RegulonDB RegulonDB 10.6.3: Regulon Form
   
   


CRP,ExuR,UxuR 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:
ExuR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional repressor ExuR, negative regulator of exu regulon, exuT, uxaAC, and uxuB
Gene name(s): exuR
Functional conformation(s): ExuR-α-D-glucuronate , ExuR , ExuR-α-D-galacturonate, α-D-glucuronate
Coregulator(s): CRP, DpiA, ExuR, FNR, OxyR, UxuR
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
UxuR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor UxuR
Gene name(s): uxuR
Functional conformation(s): UxuR-D-fructuronate , UxuR-α-D-glucuronate-α-D-galacturonate , UxuR
Coregulator(s): CRP, ExuR, OxyR, UidR, UxuR
Summary: TF Summary ...[more]

REGULATION EXERTED BY CRP,ExuR,UxuR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP repressor ExuR repressor UxuR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
ExuR repressor exuRp2 exuR 3246605 3246622 -4.5 taaactcgcaAAAGTGGTATAACAAATAtagtctgccg [BPP]
[GEA]
[HIBSCS]
[1]
[2]
[3]
ExuR repressor exuRp2 exuR 3246416 3246433 -193.5 gcagttctggCAGTGTTCGACCTGTTAGgtgcgctggt [BPP]
[GEA]
[HIBSCS]
[3]
UxuR repressor exuRp2 exuR 3246416 3246433 -193.5 gcagttctggCAGTGTTCGACCTGTTAGgtgcgctggt [BPP]
[GEA]
[HIBSCS]
[3]
CRP-cAMP repressor exuRp2 exuR 3246482 3246500 -127.0 gcgattgaggTGGCGCAGGAAACACATAAcgatcccgca [GEA]
[HIBSCS]
[3]
CRP activator ExuR repressor UxuR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
UxuR repressor uxuRp uxuR 4554383 4554400 -66.5 ccctacagacTTACTGGTCAATCAAACTgatatttggt [AIBSCS] [4]
UxuR repressor uxuRp uxuR 4554542 4554559 93.5 atccggcaaaAATTTGATTAACCGCACCtaacggacac [AIBSCS]
[GEA]
[4]
ExuR repressor uxuRp uxuR 4554403 4554420 -46.5 atcaaactgaTATTTGGTTGACCAGTTTtcgttttttt [AIBSCS]
[GEA]
[5]
[4]
[2]
UxuR repressor lgoRp4 lgoR 4595807 4595824 132.5 tttacgccacAATGTGATTAACCAGGTCattgatgata [BPP]
[GEA]
[6]
[7]
CRP-cAMP activator uxuRp uxuR         [GEA]
[HIBSCS]
[8]
[2]
ExuR-α-D-galacturonate, α-D-glucuronate repressor lgoRp4 lgoR 4595807 4595824 132.5 tttacgccacAATGTGATTAACCAGGTCattgatgata [BPP] [7]
UxuR repressor uxuRp uxuR 4554403 4554420 -46.5 atcaaactgaTATTTGGTTGACCAGTTTtcgttttttt [AIBSCS]
[GEA]
[5]
[4]
[2]
CRP-cAMP activator lgoRp4 lgoR 4595902 4595915 40.0 aaaatcttttTTGTGAAAACACACgcataaaaat [GEA]
[HIBSCS]
[3]

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] Hugovieux-Cotte-Pattat N., et al., 1982
[2] Rodionov DA., et al., 2000
[3] Tutukina MN., et al., 2016
[4] Ritzenthaler P., et al., 1983
[5] Ritzenthaler P., et al., 1985
[6] Suvorova IA., et al., 2011
[7] Tutukina MN., et al., 2016
[8] Ritzenthaler P., et al., 1982



Reference(s)    

 [1] Hugovieux-Cotte-Pattat N., Robert-Baudouy J., 1982, Regulation and transcription direction of exuR, a self-regulated repressor in escherichia coli K-12., J Mol Biol 156(1):221-8

 [2] Rodionov DA., Mironov AA., Rakhmaninova AB., Gelfand MS., 2000, Transcriptional regulation of transport and utilization systems for hexuronides, hexuronates and hexonates in gamma purple bacteria., Mol Microbiol 38(4):673-83

 [3] Tutukina MN., Potapova AV., Cole JA., Ozoline ON., 2016, Control of hexuronate metabolism in Escherichia coli by the two interdependent regulators, ExuR and UxuR: derepression by heterodimer formation., Microbiology 162(7):1220-31

 [4] Ritzenthaler P., Mata-Gilsinger M., 1983, Multiple regulation involved in the expression of the uxuR regulatory gene in Escherichia coli K-12., Mol Gen Genet 189(2):351-4

 [5] Ritzenthaler P., Blanco C., Mata-Gilsinger M., 1985, Genetic analysis of uxuR and exuR genes: evidence for ExuR and UxuR monomer repressors interactions., Mol Gen Genet 199(3):507-11

 [6] Suvorova IA., Tutukina MN., Ravcheev DA., Rodionov DA., Ozoline ON., Gelfand MS., 2011, Comparative genomic analysis of the hexuronate metabolism genes and their regulation in gammaproteobacteria., J Bacteriol 193(15):3956-63

 [7] Tutukina MN., Potapova AV., Vlasov PK., Purtov YA., Ozoline ON., 2016, Structural modeling of the ExuR and UxuR transcription factors of E. coli: search for the ligands affecting their regulatory properties., J Biomol Struct Dyn :1-9

 [8] Ritzenthaler P., Mata-Gilsinger M., 1982, Use of in vitro gene fusions to study the uxuR regulatory gene in Escherichia coli K-12: direction of transcription and regulation of its expression., J Bacteriol 150(3):1040-7


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