RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


AcrR,CRP,FliZ,Fur,H-NS,HdfR,IHF,LrhA,MatA,OmpR,QseB,RcsB,YjjQ regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
CRP Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): Cap, Csm, DNA-binding transcriptional dual regulator CRP, GurB
Gene name(s): crp
Functional conformation(s): CRP-cAMP , CRP
Coregulator(s): AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, BtsR, CRP, CaiF, ChbR, ComR, CpxR, Cra, CreB, CsgD, CspA, CsqR, CusR, CytR, DcuR, DeoR, DgoR, DksA-ppGpp, DnaA, DpiA, DsdC, EbgR, EnvY, EvgA, ExuR, FNR, FadR, FeaR, FhlA, Fis, FlhDC, FliZ, FucR, Fur, GadE, GadW, GadX, GalR, GalS, GatR, GcvA, GlaR, GlcC, GlpR, GlrR, GntR, GutM, H-NS, HU, HdfR, HipB, HprR, HyfR, HypT, IHF, IclR, IdnR, LacI, LeuO, LexA, LrhA, Lrp, LsrR, MalI, MalT, MarA, MarR, MatA, McbR, MelR, MetJ, MhpR, Mlc, MlrA, ModE, MprA, MqsA, MurR, Nac, NadR, NagC, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PhoB, PhoP, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsB, RhaR, RhaS, Rob, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YiaJ, YjjQ, ZraR, 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:
RcsB Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): DNA-binding transcriptional activator RcsB, RcsB response regulator
Gene name(s): rcsB
Functional conformation(s): RcsB-Pasp56
Coregulator(s): AcrR, AdiY, ArcA, BasR, CRP, CpxR, Cra, CsgD, EvgA, FNR, Fis, FliZ, Fur, GadE, GadW, GadX, GlrR, H-NS, HdfR, IHF, LeuO, LexA, LrhA, Lrp, MarA, MatA, MlrA, MqsA, NagC, NarL, NarP, NhaR, NtrC, OmpR, PhoP, QseB, RcdA, RcsB, RstA, StpA, TorR, UvrY, YdeO, YjjQ, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
LrhA      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator LrhA, GenR
Gene name(s): lrhA
Functional conformation(s): LrhA
Coregulator(s): AcrR, CRP, FliZ, Fur, H-NS, HdfR, IHF, LeuO, LrhA, Lrp, MatA, OmpR, QseB, RcsB, SlyA, YjjQ, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
HdfR      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator HdfR, YifA, YifD
Gene name(s): hdfR
Functional conformation(s): HdfR
Coregulator(s): AcrR, AdiY, ArgR, CRP, FNR, FliZ, Fur, GadE, H-NS, HdfR, IHF, LrhA, Lrp, MatA, Nac, OmpR, QseB, RcsB, YjjQ
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
QseB Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): DNA-binding transcriptional activator QseB, QseB response regulator, YgiX
Gene name(s): qseB
Functional conformation(s): QseB , QseB-Phosphorylated
Coregulator(s): AcrR, BasR, CRP, FliZ, Fur, H-NS, HdfR, IHF, LrhA, MatA, Nac, NsrR, OmpR, PhoB, QseB, RcsB, YjjQ
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
AcrR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor AcrR, YbaH
Gene name(s): acrR
Functional conformation(s): AcrR-ethidium , AcrR , AcrR-Proflavin , AcrR-R6G
Coregulator(s): AcrR, CRP, CpxR, Cra, EnvR, FNR, Fis, FliZ, Fur, H-NS, HU, HdfR, IHF, LrhA, Lrp, MarA, MarR, MatA, MprA, OmpR, PhoP, QseB, RcsB, Rob, SoxR, SoxS, YjjQ
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
MatA      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator MatA, EcpR, YkgK
Gene name(s): ecpR
Functional conformation(s): MatA
Coregulator(s): AcrR, CRP, CsgD, FlhDC, FliZ, Fur, GadE, H-NS, HdfR, IHF, LrhA, MatA, NsrR, OmpR, QseB, RcsB, SutR, YjjQ
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
