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

Collection of regulogs in Streptomycetaceae taxonomic group

General statistics
Genomes 4
TF regulogs 36
TF regulons 120
TF binding sites 653
RNA regulogs 3
RNA regulons 8
RNA sites 17

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
Streptomyces avermitilis MA-4680 33 168 2 5 35 173
Streptomyces coelicolor A3(2) 29 186 2 4 31 190
Streptomyces griseus subsp. griseus NBRC 13350 27 144 2 4 29 148
Streptomyces scabiei 87.22 31 155 2 4 33 159
Genomic distribution of regulons
Family Type Regulator Function
ArgR TF ArgR
6 ArgR

Streptomyces coelicolor A3(2)
5 ArgR

Streptomyces avermitilis MA-4680
4 ArgR

Streptomyces scabiei 87.22
4 ArgR

Streptomyces griseus subsp. griseus NBRC 13350
Arginine biosynthesis
FUR TF Nur
3 Nur

Streptomyces coelicolor A3(2)
2 Nur

Streptomyces avermitilis MA-4680
2 Nur

Streptomyces scabiei 87.22
2 Nur

Streptomyces griseus subsp. griseus NBRC 13350
Nickel homeostasis
TF Zur
5 Zur

Streptomyces coelicolor A3(2)
3 Zur

Streptomyces avermitilis MA-4680
4 Zur

Streptomyces scabiei 87.22
3 Zur

Streptomyces griseus subsp. griseus NBRC 13350
Zinc homeostasis
GntR/MocR TF PdxQ
2 PdxQ

Streptomyces coelicolor A3(2)
2 PdxQ

Streptomyces avermitilis MA-4680
2 PdxQ

Streptomyces scabiei 87.22
2 PdxQ

Streptomyces griseus subsp. griseus NBRC 13350
Pyridoxine/pyridoxal homeostasis; Metabolite transport
TF PdxQ3
1 PdxQ3

Streptomyces avermitilis MA-4680
1 PdxQ3

Streptomyces scabiei 87.22
1 PdxQ3

Streptomyces griseus subsp. griseus NBRC 13350
Pyridoxine/pyridoxal homeostasis
TF PdxR3
2 PdxR3

Streptomyces coelicolor A3(2)
4 PdxR3

Streptomyces avermitilis MA-4680
2 PdxR3

Streptomyces scabiei 87.22
4 PdxR3

Streptomyces griseus subsp. griseus NBRC 13350
Pyridoxine/pyridoxal homeostasis
TF PdxW
2 PdxW

Streptomyces coelicolor A3(2)
3 PdxW

Streptomyces avermitilis MA-4680
2 PdxW

Streptomyces scabiei 87.22
2 PdxW

Streptomyces griseus subsp. griseus NBRC 13350
Pyridoxine/pyridoxal homeostasis
TF SCO4836
2 SCO4836

Streptomyces coelicolor A3(2)
3 SCO4836

Streptomyces avermitilis MA-4680
1 SCO4836

Streptomyces scabiei 87.22
3 SCO4836

Streptomyces griseus subsp. griseus NBRC 13350
Metabolite transport
GntR/Others TF AnsR
1 AnsR

Streptomyces avermitilis MA-4680
1 AnsR

Streptomyces scabiei 87.22
Aspartate utilization; Asparagine degradation
TF DasR
33 DasR

Streptomyces coelicolor A3(2)
25 DasR

Streptomyces avermitilis MA-4680
21 DasR

Streptomyces scabiei 87.22
31 DasR

Streptomyces griseus subsp. griseus NBRC 13350
N-acetylglucosamine utilization
TF IolR
10 IolR

Streptomyces coelicolor A3(2)
7 IolR

Streptomyces avermitilis MA-4680
6 IolR

Streptomyces scabiei 87.22
5 IolR

Streptomyces griseus subsp. griseus NBRC 13350
Inositol utilization
TF LldR
3 LldR

Streptomyces griseus subsp. griseus NBRC 13350
Lactate utilization
TF LndYR
1 LndYR

Streptomyces coelicolor A3(2)
1 LndYR

Streptomyces avermitilis MA-4680
2 LndYR

Streptomyces scabiei 87.22
3 LndYR

Streptomyces griseus subsp. griseus NBRC 13350
Antibiotic resistance
TF PhnF
1 PhnF

Streptomyces griseus subsp. griseus NBRC 13350
Phosphonate utilization; 2-aminoethylphosphonate utilization
TF SCO1410
4 SCO1410

Streptomyces coelicolor A3(2)
2 SCO1410

Streptomyces avermitilis MA-4680
2 SCO1410

Streptomyces scabiei 87.22
TF SCO3812
1 SCO3812

Streptomyces coelicolor A3(2)
1 SCO3812

Streptomyces griseus subsp. griseus NBRC 13350
Multidrug efflux
HrcA TF HrcA
4 HrcA

Streptomyces coelicolor A3(2)
4 HrcA

Streptomyces avermitilis MA-4680
4 HrcA

Streptomyces scabiei 87.22
4 HrcA

Streptomyces griseus subsp. griseus NBRC 13350
Heat shock response
HxlR TF QorR
2 QorR

Streptomyces coelicolor A3(2)
2 QorR

Streptomyces avermitilis MA-4680
2 QorR

Streptomyces scabiei 87.22
2 QorR

Streptomyces griseus subsp. griseus NBRC 13350
Energy metabolism
IclR TF LtbR
2 LtbR

