Curation Information

Publication
CcpA ensures optimal metabolic fitness of Streptococcus pneumoniae.;Carvalho SM, Kloosterman TG, Kuipers OP, Neves AR;PloS one 2011; 6(10):e26707 [22039538]
TF
CcpA [A0A0H2ZQ65, view regulon]
Reported TF sp.
Streptococcus pneumoniae D39
Reported site sp.
Streptococcus pneumoniae D39
Created by
Elliot White
Curation notes
-

Experimental Process

Researchers used a consensus search of the CRE box (CcpA binding site) in the pneumoniae genome to compile a list of genes with CRE boxes in the promoter. They then cross-referenced that list with the results (trimmed to only significant results) of a DNA-array that compared wt to a CcpA deletion.

Transcription Factor Binding Sites


AATGAAAGGGGTAACAAAT
TTTGTATTCGTTATCATTA
CATGAAAAAGAAACCAATT
AATGGAAAAGAATACACTC
AATGTTTGCGTTATCATTT
AGTGTAAACGATAACAGGA
TATGTAACCGGTAACACAT
ATTGAAAATGATGTCAACT
AATGAAAGGGGTAACAAAT
TTTGTATTCGTTATCATTA
CATGAAAAAGAAACCAATT
AATGGAAAAGAATACACTC
AATGTTTGCGTTATCATTT
AGTGTAAACGATAACAGGA
TATGTAACCGGTAACACAT
ATTGAAAATGATGTCAACT

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
AATGAAAGGGGTAACAAAT SPD_2014,
... ... SPD_2014 glpK glpO hslO SPD_2016
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer
TTTGTATTCGTTATCATTA SPD_0089,
... ... SPD_0089 SPD_0088 SPD_0090
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer
CATGAAAAAGAAACCAATT SPD_0159,
... ... SPD_0159 SPD_0158 SPD_0157 SPD_0156 SPD_0160
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer
AATGGAAAAGAATACACTC dnaK,
... ... dnaK grpE hrcA dnaJ
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer
AATGTTTGCGTTATCATTT sodA,
... ... sodA holA pyrDa
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer
AGTGTAAACGATAACAGGA lacR1,
... ... lacR1 SPD_0770 SPD_0772 SPD_0773
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer
TATGTAACCGGTAACACAT SPD_1360,
... ... SPD_1360 murE SPD_1361 SPD_1362
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer
ATTGAAAATGATGTCAACT SPD_1488,
... ... SPD_1488 SPD_1487 SPD_1489
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - activator dimer