RegulonDB RegulonDB 10.8: Regulon Form
   
   


CRP,Fis,NtrC regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
Fis Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class TFs for DNA-bending
Synonym(s): DNA-binding transcriptional dual regulator Fis, Nbp, site-specific DNA inversion stimulation factor
Gene name(s): fis
Functional conformation(s): Fis
Coregulator(s): AcrR, AdiY, AppY, ArcA, ArgP, BasR, CRP, CpxR, Cra, CreB, CspA, CusR, CytR, DeoR, DksA, DksA-ppGpp, DnaA, FNR, FadR, Fis, FlhDC, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GlcC, GlpR, H-NS, HprR, IHF, IscR, LeuO, Lrp, MalT, MarA, MarR, MazE, MazE-MazF, Mlc, MntR, ModE, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PepA, PurR, RcsB, RcsB-BglJ, Rob, RstA, RutR, SlyA, SoxS, StpA, TorR, XylR, YdeO, ppGpp
Summary: TF Summary ...[more]
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 , CRP-cAMP
Coregulator(s): AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, 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:
NtrC Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional dual regulator NtrC, GlnG, GlnT, NtrC response regulator
Gene name(s): glnG
Functional conformation(s): NtrC-Pasp
Coregulator(s): ArcA, ArgR, CRP, CysB, FNR, Fis, Fur, GadX, GlrR, IHF, Nac, NtrC, PhoP, RcsB, RutR, ppGpp

REGULATION EXERTED BY CRP,Fis,NtrC Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP repressor Fis activator NtrC activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
NtrC-Pasp activator glnAp2 glnG , glnL , glnA 4058188 4058204 -89.0 ttggtgcaacATTCACATCGTGGTGCAgcccttttgc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(CHIP-SV/SM)]
[CV(GEA/ROMA)]
[CV(GEA/ROMA/SM)]
[GEA]
[SM]
[1]
[2]
[3]
[4]
[5]
NtrC-Pasp activator glnAp2 glnG , glnL , glnA 4058167 4058183 -68.0 ggtgcagcccTTTTGCACGATGGTGCGcatgataacg [APIORCISFBSCS]
[CV(CHIP-SV/GEA/ROMA)]
[CV(CHIP-SV/SM)]
[CV(GEA/ROMA)]
[CV(GEA/ROMA/SM)]
[GEA]
[SM]
[1]
[4]
NtrC-Pasp activator glnAp2 glnG , glnL , glnA 4058144 4058160 -45.0 tgcgcatgatAACGCCTTTTAGGGGCAatttaaaagt [APIORCISFBSCS]
[CV(GEA/ROMA)]
[GEA]
[1]
[4]
NtrC-Pasp activator glnAp2 glnG , glnL , glnA 4058207 4058223 -108.0 tttccattgaAGCACTATATTGGTGCAacattcacat [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(CHIP-SV/SM)]
[CV(GEA/ROMA)]
[CV(GEA/ROMA/SM)]
[GEA]
[SM]
[3]
[4]
[6]
[5]
NtrC-Pasp activator glnAp2 glnG , glnL , glnA 4058239 4058255 -140.0 caaaggtcatTGCACCAACATGGTGCTtaatgtttcc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(CHIP-SV/SM)]
[CV(GEA/ROMA)]
[CV(GEA/ROMA/SM)]
[GEA]
[SM]
[2]
[3]
[4]
[6]
[5]
CRP-cAMP repressor glnAp2 glnG , glnL , glnA 4058154 4058175 -57.5 ccttttgcacGATGGTGCGCATGATAACGCCTtttaggggca [AIBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[7]
CRP-cAMP repressor glnAp2 glnG , glnL , glnA 4058152 4058173 -55.5 ttttgcacgaTGGTGCGCATGATAACGCCTTTtaggggcaat [AIBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[7]
Fis activator glnAp2 glnG , glnL , glnA 4058155 4058169 -55.0 gcacgatggtGCGCATGATAACGCCttttaggggc [AIBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[8]

Evidence: [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.
[BPP] Binding of purified proteins
[CV(CHIP-SV/GEA/ROMA)] cross validation(CHIP-SV/GEA/ROMA)
[CV(CHIP-SV/SM)] cross validation(CHIP-SV/SM)
[CV(GEA/ROMA)] cross validation(GEA/ROMA)
[CV(GEA/ROMA/SM)] cross validation(GEA/ROMA/SM)
[GEA] Gene expression analysis
[SM] Site mutation
[AIBSCS] Automated inference based on similarity to consensus sequences
Reference(s): [1] Atkinson MR., et al., 2002
[2] Collado-Vides J., et al., 1991
[3] Ninfa AJ., et al., 1987
[4] Reitzer LJ., et al., 1985
[5] Reitzer LJ., et al., 1989
[6] Reitzer LJ., et al., 1986
[7] Tian ZX., et al., 2001
[8] Huo YX., et al., 2006



Reference(s)    

 [1] Atkinson MR., Pattaramanon N., Ninfa AJ., 2002, Governor of the glnAp2 promoter of Escherichia coli., Mol Microbiol 46(5):1247-57

 [2] Collado-Vides J., Magasanik B., Gralla JD., 1991, Control site location and transcriptional regulation in Escherichia coli., Microbiol Rev 55(3):371-94

 [3] Ninfa AJ., Reitzer LJ., Magasanik B., 1987, Initiation of transcription at the bacterial glnAp2 promoter by purified E. coli components is facilitated by enhancers., Cell 50(7):1039-46

 [4] Reitzer LJ., Magasanik B., 1985, Expression of glnA in Escherichia coli is regulated at tandem promoters., Proc Natl Acad Sci U S A 82(7):1979-83

 [5] Reitzer LJ., Movsas B., Magasanik B., 1989, Activation of glnA transcription by nitrogen regulator I (NRI)-phosphate in Escherichia coli: evidence for a long-range physical interaction between NRI-phosphate and RNA polymerase., J Bacteriol 171(10):5512-22

 [6] Reitzer LJ., Magasanik B., 1986, Transcription of glnA in E. coli is stimulated by activator bound to sites far from the promoter., Cell 45(6):785-92

 [7] Tian ZX., Li QS., Buck M., Kolb A., Wang YP., 2001, The CRP-cAMP complex and downregulation of the glnAp2 promoter provides a novel regulatory linkage between carbon metabolism and nitrogen assimilation in Escherichia coli., Mol Microbiol 41(4):911-24

 [8] Huo YX., Nan BY., You CH., Tian ZX., Kolb A., Wang YP., 2006, FIS activates glnAp2 in Escherichia coli: role of a DNA bend centered at -55, upstream of the transcription start site., FEMS Microbiol Lett 257(1):99-105


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