RegulonDB RegulonDB 11.1: Regulon Form
   
   


IHF,Lrp,ppGpp regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
Lrp Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Sensing external and internal signals
Synonym(s): AlsB, DNA-binding transcriptional dual regulator Lrp, Ihb, LivR, Lrs, Lss, LstR, Mbf, OppI, RblA
Gene name(s): lrp
Functional conformation(s): Lrp , Lrp-L-leucine
Coregulator(s): AcrR, Ada, AdiY, AidB, ArcA, ArgP, ArgR, CRP, CadC, CpxR, Cra, DksA, DksA-ppGpp, EnvY, FNR, Fis, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GcvA, GlaR, H-NS, HU, HdfR, IHF, LrhA, Lrp, MarA, Mlc, ModE, Nac, NarL, NhaR, NsrR, OmpR, PhoP, PurR, QseB, RcsB, Rob, SoxS, StpA, TorR, YeiL, YjjQ, ppGpp
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, 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, PlaR, PspF, PurR, QseB, RcdA, RcsAB, Rob, RstA, RtcR, RutR, SlyA, SoxR, SoxS, SutR, TdcA, TdcR, TrpR, TyrR, UlaR, UvrY, YeiL, YjjQ, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY IHF,Lrp,ppGpp Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
IHF activator Lrp repressor ppGpp activation    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
IHF activator ilvLp2 ilvL , ilvX , ilvG , ilvM , ilvE , ilvD , ilvA 3950195 3950207 -89.0 tatttttaaaAAACAACAATTTAtattgaaatt [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
[3]
[4]
[5]
IHF activator ilvLp2 ilvL , ilvX , ilvG , ilvM , ilvE , ilvD , ilvA 3950421 3950433 138.0 aaaggcttagAGATCAAGCCTTAacgaactaag [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[4]
[5]
Lrp-L-leucine repressor ilvLp2 ilvL , ilvX , ilvG , ilvM , ilvE , ilvD , ilvA 3950451 3950462 167.5 aagacccccgCACCGAAAGGTCcgggggtttt [EXP-IEP-RNA-SEQ] [6]
[7]
Lrp repressor ilvLp2 ilvL , ilvX , ilvG , ilvM , ilvE , ilvD , ilvA 3950482 3950496 200.0 tttttgacctTAAAAACATAACCGAggagcagaca [EXP-IEP-RNA-SEQ] [6]
[7]
Lrp repressor ilvLp2 ilvL , ilvX , ilvG , ilvM , ilvE , ilvD , ilvA 3950514 3950528 232.0 acaatgaataACAGCACAAAATTCTgtttctcaag [EXP-IEP-RNA-SEQ] [6]
[7]

Evidence: [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis
[EXP-IEP-RNA-SEQ] high throughput RNA-seq evidence
Reference(s): [1] Pagel JM., et al., 1991
[2] Pagel JM., et al., 1992
[3] Parekh BS., et al., 1996
[4] Parekh BS., et al., 1996
[5] Tsui P., et al., 1988
[6] Kroner GM., et al., 2019
[7] Rhee KY., et al., 1996



Reference(s)    

 [1] Pagel JM., Hatfield GW., 1991, Integration host factor-mediated expression of the ilvGMEDA operon of Escherichia coli., J Biol Chem 266(3):1985-96

 [2] Pagel JM., Winkelman JW., Adams CW., Hatfield GW., 1992, DNA topology-mediated regulation of transcription initiation from the tandem promoters of the ilvGMEDA operon of Escherichia coli., J Mol Biol 224(4):919-35

 [3] Parekh BS., Hatfield GW., 1996, Transcriptional activation by protein-induced DNA bending: evidence for a DNA structural transmission model., Proc Natl Acad Sci U S A 93(3):1173-7

 [4] Parekh BS., Sheridan SD., Hatfield GW., 1996, Effects of integration host factor and DNA supercoiling on transcription from the ilvPG promoter of Escherichia coli., J Biol Chem 271(34):20258-64

 [5] Tsui P., Freundlich M., 1988, Integration host factor binds specifically to sites in the ilvGMEDA operon in Escherichia coli., J Mol Biol 203(3):817-20

 [6] Kroner GM., Wolfe MB., Freddolino PL., 2019, Escherichia coli Lrp Regulates One-Third of the Genome via Direct, Cooperative, and Indirect Routes., J Bacteriol 201(3)

 [7] Rhee KY., Parekh BS., Hatfield GW., 1996, Leucine-responsive regulatory protein-DNA interactions in the leader region of the ilvGMEDA operon of Escherichia coli., J Biol Chem 271(43):26499-507

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