RegulonDB RegulonDB 10.9: Regulon Form
   
   


AraC,CRP,XylR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
CRP Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): Cap, Csm, DNA-binding transcriptional dual regulator CRP, GurB
Gene name(s): crp
Functional conformation(s): CRP-cAMP , CRP
Coregulator(s): AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, BolA, BtsR, CRP, CRP-Sxy, CaiF, ChbR, ComR, CpxR, Cra, CreB, CsgD, CspA, CsqR, CusR, CytR, DcuR, DeoR, DgoR, DksA-ppGpp, DnaA, DpiA, DsdC, EbgR, EnvY, EvgA, ExuR, FNR, FadR, FeaR, FhlA, Fis, FlhDC, FliZ, FucR, Fur, GadE, GadE-RcsB, GadW, GadX, GalR, GalS, GatR, GcvA, GlaR, GlcC, GlpR, GlrR, GntR, GutM, H-NS, HU, HdfR, HipB, HprR, HyfR, HypT, IHF, IclR, IdnR, LacI, LeuO, LexA, LrhA, Lrp, LsrR, MalI, MalT, MarA, MarR, MatA, McbR, MelR, MetJ, MhpR, Mlc, MlrA, ModE, MprA, MqsA, MurR, Nac, NadR, NagC, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PhoB, PhoP, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsAB, RcsB, RcsB-BglJ, RhaR, RhaS, Rob, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YiaJ, YjjQ, ZraR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
AraC Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Sensing external and internal signals
Synonym(s): DNA-binding transcriptional dual regulator AraC
Gene name(s): araC
Functional conformation(s): AraC , AraC-arabinose , AraC , AraC-D-fucose
Coregulator(s): AraC, CRP, GadX, NagC, XylR
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
XylR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional dual regulator XylR
Gene name(s): xylR
Functional conformation(s): XylR-xylose , XylR
Coregulator(s): AraC, CRP, Fis, XylR
Summary: TF Summary ...[more]

REGULATION EXERTED BY AraC,CRP,XylR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
AraC repressor CRP activator XylR activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
CRP-cAMP activator xylAp xylB , xylA 3730878 3730900 -81.5 attccattttATTTTGCGAGCGAGCGCACACTTgtgaattatc   [1]
[2]
XylR-xylose activator xylAp xylB , xylA 3730861 3730878 -62.5 gagcgcacacTTGTGAATTATCTCAATAGcagtgtgaaa   [1]
XylR-xylose activator xylAp xylB , xylA 3730840 3730857 -41.5 ctcaatagcaGTGTGAAATAACATAATTGagcaactgaa   [1]
AraC-arabinose repressor xylAp xylB , xylA 3730824 3730840 -25.0 ataacataatTGAGCAACTGAAAGGGAGtgcccaatat   [3]
AraC-arabinose repressor xylAp xylB , xylA 3730847 3730863 -48.0 aattatctcaATAGCAGTGTGAAATAACataattgagc   [3]
AraC dual CRP activator XylR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
AraC-arabinose activator araCp araC 70131 70147 -84.0 ccgctaatctTATGGATAAAAATGCTATggcatagcaa   [4]
AraC repressor araCp araC 70131 70147 -84.0 ccgctaatctTATGGATAAAAATGCTATggcatagcaa   [4]
CRP-cAMP activator araCp araC 70158 70179 -54.5 tggcatagcaAAGTGTGACGCCGTGCAAATAATcaatgtggac    
AraC repressor araCp araC 70342 70358 128.0 tctgatgcaaTATGGACAATTGGTTTCTtctctgaatg    
AraC-arabinose activator araCp araC 70110 70126 -105.0 ataaaaagcgTCAGGTAGGATCCGCTAAtcttatggat   [5]
[4]
AraC-arabinose repressor araCp araC 70184 70200 -31.0 aaataatcaaTGTGGACTTTTCTGCCGTgattatagac    
AraC-arabinose repressor araCp araC 70205 70221 -10.0 ctgccgtgatTATAGACACTTTTGTTACgcgtttttgt   [6]
XylR-xylose repressor araCp araC 70216 70234 2.5 atagacacttTTGTTACGCGTTTTTGTCAtggctttggt   [7]
XylR-xylose repressor araCp araC 70195 70213 -19.5 gtggacttttCTGCCGTGATTATAGACACttttgttacg   [7]

Reference(s): [1] Song S., et al., 1997
[2] Tsai MJ., et al., 2018
[3] Desai TA., et al., 2010
[4] Niland P., et al., 1996
[5] Huo L., et al., 1988
[6] Gallegos MT., et al., 1997
[7] Koirala S., et al., 2015



Reference(s)    

 [1] Song S., Park C., 1997, Organization and regulation of the D-xylose operons in Escherichia coli K-12: XylR acts as a transcriptional activator., J Bacteriol 179(22):7025-32

 [2] Tsai MJ., Wang JR., Yang CD., Kao KC., Huang WL., Huang HY., Tseng CP., Huang HD., Ho SY., 2018, PredCRP: predicting and analysing the regulatory roles of CRP from its binding sites in Escherichia coli., Sci Rep 8(1):951

 [3] Desai TA., Rao CV., 2010, Regulation of arabinose and xylose metabolism in Escherichia coli., Appl Environ Microbiol 76(5):1524-32

 [4] Niland P., Huhne R., Muller-Hill B., 1996, How AraC interacts specifically with its target DNAs., J Mol Biol 264(4):667-74

 [5] Huo L., Martin KJ., Schleif R., 1988, Alternative DNA loops regulate the arabinose operon in Escherichia coli., Proc Natl Acad Sci U S A 85(15):5444-8

 [6] Gallegos MT., Schleif R., Bairoch A., Hofmann K., Ramos JL., 1997, Arac/XylS family of transcriptional regulators., Microbiol Mol Biol Rev 61(4):393-410

 [7] Koirala S., Wang X., Rao CV., 2015, Reciprocal Regulation of l-Arabinose and d-Xylose Metabolism in Escherichia coli., J Bacteriol 198(3):386-93


RegulonDB