RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


AcrR,EnvR,MarA,MprA,PhoP,Rob,SoxS regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
Rob Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): CbpB, DNA-binding transcriptional dual regulator Rob, RobA, right origin-binding protein
Gene name(s): rob
Functional conformation(s): Rob
Coregulator(s): AcrR, ArcA, CRP, CpxR, Cra, DnaA, EnvR, FNR, Fis, Fur, GadE, H-NS, HU, IHF, Lrp, MarA, MarR, MprA, OmpR, OxyR, PhoP, Rob, SoxR, SoxS
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
SoxS Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator SoxS, regulation of superoxide response regulon
Gene name(s): soxS
Functional conformation(s): SoxS
Coregulator(s): AcrR, ArcA, BasR, CRP, CpxR, Cra, DnaA, EnvR, FNR, Fis, Fur, H-NS, HU, IHF, Lrp, MarA, MarR, Mlc, MprA, OmpR, OxyR, PhoP, Rob, SoxR, SoxS, Zur
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
MarA Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): CfxB, DNA-binding transcriptional dual regulator MarA, InaR, NfxC, NorB, SoxQ
Gene name(s): marA
Functional conformation(s): MarA
Coregulator(s): AcrR, ArcA, BasR, CRP, CpxR, Cra, DnaA, EnvR, FNR, Fis, FliZ, Fur, GadE, GadW, GadX, H-NS, HU, IHF, Lrp, MarA, MarR, MprA, OmpR, OxyR, PhoP, PurR, PutA, RcsB, Rob, SoxR, SoxS, TorR, YdeO
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
PhoP Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): DNA-binding transcriptional dual regulator PhoP, PhoP response regulator
Gene name(s): phoP
Functional conformation(s): PhoP , PhoP-Phosphorylated
Coregulator(s): AcrR, ArcA, ArgR, BasR, CRP, CysB, EnvR, EvgA, FNR, FadR, FliZ, GadE, GadW, GadX, H-NS, HypT, Lrp, MalT, MarA, MetJ, MprA, NagC, NarL, NarP, NtrC, OmpR, PdhR, PhoP, PurR, RbsR, RcsB, Rob, RutR, SdiA, SlyA, SoxR, SoxS, TorR, UvrY, YdeO, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
MprA      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor MprA, EmrR
Gene name(s): mprA
Functional conformation(s): MprA , MprA-CCCP , MprA-2,4-dinitrophenol , MprA-Carbonyl cyanide p-(trifluoro-methoxy)phenylhydrazone
Coregulator(s): AcrR, CRP, EnvR, IHF, MarA, MprA, OmpR, PhoP, Rob, SoxS
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
AcrR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor AcrR, YbaH
Gene name(s): acrR
Functional conformation(s): AcrR-ethidium , AcrR , AcrR-Proflavin , AcrR-R6G
Coregulator(s): AcrR, CRP, CpxR, Cra, EnvR, FNR, Fis, FliZ, Fur, H-NS, HU, HdfR, IHF, LrhA, Lrp, MarA, MarR, MatA, MprA, OmpR, PhoP, QseB, RcsB, Rob, SoxR, SoxS, YjjQ
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
EnvR      Tractordb tool
Connectivity class Local Regulator
Synonym(s): AcrS, DNA-binding transcriptional repressor EnvR, YhdK
Gene name(s): envR
Functional conformation(s): EnvR
Coregulator(s): AcrR, EnvR, MarA, MprA, PhoP, Rob, SoxS
Summary: TF Summary ...[more]

