PsrA - UniProtKB: Q88KZ5 regulon and binding site collection of Pseudomonas putida KT2440


Sites are listed as curated.

TTCAAACGGTAGTTTGAA
CTGAAACGTATGTTTCAA

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

TTCAAACGGTAGTTTGAA
CTGAAACGTATGTTTCAA

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_002947.3 Q88KZ5 dimer TTCAAACGGTAGTTTGAA +[1818321:1818338] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) rpoS (PP_1623) , nlpD (PP_1622)
    ... ... rpoS nlpD
    649 11914368
    NC_002947.3 Q88KZ5 dimer CTGAAACGTATGTTTCAA +[2445670:2445687] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) PP_2144 , lexA-1 (PP_2143) , PP_2142
    ... ... PP_2144 lexA-1 PP_2142
    649 11914368

    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.

    TTCAAACGGTAGTTTGAA
    CTGAAACGTATGTTTCAA

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

    TTCAAACGGTAGTTTGAA
    CTGAAACGTATGTTTCAA
    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.