RegulonDB RegulonDB 11.2: Regulon Form
   
   


ArcA,CadC,GadE-RcsB,GadX,H-NS,Lrp,OmpR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
CadC      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional activator CadC
Gene name(s): cadC
Functional conformation(s): CadC
Coregulator(s): ArcA, CadC, FNR, GadE-RcsB, GadX, H-NS, LeuO, Lrp, MlrA, OmpR
Summary: TF Summary ...[more]
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:
ArcA Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class External-Two-component systems
Synonym(s): ArcA response regulator, CpxC, DNA-binding transcriptional dual regulator ArcA, Dye, FexA, Msp, Seg, SfrA, dye resistance protein
Gene name(s): arcA
Functional conformation(s): ArcA-phosphorylated , ArcA
Coregulator(s): AdiY, AppY, ArcA, BetI, BtsR, CRP, CadC, CaiF, Cra, CusR, CysB, DcuR, DksA-ppGpp, DnaA, DpiA, FNR, FadR, Fis, FlhDC, Fur, GadE, GadE-RcsB, GadW, GadX, GatR, GlcC, GlpR, H-NS, HipB, HprR, HypT, IHF, IclR, IscR, LexA, LldR, Lrp, MarA, McbR, Mlc, ModE, MqsA, NarL, NarP, NsrR, NtrC, OmpR, PdhR, PhoP, PuuR, RcdA, RcsB, RhaS, Rob, RutR, SdiA, SlyA, SoxR, SoxS, TorR, TreR, YdeO, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
Lrp Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Sensing external and internal signals
Synonym(s): AlsB, DNA-binding transcriptional dual regulator Lrp, Ihb, LivR, Lrs, Lss, LstR, Mbf, OppI, RblA
Gene name(s): lrp
Functional conformation(s): Lrp , Lrp-L-leucine
Coregulator(s): AcrR, Ada, AdiY, AidB, ArcA, ArgP, ArgR, CRP, CadC, CpxR, Cra, DksA, DksA-ppGpp, EnvY, FNR, Fis, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GcvA, GlaR, H-NS, HU, HdfR, IHF, LrhA, Lrp, MarA, Mlc, ModE, Nac, NarL, NhaR, NsrR, OmpR, PhoP, PurR, QseB, RcsB, Rob, SoxS, StpA, TorR, YeiL, 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:
OmpR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): Cry, DNA-binding transcriptional dual regulator OmpR, Kmt, OmpB, OmpR response regulator
Gene name(s): ompR
Functional conformation(s): OmpR-phosphorylated , OmpR
Coregulator(s): AcrR, ArcA, BasR, BolA, BtsR, CRP, CadC, CpxR, Cra, CsgD, EnvY, FNR, FadR, Fis, FliZ, Fur, GadE-RcsB, GadX, H-NS, HU, HdfR, IHF, LeuO, LrhA, Lrp, MarA, MatA, MlrA, MprA, MqsA, NagC, NhaR, OmpR, PhoB, PhoP, QseB, RcdA, RcsAB, Rob, RstA, SoxS, YjjQ, ppGpp
TRANSCRIPTION FACTOR: Info
Name:
GadE-RcsB      Tractordb tool
Connectivity class Local Regulator
Synonym(s): GadE-RcsB DNA-binding transcriptional activator, GadRcs
Gene name(s): gadE, rcsB
Functional conformation(s): GadE-RcsB
Coregulator(s): AdiY, ArcA, CRP, CadC, FNR, Fis, GadE, GadE-RcsB, GadW, GadX, H-NS, Lrp, MarA, OmpR, PhoB, RcsB, Rob, TorR, YdeO, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY ArcA,CadC,GadE-RcsB,GadX,H-NS,Lrp,OmpR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
ArcA repressor CadC activator GadE-RcsB activator GadX activator H-NS repressor Lrp activator OmpR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
H-NS repressor cadBp cadA , cadB 4360416 4360430 -317.0 ccttatgttgTACCTTATCTCGACAaatttcttgc [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
H-NS repressor cadBp cadA , cadB 4360359 4360373 -260.0 tgatttatgcTCGGAAATATTTGTTgttgagtttt [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
[3]
H-NS repressor cadBp cadA , cadB 4360274 4360288 -175.0 tttttattacATAAATTTAACCAGAgaatgtcacg [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
[3]
H-NS repressor cadBp cadA , cadB 4360228 4360242 -129.0 aaacattaaaTGTTTATCTTTTCATgatatcaact [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
[3]
ArcA-phosphorylated repressor cadBp cadA , cadB 4360278 4360292 -179.0 ataatttttaTTACATAAATTTAACcagagaatgt [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [4]
H-NS repressor cadBp cadA , cadB 4360131 4360145 -32.0 tcacctaatcTTTAGGATTAATCCTtttttcgtga [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
[3]
GadX activator cadBp cadA , cadB

Evidence: [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis
Reference(s): [1] Krin E., et al., 2010
[2] Kuper C., et al., 2005
[3] Shi X., et al., 1993
[4] Liu X., et al., 2004



Reference(s)    

 [1] 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

 [2] Kuper C., Jung K., 2005, CadC-mediated activation of the cadBA promoter in Escherichia coli., J Mol Microbiol Biotechnol 10(1):26-39

 [3] Shi X., Waasdorp BC., Bennett GN., 1993, Modulation of acid-induced amino acid decarboxylase gene expression by hns in Escherichia coli., J Bacteriol 175(4):1182-6

 [4] Liu X., De Wulf P., 2004, Probing the ArcA-P modulon of Escherichia coli by whole genome transcriptional analysis and sequence recognition profiling., J Biol Chem 279(13):12588-97

 [5] 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

 [6] Krin E., Danchin A., Soutourina O., 2010, RcsB plays a central role in H-NS-dependent regulation of motility and acid stress resistance in Escherichia coli., Res Microbiol 161(5):363-371

 [7] Brameyer S., Rosch TC., El Andari J., Hoyer E., Schwarz J., Graumann PL., Jung K., 2019, DNA-binding directs the localization of a membrane-integrated receptor of the ToxR family., Commun Biol 2:4

 [8] Watson N., Dunyak DS., Rosey EL., Slonczewski JL., Olson ER., 1992, Identification of elements involved in transcriptional regulation of the Escherichia coli cad operon by external pH., J Bacteriol 174(2):530-40

 [9] Ruiz J., Haneburger I., Jung K., 2011, Identification of ArgP and Lrp as transcriptional regulators of lysP, the gene encoding the specific lysine permease of Escherichia coli., J Bacteriol 193(10):2536-48

 [10] Chakraborty S., Winardhi RS., Morgan LK., Yan J., Kenney LJ., 2017, Non-canonical activation of OmpR drives acid and osmotic stress responses in single bacterial cells., Nat Commun 8(1):1587

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