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BioLiP
Download all results in tab-seperated text for 10 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 8kd3:B
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000086 ... P22579 37666978
    2 8kd3:F
    (2.9)    		 BS01 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000122 ... Q12432 37666978
    3 8kd3:O
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... A0A310TTQ1 37666978
    4 8kd3:P
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... P62799 37666978
    5 8kd3:Q
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... Q6AZJ8 37666978
    6 8kd3:R
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... P02281 37666978
    7 8kd3:S
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... A0A310TTQ1 37666978
    8 8kd3:T
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... P62799 37666978
    9 8kd3:U
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... Q6AZJ8 37666978
    10 8kd3:V
    (2.9)    		 BS02 >8kd3:Y (identical to 8kd4:Y, 8kd6:Y)
    ccctggagaatcccggtgccgaggccgctcaattggtcgtagacagctct
agcaccgcttaaacgcacgtacgcgctgtcccccgcgttttaaccgccaa
ggggattactccctagtctccaggcacgtgtcagatatatacatcctgtt
ctagagcggccgcc
    		 ? GO:0000786 ... P02281 37666978
    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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