Curation Information

Publication
Regulation of the integrase and cassette promoters of the class 1 integron by nucleoid-associated proteins.;Cagle CA, Shearer JE, Summers AO;Microbiology (Reading, England) 2011 Oct; 157(Pt 10):2841-53 [21778209]
TF
FIS [P0A6R3, view regulon]
Reported TF sp.
Escherichia coli str. K-12 substr. MG1655
Reported site sp.
Escherichia coli str. K-12 substr. MG1655
Created by
Erill Lab
Curation notes
-

Experimental Process

Involvement of FIS in regulation of integrase/cassette promoters shown by beta-gal with multiple promoter constructs. FIS binding is validated by EMSA and DNAse footprints. Specific FIS sites are identified by PSSM search and matched to DNAse protected regions.

Transcription Factor Binding Sites


GCTGCTTGGATGCCC
GGCATAGACTGTACC
GTACCCCAAAAAAAC
ACAGTCATAACAAGC
ACAAGCCATGAAAAC
GCTGCTTGGATGCCC
GGCATAGACTGTACC
GTACCCCAAAAAAAC
ACAGTCATAACAAGC
ACAAGCCATGAAAAC

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
GCTGCTTGGATGCCC intI1, aadA1
... ... intI1 aadA1
Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - repressor dimer
GGCATAGACTGTACC intI1, aadA1
... ... intI1 aadA1
Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - repressor dimer
GTACCCCAAAAAAAC intI1, aadA1
... ... intI1 aadA1
Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - repressor dimer
ACAGTCATAACAAGC intI1, aadA1
... ... intI1 aadA1
Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - repressor dimer
ACAAGCCATGAAAAC intI1, aadA1,
... ... intI1 aadA1 tnpM
Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - repressor dimer