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BioLiP
Download all results in tab-seperated text for 8 receptor-ligand interactions, whose format is explained at readme.txt.
  • Hover over PDB to view the title of the structure. Click PDB to view the structure at the RCSB PDB database. Resolution -1.00 means the resolution is unavailable, e.g., for NMR structures.
  • Click Site # to view the binding site structure. Hover over Site # to view the binding residues.
  • The sequence is converted from residues with experimentally determined coordinates in the structure; residues not observed in the 3D structure are excluded.
  • Hover over EC number to view the full name of enzymatic activity.
  • Hover over GO terms to view all GO terms.
  • Hover over UniProt to view the protein name.

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    # PDB
    (resolution)     		Site
    #     		DNA
    sequence         		EC
    number     		GO
    terms     		UniProt PubMed Binding
    affinity
    1 8du4:A
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P02302 36095189
    2 8du4:B
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P62799 36095189
    3 8du4:C
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P06897 36095189
    4 8du4:D
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P02281 36095189
    5 8du4:E
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P02302 36095189
    6 8du4:F
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P62799 36095189
    7 8du4:G
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P06897 36095189
    8 8du4:H
    (3.55)    		 BS01 >8du4:I (identical to 7bwd:I, 6e0c:J, 6iro:I, 4jjn:I, 6jyl:I, 6k1p:I, 7mbn:O, 3mvd:I, 6nj9:I, 6nog:I, 6nqa:I, 6pwf:J, 6pwv:O, 6pww:O, 6pwx:O, 8t3t:I, 8t3w:I, 8t3y:I, 7ud5:I, 6ugm:I, 6uh5:I, 6ven:I, 6w5i:O, 6w5m:O, 6w5n:O, 5x0x:I, 5x0y:I, 4x23:I, 4x23:S, 7xcr:I, 7xd0:I)
    tcgagaatcccggtgccgaggccgctcaattggtcgtagacagctctagc
accgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaaggg
gattactccctagtctccaggcacgtgtcagatatatacatccgat
    		 ? GO:0000786 ... P02281 36095189
    Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).

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