RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


CRP,CytR,DnaA 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:
DnaA Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): chromosomal replication initiator protein DnaA, chromosomal replication initiator protein/DNA-binding transcriptional dual regulator DnaA
Gene name(s): dnaA
Functional conformation(s): DnaA , DnaA-ATP
Coregulator(s): ArcA, ArgP, CRP, CytR, DnaA, FNR, Fis, H-NS, LexA, MarA, NrdR, PurR, Rob, SoxS, 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]

REGULATION EXERTED BY CRP,CytR,DnaA Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP repressor CytR repressor DnaA repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
DnaA-ATP repressor rpoHp4 rpoH 3600890 3600898 -31.0 gcattgaactTGTGGATAAaatcacggtc [HIBSCS] [1]
DnaA-ATP repressor rpoHp4 rpoH 3600914 3600922 -55.0 tgtgcgtaatTTATTCACAagcttgcatt [BCE]
[HIBSCS]
[1]
CRP-cAMP repressor rpoHp4 rpoH 3600880 3600901 -27.5 cttgcattgaACTTGTGGATAAAATCACGGTCtgataaaaca [AIBSCS]
[BPP]
[GEA]
[2]
[3]
[4]
CRP-cAMP repressor rpoHp4 rpoH 3600933 3600954 -80.5 tcttcccggtATTTCATCTCTATGTCACATTTtgtgcgtaat [AIBSCS]
[BPP]
[GEA]
[2]
[3]
[4]
DnaA-ATP repressor rpoHp3 rpoH 3600914 3600922 -48.0 tgtgcgtaatTTATTCACAagcttgcatt [BCE]
[HIBSCS]
[1]
CRP-cAMP repressor rpoHp3 rpoH 3600880 3600901 -20.5 cttgcattgaACTTGTGGATAAAATCACGGTCtgataaaaca [AIBSCS]
[BPP]
[GEA]
[2]
[3]
[4]
CRP-cAMP repressor rpoHp3 rpoH 3600933 3600954 -73.5 tcttcccggtATTTCATCTCTATGTCACATTTtgtgcgtaat [AIBSCS]
[BPP]
[GEA]
[2]
[3]
[4]
CytR repressor rpoHp4 rpoH 3600896 3600912 -40.5 ttattcacaaGCTTGCATTGAACTTGTggataaaatc [BPP]
[GEA]
[HIBSCS]
[2]
CytR repressor rpoHp3 rpoH 3600896 3600912 -33.5 ttattcacaaGCTTGCATTGAACTTGTggataaaatc [BPP]
[GEA]
[HIBSCS]
[2]
CytR repressor rpoHp3 rpoH 3600913 3600932 -52.0 tgtcacatttTGTGCGTAATTTATTCACAAgcttgcattg [BPP]
[GEA]
[HIBSCS]
[2]
CytR repressor rpoHp4 rpoH 3600913 3600932 -59.0 tgtcacatttTGTGCGTAATTTATTCACAAgcttgcattg [BPP]
[GEA]
[HIBSCS]
[2]

Evidence: [HIBSCS] Human inference based on similarity to consensus sequences
[BCE] Binding of cellular extracts
[AIBSCS] Automated inference based on similarity to consensus sequences
[BPP] Binding of purified proteins
[GEA] Gene expression analysis
Reference(s): [1] Wang QP., et al., 1989
[2] Kallipolitis BH., et al., 1998
[3] Nagai H., et al., 1990
[4] Zheng D., et al., 2004



Reference(s)    

 [1] Wang QP., Kaguni JM., 1989, dnaA protein regulates transcriptions of the rpoH gene of Escherichia coli., J Biol Chem 264(13):7338-44

 [2] Kallipolitis BH., Valentin-Hansen P., 1998, Transcription of rpoH, encoding the Escherichia coli heat-shock regulator sigma32, is negatively controlled by the cAMP-CRP/CytR nucleoprotein complex., Mol Microbiol 29(4):1091-9

 [3] Nagai H., Yano R., Erickson JW., Yura T., 1990, Transcriptional regulation of the heat shock regulatory gene rpoH in Escherichia coli: involvement of a novel catabolite-sensitive promoter., J Bacteriol 172(5):2710-5

 [4] 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


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