Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Collection of regulogs in Rhodobacterales taxonomic group

General statistics
Genomes 15
TF regulogs 76
TF regulons 386
TF binding sites 1487
RNA regulogs 13
RNA regulons 115
RNA sites 182

This collection involves all regulons that were tentatively predicted by applying integrative comparative genomic approach to a single taxonomic group of closely-related genomes. To infer the regulons operated by transcription factors (TFs), we combined the identification of TF binding sites and cross-genome comparison of regulons with the analysis of the genomic and functional context of candidate target genes. To infer the regulons operated by regulatory RNAs such as riboswitches, we identified candidate RNA regulatory elements using HMM profiles and further analyzed their genomic and functional context.

Studied genomes and reconstructed regulon statistics
TF RNA Total
Genomes Regulons Sites Regulons Sites Regulons Sites
Hyphomonas neptunium ATCC 15444 14 42 8 10 22 52
Jannaschia sp. CCS1 27 130 8 10 35 140
Loktanella vestfoldensis SKA53 22 99 7 8 29 107
Oceanicaulis alexandrii HTCC2633 12 41 6 7 18 48
Oceanicola batsensis HTCC2597 24 90 7 12 31 102
Oceanicola granulosus HTCC2516 22 61 6 8 28 69
Paracoccus denitrificans PD1222 38 117 7 21 45 138
Rhodobacter sphaeroides 2.4.1 33 136 8 15 41 151
Rhodobacterales bacterium HTCC2654 24 106 8 10 32 116
Roseobacter sp. MED193 27 116 8 14 35 130
Roseovarius nubinhibens ISM 28 93 9 14 37 107
Roseovarius sp. 217 29 130 9 13 38 143
Silicibacter pomeroyi DSS-3 35 126 6 8 41 134
Silicibacter TM1040 29 116 9 18 38 134
Sulfitobacter sp. EE-36 22 84 9 14 31 98
Genomic distribution of regulons
Family Type Regulator Function
ArsR TF SahR
1 SahR

Hyphomonas neptunium ATCC 15444
3 SahR

Oceanicaulis alexandrii HTCC2633
Methionine metabolism
CRP TF FnrN
9 FnrN

Rhodobacter sphaeroides 2.4.1
8 FnrN

Paracoccus denitrificans PD1222
5 FnrN

Jannaschia sp. CCS1
8 FnrN

Rhodobacterales bacterium HTCC2654
1 FnrN

Oceanicola granulosus HTCC2516
4 FnrN

Loktanella vestfoldensis SKA53
5 FnrN

Oceanicola batsensis HTCC2597
9 FnrN

Roseovarius sp. 217
2 FnrN

Sulfitobacter sp. EE-36
9 FnrN

Silicibacter TM1040
10 FnrN

Silicibacter pomeroyi DSS-3
7 FnrN

Roseobacter sp. MED193
Oxidative stress response; Nitrogen fixation
TF NnrR
4 NnrR

