Curation Information

Optimization of the palindromic order of the TtgR operator enhances binding cooperativity.;Krell T, Terán W, Mayorga OL, Rivas G, Jiménez M, Daniels C, Molina-Henares AJ, Martínez-Bueno M, Gallegos MT, Ramos JL;Journal of molecular biology 2007 Jun 22; 369(5):1188-99 [17498746]
TtgR [Q9AIU0, view regulon]
Reported TF sp.
Pseudomonas putida DOT-T1E
Reported site sp.
Pseudomonas putida DOT-T1E
Created by
Joe Sparenberg
Curation notes

Experimental Process

DMS footprinting protected a 36-bp sequence in the ttgABC-ttgR intergenic region. EMSA showed that TtgR binds to a 40-bp sequence that includes the 36-bp sequence protected by DMS footprinting. Site directed mutagenesis and EMSA identified the minimum length of the sequence that binds TtgR. Isothermal titration calorimetry confirmed these results.

Transcription Factor Binding Sites


Gene Regulation

Regulated genes for each binding site are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation. For each indvidual site, experimental techniques used to determine the site are also given.

Site sequence Regulated genes Gene diagram Experimental techniques TF function TF type