - | - | - | - | - | - | 1 | 2 | 41 |
| Bacillus halodurans | BA000004 | 4066 | 4 | 16 | 10 | 2 | - | - | 7 | - | 2 | - | - | - | 1 | 2 | 4 | 48 |
| Bacillus licheniformis | AE017333 | 4196 | 4 | 11 | 14 | - | 1 | - | 2 | - | - | - | - | - | 1 | 1 | 3 | 37 |
| Bacillus subtilis | AL009126 | 4105 | 3 | 13 | 12 | - | 2 | - | 1 | - | - | - | - | - | 1 | 1 | 2 | 35 |
| Bacillus thuringiensis serovar konkukian | AE017355 | 5117 | 2 | 30 | 10 | - | 3 | - | 1 | - | - | - | - | 1 | - | 1 | 3 | 51 |
| Clostridium acetobutylicum | AE001437 | 3848 | 4 | 21 | 7 | - | 3 | - | - | 1 | - | - | - | - | 1 | 1 | 5 | 43 |
| Clostridium perfringens | BA000016 | 2723 | 1 | 13 | 1 | - | 2 | - | 3 | 1 | - | - | - | - | - | - | - | 21 |
| Clostridium tetani | AE015927 | 2442 | 2 | 20 | 1 | 1 | 2 | - | 2 | 1 | - | - | - | - | - | - | 1 | 30 |
| Enterococcus faecalis | AE016830 | 3265 | - | 11 | 2 | - | 3 | - | 1 | 1 | - | - | - | - | - | - | - | 18 |
| Geobacillus kaustophilus | BA000043 | 3540 | 3 | 10 | 5 | 1 | 1 | - | 5 | - | 1 | - | - | - | 1 | - | 2 | 29 |
| Lactobacillus acidophilus | CP000033 | 1864 | - | 6 | 2 | - | - | - | - | - | - | - | - | - | - | - | - | 8 |
| Lactobacillus johnsonii | AE017198 | 1821 | - | 6 | 1 | - | 2 | - | - | - | - | - | - | - | - | - | - | 9 |
| Lactobacillus plantarum | AL935263 | 3059 | - | 6 | 2 | - | 6 | - | 1 | - | - | - | - | - | - | - | - | 15 |
| Lactococcus lactis | AE005176 | 2321 | - | 6 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | 7 |
| Listeria innocua | AL592022 | 2968 | 1 | 10 | 2 | - | 2 | - | 1 | 1 | - | - | - | - | - | 1 | - | 18 |
| Listeria monocytogenes | AL591824 | 2846 | - | 9 | 1 | - | 1 | - | 1 | 1 | - | - | - | - | - | 1 | - | 14 |
| Mesoplasma florum | AE017263 | 682 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma gallisepticum | AE015450 | 726 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma genitalium | L43967 | 484 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma hyopneumoniae | AE017332 | 691 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma mobile | AE017308 | 633 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma mycoides | BX293980 | 1016 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma penetrans | BA000026 | 1037 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma pneumoniae | U00089 | 689 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma pulmonis | AL445566 | 782 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Mycoplasma synoviae | AE017245 | 672 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Oceanobacillus iheyensis | BA000028 | 3500 | 2 | 8 | 7 | - | 1 | - | 1 | - | - | - | - | - | 1 | - | 1 | 21 |
| Onion yellows phytoplasma | AP006628 | 754 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Staphylococcus aureus | BA000018 | 2624 | 1 | 9 | 4 | - | 2 | - | 1 | - | - | - | - | - | - | - | - | 17 |
| Staphylococcus epidermidis | AE015929 | 2419 | - | 9 | 4 | - | 2 | - | 1 | - | - | - | - | - | - | - | - | 16 |
| Staphylococcus haemolyticus | AP006716 | 2676 | - | 9 | 4 | - | 2 | - | - | - | - | - | - | - | - | - | - | 15 |
| Staphylococcus saprophyticus | AP008934 | 2514 | - | 6 | 3 | - | 2 | - | - | - | - | - | - | - | - | - | - | 11 |
| Streptococcus agalactiae | AE009948 | 2124 | - | 13 | 2 | - | 3 | - | 1 | - | - | - | - | - | - | - | 1 | 20 |
