Curation Information

Publication: The functional ccpA gene is required for carbon catabolite repression in Lactobacillus plantarum.;Muscariello L, Marasco R, De Felice M, Sacco M;Applied and environmental microbiology 2001 Jul; 67(7):2903-7 [11425700]
TF: CcpA [F9UQH6, view regulon]
Reported TF sp.: Lactobacillus plantarum LM3
Reported site sp.: Lactobacillus plantarum LM3
Created by: Dinara Sagitova
Curation notes: -

Experimental Process

Primer extension analyses performed on mRNA from wild type and ccpA mutant strains showed that bglH transcription was repressed about 10 fold in the wild type strain compared to the ccpA mutant. In vivo footprinting assay confirmed binding of CcpA to the bglH promoter at the putative CcpA binding site.

Transcription Factor Binding Sites

Sites reported in the paper
Sites matched in the genome

TGTAAGGGCTATCA

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
TGTAAGGGCTATCA	pbg9		Experimental technique details Premethylation interference footprinting (ECO:0005656) Premethylation interference footprinting - ECO:0005656 A variation of DNAse footprinting in which certain residues are methylated to evidence their role in binding. Similar to site-directed mutagenesis in its ability to designate specific residues as being essential for binding. - Experimental technique details Primer Extension assay (ECO:0005657) Primer Extension assay - ECO:0005657 Primer Extension Assay is a simple method of assessing expression levels. The total RNA produced by the culture is isolated. A short synthetic oligonucleotide primer (complementary to a short sequence on the target RNA) is radiolabelled (usually with 32P) and the primer anneals to the RNA. Reverse transcriptase then extends the RNA producing cDNA. The cDNA is analyzed on a polyacrylamide gel. The amount of cDNA in a band on the gel is proportional to the amount of initial RNA, thus providing expression levels of RNA from the culture. -	repressor	not specified