RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


ArcA,FNR,H-NS,HypT 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]
TRANSCRIPTION FACTOR: Info
Name:
HypT      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator HypT, QseD, YjiE
Gene name(s): hypT
Functional conformation(s): HypT-Met-oxidized
Coregulator(s): ArcA, CRP, FNR, Fur, H-NS, HypT, MetJ, Nac, PdhR, PhoP
Summary: TF Summary ...[more]

REGULATION EXERTED BY ArcA,FNR,H-NS,HypT Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
ArcA activator FNR repressor H-NS repressor HypT activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
ArcA-Phosphorylated activator cydAp1 cydA , cydB 770848 770862 -315.0 ccctgggtgaGTTAATTATAATATAattataagtt [AIBSCS]
[GEA]
[1]
[2]
[3]
[4]
ArcA-Phosphorylated activator cydAp1 cydA , cydB 770859 770873 -304.0 ttaattataaTATAATTATAAGTTAactaaatgtt [AIBSCS]
[GEA]
[1]
[2]
[3]
[4]
ArcA-Phosphorylated activator cydAp1 cydA , cydB 770870 770884 -293.0 ataattataaGTTAACTAAATGTTAatattggcgg [AIBSCS]
[BPP]
[GEA]
[5]
[6]
[1]
[7]
[2]
[3]
[4]
ArcA-Phosphorylated activator cydAp1 cydA , cydB 771297 771311 135.0 ggatcaatttGAGTTTTTATTAACAtgtttgcaac [AIBSCS]
[GEA]
[1]
[2]
[3]
[4]
ArcA-Phosphorylated activator cydAp1 cydA , cydB 771079 771093 -84.0 aagttaccttATTGAAACATGATTAacataatttg [BCE]
[GEA]
[HIBSCS]
[5]
[6]
[1]
[7]
[2]
[3]
[4]
FNR repressor cydAp1 cydA , cydB 771110 771123 -53.5 tttgtaggaaTTGATATTTATCAAtgtataagtc [AIBSCS]
[BPP]
[GEA]
[5]
[6]
[8]
[9]
[3]
[10]
[4]
FNR repressor cydAp1 cydA , cydB 771162 771175 -1.5 aagagataaaTTGTTCTCGATCAAattggctgaa [BPP]
[GEA]
[HIBSCS]
[11]
[5]
[6]
[9]
[3]
[10]
[4]
H-NS repressor cydAp1 cydA , cydB         [BPP]
[GEA]
[12]
HypT-Met-oxidized activator cydAp1 cydA , cydB         [BPP]
[GEA]
[13]

Evidence: [AIBSCS] Automated inference based on similarity to consensus sequences
[GEA] Gene expression analysis
[BPP] Binding of purified proteins
[BCE] Binding of cellular extracts
[HIBSCS] Human inference based on similarity to consensus sequences
Reference(s): [1] Liu X., et al., 2004
[2] Mondragon V., et al., 2006
[3] Ramseier TM., et al., 1996
[4] Shalel-Levanon S., et al., 2005
[5] Cotter PA., et al., 1992
[6] Cotter PA., et al., 1997
[7] Lynch AS., et al., 1996
[8] Fu HA., et al., 1991
[9] Govantes F., et al., 2000
[10] Salmon K., et al., 2003
[11] Cotter PA., et al., 1990
[12] Govantes F., et al., 2000
[13] Gebendorfer KM., et al., 2012



Reference(s)    

 [1] Liu X., De Wulf P., 2004, Probing the ArcA-P modulon of Escherichia coli by whole genome transcriptional analysis and sequence recognition profiling., J Biol Chem 279(13):12588-97

 [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] 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

 [4] 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

 [5] Cotter PA., Gunsalus RP., 1992, Contribution of the fnr and arcA gene products in coordinate regulation of cytochrome o and d oxidase (cyoABCDE and cydAB) genes in Escherichia coli., FEMS Microbiol Lett 70(1):31-6

 [6] Cotter PA., Melville SB., Albrecht JA., Gunsalus RP., 1997, Aerobic regulation of cytochrome d oxidase (cydAB) operon expression in Escherichia coli: roles of Fnr and ArcA in repression and activation., Mol Microbiol 25(3):605-15

 [7] 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

 [8] Fu HA., Iuchi S., Lin EC., 1991, The requirement of ArcA and Fnr for peak expression of the cyd operon in Escherichia coli under microaerobic conditions., Mol Gen Genet 226(1-2):209-13

 [9] 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

 [10] 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

 [11] 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

 [12] 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

 [13] Gebendorfer KM., Drazic A., Le Y., Gundlach J., Bepperling A., Kastenmuller A., Ganzinger KA., Braun N., Franzmann TM., Winter J., 2012, Identification of a Hypochlorite-specific Transcription Factor from Escherichia coli., J Biol Chem 287(9):6892-903


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