RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


ArcA,CadC,GadE,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, 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, 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:
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, CRP, CadC, CaiF, Cra, CusR, CysB, DcuR, DksA-ppGpp, DnaA, DpiA, FNR, FadR, Fis, FlhDC, Fur, GadE, 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-leucine
Coregulator(s): AcrR, Ada, AdiY, AidB, ArcA, ArgP, ArgR, CRP, CadC, CpxR, Cra, DksA, DksA-ppGpp, EnvY, FNR, Fis, FliZ, Fur, GadE, GadW, GadX, GcvA, GlaR, H-NS, HU, HdfR, IHF, LrhA, Lrp, MarA, Mlc, ModE, Nac, NarL, NhaR, NsrR, OmpR, PhoP, PurR, 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, 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:
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]
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 , OmpR-P
Coregulator(s): AcrR, ArcA, BasR, CRP, CadC, CpxR, Cra, CsgD, EnvY, FNR, FadR, Fis, FliZ, Fur, GadE, GadX, H-NS, HU, HdfR, IHF, LeuO, LrhA, Lrp, MarA, MatA, MlrA, MprA, MqsA, NhaR, OmpR, PhoB, PhoP, QseB, RcdA, RcsB, Rob, RstA, SoxS, YjjQ, ppGpp

REGULATION EXERTED BY ArcA,CadC,GadE,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 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 [AIBSCS]
[BPP]
[GEA]
[1]
[2]
[3]
H-NS repressor cadBp cadA , cadB 4360359 4360373 -260.0 tgatttatgcTCGGAAATATTTGTTgttgagtttt [AIBSCS]
[BPP]
[GEA]
[1]
[2]
[4]
H-NS repressor cadBp cadA , cadB 4360274 4360288 -175.0 tttttattacATAAATTTAACCAGAgaatgtcacg [AIBSCS]
[BPP]
[GEA]
[1]
[2]
[4]
H-NS repressor cadBp cadA , cadB 4360228 4360242 -129.0 aaacattaaaTGTTTATCTTTTCATgatatcaact [AIBSCS]
[BPP]
[GEA]
[1]
[2]
[4]
ArcA-Phosphorylated repressor cadBp cadA , cadB 4360278 4360292 -179.0 ataatttttaTTACATAAATTTAACcagagaatgt [AIBSCS]
[GEA]
[5]
H-NS repressor cadBp cadA , cadB 4360131 4360145 -32.0 tcacctaatcTTTAGGATTAATCCTtttttcgtga [AIBSCS]
[BPP]
[GEA]
[1]
[2]
[4]
GadX activator cadBp cadA , cadB         [GEA] [6]
GadE-RcsB activator cadBp cadA , cadB         [BPP]
[GEA]
[6]
[7]
CadC activator cadBp cadA , cadB         [BPP]
[GEA]
[2]
[8]
Lrp activator cadBp cadA , cadB         [BPP]
[GEA]
[9]
OmpR repressor cadBp cadA , cadB         [BPP]
[GEA]
[10]

Evidence: [AIBSCS] Automated inference based on similarity to consensus sequences
[BPP] Binding of purified proteins
[GEA] Gene expression analysis
Reference(s): [1] Krin E., et al., 2010
[2] Kuper C., et al., 2005
[3] Laurent G., et al., 1988
[4] Shi X., et al., 1993
[5] Liu X., et al., 2004
[6] Hommais F., et al., 2004
[7] Krin E., et al., 2010
[8] Watson N., et al., 1992
[9] Ruiz J., et al., 2011
[10] Chakraborty S., et al., 2017



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] Laurent G., Calemard E., Charra B., 1988, Dialysis related amyloidosis., Kidney Int Suppl 24:S32-4

 [4] 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

 [5] 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

 [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

 [7] 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

 [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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