| Streptococcus mutans | AE014133 | 1960 | - | 9 | 3 | - | 2 | - | - | - | - | - | - | - | - | - | - | 14 |
| Streptococcus pneumoniae | AE005672 | 2094 | - | 8 | 2 | - | 2 | - | 2 | - | - | - | - | - | - | - | - | 14 |
| Streptococcus pyogenes M1 GAS | AE004092 | 1697 | - | 5 | 3 | - | 1 | - | 3 | - | - | - | - | - | - | - | - | 12 |
| Streptococcus thermophilus | CP000024 | 1915 | 1 | 4 | 2 | - | 2 | - | - | - | - | - | - | - | - | - | - | 9 |
| Thermoanaerobacter tengcongensis | AE008691 | 2588 | 3 | 7 | 1 | - | 2 | - | 2 | - | 3 | - | - | - | 1 | - | 2 | 21 |
| Ureaplasma parvum | AF222894 | 614 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 | Other bacterial phyla | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| CFB/ green sulfur bacteria | ||||||||||||||||||
| Bacteroides fragilis | AP006841 | 4625 | 2 | 8 | 2 | 8 | 6 | - | 1 | - | - | - | 1 | 1 | - | - | - | 29 |
| Bacteroides thetaiotaomicron | AE015928 | 4816 | 2 | 6 | - | 8 | 10 | - | - | - | - | - | 1 | - | - | - | - | 27 |
| Chlorobium tepidum | AE006470 | 2252 | 2 | 2 | - | - | - | - | - | - | - | - | - | - | - | - | - | 4 |
| Porphyromonas gingivalis | AE015924 | 1909 | - | 2 | 1 | 2 | - | - | - | - | - | - | - | - | - | - | 1 | 6 |
| Chlamydiae | ||||||||||||||||||
| Chlamydia muridarum | AE002160 | 904 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Chlamydia trachomatis | AE001273 | 895 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Chlamydophila abortus | CR848038 | 932 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Chlamydophila caviae | AE015925 | 1005 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Chlamydophila pneumoniae | AE001363 | 1054 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Parachlamydia sp. UWE25 | BX908798 | 2031 | - | 1 | - | 1 | - | - | - | - | - | - | - | - | - | - | - | 2 |
| Deinococcus/ Thermus | ||||||||||||||||||
| Deinococcus radiodurans | AE000513 | 3184 | 8 | 8 | 6 | - | - | - | - | - | - | - | 2 | - | - | - | 2 | 26 |
| Thermus thermophilus | AE017221 | 2210 | 3 | 7 | 3 | - | - | - | - | - | - | 1 | - | - | - | - | - | 14 |
| Spirochaetes | ||||||||||||||||||
| Borrelia burgdorferi | AE001115 | 1639 | 2 | - | - | 1 | - | - | - | - | 1 | - | - | - | 1 | - | - | 5 |
| Borrelia garinii | CP000013 | 932 | 3 | - | - | 1 | - | - | - | - | 1 | - | - | - | 1 | - | - | 6 |
| Leptospira interrogans serovar lai | AE010300 | 4727 | 14 | 5 | 3 | 1 | - | - | - | - | 4 | - | 4 | 2 | 2 | - | 3 | 38 |
| Treponema denticola | AE017226 | 2767 | 2 | 1 | 2 | 1 | 1 | - | - | - | - | - | 1 | - | 1 | - | 2 | 11 |
| Treponema pallidum | AE000520 | 1036 | 1 | - | - | 1 | - | - | - | - | - | - | - | - | 1 | - | - | 3 |
| Other | ||||||||||||||||||
| Aquifex aeolicus | AE000657 | 1560 | 1 | 1 | - | 3 | - | - | - | - | - | - | - | - | - | - | - | 5 |
| Dehalococcoides ethenogenes | CP000027 | 1580 | 2 | 14 | 8 | - | - | - | - | - | - | 1 | - | - | - | - | 1 | 26 |
| Dehalococcoides sp. CBDB1 | AJ965256 | 1458 | 2 | 18 | 7 | - | - | - | - | - | - | 2 | - | - | - | - | 1 | 30 |
| Fusobacterium nucleatum | AE009951 | 2066 | - | 2 | 1 | 2 | 1 | - | 1 | 1 | - | - | - | - | - | - | - | 8 |
| Rhodopirellula baltica | BX119912 | 7325 | 22 | 4 | 4 | 10 | - | 1 | - | 1 | 4 | 1 | 1 | - | - | - | 10 | 58 |
