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CRP,CytR,DeoR 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, BtsR, CRP, 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, 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, RcsB, 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:
CytR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Sensing external and internal signals
Synonym(s): DNA-binding transcriptional repressor CytR
Gene name(s): cytR
Functional conformation(s): CytR-cytidine , CytR
Coregulator(s): CRP, CytR, DeoR, DnaA, Fis, ModE, Nac, NsrR
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
DeoR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional repressor DeoR, NucR, transcriptional repressor for deo operon, tsx, nupG
Gene name(s): deoR
Functional conformation(s): DeoR-Deoxyribose-5-phosphate , DeoR
Coregulator(s): CRP, CytR, DeoR, Fis, ModE
Summary: TF Summary ...[more]

REGULATION EXERTED BY CRP,CytR,DeoR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP dual CytR repressor DeoR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
CRP-cAMP activator nupGp nupG 3105598 3105619 -42.5 atgtttgcaaTTATTTGCCACAGGTAACAAAAaaccagtccg [BPP]
[HIBSCS]
[SM]
[1]
[2]
CRP-cAMP dual nupGp nupG 3105548 3105569 -92.5 tcaggggcaaAAATGTTATCCACATCACAATTtcgttttgca [AIBSCS]
[BPP]
[GEA]
[HIBSCS]
[SM]
[1]
[2]
[3]
CRP-cAMP dual nupGp nupG 3105696 3105717 56.5 atccgcatcaCGATGTGAGGAAATTAACATGAatcttaagct [BPP]
[HIBSCS]
[SM]
[2]
CRP-cAMP repressor nupGp nupG 3105600 3105621 -40.5 gtttgcaattATTTGCCACAGGTAACAAAAAAccagtccgcg [BCE]
[BPP]
[HIBSCS]
[SM]
[2]
CytR repressor nupGp nupG 3105581 3105599 -61.0 cgttttgcaaATTGGGAATGTTTGCAATTatttgccaca [BPP]
[HIBSCS]
[2]
CytR repressor nupGp nupG 3105568 3105582 -76.5 cacatcacaaTTTCGTTTTGCAAATtgggaatgtt [BPP]
[HIBSCS]
[2]
CytR repressor nupGp nupG 3105589 3105608 -53.0 aaattgggaaTGTTTGCAATTATTTGCCACaggtaacaaa [BPP]
[HIBSCS]
[2]
DeoR repressor nupGp nupG         [GEA]
[HIBSCS]
[1]
[4]
CRP-cAMP dual nupGp nupG 3105696 3105717 56.5 atccgcatcaCGATGTGAGGAAATTAACATGAatcttaagct [BPP]
[HIBSCS]
[SM]
[2]
CRP-cAMP dual nupGp nupG 3105548 3105569 -92.5 tcaggggcaaAAATGTTATCCACATCACAATTtcgttttgca [AIBSCS]
[BPP]
[GEA]
[HIBSCS]
[SM]
[1]
[2]
[3]

Evidence: [BPP] Binding of purified proteins
[HIBSCS] Human inference based on similarity to consensus sequences
[SM] Site mutation
[AIBSCS] Automated inference based on similarity to consensus sequences
[GEA] Gene expression analysis
[BCE] Binding of cellular extracts
Reference(s): [1] Munch-Petersen A., et al., 1990
[2] Pedersen H., et al., 1995
[3] Zheng D., et al., 2004
[4] Otsuka J., et al., 1996



Reference(s)    

 [1] Munch-Petersen A., Jensen N., 1990, Analysis of the regulatory region of the Escherichia coli nupG gene, encoding a nucleoside-transport protein., Eur J Biochem 190(3):547-51

 [2] Pedersen H., Dall J., Dandanell G., Valentin-Hansen P., 1995, Gene-regulatory modules in Escherichia coli: nucleoprotein complexes formed by cAMP-CRP and CytR at the nupG promoter., Mol Microbiol 17(5):843-53

 [3] Zheng D., Constantinidou C., Hobman JL., Minchin SD., 2004, Identification of the CRP regulon using in vitro and in vivo transcriptional profiling., Nucleic Acids Res 32(19):5874-93

 [4] Otsuka J., Watanabe H., Mori KT., 1996, Evolution of transcriptional regulation system through promiscuous coupling of regulatory proteins with operons; suggestion from protein sequence similarities in Escherichia coli., J Theor Biol 178(2):183-204


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