GnfM - UniProtKB: Q74EF9 regulon and binding site collection of Geobacter sulfurreducens PCA


Sites are listed as curated.

TGCTGAAATATTGGGCA
TGATTGAAAAAGCGGCA
TGCCGATAAATCAGGCA
TGCCCACCTCAACATCA
TGCACAGTTTTGGTGCA
TGCATAAAATGCAGGCA

Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

TGCTGAAATATTGGGCA
TGCCGCTTTTTCAATCA
TGCCGATAAATCAGGCA
TGATGTTGAGGTGGGCA
TGCACCAAAACTGTGCA
TGCATAAAATGCAGGCA

For the selected transcription factor and species, the list of curated binding sites in the database 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.

    Genome TF TF conformation Site sequence Site location Experimental techniques Gene regulation Curations PMIDs
    NC_002939.5 Q74EF9 monomer TGCTGAAATATTGGGCA +[1011298:1011314] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) gnfK (GSU0941) , amtB (GSU0940) , glnK (GSU0939) , GSU0938 , hisN (GSU0942) , GSU0943
    ... ... gnfK amtB glnK GSU0938 hisN GSU0943
    451 20660485
    NC_002939.5 Q74EF9 monomer TGATTGAAAAAGCGGCA +[1011321:1011337] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) gnfK (GSU0941) , amtB (GSU0940) , glnK (GSU0939) , GSU0938 , hisN (GSU0942) , GSU0943
    ... ... gnfK amtB glnK GSU0938 hisN GSU0943
    451 20660485
    NC_002939.5 Q74EF9 monomer TGCCGATAAATCAGGCA -[1431627:1431643] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) gdhA (GSU1305) , GSU1306 , ftn (GSU1307) , GSU1308
    ... ... gdhA GSU1306 ftn GSU1308
    451 20660485
    NC_002939.5 Q74EF9 monomer TGCCCACCTCAACATCA -[1431608:1431624] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) gdhA (GSU1305) , GSU1306 , ftn (GSU1307) , GSU1308
    ... ... gdhA GSU1306 ftn GSU1308
    451 20660485
    NC_002939.5 Q74EF9 monomer TGCACAGTTTTGGTGCA -[1431586:1431602] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) gdhA (GSU1305) , GSU1306 , ftn (GSU1307) , GSU1308
    ... ... gdhA GSU1306 ftn GSU1308
    451 20660485
    NC_002939.5 Q74EF9 monomer TGCATAAAATGCAGGCA -[1431564:1431580] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) gdhA (GSU1305) , GSU1306 , ftn (GSU1307) , GSU1308
    ... ... gdhA GSU1306 ftn GSU1308
    451 20660485

    All binding sites in split view are combined and a sequence logo is generated. Note that it may contain binding site sequences from different transcription factors and different species. To see individiual sequence logos and curation details go to split view.


    Sites are listed as curated.

    TGCTGAAATATTGGGCA
    TGATTGAAAAAGCGGCA
    TGCCGATAAATCAGGCA
    TGCCCACCTCAACATCA
    TGCACAGTTTTGGTGCA
    TGCATAAAATGCAGGCA

    Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

    TGCTGAAATATTGGGCA
    TGCCGCTTTTTCAATCA
    TGCCGATAAATCAGGCA
    TGATGTTGAGGTGGGCA
    TGCACCAAAACTGTGCA
    TGCATAAAATGCAGGCA
    Download data in FASTA format.
    Download data in TSV (tab-separated-value) format. For each binding site, all sources of evidence (i.e. experimental techniques and publication information) are combined into one record.
    Download raw data in TSV format. All reported sites are exported individually.
    Download data in Attribute-Relation File Format (ARFF).
    Download Position-Specific-Frequency-Matrix of the motif in TRANSFAC format.
    Download Position-Specific-Frequency-Matrix of the motif in JASPAR format.
    Download Position-Specific-Frequency-Matrix of the motif in raw FASTA format. The matrix consists of four columns in the order A C G T.