FliZ      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional regulator FliZ, YedH
Gene name(s): fliZ
Functional conformation(s): FliZ
Coregulator(s): AcrR, AdiY, BasR, CRP, CpxR, Cra, CsgD, EvgA, Fis, FliZ, Fur, GadE, GadW, GadX, H-NS, HdfR, IHF, LrhA, Lrp, MarA, MatA, MlrA, MqsA, OmpR, PhoP, QseB, RcdA, RcsB, RstA, RutR, TorR, YdeO, YjjQ, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
YjjQ Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor YjjQ
Gene name(s): yjjQ
Functional conformation(s): YjjQ
Coregulator(s): AcrR, CRP, CpxR, EnvY, FliZ, Fur, H-NS, HdfR, IHF, LrhA, Lrp, MatA, OmpR, QseB, RcsB, YjjQ
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, 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, 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, RcsB, 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:
OmpR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): Cry, DNA-binding transcriptional dual regulator OmpR, Kmt, OmpB, OmpR response regulator
Gene name(s): ompR
Functional conformation(s): OmpR , OmpR-P
Coregulator(s): AcrR, ArcA, BasR, CRP, CadC, CpxR, Cra, CsgD, EnvY, FNR, FadR, Fis, FliZ, Fur, GadE, GadX, H-NS, HU, HdfR, IHF, LeuO, LrhA, Lrp, MarA, MatA, MlrA, MprA, MqsA, NhaR, OmpR, PhoB, PhoP, QseB, RcdA, RcsB, Rob, RstA, SoxS, YjjQ, ppGpp
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-Mn2+ , Fur
Coregulator(s): AcrR, AdiY, ArcA, ArgP, ArgR, 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, NfeR, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PhoB, PurR, QseB, RcnR, RcsB, Rob, RstA, RutR, SlyA, SoxR, SoxS, YjjQ, Zur, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY AcrR,CRP,FliZ,Fur,H-NS,HdfR,IHF,LrhA,MatA,OmpR,QseB,RcsB,YjjQ Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
AcrR repressor CRP activator FliZ repressor Fur repressor H-NS activator HdfR repressor IHF repressor LrhA repressor MatA repressor OmpR repressor QseB activator RcsB repressor YjjQ repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
CRP-cAMP activator flhDp flhC , flhD 1978456 1978477 -71.5 attgagtgttTTGTGTGATCTGCATCACGCATtattgaaaat [BPP]
[GEA]
[HIBSCS]
[1]
[2]
[3]
[4]
IHF repressor flhDp flhC , flhD 1978481 1978493 -92.0 ccatttatgtTAAGTAATTGAGTgttttgtgtg [HIBSCS] [5]
LrhA repressor flhDp flhC , flhD 1978500 1978514 -112.0 tcaataagttGGAGTCATTACCCATttatgttaag [BPP]
[GEA]
[6]
OmpR-P repressor flhDp flhC , flhD 1978531 1978550 -145.5 caaagtcatcGGGCATTATCTGAACATAAAacactatcaa [HIBSCS] [5]
OmpR-P repressor flhDp flhC , flhD 1978368 1978387 18.5 tcgatttaggAAAAATCTTAGATAAGTGTAaagacccatt [HIBSCS] [5]
Fur-Fe2+ repressor flhDp flhC , flhD 1978272 1978290 115.0 caactattctAATGCTAATTATTTTTTACcggggcttcc [AIBSCS] [7]
YjjQ repressor flhDp flhC , flhD 1978378 1978392 11.0 ttgcgtcgatTTAGGAAAAATCTTAgataagtgta [AIBSCS]
[GEA]
[SM]
[8]
AcrR repressor flhDp flhC , flhD 1978422 1978432 -31.5 agcccccctcCGTTGTATGTGcgtgtagtga [GEA]
[HIBSCS]
[9]
H-NS activator flhDp flhC , flhD         [BPP]
[GEA]
[10]
[3]
FliZ repressor flhDp flhC , flhD 1978370 1978399 12.0 agtacagttgCGTCGATTTAGGAAAAATCTTAGATAAGTGtaaagaccca [BPP]
[GEA]
[11]
MatA repressor flhDp flhC , flhD         [BPP]
[GEA]
[12]
HdfR repressor flhDp flhC , flhD         [BPP]
[GEA]
[13]
RcsAB repressor flhDp flhC , flhD 1978378 1978392 11.0 ttgcgtcgatTTAGGAAAAATCTTAgataagtgta [BPP]
[GEA]
[SM]
[14]
[15]
QseB-Phosphorylated activator flhDp flhC , flhD         [GEA] [16]

