RegulonDB RegulonDB 11.1: Regulon Form
   
   


GadW,GadX,H-NS,PhoP,SdiA 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, BolA, BtsR, CRP, CadC, CaiF, CdaR, CpxR, Cra, CreB, CsgD, CspA, CysB, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, FNR, Fis, FlhDC, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GalR, GalS, GlaR, GutM, H-NS, HU, HdfR, HypT, IHF, LacI, LeuO, LrhA, Lrp, MalT, MarA, MatA, McbR, MlrA, MntR, MqsA, NagC, NanR, NarL, NarP, NhaR, NrdR, NsrR, OmpR, OxyR, PhoB, PhoP, QseB, RcdA, RcsAB, RcsB, RcsB-BglJ, Rob, RstA, RutR, SdiA, SlyA, SoxS, SrlR, StpA, SutR, TorR, UvrY, YdeO, YjjQ, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
GadX Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator GadX, YhiX
Gene name(s): gadX
Functional conformation(s): GadX
Coregulator(s): AdiY, AraC, ArcA, CRP, CadC, CspA, EvgA, FNR, Fis, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, H-NS, Lrp, MarA, MqsA, NagC, NtrC, OmpR, PhoB, PhoP, RcsB, RutR, SdiA, TorR, YdeO, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
GadW Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator GadW, YhiW
Gene name(s): gadW
Functional conformation(s): GadW
Coregulator(s): AdiY, ArcA, CRP, EvgA, FNR, Fis, FliZ, GadE, GadE-RcsB, GadW, GadX, H-NS, Lrp, MarA, PhoB, PhoP, RcsB, RutR, SdiA, TorR, YdeO, ppGpp
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:
SdiA      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional dual regulator SdiA
Gene name(s): sdiA
Functional conformation(s): SdiA
Coregulator(s): ArcA, CRP, GadW, GadX, H-NS, McbR, PhoP, RcdA, RcsB, SdiA, SlyA, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY GadW,GadX,H-NS,PhoP,SdiA Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
GadW repressor GadX repressor H-NS repressor PhoP activator SdiA activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
PhoP-phosphorylated activator gadWp2 gadW 3664801 3664817 -28.0 catttttttaTAAACATAAGCTATACGctgtgcgaaa [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
GadX repressor gadWp2 gadW 3664825 3664844 -53.5 ataacttttaCTGGAAATAAGATCAGCCATttttttataa [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [2]
GadX repressor gadWp2 gadW 3664804 3664823 -32.5 atcagccattTTTTTATAAACATAAGCTATacgctgtgcg [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [2]
GadW repressor gadWp2 gadW 3664825 3664844 -53.5 ataacttttaCTGGAAATAAGATCAGCCATttttttataa [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [2]
SdiA activator gadWp2 gadW

Evidence: [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis
Reference(s): [1] Zwir I., et al., 2005
[2] Tramonti A., et al., 2008



Reference(s)    

 [1] Zwir I., Shin D., Kato A., Nishino K., Latifi T., Solomon F., Hare JM., Huang H., Groisman EA., 2005, Dissecting the PhoP regulatory network of Escherichia coli and Salmonella enterica., Proc Natl Acad Sci U S A 102(8):2862-7

 [2] Tramonti A., De Canio M., De Biase D., 2008, GadX/GadW-dependent regulation of the Escherichia coli acid fitness island: transcriptional control at the gadY-gadW divergent promoters and identification of four novel 42 bp GadX/GadW-specific binding sites., Mol Microbiol 70(4):965-82

 [3] Dyszel JL., Soares JA., Swearingen MC., Lindsay A., Smith JN., Ahmer BM., 2010, E. coli K-12 and EHEC genes regulated by SdiA., PLoS One 5(1):e8946

 [4] Ma X., Zhang S., Xu Z., Li H., Xiao Q., Qiu F., Zhang W., Long Y., Zheng D., Huang B., Chen C., Lu Y., 2020, SdiA Improves the Acid Tolerance of E. coli by Regulating GadW and GadY Expression., Front Microbiol 11:1078

 [5] Krin E., Danchin A., Soutourina O., 2010, Decrypting the H-NS-dependent regulatory cascade of acid stress resistance in Escherichia coli., BMC Microbiol 10:273

 [6] Seo SW., Kim D., O'Brien EJ., Szubin R., Palsson BO., 2015, Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coli., Nat Commun 6:7970

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