| Organism |
GenBank entry |
No. genes |
Stand- alone REC |
DNA-binding |
RNA |
Enzymatic |
CheV |
Other RRs |
All RRs |
| Actinobacteria |
OmpR |
NarL |
NtrC |
LytR |
ActR |
AraC |
AmiR |
GGDEF/ EAL |
RpfG |
HisK |
PP2C |
CheB |
| Acidothermus cellulolyticus |
CP000481 |
2157 |
5 |
7 |
6 |
- |
1 |
- |
- |
1 |
2 |
- |
- |
1 |
2 |
- |
2 |
27 |
| Arthrobacter aurescens |
CP000474 |
4587 |
- |
9 |
6 |
- |
1 |
- |
- |
1 |
1 |
- |
- |
1 |
- |
- |
3 |
22 |
| Arthrobacter sp. FB24 |
CP000454 |
4506 |
1 |
15 |
9 |
- |
1 |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
2 |
30 |
| Bifidobacterium adolescentis |
AP009256 |
1631 |
- |
3 |
8 |
- |
2 |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
- |
14 |
| 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 |
| Frankia alni ACN14a |
CT573213 |
6711 |
8 |
13 |
22 |
- |
- |
- |
- |
1 |
- |
- |
- |
2 |
- |
- |
3 |
49 |
| Frankia sp. CcI3 |
CP000249 |
4499 |
7 |
14 |
8 |
- |
- |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
1 |
32 |
| 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 smegmatis |
CP000480 |
6716 |
3 |
12 |
16 |
- |
1 |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
1 |
35 |
| Mycobacterium sp. KMS |
CP000518 |
5975 |
3 |
14 |
9 |
- |
1 |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
3 |
32 |
| Mycobacterium sp. MCS |
CP000384 |
5615 |
2 |
13 |
10 |
- |
1 |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
1 |
29 |
| Mycobacterium tuberculosis H37Rv |
AL123456 |
3927 |
1 |
9 |
2 |
- |
- |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
- |
13 |
| Mycobacterium ulcerans |
CP000325 |
4160 |
2 |
8 |
3 |
- |
- |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
1 |
16 |
| Mycobacterium vanbaalenii |
CP000511 |
5979 |
3 |
15 |
13 |
- |
1 |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
3 |
37 |
| Nocardia farcinica |
AP006618 |
5936 |
2 |
10 |
17 |
- |
1 |
- |
- |
1 |
- |
- |
- |
1 |
- |
- |
1 |
33 |
| Nocardioides sp. JS614 |
CP000509 |
4909 |
3 |
22 |
16 |
- |
1 |
- |
- |
1 |
- |
- |
- |
- |
1 |
- |
2 |
46 |
| Propionibacterium acnes |
AE017283 |
2297 |
1 |
5 |
6 |
- |
- |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
- |
13 |
| Rhodococcus sp. RHA1 |
CP000431 |
9145 |
2 |
11 |
25 |
- |
1 |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
1 |
41 |
| Rubrobacter xylanophilus |
CP000386 |
3140 |
2 |
9 |
8 |
- |
- |
- |
- |
- |
- |
- |
- |
1 |
- |
- |
- |
20 |
| Streptomyces avermitilis |
BA000030 |
7671 |
3 |
26 |
35 |
- |
1 |
- |
- |
1 |
- |
- |
- |
3 |
- |
- |
1 |
70 |
| Streptomyces coelicolor |
AL645882 |
8154 |
3 |
21 |
53 |
- |
1 |
- |
- |
1 |
- |
- |
- |
2 |
- |
- |
3 |
84 |
| 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 |
ActR |
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. CC9605 |
CP000110 |
2756 |
2 |
6 |
1 |
- |
- |
- |
- |
- |
- |
- |
- |
- |
- |
- |
- |
9 |
| Synechococcus sp. CC9902 |
CP000097 |
2358 |
1 |
5 |
1 |
- |
- |
- |
- |
- |
- |
- |
- |
- |
- |
- |
- |
7 |
| Synechococcus sp. JA-3-3Ab |
CP000239 |
2897 |
7 |
8 |
6 |
- |
- |
- |
- |
- |
2 |
1 |
1 |
1 |
- |
- |
5 |
31 |
| 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 |
| Trichodesmium erythraeum |
CP000393 |
5124 |
8 |
6 |
3 |
- |
- |
- |
- |
- |
2 |
- |
3 |
2 |
- |
- |
7 |
31 |
Alpha-proteobacteria |
GenBank |
Genes |
REC |
OmpR |
NarL |
NtrC |
LytR |
ActR |
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 |
| Anaplasma phagocytophilum |
CP000235 |
1264 |
- |
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 chaffeensis |