Rhodobacter sphaeroides 2.4.1
6 NnrR

Rhodobacterales bacterium HTCC2654
4 NnrR

Roseovarius sp. 217
Denitrification
DeoR TF RhaR
2 RhaR

Rhodobacterales bacterium HTCC2654
2 RhaR

Oceanicola granulosus HTCC2516
Rhamnose utilization
DtxR TF MntR
2 MntR

Rhodobacterales bacterium HTCC2654
2 MntR

Roseovarius nubinhibens ISM
1 MntR

Roseovarius sp. 217
Manganese homeostasis
FUR TF Fur
8 Fur

Hyphomonas neptunium ATCC 15444
14 Fur

Oceanicaulis alexandrii HTCC2633
Iron homeostasis
TF Irr
2 Irr

Rhodobacter sphaeroides 2.4.1
3 Irr

Jannaschia sp. CCS1
3 Irr

Rhodobacterales bacterium HTCC2654
1 Irr

Oceanicola granulosus HTCC2516
4 Irr

Loktanella vestfoldensis SKA53
3 Irr

Oceanicola batsensis HTCC2597
4 Irr

Roseovarius nubinhibens ISM
4 Irr

Roseovarius sp. 217
4 Irr

Sulfitobacter sp. EE-36
3 Irr

Silicibacter TM1040
4 Irr

Silicibacter pomeroyi DSS-3
2 Irr

Roseobacter sp. MED193
Iron homeostasis
TF Mur
1 Mur

Rhodobacter sphaeroides 2.4.1
2 Mur

Paracoccus denitrificans PD1222
1 Mur

Jannaschia sp. CCS1
2 Mur

Rhodobacterales bacterium HTCC2654
1 Mur

Oceanicola granulosus HTCC2516
1 Mur

Loktanella vestfoldensis SKA53
1 Mur

Oceanicola batsensis HTCC2597
1 Mur

Roseovarius nubinhibens ISM
1 Mur

Roseovarius sp. 217
2 Mur

Sulfitobacter sp. EE-36
2 Mur

Silicibacter TM1040
2 Mur

Silicibacter pomeroyi DSS-3
2 Mur

Roseobacter sp. MED193
Manganese homeostasis
TF Zur
3 Zur

Rhodobacter sphaeroides 2.4.1
3 Zur

Paracoccus denitrificans PD1222
2 Zur

Jannaschia sp. CCS1
2 Zur

Rhodobacterales bacterium HTCC2654
2 Zur

Oceanicola granulosus HTCC2516
2 Zur

Loktanella vestfoldensis SKA53
3 Zur

Oceanicola batsensis HTCC2597
4 Zur

Roseovarius nubinhibens ISM
2 Zur

Roseovarius sp. 217
3 Zur

Sulfitobacter sp. EE-36
4 Zur

Silicibacter TM1040
2 Zur

Silicibacter pomeroyi DSS-3
2 Zur

Roseobacter sp. MED193
1 Zur

Hyphomonas neptunium ATCC 15444
1 Zur

Oceanicaulis alexandrii HTCC2633
Zinc homeostasis
Fis TF NifA
7 NifA

Rhodobacter sphaeroides 2.4.1
Nitrogen fixation
TF NtrC
4 NtrC

Rhodobacter sphaeroides 2.4.1
4 NtrC

Paracoccus denitrificans PD1222
9 NtrC

Jannaschia sp. CCS1
6 NtrC

Rhodobacterales bacterium HTCC2654
4 NtrC

Oceanicola granulosus HTCC2516
5 NtrC

Loktanella vestfoldensis SKA53
4 NtrC

Oceanicola batsensis HTCC2597
3 NtrC

Roseovarius nubinhibens ISM
5 NtrC

Roseovarius sp. 217
7 NtrC

Sulfitobacter sp. EE-36
5 NtrC

Silicibacter TM1040
3 NtrC

Silicibacter pomeroyi DSS-3
8 NtrC

Roseobacter sp. MED193
2 NtrC

Hyphomonas neptunium ATCC 15444
Nitrogen assimilation
GntR/MocR TF EutR
2 EutR

Rhodobacter sphaeroides 2.4.1
1 EutR

Paracoccus denitrificans PD1222
2 EutR

Loktanella vestfoldensis SKA53
1 EutR

Oceanicola batsensis HTCC2597
2 EutR

Roseovarius nubinhibens ISM
2 EutR

Sulfitobacter sp. EE-36
1 EutR

Silicibacter TM1040
3 EutR

Silicibacter pomeroyi DSS-3
1 EutR

Roseobacter sp. MED193
Ectoine utilization
TF Pden_4836
1 Pden_4836

Paracoccus denitrificans PD1222
TF PdxQ
1 PdxQ

Paracoccus denitrificans PD1222
Pyridoxine/pyridoxal homeostasis
TF PdxQ3
1 PdxQ3

Roseovarius nubinhibens ISM
1 PdxQ3

Silicibacter pomeroyi DSS-3
Metabolite transport; Pyridoxine/pyridoxal homeostasis
TF PdxR2
1 PdxR2

Rhodobacter sphaeroides 2.4.1
1 PdxR2

Paracoccus denitrificans PD1222
Pyridoxine biosynthesis
TF PdxR3
1 PdxR3

Oceanicaulis alexandrii HTCC2633
Metabolite transport; Pyridoxine/pyridoxal homeostasis
TF PdxW
1 PdxW

Roseovarius nubinhibens ISM
Pyridoxine/pyridoxal homeostasis
TF SPOA0164
2 SPOA0164

