RegulonDB RegulonDB 10.8: Regulon Form
   
   


RutR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
RutR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator RutR, YcdC
Gene name(s): rutR
Functional conformation(s): RutR , RutR-thymine , RutR-uracil
Coregulator(s): ArcA, FNR, Fis, FliZ, Fur, GadE, GadW, GadX, H-NS, IHF, NemR, NtrC, PepA, PhoB, PhoP, PurR, RutR
Summary: TF Summary ...[more]

REGULATION EXERTED BY RutR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
RutR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
RutR repressor rutRp2 rutR 1074120 1074138 16.5 tggtaaaaagTGGACTAAACGGTCAAAACagttgcacat [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[3]

Evidence: [AIBSCS] Automated inference based on similarity to consensus sequences
[BPP] Binding of purified proteins
[CV(GEA)] cross validation(GEA)
[CV(GEA/SM)] cross validation(GEA/SM)
[CV(SM)] cross validation(SM)
[GEA] Gene expression analysis
[SM] Site mutation
Reference(s): [1] Nguyen Le Minh P., et al., 2015
[2] Shimada T., et al., 2007
[3] Shimada T., et al., 2008



Reference(s)    

 [1] Nguyen Le Minh P., de Cima S., Bervoets I., Maes D., Rubio V., Charlier D., 2015, Ligand binding specificity of RutR, a member of the TetR family of transcription regulators in Escherichia coli., FEBS Open Bio 5:76-84

 [2] Shimada T., Hirao K., Kori A., Yamamoto K., Ishihama A., 2007, RutR is the uracil/thymine-sensing master regulator of a set of genes for synthesis and degradation of pyrimidines., Mol Microbiol 66(3):744-57

 [3] Shimada T., Ishihama A., Busby SJ., Grainger DC., 2008, The Escherichia coli RutR transcription factor binds at targets within genes as well as intergenic regions., Nucleic Acids Res 36(12):3950-5


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