RegulonDB RegulonDB 10.9: Regulon Form
   
   


Fur,IHF,IscR,NsrR,OxyR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
OxyR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional dual regulator OxyR, MomR, Mor, bifunctional regulatory protein sensor for oxidative stress
Gene name(s): oxyR
Functional conformation(s): OxyR
Coregulator(s): CRP, DksA, ExuR, FNR, Fis, Fur, H-NS, IHF, IscR, MarA, MetJ, MetR, MntR, NarL, NarP, NsrR, OxyR, Rob, SoxS, UxuR, YdcI, Zur, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
IscR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator IscR, YfhP
Gene name(s): iscR
Functional conformation(s): IscR-2Fe-2S , IscR
Coregulator(s): AppY, ArcA, Fis, Fur, IHF, IscR, NarL, NarP, NrdR, NsrR, OxyR, YdeO
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
NsrR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor NsrR, YjeB
Gene name(s): nsrR
Functional conformation(s): NsrR-nitric oxide , NsrR , NsrR-[2Fe-2S]2+ oxidized , NsrR-[2Fe-2S]reduced
Coregulator(s): ArcA, CRP, CpxR, CsgD, CytR, DksA, DksA-ppGpp, DsdC, FNR, FeaR, FhlA, Fis, FlhDC, Fur, GadE, H-NS, IHF, IscR, Lrp, MatA, MetR, ModE, Nac, NarL, NarP, NorR, NsrR, OxyR, PdhR, PhoB, QseB, SutR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
IHF Weight Matrix      Tractordb tool
Connectivity class Global Regulator
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, BolA, 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]
TRANSCRIPTION FACTOR: Info
Name:
Fur Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional dual regulator Fur
Gene name(s): fur
Functional conformation(s): Fur-Fe2+ , Fur , Fur-Mn2+
Coregulator(s): AcrR, AdiY, ArcA, ArgP, ArgR, AscG, CRP, CdaR, CpxR, Cra, CusR, EnvY, FNR, Fis, FliZ, Fur, GadE, GadX, H-NS, HdfR, HprR, HypT, IHF, IscR, LrhA, Lrp, MarA, MatA, MetR, MntR, ModE, MqsA, Nac, NagC, NarL, NfeR, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PhoB, PurR, QseB, RcnR, RcsAB, Rob, RstA, RutR, SlyA, SoxR, SoxS, YjjQ, Zur, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY Fur,IHF,IscR,NsrR,OxyR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
Fur repressor IHF activator IscR activator NsrR repressor OxyR activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
IscR activator sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764448 1764472 -42.5 gttttacggtAAAGCCCCTGCGTTTGCTGGGTTGAActgataatca   [1]
[2]
[3]
[4]
IHF activator sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764557 1764569 -145.0 ataataaccaTTATCTAACAATGAgatacctaat   [5]
OxyR activator sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764620 1764636 -210.0 cctatctcttAAATAGTCATTTTCAATAcaactttttc   [1]
[3]
[5]
[6]
[4]
[7]
IscR activator sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764510 1764534 -104.5 cttagcgtgcCTGTTAACCCACACATCAGGGTCTATgcttattaaa   [1]
[3]
[4]
IscR activator sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764551 1764575 -145.5 ccttagataaTAACCATTATCTAACAATGAGATACCtaattcttag   [1]
[3]
[4]
OxyR activator sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764642 1764658 -232.0 ttctgaacgcTGCACTTTTTTACCTATCtcttaaatag   [1]
[3]
[5]
[6]
[8]
[4]
[7]
NsrR repressor sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764419 1764430 -6.0 tcattatcacTAACATGCTGTTatacgctgaa   [9]
NsrR repressor sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764481 1764492 -68.0 aaaagcaggcAAAAAGCATGTTttacggtaaa   [9]
Fur-Fe2+ repressor sufAp sufE , sufS , sufD , sufC , sufB , sufA 1764429 1764443 -18.0 ggttgaactgATAATCATTATCACTAacatgctgtt   [1]
[5]
[6]
[4]

Reference(s): [1] Engl C., et al., 2020
[2] Giel JL., et al., 2006
[3] Jang S., et al., 2010
[4] Yeo WS., et al., 2006
[5] Lee JH., et al., 2004
[6] Outten FW., et al., 2004
[7] Zheng M., et al., 2001
[8] Seo SW., et al., 2015
[9] Partridge JD., et al., 2009



Reference(s)    

 [1] Engl C., Jovanovic G., Brackston RD., Kotta-Loizou I., Buck M., 2020, The route to transcription initiation determines the mode of transcriptional bursting in E. coli., Nat Commun 11(1):2422

 [2] Giel JL., Rodionov D., Liu M., Blattner FR., Kiley PJ., 2006, IscR-dependent gene expression links iron-sulphur cluster assembly to the control of O-regulated genes in Escherichia coli., Mol Microbiol 60(4):1058-75

 [3] Jang S., Imlay JA., 2010, Hydrogen peroxide inactivates the Escherichia coli Isc iron-sulphur assembly system, and OxyR induces the Suf system to compensate., Mol Microbiol 78(6):1448-67

 [4] Yeo WS., Lee JH., Lee KC., Roe JH., 2006, IscR acts as an activator in response to oxidative stress for the suf operon encoding Fe-S assembly proteins., Mol Microbiol 61(1):206-18

 [5] Lee JH., Yeo WS., Roe JH., 2004, Induction of the sufA operon encoding Fe-S assembly proteins by superoxide generators and hydrogen peroxide: involvement of OxyR, IHF and an unidentified oxidant-responsive factor., Mol Microbiol 51(6):1745-55

 [6] Outten FW., Djaman O., Storz G., 2004, A suf operon requirement for Fe-S cluster assembly during iron starvation in Escherichia coli., Mol Microbiol 52(3):861-72

 [7] Zheng M., Wang X., Templeton LJ., Smulski DR., LaRossa RA., Storz G., 2001, DNA microarray-mediated transcriptional profiling of the Escherichia coli response to hydrogen peroxide., J Bacteriol 183(15):4562-70

 [8] Seo SW., Kim D., Szubin R., Palsson BO., 2015, Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655., Cell Rep 12(8):1289-99

 [9] Partridge JD., Bodenmiller DM., Humphrys MS., Spiro S., 2009, NsrR targets in the Escherichia coli genome: new insights into DNA sequence requirements for binding and a role for NsrR in the regulation of motility., Mol Microbiol 73(4):680-94


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