Oceanicola batsensis HTCC2597
2 SPOA0164

Silicibacter pomeroyi DSS-3
TF SPOA0379
2 SPOA0379

Roseovarius sp. 217
2 SPOA0379

Silicibacter pomeroyi DSS-3
TF TauR
1 TauR

Rhodobacter sphaeroides 2.4.1
2 TauR

Paracoccus denitrificans PD1222
3 TauR

Jannaschia sp. CCS1
1 TauR

Loktanella vestfoldensis SKA53
2 TauR

Roseovarius nubinhibens ISM
2 TauR

Roseovarius sp. 217
2 TauR

Silicibacter TM1040
2 TauR

Silicibacter pomeroyi DSS-3
2 TauR

Roseobacter sp. MED193
Taurine utilization
TF TauR2
2 TauR2

Roseovarius sp. 217
2 TauR2

Silicibacter pomeroyi DSS-3
GntR/Others TF AnsR
1 AnsR

Paracoccus denitrificans PD1222
Asparagine degradation; Aspartate utilization
TF BioR
2 BioR

Rhodobacter sphaeroides 2.4.1
4 BioR

Paracoccus denitrificans PD1222
2 BioR

Sulfitobacter sp. EE-36
1 BioR

Silicibacter TM1040
2 BioR

Silicibacter pomeroyi DSS-3
1 BioR

Roseobacter sp. MED193
Biotin biosynthesis
TF GlcC
1 GlcC

Paracoccus denitrificans PD1222
Glycolate utilization
TF HutC
2 HutC

Rhodobacter sphaeroides 2.4.1
2 HutC

Paracoccus denitrificans PD1222
2 HutC

Oceanicola granulosus HTCC2516
3 HutC

Roseovarius nubinhibens ISM
4 HutC

Roseovarius sp. 217
3 HutC

Silicibacter TM1040
2 HutC

Silicibacter pomeroyi DSS-3
2 HutC

Roseobacter sp. MED193
2 HutC

Hyphomonas neptunium ATCC 15444
2 HutC

Oceanicaulis alexandrii HTCC2633
Histidine utilization
TF HypR
4 HypR

Paracoccus denitrificans PD1222
4 HypR

Oceanicola granulosus HTCC2516
1 HypR

Roseovarius nubinhibens ISM
Proline and 4-hydrohyproline utilization
TF HypR2
2 HypR2

Paracoccus denitrificans PD1222
3 HypR2

Roseovarius nubinhibens ISM
4 HypR2

Silicibacter TM1040
2 HypR2

Silicibacter pomeroyi DSS-3
3 HypR2

Roseobacter sp. MED193
Proline and 4-hydrohyproline utilization
TF LldR
2 LldR

Paracoccus denitrificans PD1222
2 LldR

Rhodobacterales bacterium HTCC2654
Lactate utilization
TF MdcY
2 MdcY

Paracoccus denitrificans PD1222
Malonate metabolism
TF NagQ
2 NagQ

Paracoccus denitrificans PD1222
2 NagQ

Jannaschia sp. CCS1
2 NagQ

Silicibacter TM1040
2 NagQ

Silicibacter pomeroyi DSS-3
N-acetylglucosamine utilization
TF Pden_0318
2 Pden_0318

Paracoccus denitrificans PD1222
TF Pden_3389
2 Pden_3389

Paracoccus denitrificans PD1222
2 Pden_3389

Jannaschia sp. CCS1
2 Pden_3389

Roseovarius nubinhibens ISM
2 Pden_3389

Roseovarius sp. 217
Glycolate utilization; Lactate utilization
TF PhnF
2 PhnF

Paracoccus denitrificans PD1222
2 PhnF

Jannaschia sp. CCS1
2 PhnF

Rhodobacterales bacterium HTCC2654
2 PhnF

Loktanella vestfoldensis SKA53
2 PhnF

Oceanicola batsensis HTCC2597
2 PhnF

Roseovarius nubinhibens ISM
2 PhnF

Roseovarius sp. 217
2 PhnF

Sulfitobacter sp. EE-36
1 PhnF

Silicibacter TM1040
2 PhnF

Silicibacter pomeroyi DSS-3
2 PhnF

Roseobacter sp. MED193
Phosphonate utilization
TF RspR
1 RspR

Paracoccus denitrificans PD1222
2 RspR

Silicibacter pomeroyi DSS-3
L-gulonate utilization
TF SPOA0375
2 SPOA0375

Roseovarius sp. 217
2 SPOA0375

Silicibacter pomeroyi DSS-3
TF UxuR
2 UxuR

Silicibacter TM1040
Glucuronate utilization
TF UxuR1
2 UxuR1

Rhodobacter sphaeroides 2.4.1
Glucuronate utilization; Galacturonate utilization
HrcA TF HrcA
1 HrcA

