RegulonDB RegulonDB 11.1: Regulon Form
   
   


ArcA,GadX,YdeO regulon in Escherichia coli K-12 genome


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:
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:
YdeO Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator YdeO
Gene name(s): ydeO
Functional conformation(s): YdeO
Coregulator(s): AppY, ArcA, CRP, EvgA, Fis, FliZ, GadE, GadE-RcsB, GadW, GadX, H-NS, IscR, MarA, NarL, NarP, PhoP, RcsB, YdeO, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY ArcA,GadX,YdeO Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
ArcA activator GadX activator YdeO activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
GadX activator gadEp3 gadE , gadF 3657761 3657780 -29.5 aaacattatcATGGCTGATATTTTCCGTAGtcaggtttaa [COMP-HINF-SIMILAR-TO-CONSENSUS]
[EXP-IDA-BINDING-OF-PURIFIED-PROTEINS]
[EXP-IEP-GENE-EXPRESSION-ANALYSIS] 		[1]
[2]
[3]
[4]
[5]
GadX activator gadEp3 gadE , gadF 3657740 3657759 -50.5 ctatggcaaaTTAGCCATTTCAAACATTATcatggctgat [COMP-AINF-SIMILAR-TO-CONSENSUS]
[EXP-IDA-BINDING-OF-PURIFIED-PROTEINS]
[EXP-IEP-GENE-EXPRESSION-ANALYSIS] 		[1]
[2]
[3]
[4]
[5]
YdeO activator gadEp3 gadE , gadF 3657746 3657772 -41.0 caaattagccATTTCAAACATTATCATGGCTGATATTttccgtagtc [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [2]
[6]
ArcA-phosphorylated activator gadEp3 gadE , gadF

Evidence: [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.
[EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins
[EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis
[COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences
Reference(s): [1] Nishino K., et al., 2008
[2] Sayed AK., et al., 2009
[3] Sayed AK., et al., 2007
[4] Tramonti A., et al., 2008
[5] Tucker DL., et al., 2003
[6] Yamanaka Y., et al., 2014



Reference(s)    

 [1] Nishino K., Senda Y., Yamaguchi A., 2008, The AraC-family regulator GadX enhances multidrug resistance in Escherichia coli by activating expression of mdtEF multidrug efflux genes., J Infect Chemother 14(1):23-9

 [2] Sayed AK., Foster JW., 2009, A 750 bp sensory integration region directs global control of the Escherichia coli GadE acid resistance regulator., Mol Microbiol 71(6):1435-50

 [3] Sayed AK., Odom C., Foster JW., 2007, The Escherichia coli AraC-family regulators GadX and GadW activate gadE, the central activator of glutamate-dependent acid resistance., Microbiology 153(Pt 8):2584-92

 [4] 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

 [5] Tucker DL., Tucker N., Ma Z., Foster JW., Miranda RL., Cohen PS., Conway T., 2003, Genes of the GadX-GadW regulon in Escherichia coli., J Bacteriol 185(10):3190-201

 [6] Yamanaka Y., Oshima T., Ishihama A., Yamamoto K., 2014, Characterization of the YdeO regulon in Escherichia coli., PLoS One 9(11):e111962

 [7] Deng Z., Shan Y., Pan Q., Gao X., Yan A., 2013, Anaerobic expression of the gadE-mdtEF multidrug efflux operon is primarily regulated by the two-component system ArcBA through antagonizing the H-NS mediated repression., Front Microbiol 4:194

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