Streptomyces coelicolor A3(2)
2 LtbR

Streptomyces avermitilis MA-4680
2 LtbR

Streptomyces scabiei 87.22
2 LtbR

Streptomyces griseus subsp. griseus NBRC 13350
Leucine biosynthesis
LacI TF BgaR
2 BgaR

Streptomyces coelicolor A3(2)
2 BgaR

Streptomyces avermitilis MA-4680
2 BgaR

Streptomyces scabiei 87.22
Galactosides utilization
TF CelR
12 CelR

Streptomyces coelicolor A3(2)
10 CelR

Streptomyces avermitilis MA-4680
11 CelR

Streptomyces scabiei 87.22
6 CelR

Streptomyces griseus subsp. griseus NBRC 13350
Cellobiose utilization
TF IolR
2 IolR

Streptomyces avermitilis MA-4680
2 IolR

Streptomyces scabiei 87.22
Inositol utilization
TF ManR
5 ManR

Streptomyces coelicolor A3(2)
4 ManR

Streptomyces avermitilis MA-4680
2 ManR

Streptomyces scabiei 87.22
3 ManR

Streptomyces griseus subsp. griseus NBRC 13350
Mannosides utilization; Mannose utilization
TF RbsR
1 RbsR

Streptomyces coelicolor A3(2)
1 RbsR

Streptomyces avermitilis MA-4680
1 RbsR

Streptomyces griseus subsp. griseus NBRC 13350
Ribose utilization
TF RhaR
6 RhaR

Streptomyces coelicolor A3(2)
4 RhaR

Streptomyces avermitilis MA-4680
4 RhaR

Streptomyces scabiei 87.22
Rhamnose utilization
TF SAV1329
2 SAV1329

Streptomyces avermitilis MA-4680
2 SAV1329

Streptomyces scabiei 87.22
Galactosides utilization
TF SCO1956
1 SCO1956

Streptomyces coelicolor A3(2)
1 SCO1956

Streptomyces avermitilis MA-4680
Sugar utilization
TF SCO2753
3 SCO2753

Streptomyces coelicolor A3(2)
2 SCO2753

Streptomyces avermitilis MA-4680
2 SCO2753

Streptomyces scabiei 87.22
3 SCO2753

Streptomyces griseus subsp. griseus NBRC 13350
Sugar utilization
TF SCO4158
3 SCO4158

Streptomyces coelicolor A3(2)
3 SCO4158

Streptomyces avermitilis MA-4680
3 SCO4158

Streptomyces scabiei 87.22
3 SCO4158

Streptomyces griseus subsp. griseus NBRC 13350
Nucleoside utilization
TF SCO5692
3 SCO5692

Streptomyces coelicolor A3(2)
3 SCO5692

Streptomyces avermitilis MA-4680
3 SCO5692

Streptomyces scabiei 87.22
Sugar utilization
LexA TF LexA
8 LexA

Streptomyces coelicolor A3(2)
6 LexA

Streptomyces avermitilis MA-4680
5 LexA

Streptomyces scabiei 87.22
5 LexA

Streptomyces griseus subsp. griseus NBRC 13350
SOS response
NrdR TF NrdR
2 NrdR

Streptomyces coelicolor A3(2)
2 NrdR

Streptomyces avermitilis MA-4680
2 NrdR

Streptomyces scabiei 87.22
2 NrdR

Streptomyces griseus subsp. griseus NBRC 13350
Deoxyribonucleotide biosynthesis
NrtR TF NrtR
2 NrtR

Streptomyces coelicolor A3(2)
4 NrtR

Streptomyces avermitilis MA-4680
4 NrtR

Streptomyces scabiei 87.22
4 NrtR

Streptomyces griseus subsp. griseus NBRC 13350
NAD biosynthesis
Rex TF Rex
10 Rex

Streptomyces coelicolor A3(2)
9 Rex

Streptomyces avermitilis MA-4680
8 Rex

Streptomyces scabiei 87.22
9 Rex

Streptomyces griseus subsp. griseus NBRC 13350
Energy metabolism
TetR TF AmtR
3 AmtR

Streptomyces avermitilis MA-4680
3 AmtR

Streptomyces scabiei 87.22
Nitrogen metabolism
TF PaaR
5 PaaR

Streptomyces coelicolor A3(2)
5 PaaR

Streptomyces avermitilis MA-4680
5 PaaR

Streptomyces scabiei 87.22
5 PaaR

Streptomyces griseus subsp. griseus NBRC 13350
Phenylacetic acid degradation
RF00050 RNA FMN
1 FMN

Streptomyces coelicolor A3(2)
1 FMN

Streptomyces avermitilis MA-4680
1 FMN

Streptomyces scabiei 87.22
1 FMN

Streptomyces griseus subsp. griseus NBRC 13350
Riboflavin biosynthesis
RF00059 RNA TPP
3 TPP

Streptomyces coelicolor A3(2)
4 TPP

Streptomyces avermitilis MA-4680
3 TPP

Streptomyces scabiei 87.22
3 TPP

Streptomyces griseus subsp. griseus NBRC 13350
Thiamine biosynthesis
RF01055 RNA MOCO_RNA_motif