Rhodobacter sphaeroides 2.4.1
1 HrcA

Paracoccus denitrificans PD1222
1 HrcA

Jannaschia sp. CCS1
1 HrcA

Rhodobacterales bacterium HTCC2654
1 HrcA

Oceanicola granulosus HTCC2516
1 HrcA

Loktanella vestfoldensis SKA53
1 HrcA

Oceanicola batsensis HTCC2597
1 HrcA

Roseovarius nubinhibens ISM
1 HrcA

Roseovarius sp. 217
1 HrcA

Sulfitobacter sp. EE-36
1 HrcA

Silicibacter TM1040
1 HrcA

Silicibacter pomeroyi DSS-3
1 HrcA

Roseobacter sp. MED193
1 HrcA

Hyphomonas neptunium ATCC 15444
1 HrcA

Oceanicaulis alexandrii HTCC2633
Heat shock response
LacI TF AfrR
2 AfrR

Jannaschia sp. CCS1
1,5-Anhydro-d-Fructose utilization
TF AglR
2 AglR

Jannaschia sp. CCS1
2 AglR

Rhodobacterales bacterium HTCC2654
2 AglR

Oceanicola granulosus HTCC2516
2 AglR

Loktanella vestfoldensis SKA53
2 AglR

Silicibacter TM1040
Alpha-glucosides utilization
TF CceR (GapR)
8 CceR (GapR)

Rhodobacter sphaeroides 2.4.1
10 CceR (GapR)

Paracoccus denitrificans PD1222
12 CceR (GapR)

Jannaschia sp. CCS1
12 CceR (GapR)

Rhodobacterales bacterium HTCC2654
5 CceR (GapR)

Oceanicola granulosus HTCC2516
9 CceR (GapR)

Loktanella vestfoldensis SKA53
10 CceR (GapR)

Oceanicola batsensis HTCC2597
8 CceR (GapR)

Roseovarius nubinhibens ISM
8 CceR (GapR)

Roseovarius sp. 217
8 CceR (GapR)

Sulfitobacter sp. EE-36
11 CceR (GapR)

Silicibacter TM1040
13 CceR (GapR)

Silicibacter pomeroyi DSS-3
11 CceR (GapR)

