RegulonDB RegulonDB 11.1: Regulon Form
   
   


TrpR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
TrpR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Sensing external and internal signals
Synonym(s): DNA-binding transcriptional repressor TrpR, RtrY
Gene name(s): trpR
Functional conformation(s): TrpR , TrpR-L-tryptophan
Coregulator(s): HU, IHF, TrpR, TyrR
Summary: TF Summary ...[more]

REGULATION EXERTED BY TrpR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
TrpR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
TrpR-L-tryptophan repressor aroHp1 aroH 1788280 1788297 -29.5 atgtactagaGAACTAGTGCATTAGCTTatttttttgt [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
[3]
[4]
[5]
TrpR-L-tryptophan repressor aroHp1 aroH 1788272 1788289 -37.5 gtcgccgaatGTACTAGAGAACTAGTGCattagcttat [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [1]
[2]
[3]
[4]
[5]
TrpR-L-tryptophan repressor trpLp trpA , trpB , trpC , trpD , trpE , trpL 1323119 1323136 -19.5 tgttgacaatTAATCATCGAACTAGTTAactagtacgc [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [2]
[6]
[3]
[4]
[5]
TrpR-L-tryptophan repressor trpLp trpA , trpB , trpC , trpD , trpE , trpL 1323103 1323120 -3.5 tcgaactagtTAACTAGTACGCAAGTTCacgtaaaaag [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [2]
[6]
[3]
[4]
[5]
TrpR-L-tryptophan repressor trpLp trpA , trpB , trpC , trpD , trpE , trpL 1323111 1323128 -11.5 attaatcatcGAACTAGTTAACTAGTACgcaagttcac [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [2]
[6]
[3]
[4]
[5]
TrpR-L-tryptophan repressor trpRp trpR 4632695 4632712 -0.5 atatgctatcGTACTCTTTAGCGAGTACaaccggggga [EXP-IEP-GENE-EXPRESSION-ANALYSIS] [7]
[2]
[3]
[4]
[8]
[5]

Evidence: [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis
Reference(s): [1] Grove CL., et al., 1987
[2] Jeeves M., et al., 1999
[3] Klig LS., et al., 1988
[4] Kumamoto AA., et al., 1987
[5] Yang J., et al., 1996
[6] Kinebuchi T., et al., 2021
[7] Gunsalus RP., et al., 1980
[8] Shimamoto N., et al., 2020



Reference(s)    

 [1] Grove CL., Gunsalus RP., 1987, Regulation of the aroH operon of Escherichia coli by the tryptophan repressor., J Bacteriol 169(5):2158-64

 [2] Jeeves M., Evans PD., Parslow RA., Jaseja M., Hyde EI., 1999, Studies of the Escherichia coli Trp repressor binding to its five operators and to variant operator sequences., Eur J Biochem 265(3):919-28

 [3] Klig LS., Carey J., Yanofsky C., 1988, trp repressor interactions with the trp aroH and trpR operators. Comparison of repressor binding in vitro and repression in vivo., J Mol Biol 202(4):769-77

 [4] Kumamoto AA., Miller WG., Gunsalus RP., 1987, Escherichia coli tryptophan repressor binds multiple sites within the aroH and trp operators., Genes Dev 1(6):556-64

 [5] Yang J., Gunasekera A., Lavoie TA., Jin L., Lewis DE., Carey J., 1996, In vivo and in vitro studies of TrpR-DNA interactions., J Mol Biol 258(1):37-52

 [6] Kinebuchi T., Shimamoto N., 2021, One-dimensional diffusion of TrpR along DNA enhances its affinity for the operator by chemical ratchet mechanism., Sci Rep 11(1):4255

 [7] Gunsalus RP., Yanofsky C., 1980, Nucleotide sequence and expression of Escherichia coli trpR, the structural gene for the trp aporepressor., Proc Natl Acad Sci U S A 77(12):7117-21

 [8] Shimamoto N., Toda M., Nara S., Komatsuzaki T., Kamagata K., Kinebuchi T., Tomizawa JI., 2020, Dependence of DNA length on binding affinity between TrpR and trpO of DNA., Sci Rep 10(1):15624

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