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
[SM] Site mutation
Reference(s): [1] Amores GR., et al., 2017
[2] Otsuka J., et al., 1996
[3] Soutourina O., et al., 1999
[4] Zhao K., et al., 2007
[5] Shin S., et al., 1995
[6] Lehnen D., et al., 2002
[7] Stojiljkovic I., et al., 1994
[8] Wiebe H., et al., 2015
[9] Kim YJ., et al., 2016
[10] Bertin P., et al., 1994
[11] Pesavento C., et al., 2012
[12] Lehti TA., et al., 2012
[13] Ko M., et al., 2000
[14] Filippova EV., et al., 2018
[15] Francez-Charlot A., et al., 2003
[16] Sperandio V., et al., 2002



Reference(s)    

 [1] Amores GR., de Las Heras A., Sanches-Medeiros A., Elfick A., Silva-Rocha R., 2017, Systematic identification of novel regulatory interactions controlling biofilm formation in the bacterium Escherichia coli., Sci Rep 7(1):16768

 [2] Otsuka J., Watanabe H., Mori KT., 1996, Evolution of transcriptional regulation system through promiscuous coupling of regulatory proteins with operons; suggestion from protein sequence similarities in Escherichia coli., J Theor Biol 178(2):183-204

 [3] Soutourina O., Kolb A., Krin E., Laurent-Winter C., Rimsky S., Danchin A., Bertin P., 1999, Multiple control of flagellum biosynthesis in Escherichia coli: role of H-NS protein and the cyclic AMP-catabolite activator protein complex in transcription of the flhDC master operon., J Bacteriol 181(24):7500-8

 [4] Zhao K., Liu M., Burgess RR., 2007, Adaptation in bacterial flagellar and motility systems: from regulon members to 'foraging'-like behavior in E. coli., Nucleic Acids Res 35(13):4441-52

 [5] Shin S., Park C., 1995, Modulation of flagellar expression in Escherichia coli by acetyl phosphate and the osmoregulator OmpR., J Bacteriol 177(16):4696-702

 [6] Lehnen D., Blumer C., Polen T., Wackwitz B., Wendisch VF., Unden G., 2002, LrhA as a new transcriptional key regulator of flagella, motility and chemotaxis genes in Escherichia coli., Mol Microbiol 45(2):521-32

 [7] Stojiljkovic I., Baumler AJ., Hantke K., 1994, Fur regulon in gram-negative bacteria. Identification and characterization of new iron-regulated Escherichia coli genes by a fur titration assay., J Mol Biol 236(2):531-45

 [8] Wiebe H., Gurlebeck D., Gross J., Dreck K., Pannen D., Ewers C., Wieler LH., Schnetz K., 2015, YjjQ Represses Transcription of flhDC and Additional Loci in Escherichia coli., J Bacteriol 197(16):2713-20

 [9] Kim YJ., Im SY., Lee JO., Kim OB., 2016, Potential swimming motility variation by AcrR in Escherichia coli., J Microbiol Biotechnol

 [10] Bertin P., Terao E., Lee EH., Lejeune P., Colson C., Danchin A., Collatz E., 1994, The H-NS protein is involved in the biogenesis of flagella in Escherichia coli., J Bacteriol 176(17):5537-40

 [11] Pesavento C., Hengge R., 2012, The global repressor FliZ antagonizes gene expression by σS-containing RNA polymerase due to overlapping DNA binding specificity., Nucleic Acids Res 40(11):4783-93

 [12] Lehti TA., Bauchart P., Dobrindt U., Korhonen TK., Westerlund-Wikstrom B., 2012, The fimbriae activator MatA switches off motility in Escherichia coli by repression of the flagellar master operon flhDC., Microbiology 158(Pt 6):1444-55

 [13] Ko M., Park C., 2000, H-NS-Dependent regulation of flagellar synthesis is mediated by a LysR family protein., J Bacteriol 182(16):4670-2

 [14] Filippova EV., Zemaitaitis B., Aung T., Wolfe AJ., Anderson WF., 2018, Structural Basis for DNA Recognition by the Two-Component Response Regulator RcsB., MBio 9(1)

 [15] Francez-Charlot A., Laugel B., Van Gemert A., Dubarry N., Wiorowski F., Castani?-Cornet MP., Gutierrez C., Cam K., 2003, RcsCDB His-Asp phosphorelay system negatively regulates the flhDC operon in Escherichia coli., Mol Microbiol 49(3):823-32

 [16] Sperandio V., Torres AG., Kaper JB., 2002, Quorum sensing Escherichia coli regulators B and C (QseBC): a novel two-component regulatory system involved in the regulation of flagella and motility by quorum sensing in E. coli., Mol Microbiol 43(3):809-21


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