Roseobacter sp. MED193
Central carbohydrate metabolism
TF FruR2
2 FruR2

Rhodobacter sphaeroides 2.4.1
Fructose utilization
TF IolR
4 IolR

Jannaschia sp. CCS1
4 IolR

Loktanella vestfoldensis SKA53
4 IolR

Silicibacter TM1040
Inositol utilization
TF Jann_1107
4 Jann_1107

Jannaschia sp. CCS1
1 Jann_1107

Oceanicola granulosus HTCC2516
Sugar utilization
TF Jann_1459
2 Jann_1459

Rhodobacter sphaeroides 2.4.1
2 Jann_1459

Paracoccus denitrificans PD1222
2 Jann_1459

Jannaschia sp. CCS1
2 Jann_1459

Oceanicola batsensis HTCC2597
Sugar utilization
TF Jann_3936
2 Jann_3936

Jannaschia sp. CCS1
Sugar utilization
TF KglR
1 KglR

Paracoccus denitrificans PD1222
Sugar utilization
TF OB2597_06045
2 OB2597_06045

Oceanicola batsensis HTCC2597
Sugar utilization
TF OG2516_10476
2 OG2516_10476

Oceanicola granulosus HTCC2516
Sugar utilization
TF RbsR2
2 RbsR2

Rhodobacter sphaeroides 2.4.1
Ribose utilization
TF RbtR
2 RbtR

Rhodobacter sphaeroides 2.4.1
Ribitol utilization
TF SPO0590
4 SPO0590

Jannaschia sp. CCS1
2 SPO0590

Roseovarius nubinhibens ISM
2 SPO0590

Roseovarius sp. 217
2 SPO0590

Silicibacter pomeroyi DSS-3
2 SPO0590

Roseobacter sp. MED193
Sugar utilization
TF SPOA0336
2 SPOA0336

Sulfitobacter sp. EE-36
2 SPOA0336

Silicibacter pomeroyi DSS-3
Sugar utilization
TF SmoR
3 SmoR

Paracoccus denitrificans PD1222
2 SmoR

Jannaschia sp. CCS1
2 SmoR

Oceanicola granulosus HTCC2516
2 SmoR

Loktanella vestfoldensis SKA53
2 SmoR

Oceanicola batsensis HTCC2597
2 SmoR

Sulfitobacter sp. EE-36
2 SmoR

Silicibacter TM1040
Sorbitol utilization; Mannitol utilization
TF SocR
1 SocR

Rhodobacter sphaeroides 2.4.1
Santhopine utilization
LexA TF LexA
7 LexA

Rhodobacter sphaeroides 2.4.1
7 LexA

Paracoccus denitrificans PD1222
8 LexA

Jannaschia sp. CCS1
9 LexA

Rhodobacterales bacterium HTCC2654
8 LexA

Oceanicola granulosus HTCC2516
7 LexA

Loktanella vestfoldensis SKA53
8 LexA

Oceanicola batsensis HTCC2597
7 LexA

Roseovarius nubinhibens ISM
9 LexA

Roseovarius sp. 217
9 LexA

Sulfitobacter sp. EE-36
7 LexA

Silicibacter TM1040
6 LexA

Silicibacter pomeroyi DSS-3
9 LexA

Roseobacter sp. MED193
7 LexA

Hyphomonas neptunium ATCC 15444
6 LexA

Oceanicaulis alexandrii HTCC2633
SOS response
LysR TF MetR
3 MetR

Rhodobacter sphaeroides 2.4.1
2 MetR

Paracoccus denitrificans PD1222
1 MetR

Jannaschia sp. CCS1
3 MetR

Rhodobacterales bacterium HTCC2654
2 MetR

Oceanicola granulosus HTCC2516
3 MetR

Loktanella vestfoldensis SKA53
2 MetR

Oceanicola batsensis HTCC2597
2 MetR

Roseovarius nubinhibens ISM
3 MetR

Roseovarius sp. 217
2 MetR

Sulfitobacter sp. EE-36
3 MetR

Silicibacter TM1040
2 MetR

Silicibacter pomeroyi DSS-3
2 MetR

Roseobacter sp. MED193
Methionine biosynthesis
MerR TF CadR-PbrR
1 CadR-PbrR

Rhodobacter sphaeroides 2.4.1
2 CadR-PbrR

Paracoccus denitrificans PD1222
5 CadR-PbrR

Rhodobacterales bacterium HTCC2654
1 CadR-PbrR

Oceanicola granulosus HTCC2516
6 CadR-PbrR

Oceanicola batsensis HTCC2597
4 CadR-PbrR

Roseovarius nubinhibens ISM
5 CadR-PbrR

Roseovarius sp. 217
1 CadR-PbrR

Sulfitobacter sp. EE-36
1 CadR-PbrR

Silicibacter TM1040
5 CadR-PbrR

Roseobacter sp. MED193
1 CadR-PbrR

Hyphomonas neptunium ATCC 15444
Lead resistance; Cadmium resistance
TF CueR
2 CueR

Rhodobacter sphaeroides 2.4.1
1 CueR

Jannaschia sp. CCS1
2 CueR

Rhodobacterales bacterium HTCC2654
2 CueR

Oceanicola batsensis HTCC2597
2 CueR

Roseovarius nubinhibens ISM
5 CueR

Roseovarius sp. 217
1 CueR

Sulfitobacter sp. EE-36
1 CueR

Silicibacter pomeroyi DSS-3
2 CueR

Roseobacter sp. MED193
Copper resistance
TF LiuR
1 LiuR

Rhodobacter sphaeroides 2.4.1
1 LiuR

Paracoccus denitrificans PD1222
1 LiuR

Jannaschia sp. CCS1
1 LiuR

Rhodobacterales bacterium HTCC2654
1 LiuR

Loktanella vestfoldensis SKA53
1 LiuR

Oceanicola batsensis HTCC2597
1 LiuR

Roseovarius nubinhibens ISM
1 LiuR

Roseovarius sp. 217
1 LiuR

Silicibacter TM1040
1 LiuR

Silicibacter pomeroyi DSS-3
1 LiuR

Roseobacter sp. MED193
6 LiuR

Hyphomonas neptunium ATCC 15444
1 LiuR

Oceanicaulis alexandrii HTCC2633
Branched-chain amino acid degradation
TF MerR
1 MerR

