TABLE 2.
Members of the bipartite family of energy taxis transducers identified by similarity to the CetA HAMP and proximal signaling domains
| Species and strain | Bacterial phylum or class | Accession no. of gene encoding the HAMP domain | E valuea | Class of HAMP-containing bipartite energy taxis receptorb | Accession no. of neighboring ORFc |
|---|---|---|---|---|---|
| Azoarcus sp. strain BH72 | Betaproteobacteria | YP_934977 | 9.00E-04 | I | YP_934978 |
| Bradyrhizobium japonicum USDA 110 | Alphaproteobacteria | NP_769616 | 2.00E-06 | Id | NP_769615 |
| Caminibacter mediatlanticus TB-2 | Epsilonproteobacteria | ZP_01871323 | 0.001 | I | ZP_01871324 |
| ZP_01870851 | 0.002 | I | ZP_01870852 | ||
| Campylobacter coli RM2228 | Epsilonproteobacteria | ZP_00367208 | 8.00E-51 | Id | ZP_00367209, ZP_00367207 |
| Campylobacter concisus 13826 | Epsilonproteobacteria | YP_001466825 | 2.00E-06 | III | YP_001466824 |
| Campylobacter curvus 525.92 | Epsilonproteobacteria | YP_001408340e | 0.001 | III | YP_001408339 |
| Campylobacter jejuni | Epsilonproteobacteria | ||||
| 11168 | NP_282337 (cetA) | 7.00E-51 | Id | NP_282336 (cetB), NP_282338 | |
| 81-176 | YP_001000865 | 7.00E-51 | Id | YP_001000864, YP_001000866 | |
| HB93-13 | ZP_01070888 | 7.00E-51 | I | ZP_01070815, ZP_01071201 | |
| CG8486 | ZP_01809879 | 7.00E-51 | Id | ZP_01809880, ZP_01809878 | |
| 260.94 | ZP_01069112 | 7.00E-51 | Id | ZP_01069301, ZP_01069270 | |
| CF93-6 | ZP_01068608 | 7.00E-51 | Id | ZP_01068595, ZP_01068567 | |
| 81116 | YP_001482710 | 7.00E-51 | Id | YP_001482711, YP_001482709 | |
| RM1221 | YP_179311 | 7.00E-51 | Id | YP_179312, YP_179310 | |
| 84-25 | ZP_01099629 | 8.00E-51 | Id | ZP_01099329, ZP_01099967 | |
| Campylobacter jejuni subsp. doylei 269.97 | Epsilonproteobacteria | YP_001397715 | 2.00E-49 | Id | YP_001397716 |
| Campylobacter lari RM2100 | Epsilonproteobacteria | ZP_00368322 | 7.00E-34 | I | ZP_00368323, ZP_00368324 |
| Campylobacter upsaliensis RM3195 | Epsilonproteobacteria | ZP_00371342 | 1.00E-38 | I | ZP_00371343, ZP_00371341 |
| Chromobacterium violaceum ATCC 12472 | Betaproteobacteria | NP_900065 | 3.00E-04 | I | NP_900066 |
| Dechloromonas aromatica RCB | Betaproteobacteria | YP_287205 | 7 | I | YP_287206 |
| Kineococcus radiotolerans SRS30216 | Actinobacteria | YP_001363132 | 0.009 | III | YP_001363131 |
| Magnetospirillum gryphiswaldense MSR-1 | Alphaproteobacteria | CAM75236 | 0.003 | Id | CAM75237 |
| CAM75032 | 0.005 | V | CAM75033 | ||
| CAM78133 | 0.065 | VI | CAM78134, CAM78135f | ||
| Magnetospirillum magneticum AMB-1 | Alphaproteobacteria | YP_419949g | 3.00E-04 | I | YP_419948 |
| YP_423371 | 0.002 | I | YP_423372 | ||
| YP_423064 | 0.06 | I | YP_423063 | ||
| YP_420357 | 0.07 | I | YP_420358 | ||
| YP_421559 | 0.13 | I | YP_421560 | ||
| YP_419547 | 1.9 | I | YP_419548 | ||
| Magnetospirillum magnetotacticum MS-1 | Alphaproteobacteria | ZP_00055894 | 4.00E-04 | IV | ZP_00055893 |
| ZP_00207863 | 9.00E-04 | I | ZP_00207862 | ||
| ZP_00208993 | 0.003 | VIII | ZP_00208994, ZP_00051415f | ||
| ZP_00054945h | 0.43 | VII | ZP_00054944 | ||
| Oceanobacter sp. strain RED65 | Gammaproteobacteria | ZP_01306652 | 0.32 | I | ZP_01306653 |
| Oceanospirillum sp. strain MED92 | Gammaproteobacteria | ZP_01166142 | 0.051 | I | ZP_01166143 |
| Reinekea sp. strain MED297 | Gammaproteobacteria | ZP_01113626 | 0.88 | I | ZP_01113627 |
| Rhodopseudomonas palustris | Alphaproteobacteria | ||||
| BisA53 | YP_783562 | 1.00E-04 | I | YP_783563 | |
| BisB5 | YP_568532 | 4.00E-04 | I | YP_568531 | |
| YP_571029 | 0.26 | I | YP_571030 | ||
| BisB18 | YP_534502 | 2.00E-06 | I | YP_534503 | |
| CGA009 | NP_949817i | 8.00E-05 | I | NP_949818i | |
| NP_949819i | 1.00E-04 | II | NP_949820i | ||
| NP_949538 | 1.00E-04 | Id | NP_949539 | ||
| NP_949647 | 0.45 | I | NP_949648 | ||
| HaA2 | YP_484693 | 3.00E-07 | II | YP_484692 | |
| YP_485035 | 8.00E-04 | I | YP_485034 | ||
| YP_484934 | 0.16 | I | YP_484933 | ||
| Rhodospirillum rubrum ATCC 11170 | Alphaproteobacteria | YP_428546j | 0.011 | I | YP_428545 |
| Stappia aggregata IAM 12614 | Alphaproteobacteria | ZP_01546232 | 2.00E-04 | Id | ZP_01546231 |
| Sulfurimonas denitrificans DSM 1251 | Epsilonproteobacteria | YP_392559 | 1.00E-05 | III | YP_392560 |
| Wolinella succinogenes DSM 1740 | Epsilonproteobacteria | NP_907800 | 1.00E-11 | I | NP_907801 |
| NP_906923 | 6.00E-09 | Id | NP_906922 | ||
| NP_907510 | 3.00E-05 | Id | NP_907511 |
Obtained from a BLAST search with the CetA HAMP and proximal signaling domains (amino acids 44 to 139).
See Fig. 2.
The neighboring ORF encodes a PAS domain, but no other domains unless so indicated. Where two accession numbers are given, the gene encoding the HAMP-containing protein is flanked by two genes encoding PAS domain proteins.
Transmembrane helix prediction programs predict one transmembrane helix, but we propose that there are two transmembrane helices present in a helical hairpin (see Materials and Methods).
Misannotated as a DNA binding response regulator.
The neighboring ORF contains additional predicted functional domains.
Misannotated as a sensory rhodopsin II transducer.
Misannotated as an MCP but does not contain the highly conserved domain.
These HAMP/PAS pairs are adjacent to one another.
Misannotated as a response regulator.