RegulonDB RegulonDB 11.0: Regulon Form
   
   


ArcA,FNR,PuuR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
FNR Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional dual regulator FNR, NirA, NirR, OssA, OxrA
Gene name(s): fnr
Functional conformation(s): FNR , FNR-[4Fe-4S]2+ reduced , FNR-[2Fe-2S]2+ oxidized
Coregulator(s): AcrR, AdiY, ArcA, ArgP, ArgR, BtsR, CRP, CadC, CaiF, Cbl, CdaR, Cra, CueR, CusR, CysB, DcuR, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, ExuR, FNR, FhlA, Fis, FlhDC, Fur, GadE, GadE-RcsB, GadW, GadX, GcvA, GlpR, H-NS, HdfR, HprR, HyfR, HypT, IHF, LeuO, Lrp, MalT, MarA, MetR, MlrA, ModE, Nac, NagC, NarL, NarP, NfeR, NikR, NorR, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PhoB, PhoP, PurR, PuuR, RcsB, Rob, RstA, RutR, SlyA, SoxR, SoxS, TdcA, TdcR, TorR, YeiL, 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,FNR,PuuR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
ArcA repressor FNR 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 puuAp puuP , ymjE , puuA 1361126 1361140 -165.0 cgataaccggATTGTTCATTATATTttccatgctc [GEA] [1]
FNR repressor puuAp puuP , ymjE , puuA 1360933 1360946 29.0 attttacgctTTGATAACGAGCGGaaaacaaacc [GEA] [1]
PuuR repressor puuAp puuP , ymjE , puuA 1360948 1360967 11.5 gattcgaatgGTGGTCATTATATTTTACGCtttgataacg [GEA]
[IC]
[2]
[3]
[4]
PuuR repressor puuAp puuP , ymjE , puuA 1361043 1361062 -84.5 aatgacctttATGTTCAATATTTTTTCAATctagcagtgg [GEA]
[IC]
[2]
[3]
[4]
PuuR repressor puuAp puuP , ymjE , puuA 1361085 1361104 -126.5 atctcacaaaGTGGACTAAATTATCGCCATtactgcgctt [GEA]
[IC]
[2]
[3]
[4]
PuuR repressor puuAp puuP , ymjE , puuA 1361120 1361139 -161.5 gataaccggaTTGTTCATTATATTTTCCATgctcaatctc [GEA]
[IC]
[2]
[3]
[4]

Evidence: [GEA] Gene expression analysis
[IC] Inferred by curator
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



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


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