Hyphomonas neptunium ATCC 15444
Mercury resistance
TF SoxR
2 SoxR

Oceanicola granulosus HTCC2516
2 SoxR

Roseovarius nubinhibens ISM
2 SoxR

Sulfitobacter sp. EE-36
3 SoxR

Silicibacter TM1040
2 SoxR

Silicibacter pomeroyi DSS-3
3 SoxR

Roseobacter sp. MED193
2 SoxR

Hyphomonas neptunium ATCC 15444
2 SoxR

Oceanicaulis alexandrii HTCC2633
Superoxide stress response
ModE TF ModE
3 ModE

Rhodobacter sphaeroides 2.4.1
Molybdopterin biosynthesis
TF ModE2
1 ModE2

Paracoccus denitrificans PD1222
1 ModE2

Rhodobacterales bacterium HTCC2654
1 ModE2

Roseovarius sp. 217
1 ModE2

Silicibacter pomeroyi DSS-3
Molybdenum homeostasis
NadQ TF NadQ
2 NadQ

Hyphomonas neptunium ATCC 15444
2 NadQ

Oceanicaulis alexandrii HTCC2633
NAD biosynthesis
NikR TF NikR
1 NikR

Rhodobacter sphaeroides 2.4.1
1 NikR

Loktanella vestfoldensis SKA53
Nickel homeostasis
NrdR TF NrdR
1 NrdR

Rhodobacter sphaeroides 2.4.1
1 NrdR

Paracoccus denitrificans PD1222
1 NrdR

Jannaschia sp. CCS1
1 NrdR

Rhodobacterales bacterium HTCC2654
1 NrdR

Oceanicola granulosus HTCC2516
1 NrdR

Loktanella vestfoldensis SKA53
1 NrdR

Oceanicola batsensis HTCC2597
1 NrdR

Roseovarius nubinhibens ISM
1 NrdR

Roseovarius sp. 217
1 NrdR

Sulfitobacter sp. EE-36
1 NrdR

Silicibacter TM1040
1 NrdR

Silicibacter pomeroyi DSS-3
1 NrdR

Roseobacter sp. MED193
2 NrdR

Hyphomonas neptunium ATCC 15444
2 NrdR

Oceanicaulis alexandrii HTCC2633
Deoxyribonucleotide biosynthesis
NrtR TF NrtR
1 NrtR

Roseobacter sp. MED193
NAD biosynthesis
OmpR TF Chvl
1 Chvl

Rhodobacter sphaeroides 2.4.1
1 Chvl

Rhodobacterales bacterium HTCC2654
1 Chvl

Oceanicola granulosus HTCC2516
1 Chvl

Oceanicola batsensis HTCC2597
1 Chvl

Roseovarius nubinhibens ISM
1 Chvl

Sulfitobacter sp. EE-36
1 Chvl

Silicibacter TM1040
1 Chvl

Silicibacter pomeroyi DSS-3
1 Chvl

Roseobacter sp. MED193
RpiR TF EutR
2 EutR

Rhodobacter sphaeroides 2.4.1
2 EutR

Paracoccus denitrificans PD1222
2 EutR

Loktanella vestfoldensis SKA53
2 EutR

Oceanicola batsensis HTCC2597
2 EutR

Roseovarius nubinhibens ISM
2 EutR

Roseovarius sp. 217
2 EutR

Sulfitobacter sp. EE-36
2 EutR

Silicibacter TM1040
2 EutR

Silicibacter pomeroyi DSS-3
2 EutR

Roseobacter sp. MED193
Ethanolamine utilization
Rrf2 TF IscR
8 IscR

Rhodobacter sphaeroides 2.4.1
6 IscR

Paracoccus denitrificans PD1222
10 IscR

Jannaschia sp. CCS1
6 IscR

Rhodobacterales bacterium HTCC2654
2 IscR

Oceanicola granulosus HTCC2516
9 IscR

Loktanella vestfoldensis SKA53
9 IscR

Oceanicola batsensis HTCC2597
9 IscR

Roseovarius nubinhibens ISM
8 IscR

Roseovarius sp. 217
12 IscR

Sulfitobacter sp. EE-36
7 IscR

Silicibacter TM1040
5 IscR

Silicibacter pomeroyi DSS-3
8 IscR

Roseobacter sp. MED193
1 IscR

Oceanicaulis alexandrii HTCC2633
Iron-sulfur cluster biogenesis; Iron homeostasis
TF NsrR
4 NsrR

