RegulonDB RegulonDB 11.0: Regulon Form
   
   


ArcA,CRP,PuuR 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 , CRP-cyclic-AMP
Coregulator(s): AaeR, 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, FrlR, 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, PlaR, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsAB, RcsB, RcsB-BglJ, RhaR, RhaS, Rob, RspR, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YjjQ, ZraR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
ArcA Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class External-Two-component systems
Synonym(s): ArcA response regulator, CpxC, DNA-binding transcriptional dual regulator ArcA, Dye, FexA, Msp, Seg, SfrA, dye resistance protein
Gene name(s): arcA
Functional conformation(s): ArcA-phosphorylated , ArcA
Coregulator(s): AdiY, AppY, ArcA, BetI, BtsR, CRP, CadC, CaiF, Cra, CusR, CysB, DcuR, DksA-ppGpp, DnaA, DpiA, FNR, FadR, Fis, FlhDC, Fur, GadE, GadE-RcsB, GadW, GadX, GatR, GlcC, GlpR, H-NS, HipB, HprR, HypT, IHF, IclR, IscR, LexA, LldR, Lrp, MarA, McbR, Mlc, ModE, MqsA, NarL, NarP, NsrR, NtrC, OmpR, PdhR, PhoP, PuuR, RcdA, RcsB, RhaS, Rob, RutR, SdiA, SlyA, SoxR, SoxS, TorR, TreR, YdeO, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
PuuR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor PuuR, YcjC
Gene name(s): puuR
Functional conformation(s): PuuR-putrescine , PuuR
Coregulator(s): ArcA, CRP, FNR, PuuR
Summary: TF Summary ...[more]

REGULATION EXERTED BY ArcA,CRP,PuuR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
ArcA repressor CRP repressor PuuR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
ArcA-phosphorylated repressor puuDp puuD , puuR , puuC , puuB , puuE 1361126 1361140 82.0 gagcatggaaAATATAATGAACAATccggttatcg [AIBSCS]
[GEA]
[1]
PuuR repressor puuDp puuD , puuR , puuC , puuB , puuE 1360948 1360967 -94.5 cgttatcaaaGCGTAAAATATAATGACCACcattcgaatc [GEA]
[IC]
[2]
[3]
[4]
PuuR repressor puuDp puuD , puuR , puuC , puuB , puuE 1361043 1361062 1.5 ccactgctagATTGAAAAAATATTGAACATaaaggtcatt [GEA]
[IC]
[2]
[3]
[4]
PuuR repressor puuDp puuD , puuR , puuC , puuB , puuE 1361085 1361104 43.5 aagcgcagtaATGGCGATAATTTAGTCCACtttgtgagat [GEA]
[IC]
[2]
[3]
[4]
PuuR repressor puuDp puuD , puuR , puuC , puuB , puuE 1361120 1361139 78.5 gagattgagcATGGAAAATATAATGAACAAtccggttatc [GEA]
[IC]
[2]
[3]
[4]
CRP-cyclic-AMP repressor puuDp puuD , puuR , puuC , puuB , puuE 1361104 1361126 63.5 atttagtccaCTTTGTGAGATTGAGCATGGAAAatataatgaa [IEP] [5]

Evidence: [AIBSCS] Automated inference based on similarity to consensus sequences
[GEA] Gene expression analysis
[IC] Inferred by curator
[IEP] Inferred from expression pattern
Reference(s): [1] Partridge JD., et al., 2006
[2] Kurihara S., et al., 2008
[3] Kurihara S., et al., 2009
[4] Nemoto N., et al., 2012
[5] Terui Y., et al., 2014



Reference(s)    

 [1] Partridge JD., Scott C., Tang Y., Poole RK., Green J., 2006, Escherichia coli transcriptome dynamics during the transition from anaerobic to aerobic conditions., J Biol Chem 281(38):27806-15

 [2] Kurihara S., Oda S., Tsuboi Y., Kim HG., Oshida M., Kumagai H., Suzuki H., 2008, gamma-Glutamylputrescine synthetase in the putrescine utilization pathway of Escherichia coli K-12., J Biol Chem 283(29):19981-90

 [3] Kurihara S., Tsuboi Y., Oda S., Kim HG., Kumagai H., Suzuki H., 2009, The putrescine Importer PuuP of Escherichia coli K-12., J Bacteriol 191(8):2776-82

 [4] Nemoto N., Kurihara S., Kitahara Y., Asada K., Kato K., Suzuki H., 2012, Mechanism for regulation of the putrescine utilization pathway by the transcription factor PuuR in Escherichia coli K-12., J Bacteriol 194(13):3437-47

 [5] Terui Y., Saroj SD., Sakamoto A., Yoshida T., Higashi K., Kurihara S., Suzuki H., Toida T., Kashiwagi K., Igarashi K., 2014, Properties of putrescine uptake by PotFGHI and PuuP and their physiological significance in Escherichia coli., Amino Acids 46(3):661-70


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