RegulonDB RegulonDB 10.8: Regulon Form
   
   


CRP,Fis,NanR 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:
NanR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional dual regulator NanR, YhcK
Gene name(s): nanR
Functional conformation(s): NanR-NANA , NanR
Coregulator(s): BasR, CRP, DksA, DksA-ppGpp, Fis, H-NS, IHF, NagC, NanR, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY CRP,Fis,NanR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP activator Fis repressor NanR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
CRP-cAMP activator nanAp yhcH , nanK , nanE , nanT , nanA 3373670 3373691 -60.5 ataatgccacTTTAGTGAAGCAGATCGCATTAtaagctttct [BPP] [1]
NanR repressor nanAp yhcH , nanK , nanE , nanT , nanA 3373612 3373617 6.5 caggtataaaGGTATAtcgtttatca [BPP]
[CV(CHIP-SV/SM)]
[GEA]
[SM]
[2]
[1]
[3]
NanR repressor nanAp yhcH , nanK , nanE , nanT , nanA 3373620 3373625 -2.5 tggtataacaGGTATAaaggtatatc [BPP]
[CV(CHIP-SV/SM)]
[GEA]
[SM]
[2]
[1]
[3]
NanR repressor nanAp yhcH , nanK , nanE , nanT , nanA 3373629 3373634 -11.5 taattgatctGGTATAacaggtataa [BPP]
[CV(CHIP-SV/SM)]
[GEA]
[SM]
[2]
[1]
[3]
Fis repressor nanAp yhcH , nanK , nanE , nanT , nanA 3373663 3373682 -52.0 ctttagtgaaGCAGATCGCATTATAAGCTTtctgtatggg [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[4]
Fis repressor nanAp yhcH , nanK , nanE , nanT , nanA 3373634 3373653 -23.0 ttctgtatggGGTGTTGCTTAATTGATCTGgtataacagg [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[4]
Fis repressor nanAp yhcH , nanK , nanE , nanT , nanA 3373593 3373612 19.0 ataaaggtatATCGTTTATCAGACAAGCATcacttcagag [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[4]

Evidence: [BPP] Binding of purified proteins
[CV(CHIP-SV/SM)] cross validation(CHIP-SV/SM)
[GEA] Gene expression analysis
[SM] Site mutation
[AIBSCS] Automated inference based on similarity to consensus sequences
[CV(GEA/ROMA)] cross validation(GEA/ROMA)
Reference(s): [1] Kalivoda KA., et al., 2003
[2] Kalivoda KA., et al., 2013
[3] Plumbridge J., et al., 1999
[4] Bradley MD., et al., 2007



Reference(s)    

 [1] Kalivoda KA., Steenbergen SM., Vimr ER., Plumbridge J., 2003, Regulation of sialic acid catabolism by the DNA binding protein NanR in Escherichia coli., J Bacteriol 185(16):4806-15

 [2] Kalivoda KA., Steenbergen SM., Vimr ER., 2013, Control of the Escherichia coli sialoregulon by transcriptional repressor NanR., J Bacteriol 195(20):4689-701

 [3] Plumbridge J., Vimr E., 1999, Convergent pathways for utilization of the amino sugars N-acetylglucosamine, N-acetylmannosamine, and N-acetylneuraminic acid by Escherichia coli., J Bacteriol 181(1):47-54

 [4] Bradley MD., Beach MB., de Koning AP., Pratt TS., Osuna R., 2007, Effects of Fis on Escherichia coli gene expression during different growth stages., Microbiology 153(Pt 9):2922-40


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