Paracoccus denitrificans PD1222
2 NsrR

Oceanicola batsensis HTCC2597
4 NsrR

Roseovarius sp. 217
3 NsrR

Silicibacter pomeroyi DSS-3
2 NsrR

Hyphomonas neptunium ATCC 15444
Nitrosative stress response
TetR TF PaaR
4 PaaR

Paracoccus denitrificans PD1222
2 PaaR

Rhodobacterales bacterium HTCC2654
2 PaaR

Silicibacter TM1040
3 PaaR

Silicibacter pomeroyi DSS-3
2 PaaR

Roseobacter sp. MED193
Phenylacetic acid degradation
TF RutR
4 RutR

Rhodobacter sphaeroides 2.4.1
1 RutR

Paracoccus denitrificans PD1222
5 RutR

Jannaschia sp. CCS1
6 RutR

Rhodobacterales bacterium HTCC2654
4 RutR

Oceanicola granulosus HTCC2516
4 RutR

Loktanella vestfoldensis SKA53
3 RutR

Oceanicola batsensis HTCC2597
4 RutR

Roseovarius nubinhibens ISM
4 RutR

Roseovarius sp. 217
3 RutR

Sulfitobacter sp. EE-36
6 RutR

Silicibacter TM1040
7 RutR

Silicibacter pomeroyi DSS-3
8 RutR

Roseobacter sp. MED193
Pyrimidine utilization
[Other] TF PpsR
12 PpsR

Rhodobacter sphaeroides 2.4.1
12 PpsR

Jannaschia sp. CCS1
10 PpsR

Loktanella vestfoldensis SKA53
9 PpsR

Roseovarius sp. 217
Photosynthesis
RF00050 RNA FMN
1 FMN

Paracoccus denitrificans PD1222
1 FMN

Roseovarius nubinhibens ISM
1 FMN

Sulfitobacter sp. EE-36
2 FMN

Silicibacter TM1040
1 FMN

Silicibacter pomeroyi DSS-3
1 FMN

Roseobacter sp. MED193
Riboflavin biosynthesis
RF00059 RNA TPP
2 TPP

Rhodobacter sphaeroides 2.4.1
3 TPP

Paracoccus denitrificans PD1222
1 TPP

Jannaschia sp. CCS1
2 TPP

Rhodobacterales bacterium HTCC2654
2 TPP

Oceanicola granulosus HTCC2516
1 TPP

Loktanella vestfoldensis SKA53
4 TPP

Oceanicola batsensis HTCC2597
2 TPP

Roseovarius nubinhibens ISM
3 TPP

Roseovarius sp. 217
2 TPP

Sulfitobacter sp. EE-36
3 TPP

Silicibacter TM1040
1 TPP

Silicibacter pomeroyi DSS-3
2 TPP

Roseobacter sp. MED193
1 TPP

Hyphomonas neptunium ATCC 15444
1 TPP

Oceanicaulis alexandrii HTCC2633
Thiamine biosynthesis
RF00080 RNA yybP-ykoY
1 yybP-ykoY

Hyphomonas neptunium ATCC 15444
RF00114 RNA S15
1 S15

Rhodobacter sphaeroides 2.4.1
1 S15

Jannaschia sp. CCS1
1 S15

Loktanella vestfoldensis SKA53
1 S15

Roseovarius nubinhibens ISM
1 S15

Roseovarius sp. 217
1 S15

Sulfitobacter sp. EE-36
1 S15

Silicibacter TM1040
1 S15

Roseobacter sp. MED193
1 S15

Oceanicaulis alexandrii HTCC2633
Ribosome biogenesis
RF00174 RNA Cobalamin
6 Cobalamin

Rhodobacter sphaeroides 2.4.1
10 Cobalamin

Paracoccus denitrificans PD1222
2 Cobalamin

Jannaschia sp. CCS1
1 Cobalamin

Rhodobacterales bacterium HTCC2654
1 Cobalamin

Oceanicola granulosus HTCC2516
1 Cobalamin

Loktanella vestfoldensis SKA53
1 Cobalamin

Oceanicola batsensis HTCC2597
4 Cobalamin

Roseovarius nubinhibens ISM
2 Cobalamin

Roseovarius sp. 217
4 Cobalamin

Sulfitobacter sp. EE-36
6 Cobalamin

Silicibacter TM1040
3 Cobalamin

Silicibacter pomeroyi DSS-3
4 Cobalamin

Roseobacter sp. MED193
2 Cobalamin

Hyphomonas neptunium ATCC 15444
1 Cobalamin

Oceanicaulis alexandrii HTCC2633
Cobalamin biosynthesis
RF00442 RNA ykkC-yxkD
1 ykkC-yxkD

Rhodobacter sphaeroides 2.4.1
1 ykkC-yxkD

Paracoccus denitrificans PD1222
1 ykkC-yxkD

Rhodobacterales bacterium HTCC2654
Multidrug resistance
RF00504 RNA Glycine
1 Glycine

