RegulonDB RegulonDB 11.1: Regulon Form
   
   


FNR,NarL,NikR 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:
NarL Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): DNA-binding transcriptional dual regulator NarL, FrdR, NarR, nitrate/nitrite response regulator NarL
Gene name(s): narL
Functional conformation(s): NarL , NarL-phosphorylated
Coregulator(s): AppY, ArcA, CRP, Cra, DcuR, DpiA, EvgA, FNR, FhlA, Fis, FlhDC, Fur, H-NS, IHF, IscR, Lrp, ModE, NagC, NarL, NarP, NikR, NorR, NsrR, OxyR, PhoP, RcsB, RstA, SoxS, TorR, UvrY, YdeO
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
NikR      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor NikR, YhhG
Gene name(s): nikR
Functional conformation(s): NikR-Ni2+ , NikR-Cd2+ , NikR-Co2+ , NikR-Cu+ , NikR-Zn2+ , NikR
Coregulator(s): FNR, NarL, NikR
Summary: TF Summary ...[more]

REGULATION EXERTED BY FNR,NarL,NikR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
FNR activator NarL repressor NikR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
FNR activator nikAp1 nikA , nikB , nikC , nikD , nikE , nikR 3613581 3613595 -40.5 tgcccatctaTTGATCCAGAACAGGtaatcagtat [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
NikR-Ni2+ repressor nikAp1 nikA , nikB , nikC , nikD , nikE , nikR 3613602 3613630 -12.5 caggtaatcaGTATGACGAATACTTAAAATCGTCATACTtatttccgcc   [1]
[3]
[4]
NarL-phosphorylated repressor nikAp1 nikA , nikB , nikC , nikD , nikE , nikR

Evidence: [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis
Reference(s): [1] Chivers PT., et al., 1999
[2] Navarro C., et al., 1993
[3] Chivers PT., et al., 2000
[4] Krecisz S., et al., 2012



Reference(s)    

 [1] Chivers PT., Sauer RT., 1999, NikR is a ribbon-helix-helix DNA-binding protein., Protein Sci 8(11):2494-500

 [2] Navarro C., Wu LF., Mandrand-Berthelot MA., 1993, The nik operon of Escherichia coli encodes a periplasmic binding-protein-dependent transport system for nickel., Mol Microbiol 9(6):1181-91

 [3] Chivers PT., Sauer RT., 2000, Regulation of high affinity nickel uptake in bacteria. Ni2+-Dependent interaction of NikR with wild-type and mutant operator sites., J Biol Chem 275(26):19735-41

 [4] Krecisz S., Jones MD., Zamble DB., 2012, Nonspecific interactions between Escherichia coli NikR and DNA are critical for nickel-activated DNA binding., Biochemistry 51(40):7873-9

 [5] Rowe JL., Starnes GL., Chivers PT., 2005, Complex transcriptional control links NikABCDE-dependent nickel transport with hydrogenase expression in Escherichia coli., J Bacteriol 187(18):6317-23

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