| Thermotoga maritima | AE000512 | 1858 | 3 | 4 | - | - | - | - | - | - | 2 | 2 | - | - | 1 | - | - | 12 |
| Archaea | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Aeropyrum pernix | BA000002 | 1841 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Archaeoglobus fulgidus | AE000782 | 2420 | 9 | - | - | - | - | - | - | - | - | - | - | - | 1 | - | - | 10 |
| Haloarcula marismortui | AY596297 | 4240 | 7 | - | - | - | - | - | - | - | - | - | 1 | - | 1 | - | 16 | 25 |
| Halobacterium sp. NRC-1 | AE004437 | 2622 | 1 | - | - | - | - | - | - | - | - | - | - | - | 1 | - | 3 | 5 |
| Methanocaldococcus jannaschii | L77117 | 1786 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Methanococcus maripaludis | BX950229 | 1722 | 2 | - | - | - | - | - | - | - | - | - | - | - | 1 | - | - | 3 |
| Methanopyrus kandleri | AE009439 | 1687 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Methanosarcina acetivorans | AE010299 | 4540 | 12 | - | - | - | - | - | - | - | - | - | - | - | 2 | - | 1 | 15 |
| Methanosarcina barkeri | CP000099 | 3625 | 9 | - | - | - | - | - | - | - | - | - | - | - | 1 | - | 1 | 11 |
| Methanosarcina mazei | AE008384 | 3371 | 11 | - | - | - | - | - | - | - | - | - | - | - | 2 | - | 1 | 14 |
| Methanothermobacter thermautotrophicus | AE000666 | 1873 | 1 | - | - | - | - | - | - | - | - | - | 1 | - | - | - | 6 | 8 |
| Nanoarchaeum equitans | AE017199 | 535 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Picrophilus torridus | AE017261 | 1535 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Pyrobaculum aerophilum | AE009441 | 2605 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Pyrococcus abyssi | AL096836 | 1896 | 1 | - | - | - | - | - | - | - | - | - | - | - | 1 | - | - | 2 |
| Pyrococcus furiosus | AE009950 | 2125 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Pyrococcus horikoshii | BA000001 | 1955 | 1 | - | - | - | - | - | - | - | - | - | - | - | 1 | - | - | 2 |
| Sulfolobus acidocaldarius | CP000077 | 2223 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Sulfolobus solfataricus | AE006641 | 2977 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Sulfolobus tokodaii | BA000023 | 2825 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Thermococcus kodakarensis | AP006878 | 2306 | 1 | - | - | - | - | - | - | - | - | - | - | - | 1 | - | - | 2 |
| Thermoplasma acidophilum | AL139299 | 1481 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Thermoplasma volcanium | BA000011 | 1499 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 0 |
| Organism | GenBank | Genes | REC | OmpR | NarL | NtrC | LytR | PrrA | AraC | AmiR | GGDEF/ EAL |
RpfG | HisK | PP2C | CheB | CheV | Other | All |
| Total number | 659 | 1526 | 862 | 393 | 139 | 48 | 48 | 40 | 187 | 72 | 88 | 46 | 107 | 72 | 323 | 4610 | ||
| Percent total | 14.3% | 33.1% | 18.7% | 8.5% | 3.0% | 1.0% | 1.0% | 0.9% | 4.1% | 1.6% | 1.9% | 1.0% | 2.3% | 1.6% | 7.0% | 100.0% | ||
a Within each group, the organisms are sorted in the alphabetical order. The numbers in the table are linked to phylum-specific lists of response regulators, which are further linked to RefSeq and UniProt entries, BLink outputs, and CDD and Pfam domain architectures. The numbers in the "Total number" line are linked to lists of specific types of response regulators in all studied organisms, where available.