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GadE,H-NS,RcsB regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
H-NS      Tractordb tool
Connectivity class Global Regulator
Sensing Class TFs for DNA-bending
Synonym(s): BglY, Cur, DNA-binding protein HLP-II (HU, BH2, HD, NS), DNA-binding transcriptional dual regulator H-NS, Drc, DrdX, Drs, FimG, Hns, HnsA, Irk, MsyA, OsmZ, PilG, TopS, TopX, VirR
Gene name(s): hns
Functional conformation(s): H-NS
Coregulator(s): AcrR, AdiY, ArcA, ArgP, ArgR, BasR, CRP, CadC, CaiF, CdaR, CpxR, Cra, CsgD, CspA, CysB, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, FNR, Fis, FlhDC, FliZ, Fur, GadE, GadW, GadX, GalR, GalS, GlaR, GutM, H-NS, HU, HdfR, HypT, IHF, LacI, LeuO, LrhA, Lrp, MarA, MatA, McbR, MlrA, MntR, MqsA, NagC, NanR, NarL, NarP, NhaR, NrdR, NsrR, OmpR, OxyR, PhoB, PhoP, QseB, RcdA, RcsB, Rob, RstA, RutR, SdiA, SlyA, SoxS, SrlR, StpA, SutR, TorR, UvrY, YdeO, YjjQ, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
RcsB Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): DNA-binding transcriptional activator RcsB, RcsB response regulator
Gene name(s): rcsB
Functional conformation(s): RcsB-Pasp56
Coregulator(s): AcrR, AdiY, ArcA, BasR, CRP, CpxR, Cra, CsgD, EvgA, FNR, Fis, FliZ, Fur, GadE, GadW, GadX, GlrR, H-NS, HdfR, IHF, LeuO, LexA, LrhA, Lrp, MarA, MatA, MlrA, MqsA, NagC, NarL, NarP, NhaR, NtrC, OmpR, PhoP, QseB, RcdA, RcsB, RstA, StpA, TorR, UvrY, YdeO, YjjQ, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
GadE Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional activator GadE, YhiE, YhiT, acid-responsive regulator of gadA and gadBC
Gene name(s): gadE
Functional conformation(s): GadE
Coregulator(s): AdiY, ArcA, ArgR, CRP, CadC, CpxR, Cra, CusR, EvgA, FNR, Fis, FliZ, Fur, GadE, GadW, GadX, H-NS, HdfR, HprR, IHF, Lrp, MarA, MatA, Nac, NsrR, OmpR, PdhR, PhoB, PhoP, PurR, RcsB, Rob, RutR, TorR, YdeO, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY GadE,H-NS,RcsB Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
GadE activator H-NS repressor RcsB activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
RcsAB activator rcsAp rcsA 2023657 2023671 -172.0 ctgatattatTAGTGAATTGCCATTaatataattc [AIBSCS]
[GEA]
[1]
RcsAB activator rcsAp rcsA 2023704 2023718 -125.0 catgttatccTAAGGATTATCCGAAaaataatacc [BCE]
[BPP]
[SM]
[2]
H-NS repressor rcsAp rcsA         [GEA]
[ICWHO]
[1]
[3]
[4]
[5]
GadE activator rcsAp rcsA         [BPP]
[GEA]
[6]

Evidence: [AIBSCS] Automated inference based on similarity to consensus sequences
[GEA] Gene expression analysis
[BCE] Binding of cellular extracts
[BPP] Binding of purified proteins
[SM] Site mutation
[ICWHO] Inferred computationally without human oversight
Reference(s): [1] Ebel W., et al., 1999
[2] Wehland M., et al., 2000
[3] Meenakshi S., et al., 2018
[4] Meenakshi S., et al., 2015
[5] Sledjeski D., et al., 1995
[6] Hommais F., et al., 2004



Reference(s)    

 [1] Ebel W., Trempy JE., 1999, Escherichia coli RcsA, a positive activator of colanic acid capsular polysaccharide synthesis, functions to activate its own expression., J Bacteriol 181(2):577-84

 [2] Wehland M., Bernhard F., 2000, The RcsAB box. Characterization of a new operator essential for the regulation of exopolysaccharide biosynthesis in enteric bacteria., J Biol Chem 275(10):7013-20

 [3] Meenakshi S., Karthik M., Munavar MH., 2018, A putative curved DNA region upstream of rcsA in Escherichia coli plays a key role in transcriptional regulation by H-NS., FEBS Open Bio 8(8):1209-1218

 [4] Meenakshi S., Munavar MH., 2015, Suppression of capsule expression in Δlon strains of Escherichia coli by two novel rpoB mutations in concert with HNS: possible role for DNA bending at rcsA promoter., Microbiologyopen 4(5):712-29

 [5] Sledjeski D., Gottesman S., 1995, A small RNA acts as an antisilencer of the H-NS-silenced rcsA gene of Escherichia coli., Proc Natl Acad Sci U S A 92(6):2003-7

 [6] Hommais F., Krin E., Coppee JY., Lacroix C., Yeramian E., Danchin A., Bertin P., 2004, GadE (YhiE): a novel activator involved in the response to acid environment in Escherichia coli., Microbiology 150(Pt 1):61-72


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