REGULATION EXERTED BY AcrR,EnvR,MarA,MprA,PhoP,Rob,SoxS Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
AcrR repressor EnvR repressor MarA activator MprA repressor PhoP repressor Rob activator SoxS activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
SoxS activator acrAp acrB , acrA 485761 485780 -72.5 ttgcgcttctTGTTTGGTTTTTCGTGCCATatgttcgtga [BPP]
[CEUMA]
[GEA]
[HIBSCS]
[IHBCE]
[RE]
[1]
[2]
[3]
PhoP-Phosphorylated repressor acrAp acrB , acrA 485659 485675 32.0 cgcagcaatgGGTTTATTAACTTTTGAccattgacca [GEA] [4]
AcrR repressor acrAp acrB , acrA 485709 485732 -22.5 gcgttagattTACATACATTTGTGAATGTATGTAccatagcacg [BCE]
[BPP]
[GEA]
[HIBSCS]
[5]
[6]
[7]
MprA repressor acrAp acrB , acrA 485704 485724 -16.0 tttacatacaTTTGTGAATGTATGTACCATAgcacgacgat [AIBSCS] [8]
EnvR repressor acrAp acrB , acrA 485709 485732 -22.5 gcgttagattTACATACATTTGTGAATGTATGTAccatagcacg [AIBSCS]
[BPP]
[GEA]
[9]
[8]
MarA activator acrAp acrB , acrA 485761 485780 -72.5 ttgcgcttctTGTTTGGTTTTTCGTGCCATatgttcgtga [AIBSCS]
[BPP]
[GEA]
[HIBSCS]
[1]
[2]
[8]
Rob activator acrAp acrB , acrA         [BPP]
[GEA]
[10]

Evidence: [BPP] Binding of purified proteins
[CEUMA] ChIP-exo evidence used in manual assertion
[GEA] Gene expression analysis
[HIBSCS] Human inference based on similarity to consensus sequences
[IHBCE] Inferred by a human based on computational evidence
[RE] RNA-seq evidence
[BCE] Binding of cellular extracts
[AIBSCS] Automated inference based on similarity to consensus sequences
Reference(s): [1] Martin RG., et al., 1999
[2] Martin RG., et al., 2011
[3] Seo SW., et al., 2015
[4] Monsieurs P., et al., 2005
[5] Lee JO., et al., 2014
[6] Ma D., et al., 1996
[7] Su CC., et al., 2007
[8] Rodionov DA., et al., 2001
[9] Hirakawa H., et al., 2008
[10] Rosenberg EY., et al., 2003



Reference(s)    

 [1] Martin RG., Gillette WK., Rhee S., Rosner JL., 1999, Structural requirements for marbox function in transcriptional activation of mar/sox/rob regulon promoters in Escherichia coli: sequence, orientation and spatial relationship to the core promoter., Mol Microbiol 34(3):431-41

 [2] Martin RG., Rosner JL., 2011, Promoter discrimination at class I MarA regulon promoters mediated by glutamic acid 89 of the MarA transcriptional activator of Escherichia coli., J Bacteriol 193(2):506-15

 [3] Seo SW., Kim D., Szubin R., Palsson BO., 2015, Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655., Cell Rep 12(8):1289-99

 [4] Monsieurs P., De Keersmaecker S., Navarre WW., Bader MW., De Smet F., McClelland M., Fang FC., De Moor B., Vanderleyden J., Marchal K., 2005, Comparison of the PhoPQ regulon in Escherichia coli and Salmonella typhimurium., J Mol Evol 60(4):462-74

 [5] Lee JO., Cho KS., Kim OB., 2014, Overproduction of AcrR increases organic solvent tolerance mediated by modulation of SoxS regulon in Escherichia coli., Appl Microbiol Biotechnol 98(20):8763-73

 [6] Ma D., Alberti M., Lynch C., Nikaido H., Hearst JE., 1996, The local repressor AcrR plays a modulating role in the regulation of acrAB genes of Escherichia coli by global stress signals., Mol Microbiol 19(1):101-12

 [7] Su CC., Rutherford DJ., Yu EW., 2007, Characterization of the multidrug efflux regulator AcrR from Escherichia coli., Biochem Biophys Res Commun 361(1):85-90

 [8] Rodionov DA., Gelfand MS., Mironov AA., Rakhmaninova AB., 2001, Comparative approach to analysis of regulation in complete genomes: multidrug resistance systems in gamma-proteobacteria., J Mol Microbiol Biotechnol 3(2):319-24

 [9] Hirakawa H., Takumi-Kobayashi A., Theisen U., Hirata T., Nishino K., Yamaguchi A., 2008, AcrS/EnvR represses expression of the acrAB multidrug efflux genes in Escherichia coli., J Bacteriol 190(18):6276-9

 [10] Rosenberg EY., Bertenthal D., Nilles ML., Bertrand KP., Nikaido H., 2003, Bile salts and fatty acids induce the expression of Escherichia coli AcrAB multidrug efflux pump through their interaction with Rob regulatory protein., Mol Microbiol 48(6):1609-19


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