RegulonDB RegulonDB 10.8: Regulon Form
   
   


FNR,IHF,NarL,NarP,NorR 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-[4Fe-4S]2+ reduced , FNR-[2Fe-2S]2+ oxidized , FNR
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:
NarP Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): DNA-binding transcriptional dual regulator NarP, nitrate/nitrite response regulator NarP
Gene name(s): narP
Functional conformation(s): NarP , NarP-Phosphorylated
Coregulator(s): AppY, ArcA, CRP, Cra, EvgA, FNR, FhlA, Fis, FlhDC, H-NS, IHF, IscR, ModE, NagC, NarL, NarP, NorR, NsrR, OxyR, PhoP, RcsB, UvrY, YdeO
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
NorR      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator NorR, YgaA
Gene name(s): norR
Functional conformation(s): NorR
Coregulator(s): FNR, IHF, NarL, NarP, NorR, NsrR
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
IHF Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class TFs for DNA-bending
Synonym(s): DNA-binding transcriptional dual regulator IHF
Gene name(s): ihfB, ihfA
Functional conformation(s): IHF
Coregulator(s): AcrR, AdiY, ArcA, ArgR, AtoC, BasR, BtsR, CRP, Cbl, CpxR, Cra, CsgD, CysB, DksA, DksA-ppGpp, EnvY, FNR, FadR, FhlA, Fis, FlhDC, FliZ, Fur, GadE, GlcC, GlpR, GlrR, H-NS, HU, HdfR, HipAB, HipB, IHF, IclR, IscR, LrhA, Lrp, MarA, MatA, MlrA, MntR, ModE, MprA, MqsA, Nac, NagC, NanR, NarL, NarP, NorR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PepA, PhoB, PspF, PurR, QseB, RcdA, RcsAB, Rob, RstA, RtcR, RutR, SlyA, SoxR, SoxS, SutR, TdcA, TdcR, TrpR, TyrR, UlaR, UvrY, YeiL, YiaJ, YjjQ, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY FNR,IHF,NarL,NarP,NorR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
FNR repressor IHF dual NarL repressor NarP repressor NorR activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
IHF activator norVp norV , norW 2832385 2832397 -48.0 aattttatttATAGAGTAAAAACaatcagataa [BPP] [1]
NorR activator norVp norV , norW 2832301 2832313 -132.0 tttgcctcacTGTCAATTTGACTatagatattg [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[2]
[3]
[4]
[5]
[6]
[1]
[7]
NorR activator norVp norV , norW 2832322 2832334 -111.0 ctatagatatTGTCATATCGACCatttgattga [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[2]
[3]
[4]
[5]
[6]
[1]
[7]
NorR activator norVp norV , norW 2832346 2832358 -87.0 tttgattgatAGTCATTTTGACTactcattaat [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[2]
[3]
[4]
[5]
[6]
[1]
[7]
NarP-Phosphorylated repressor norVp norV , norW 2832362 2832377 -69.0 tttgactactCATTAATGGGCATAATtttatttata [APIORCISFBSCS]
[CV(GEA)]
[GEA]
[8]
IHF repressor norVp norV , norW 2832449 2832461 17.0 catctttttaGAACACGCTGAATaaattgaggt [BPP] [1]
NarP-Phosphorylated repressor norVp norV , norW 2832353 2832368 -78.0 gatagtcattTTGACTACTCATTAATgggcataatt [APIORCISFBSCS]
[CV(GEA)]
[GEA]
[8]
FNR repressor norVp norV , norW 2832292 2832305 -140.5 aaactcatctTTGCCTCACTGTCAatttgactat [APIORCISFBSCS]
[CV(GEA)]
[GEA]
[8]
NarL-Phosphorylated repressor norVp norV , norW 2832362 2832377 -69.0 tttgactactCATTAATGGGCATAATtttatttata [APIORCISFBSCS]
[CV(GEA)]
[GEA]
[8]
NarL-Phosphorylated repressor norVp norV , norW 2832353 2832368 -78.0 gatagtcattTTGACTACTCATTAATgggcataatt [APIORCISFBSCS]
[CV(GEA)]
[GEA]
[8]

Evidence: [BPP] Binding of purified proteins
[AIBSCS] Automated inference based on similarity to consensus sequences
[CV(GEA)] cross validation(GEA)
[GEA] Gene expression analysis
[APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.
Reference(s): [1] Tucker NP., et al., 2004
[2] Gardner AM., et al., 2003
[3] Gardner AM., et al., 2002
[4] Hutchings MI., et al., 2002
[5] Justino MC., et al., 2005
[6] Tucker N., et al., 2005
[7] Tucker NP., et al., 2006
[8] da Costa PN., et al., 2003



Reference(s)    

 [1] Tucker NP., D'Autr?aux B., Studholme DJ., Spiro S., Dixon R., 2004, DNA binding activity of the Escherichia coli nitric oxide sensor NorR suggests a conserved target sequence in diverse proteobacteria., J Bacteriol 186(19):6656-60

 [2] Gardner AM., Gessner CR., Gardner PR., 2003, Regulation of the nitric oxide reduction operon (norRVW) in Escherichia coli. Role of NorR and sigma54 in the nitric oxide stress response., J Biol Chem 278(12):10081-6

 [3] Gardner AM., Helmick RA., Gardner PR., 2002, Flavorubredoxin, an inducible catalyst for nitric oxide reduction and detoxification in Escherichia coli., J Biol Chem 277(10):8172-7

 [4] Hutchings MI., Mandhana N., Spiro S., 2002, The NorR protein of Escherichia coli activates expression of the flavorubredoxin gene norV in response to reactive nitrogen species., J Bacteriol 184(16):4640-3

 [5] Justino MC., Goncalves VM., Saraiva LM., 2005, Binding of NorR to three DNA sites is essential for promoter activation of the flavorubredoxin gene, the nitric oxide reductase of Escherichia coli., Biochem Biophys Res Commun 328(2):540-4

 [6] Tucker N., D'autreaux B., Spiro S., Dixon R., 2005, DNA binding properties of the Escherichia coli nitric oxide sensor NorR: towards an understanding of the regulation of flavorubredoxin expression., Biochem Soc Trans 33(Pt 1):181-3

 [7] Tucker NP., D'autreaux B., Spiro S., Dixon R., 2006, Mechanism of transcriptional regulation by the Escherichia coli nitric oxide sensor NorR., Biochem Soc Trans 34(Pt 1):191-4

 [8] da Costa PN., Teixeira M., Saraiva LM., 2003, Regulation of the flavorubredoxin nitric oxide reductase gene in Escherichia coli: nitrate repression, nitrite induction, and possible post-transcription control., FEMS Microbiol Lett 218(2):385-93


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