RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


CRP,DpiA,ExuR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
CRP Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): Cap, Csm, DNA-binding transcriptional dual regulator CRP, GurB
Gene name(s): crp
Functional conformation(s): CRP-cAMP , CRP
Coregulator(s): AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, BtsR, CRP, CaiF, ChbR, ComR, CpxR, Cra, CreB, CsgD, CspA, CsqR, CusR, CytR, DcuR, DeoR, DgoR, DksA-ppGpp, DnaA, DpiA, DsdC, EbgR, EnvY, EvgA, ExuR, FNR, FadR, FeaR, FhlA, Fis, FlhDC, FliZ, FucR, Fur, GadE, GadW, GadX, GalR, GalS, GatR, GcvA, GlaR, GlcC, GlpR, GlrR, GntR, GutM, H-NS, HU, HdfR, HipB, HprR, HyfR, HypT, IHF, IclR, IdnR, LacI, LeuO, LexA, LrhA, Lrp, LsrR, MalI, MalT, MarA, MarR, MatA, McbR, MelR, MetJ, MhpR, Mlc, MlrA, ModE, MprA, MqsA, MurR, Nac, NadR, NagC, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PhoB, PhoP, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsB, RhaR, RhaS, Rob, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YiaJ, YjjQ, ZraR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
ExuR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional repressor ExuR, negative regulator of exu regulon, exuT, uxaAC, and uxuB
Gene name(s): exuR
Functional conformation(s): ExuR-α-D-glucuronate , ExuR , ExuR-α-D-galacturonate, α-D-glucuronate
Coregulator(s): CRP, DpiA, ExuR, FNR, OxyR, UxuR
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
DpiA      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): CitB, CriR, DNA-binding transcriptional dual regulator DpiA, DpiA response regulator, MpdA
Gene name(s): dpiA
Functional conformation(s): DpiA-Pasp , DpiA
Coregulator(s): ArcA, CRP, DpiA, ExuR, FNR, FlhDC, H-NS, NarL
Summary: TF Summary ...[more]

REGULATION EXERTED BY CRP,DpiA,ExuR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP activator DpiA activator ExuR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
ExuR repressor exuTp2 exuT 3244850 3244867 -143.5 tagatcaataAACGTAGTTAAAAAAATTactctcaaag [AIBSCS] [1]
[2]
CRP-cAMP activator exuTp2 exuT 3244830 3244851 -161.5 ccgaagatatTTTCGTGAGTTAGATCAATAAAcgtagttaaa [AIBSCS] [2]
CRP-cAMP activator exuTp2 exuT 3244952 3244974 -39.5 atattcccacATTTGTGATGGCTCTCACCTTTTaaagttgtat [AIBSCS]
[GEA]
[HIBSCS]
[1]
[2]
[3]
ExuR repressor exuTp2 exuT 3244976 3244993 -17.5 tcaccttttaAAGTTGTATGACAAGTTAtctttctgcc [AIBSCS]
[GEA]
[4]
[2]
DpiA-Pasp activator exuTp2 exuT         [BPP]
[GEA]
[5]

Evidence: [AIBSCS] Automated inference based on similarity to consensus sequences
[GEA] Gene expression analysis
[HIBSCS] Human inference based on similarity to consensus sequences
[BPP] Binding of purified proteins
Reference(s): [1] Medina-Rivera A., et al., 2011
[2] Rodionov DA., et al., 2000
[3] Tsai MJ., et al., 2018
[4] Mata-Gilsinger M., et al., 1983
[5] Yamamoto K., et al., 2008



Reference(s)    

 [1] Medina-Rivera A., Abreu-Goodger C., Thomas-Chollier M., Salgado H., Collado-Vides J., van Helden J., 2011, Theoretical and empirical quality assessment of transcription factor-binding motifs., Nucleic Acids Res 39(3):808-24

 [2] Rodionov DA., Mironov AA., Rakhmaninova AB., Gelfand MS., 2000, Transcriptional regulation of transport and utilization systems for hexuronides, hexuronates and hexonates in gamma purple bacteria., Mol Microbiol 38(4):673-83

 [3] Tsai MJ., Wang JR., Yang CD., Kao KC., Huang WL., Huang HY., Tseng CP., Huang HD., Ho SY., 2018, PredCRP: predicting and analysing the regulatory roles of CRP from its binding sites in Escherichia coli., Sci Rep 8(1):951

 [4] Mata-Gilsinger M., Ritzenthaler P., Blanco C., 1983, Characterization of the operator sites of the exu regulon in Escherichia coli K-12 by operator-constitutive mutations and repressor titration., Genetics 105(4):829-42

 [5] Yamamoto K., Matsumoto F., Oshima T., Fujita N., Ogasawara N., Ishihama A., 2008, Anaerobic regulation of citrate fermentation by CitAB in Escherichia coli., Biosci Biotechnol Biochem 72(11):3011-4


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