Rhodobacter sphaeroides 2.4.1
2 Glycine

Paracoccus denitrificans PD1222
1 Glycine

Jannaschia sp. CCS1
1 Glycine

Rhodobacterales bacterium HTCC2654
1 Glycine

Oceanicola granulosus HTCC2516
1 Glycine

Loktanella vestfoldensis SKA53
1 Glycine

Oceanicola batsensis HTCC2597
1 Glycine

Roseovarius nubinhibens ISM
1 Glycine

Roseovarius sp. 217
1 Glycine

Sulfitobacter sp. EE-36
1 Glycine

Silicibacter TM1040
2 Glycine

Roseobacter sp. MED193
1 Glycine

Hyphomonas neptunium ATCC 15444
1 Glycine

Oceanicaulis alexandrii HTCC2633
Glycine metabolism
RF00517 RNA serC
1 serC

Rhodobacter sphaeroides 2.4.1
1 serC

Paracoccus denitrificans PD1222
1 serC

Jannaschia sp. CCS1
1 serC

Rhodobacterales bacterium HTCC2654
1 serC

Oceanicola granulosus HTCC2516
1 serC

Loktanella vestfoldensis SKA53
1 serC

Oceanicola batsensis HTCC2597
1 serC

Roseovarius nubinhibens ISM
1 serC

Roseovarius sp. 217
1 serC

Sulfitobacter sp. EE-36
1 serC

Silicibacter TM1040
1 serC

Silicibacter pomeroyi DSS-3
1 serC

Roseobacter sp. MED193
1 serC

Hyphomonas neptunium ATCC 15444
Serine biosynthesis
RF00521 RNA SAM_alpha
1 SAM_alpha

Rhodobacter sphaeroides 2.4.1
1 SAM_alpha

Jannaschia sp. CCS1
1 SAM_alpha

Rhodobacterales bacterium HTCC2654
1 SAM_alpha

Oceanicola granulosus HTCC2516
1 SAM_alpha

Loktanella vestfoldensis SKA53
1 SAM_alpha

Oceanicola batsensis HTCC2597
1 SAM_alpha

Roseovarius nubinhibens ISM
1 SAM_alpha

Roseovarius sp. 217
1 SAM_alpha

Sulfitobacter sp. EE-36
1 SAM_alpha

Silicibacter TM1040
1 SAM_alpha

Silicibacter pomeroyi DSS-3
1 SAM_alpha

Roseobacter sp. MED193
1 SAM_alpha

Hyphomonas neptunium ATCC 15444
1 SAM_alpha

Oceanicaulis alexandrii HTCC2633
Methionine biosynthesis
RF00522 RNA PreQ1
1 PreQ1

Roseovarius sp. 217
Queuosine biosynthesis
RF01055 RNA MOCO_RNA_motif
1 MOCO_RNA_motif

Hyphomonas neptunium ATCC 15444
Molybdopterin biosynthesis; Molybdenum homeostasis
RF01068 RNA mini-ykkC
1 mini-ykkC

Jannaschia sp. CCS1
1 mini-ykkC

Rhodobacterales bacterium HTCC2654
2 mini-ykkC

Oceanicola batsensis HTCC2597
1 mini-ykkC

Roseovarius nubinhibens ISM
1 mini-ykkC

Roseovarius sp. 217
1 mini-ykkC

Sulfitobacter sp. EE-36
1 mini-ykkC

Silicibacter TM1040
1 mini-ykkC

Hyphomonas neptunium ATCC 15444
1 mini-ykkC

Oceanicaulis alexandrii HTCC2633
Multidrug resistance
RF01727 RNA SAM-SAH
1 SAM-SAH

Rhodobacter sphaeroides 2.4.1
1 SAM-SAH

Paracoccus denitrificans PD1222
1 SAM-SAH

Jannaschia sp. CCS1
1 SAM-SAH

Rhodobacterales bacterium HTCC2654
1 SAM-SAH

Oceanicola granulosus HTCC2516
1 SAM-SAH

Loktanella vestfoldensis SKA53
1 SAM-SAH

Oceanicola batsensis HTCC2597
1 SAM-SAH

Roseovarius nubinhibens ISM
1 SAM-SAH

Roseovarius sp. 217
1 SAM-SAH

Sulfitobacter sp. EE-36
1 SAM-SAH

Silicibacter TM1040
1 SAM-SAH

Silicibacter pomeroyi DSS-3
1 SAM-SAH

Roseobacter sp. MED193
Methionine metabolism