RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


ArcA,FNR,H-NS 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-[2Fe-2S]2+ oxidized
Coregulator(s): AcrR, AdiY, ArcA, ArgP, ArgR, CRP, CadC, CaiF, Cbl, CdaR, Cra, CueR, CusR, CysB, DcuR, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, ExuR, FNR, FhlA, Fis, FlhDC, Fur, GadE, 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:
H-NS      Tractordb tool
Connectivity class Global Regulator
Sensing Class TFs for DNA-bending
Synonym(s): BglY, Cur, DNA-binding protein HLP-II (HU, BH2, HD, NS), DNA-binding transcriptional dual regulator H-NS, Drc, DrdX, Drs, FimG, Hns, HnsA, Irk, MsyA, OsmZ, PilG, TopS, TopX, VirR
Gene name(s): hns
Functional conformation(s): H-NS
Coregulator(s): AcrR, AdiY, ArcA, ArgP, ArgR, BasR, CRP, CadC, CaiF, CdaR, CpxR, Cra, CsgD, CspA, CysB, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, FNR, Fis, FlhDC, FliZ, Fur, GadE, GadW, GadX, GalR, GalS, GlaR, GutM, H-NS, HU, HdfR, HypT, IHF, LacI, LeuO, LrhA, Lrp, MarA, MatA, McbR, MlrA, MntR, MqsA, NagC, NanR, NarL, NarP, NhaR, NrdR, NsrR, OmpR, OxyR, PhoB, PhoP, QseB, RcdA, RcsB, Rob, RstA, RutR, SdiA, SlyA, SoxS, SrlR, StpA, SutR, TorR, UvrY, YdeO, YjjQ, 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, CRP, CadC, CaiF, Cra, CusR, CysB, DcuR, DksA-ppGpp, DnaA, DpiA, FNR, FadR, Fis, FlhDC, Fur, GadE, 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]

REGULATION EXERTED BY ArcA,FNR,H-NS Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
ArcA activator FNR dual H-NS repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
ArcA-Phosphorylated activator cydAp2 cydA , cydB 771199 771213 -77.5 cggtaatttaGCTATAAATTGATCAccgtcgaaaa [BPP]
[GEA]
[HIBSCS]
[1]
[2]
[3]
FNR activator cydAp2 cydA , cydB 771110 771123 -167.5 tttgtaggaaTTGATATTTATCAAtgtataagtc [AIBSCS]
[BPP]
[GEA]
[4]
[5]
[6]
[3]
FNR repressor cydAp2 cydA , cydB 771162 771175 -115.5 aagagataaaTTGTTCTCGATCAAattggctgaa [BPP]
[GEA]
[HIBSCS]
[7]
[4]
[5]
[6]
[3]
H-NS repressor cydAp2 cydA , cydB         [BPP]
[GEA]
[8]
ArcA activator FNR repressor H-NS repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
FNR repressor cydAp3 cydA , cydB 771110 771123 -85.5 tttgtaggaaTTGATATTTATCAAtgtataagtc [AIBSCS]
[BPP]
[GEA]
[4]
[5]
[6]
[3]
FNR repressor cydAp3 cydA , cydB 771162 771175 -33.5 aagagataaaTTGTTCTCGATCAAattggctgaa [BPP]
[GEA]
[HIBSCS]
[7]
[4]
[5]
[6]
[3]
FNR repressor cydAp4 cydA , cydB 771110 771123 -96.5 tttgtaggaaTTGATATTTATCAAtgtataagtc [AIBSCS]
[BPP]
[GEA]
[4]
[5]
[6]
[3]
FNR repressor cydAp4 cydA , cydB 771162 771175 -44.5 aagagataaaTTGTTCTCGATCAAattggctgaa [BPP]
[GEA]
[HIBSCS]
[7]
[4]
[5]
[6]
[3]
ArcA-Phosphorylated activator cydAp4 cydA , cydB         [AIBSCS]
[GEA]
[4]
[8]
[2]
[3]
ArcA-Phosphorylated activator cydAp3 cydA , cydB         [AIBSCS]
[GEA]
[4]
[8]
[2]
[3]
H-NS repressor cydAp3 cydA , cydB         [BPP]
[GEA]
[8]
H-NS repressor cydAp4 cydA , cydB         [BPP]
[GEA]
[8]

Evidence: [BPP] Binding of purified proteins
[GEA] Gene expression analysis
[HIBSCS] Human inference based on similarity to consensus sequences
[AIBSCS] Automated inference based on similarity to consensus sequences
Reference(s): [1] Lynch AS., et al., 1996
[2] Mondragon V., et al., 2006
[3] Shalel-Levanon S., et al., 2005
[4] Govantes F., et al., 2000
[5] Ramseier TM., et al., 1996
[6] Salmon K., et al., 2003
[7] Cotter PA., et al., 1990
[8] Govantes F., et al., 2000



Reference(s)    

 [1] Lynch AS., Lin EC., 1996, Transcriptional control mediated by the ArcA two-component response regulator protein of Escherichia coli: characterization of DNA binding at target promoters., J Bacteriol 178(21):6238-49

 [2] Mondragon V., Franco B., Jonas K., Suzuki K., Romeo T., Melefors O., Georgellis D., 2006, pH-dependent activation of the BarA-UvrY two-component system in Escherichia coli., J Bacteriol 188(23):8303-6

 [3] Shalel-Levanon S., San KY., Bennett GN., 2005, Effect of oxygen, and ArcA and FNR regulators on the expression of genes related to the electron transfer chain and the TCA cycle in Escherichia coli., Metab Eng 7(5-6):364-74

 [4] Govantes F., Albrecht JA., Gunsalus RP., 2000, Oxygen regulation of the Escherichia coli cytochrome d oxidase (cydAB) operon: roles of multiple promoters and the Fnr-1 and Fnr-2 binding sites., Mol Microbiol 37(6):1456-69

 [5] Ramseier TM., Chien SY., Saier MH., 1996, Cooperative interaction between Cra and Fnr in the regulation of the cydAB operon of Escherichia coli., Curr Microbiol 33(4):270-4

 [6] Salmon K., Hung SP., Mekjian K., Baldi P., Hatfield GW., Gunsalus RP., 2003, Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR., J Biol Chem 278(32):29837-55

 [7] Cotter PA., Chepuri V., Gennis RB., Gunsalus RP., 1990, Cytochrome o (cyoABCDE) and d (cydAB) oxidase gene expression in Escherichia coli is regulated by oxygen, pH, and the fnr gene product., J Bacteriol 172(11):6333-8

 [8] Govantes F., Orjalo AV., Gunsalus RP., 2000, Interplay between three global regulatory proteins mediates oxygen regulation of the Escherichia coli cytochrome d oxidase (cydAB) operon., Mol Microbiol 38(5):1061-73


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