Curation Information

Publication
Percolation of the phd repressor-operator interface.;Zhao X, Magnuson RD;Journal of bacteriology 2005 Mar; 187(6):1901-12 [15743936]
TF
Phd [P40819, view regulon]
Reported TF sp.
Salmonella enterica serovar Typhimurium ST001
Reported site sp.
Salmonella enterica serovar Typhimurium ST001
Created by
Erill Lab
Curation notes
-

Experimental Process

Three palindromic binding sites with a 5 bp spacing were identified by similarity to the phage P1 operator sequence. Self-regulation of the chromosomal TA system was shown using beta-gal assays, and these were also used to show that the presence of Doc enhanced repression in vivo. The palindromic binding unit was determined by constructing a promoter with a single palindromic binding site and mutagenizing some of its bases.

The paper reports that TF forms complex with other proteins for binding with reported sites.

Authors note increased repression in complex with Doc

Transcription Factor Binding Sites


TTGTACAT
TTGTACAA
ATGTACAA
TTGTACAT
TTGTACAA
ATGTACAA

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
TTGTACAT yhhV,
... ... yhhV STM3558
Experimental technique details Beta-gal reporter assay - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Site directed mutagenesis (ECO:0005667) - repressor dimer
TTGTACAA yhhV,
... ... yhhV STM3558
Experimental technique details Beta-gal reporter assay - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - repressor dimer
ATGTACAA yhhV,
... ... yhhV STM3558
Experimental technique details Beta-gal reporter assay - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - repressor dimer