CP000236 |
1105 |
- |
1 |
- |
1 |
- |
- |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
3 |
| Ehrlichia ruminantium |
CR767821 |
888 |
- |
1 |
- |
1 |
- |
- |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
3 |
| Erythrobacter litoralis |
CP000157 |
3011 |
6 |
6 |
2 |
4 |
2 |
- |
- |
- |
- |
- |
- |
- |
1 |
- |
2 |
23 |
| Gluconobacter oxydans |
CP000009 |
2664 |
6 |
9 |
1 |
1 |
- |
- |
- |
- |
- |
- |
2 |
- |
1 |
- |
1 |
21 |
| Granulibacter bethesdensis |
CP000394 |
2437 |
2 |
10 |
3 |
2 |
- |
1 |
- |
1 |
- |
- |
- |
- |
- |
- |
1 |
19 |
| Hyphomonas neptunium |
CP000158 |
3505 |
5 |
10 |
2 |
3 |
- |
1 |
- |
2 |
2 |
- |
- |
- |
- |
- |
2 |
27 |
| Jannaschia sp. CCS1 |
CP000264 |
4283 |
5 |
8 |
1 |
4 |
- |
1 |
- |
1 |
1 |
- |
- |
1 |
- |
- |
4 |
26 |
| Magnetospirillum magneticum |
AP007255 |
4559 |
30 |
15 |
11 |
6 |
- |
- |
- |
- |
8 |
9 |
2 |
4 |
3 |
- |
12 |
100 |
| Maricaulis maris |
CP000449 |
3063 |
18 |
7 |
3 |
3 |
- |
1 |
- |
- |
3 |
- |
- |
1 |
1 |
- |
3 |
40 |
| Mesorhizobium loti |
BA000012 |
7275 |
12 |
23 |
10 |
5 |
- |
2 |
- |
1 |
2 |
- |
2 |
- |
1 |
- |
1 |
59 |
| Mesorhizobium sp. BNC1 |
CP000390 |
4543 |
10 |
9 |
6 |
3 |
- |
1 |
- |
1 |
1 |
- |
- |
- |
1 |
- |
3 |
35 |
| Neorickettsia sennetsu |
CP000237 |
932 |
- |
1 |
- |
- |
- |
- |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
2 |
| Nitrobacter hamburgensis |
CP000319 |
4326 |
11 |
13 |
4 |
4 |
- |
1 |
- |
- |
3 |
1 |
1 |
- |
1 |
- |
2 |
41 |
| Nitrobacter winogradskyi |
CP000115 |
3122 |
8 |
8 |
3 |
3 |
- |
1 |
- |
- |
2 |
- |
1 |
- |
1 |
- |
2 |
29 |
| Novosphingobium aromaticivorans |
CP000248 |
3324 |
7 |
12 |
5 |
5 |
2 |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
1 |
33 |
| Paracoccus denitrificans |
CP000489 |
5077 |
4 |
14 |
7 |
8 |
- |
1 |
- |
1 |
1 |
- |
1 |
1 |
- |
- |
2 |
40 |
| Pelagibacter ubique |
CP000084 |
1354 |
- |
3 |
- |
1 |
- |
1 |
- |
- |
- |
- |
- |
- |
- |
- |
- |
5 |
| Rhizobium etli |
CP000133 |
5963 |
23 |
17 |
12 |
5 |
- |
1 |
- |
1 |
2 |
- |
2 |
- |
2 |
- |
3 |
68 |
| Rhizobium leguminosarum |
AM236086 |
7150 |
17 |
23 |
9 |
6 |
- |
1 |
- |
3 |
1 |
1 |
3 |
- |
2 |
- |
4 |
70 |
| Rhodobacter sphaeroides |
CP000143 |
4126 |
15 |
14 |
8 |
6 |
- |
1 |
- |
- |
1 |
- |
1 |
1 |
2 |
- |
3 |
52 |
| Rhodopseudomonas palustris |
BX571963 |
4813 |
18 |
11 |
8 |
4 |
- |
1 |
- |
1 |
2 |
2 |
2 |
- |
2 |
- |
3 |
54 |
| Rhodospirillum rubrum |
CP000230 |
3841 |
15 |
5 |
3 |
9 |
6 |
- |
1 |
- |
6 |
1 |
2 |
- |
3 |
- |
6 |
57 |
| Rickettsia bellii |
CP000087 |
1429 |
- |
2 |
- |
1 |
- |
- |
- |
- |
1 |
- |
- |
- |
- |
- |
- |
4 |
| 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 |
| Roseobacter denitrificans |
CP000362 |
4129 |
5 |
9 |
6 |
3 |
- |
1 |
- |
1 |
1 |
- |
- |
1 |
1 |
- |
3 |
31 |
| Silicibacter pomeroyi |
CP000031 |
4252 |
2 |
9 |
5 |
5 |
- |
1 |
- |
- |
1 |
- |
- |
1 |
- |
- |
2 |
26 |
| Silicibacter sp. TM1040 |
CP000377 |
3864 |
11 |
10 |
3 |
5 |
- |
1 |
- |
- |
1 |
- |
1 |
1 |
- |
- |
2 |
35 |
| Sinorhizobium meliloti |
AL591688 |
6205 |
15 |
16 |
12 |
5 |
1 |
1 |
- |
1 |
1 |
- |
- |
- |
2 |
- |
3 |
57 |
| Sphingopyxis alaskensis |
CP000356 |
3195 |
6 |
5 |
1 |
6 |
2 |
1 |
- |
1 |
- |
- |
- |
- |
1 |
- |
2 |
25 |
| 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 |
ActR |
AraC |
AmiR |
GGDEF/ EAL |
RpfG |
HisK |
PP2C |
CheB |
CheV |
Other |
All |
| Azoarcus sp. BH72 |
AM406670 |
3989 |
14 |
16 |
9 |
13 |
1 |
- |
- |
- |
9 |
3 |
- |
- |
2 |
2 |
3 |
72 |
| 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 |
|