HipB - UniProtKB: P23873, UniProtKB: P23874 regulon and binding site collection of Escherichia coli BL21(DE3)


Sites are listed as curated.

TATCCCCTTAAGCGGATA
TATCCTCACTAAAGGATA
TATCCCGTAGAGCGGATA
TATCCCCTTAAGCGGATA
TATCCTCACTAAAGGATA
TATCCCGTAGAGCGGATA

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

TATCCCCTTAAGCGGATA
TATCCTTTAGTGAGGATA
TATCCCGTAGAGCGGATA
TATCCCCTTAAGCGGATA
TATCCTTTAGTGAGGATA
TATCCCGTAGAGCGGATA

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_012892.2 P23873 , P23874 dimer TATCCCCTTAAGCGGATA -[1550554:1550571] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
    ... ... hipB hipA
    1046 8021189
    NC_012892.2 P23873 , P23874 dimer TATCCTCACTAAAGGATA -[1550582:1550599] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
    ... ... hipB hipA
    1046 8021189
    NC_012892.2 P23873 , P23874 dimer TATCCCGTAGAGCGGATA -[1550621:1550638] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
    ... ... hipB hipA
    1046 8021189
    NC_012892.2 P23873 , P23874 dimer TATCCCCTTAAGCGGATA -[1550554:1550571] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
    ... ... hipB hipA
    1046 8021189
    NC_012892.2 P23873 , P23874 dimer TATCCTCACTAAAGGATA -[1550582:1550599] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
    ... ... hipB hipA
    1046 8021189
    NC_012892.2 P23873 , P23874 dimer TATCCCGTAGAGCGGATA -[1550621:1550638] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
    ... ... hipB hipA
    1046 8021189

    HipB - UniProtKB: P23873, UniProtKB: P23874 regulon and binding site collection of Escherichia coli BL21(DE3)


    Sites are listed as curated.

    TATCCCCTTAAGCGGATA
    TATCCTCACTAAAGGATA
    TATCCCGTAGAGCGGATA
    TATCCCCTTAAGCGGATA
    TATCCTCACTAAAGGATA
    TATCCCGTAGAGCGGATA

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

    TATCCCCTTAAGCGGATA
    TATCCTTTAGTGAGGATA
    TATCCCGTAGAGCGGATA
    TATCCCCTTAAGCGGATA
    TATCCTTTAGTGAGGATA
    TATCCCGTAGAGCGGATA

    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_012892.2 P23873 , P23874 dimer TATCCCCTTAAGCGGATA -[1550554:1550571] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
      ... ... hipB hipA
      1046 8021189
      NC_012892.2 P23873 , P23874 dimer TATCCTCACTAAAGGATA -[1550582:1550599] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
      ... ... hipB hipA
      1046 8021189
      NC_012892.2 P23873 , P23874 dimer TATCCCGTAGAGCGGATA -[1550621:1550638] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
      ... ... hipB hipA
      1046 8021189
      NC_012892.2 P23873 , P23874 dimer TATCCCCTTAAGCGGATA -[1550554:1550571] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
      ... ... hipB hipA
      1046 8021189
      NC_012892.2 P23873 , P23874 dimer TATCCTCACTAAAGGATA -[1550582:1550599] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
      ... ... hipB hipA
      1046 8021189
      NC_012892.2 P23873 , P23874 dimer TATCCCGTAGAGCGGATA -[1550621:1550638] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hipB (B21_01480) , hipA (B21_01479)
      ... ... hipB hipA
      1046 8021189

      HipB - UniProtKB: P23873, UniProtKB: P23874 regulon and binding site collection of Escherichia coli str. K-12 substr. MG1655


      Sites are listed as curated.

      TATCCGCTTAAGGGGATA
      TATCCGCTTAAGGGGATA

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

      TATCCGCTTAAGGGGATA
      TATCCGCTTAAGGGGATA

      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_000913.2 P23873 , P23874 dimer TATCCGCTTAAGGGGATA +[1590487:1590504] Experimental technique details X-ray crystallography (ECO:0005670) hipA (b1507) , hipB (b1508)
        ... ... hipA hipB
        1047 19150849
        NC_000913.2 P23873 , P23874 dimer TATCCGCTTAAGGGGATA +[1590487:1590504] Experimental technique details X-ray crystallography (ECO:0005670) hipA (b1507) , hipB (b1508)
        ... ... hipA hipB
        1047 19150849

        HipB - UniProtKB: P23873, UniProtKB: P23874 regulon and binding site collection of Escherichia coli str. K-12 substr. MG1655


        Sites are listed as curated.

        TATCCGCTTAAGGGGATA
        TATCCGCTTAAGGGGATA

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

        TATCCGCTTAAGGGGATA
        TATCCGCTTAAGGGGATA

        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_000913.2 P23873 , P23874 dimer TATCCGCTTAAGGGGATA +[1590487:1590504] Experimental technique details X-ray crystallography (ECO:0005670) hipA (b1507) , hipB (b1508)
          ... ... hipA hipB
          1047 19150849
          NC_000913.2 P23873 , P23874 dimer TATCCGCTTAAGGGGATA +[1590487:1590504] Experimental technique details X-ray crystallography (ECO:0005670) hipA (b1507) , hipB (b1508)
          ... ... hipA hipB
          1047 19150849

          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.

          TATCCCCTTAAGCGGATA
          TATCCTCACTAAAGGATA
          TATCCCGTAGAGCGGATA
          TATCCGCTTAAGGGGATA
          TATCCCCTTAAGCGGATA
          TATCCTCACTAAAGGATA
          TATCCCGTAGAGCGGATA
          TATCCGCTTAAGGGGATA

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

          TATCCCCTTAAGCGGATA
          TATCCTTTAGTGAGGATA
          TATCCCGTAGAGCGGATA
          TATCCCCTTAAGCGGATA
          TATCCCCTTAAGCGGATA
          TATCCTTTAGTGAGGATA
          TATCCCGTAGAGCGGATA
          TATCCCCTTAAGCGGATA
          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.