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BioLiP
Download all results in tab-seperated text for 63 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.
  • Hover over Ligand to view the full ligand name. Click Ligand to view the 2D diagram and other detail information of the ligand.
  • 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 Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    1 1ykc:A (2.1) BS01 GDS 2.5.1.18 GO:0004364 ... P28161 N/A
    2 1ykc:B (2.1) BS01 GDS 2.5.1.18 GO:0004364 ... P28161 N/A
    3 2grt:A (2.7) BS02 GDS 1.8.1.7 GO:0004362 ... P00390 9174360
    4 2wdu:A (1.62) BS01 GDS 2.5.1.18 GO:0004364 ... Q06A71 N/A
    5 2wdu:A (1.62) BS03 GDS 2.5.1.18 GO:0004364 ... Q06A71 N/A
    6 2wdu:B (1.62) BS01 GDS 2.5.1.18 GO:0004364 ... Q06A71 N/A
    7 2wdu:B (1.62) BS02 GDS 2.5.1.18 GO:0004364 ... Q06A71 N/A
    8 3fr3:A (1.9) BS01 GDS 2.5.1.18 N/A Q8ILQ7 N/A
    9 3fr3:A (1.9) BS02 GDS 2.5.1.18 N/A Q8ILQ7 N/A
    10 3fr3:B (1.9) BS01 GDS 2.5.1.18 N/A Q8ILQ7 N/A
    11 3fr3:B (1.9) BS02 GDS 2.5.1.18 N/A Q8ILQ7 N/A
    12 3gx0:A (2.3) BS01 GDS 1.11.1.-
    1.8.4.-    		 GO:0004601 ... P77526 19537707 MOAD: Kd=2.4uM
    PDBbind: -logKd/Ki=3.48, Kd=330uM
    13 3m8u:A (1.85) BS01 GDS ? GO:0015833 ... B8F653 20628015 MOAD: Kd=12.9uM
    PDBbind: -logKd/Ki=4.89, Kd=12.9uM
    14 4c0r:A (1.547) BS01 GDS ? N/A Q93DA5 23701283 MOAD: Kd=12.2uM
    PDBbind: -logKd/Ki=4.91, Kd=12.2uM
    15 4c0r:B (1.547) BS01 GDS ? N/A Q93DA5 23701283 MOAD: Kd=12.2uM
    16 4f0b:A (1.45) BS01 GDS 2.5.1.18 GO:0016740 ... I7A570 23711374
    17 4f0b:B (1.45) BS01 GDS 2.5.1.18 GO:0016740 ... I7A570 23711374
    18 4f0c:A (1.901) BS01 GDS ? GO:0016740 ... I7B368 26348000 PDBbind: -logKd/Ki=6.27, Kd=0.54uM
    19 4is0:A (1.721) BS01 GDS 1.20.4.2
    1.8.5.1
    2.5.1.18    		 GO:0004364 ... P78417 23593192
    20 4mrs:A (2.35) BS01 GDS 7.-.-.- GO:0005524 ... Q2G506 24604198
    21 4mrs:A (2.35) BS03 GDS 7.-.-.- GO:0005524 ... Q2G506 24604198
    22 4mrs:B (2.35) BS01 GDS 7.-.-.- GO:0005524 ... Q2G506 24604198
    23 4mrs:B (2.35) BS02 GDS 7.-.-.- GO:0005524 ... Q2G506 24604198
    24 4mzw:A (1.95) BS01 GDS ? N/A A3CNR0 N/A
    25 4mzw:B (1.95) BS01 GDS ? N/A A3CNR0 N/A
    26 4nax:A (1.301) BS01 GDS ? GO:0016740 ... A5W1A6 N/A
    27 4nax:B (1.301) BS01 GDS ? GO:0016740 ... A5W1A6 N/A
    28 4tr0:A (1.951) BS01 GDS ? GO:0005737 ... A8MJH2 25218089
    29 4tr0:B (1.951) BS01 GDS ? GO:0005737 ... A8MJH2 25218089
    30 4zb6:A (1.801) BS01 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    PDBbind: -logKd/Ki=6.28, Kd=0.53uM
    31 4zb6:A (1.801) BS02 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    PDBbind: -logKd/Ki=6.28, Kd=0.53uM
    32 4zb6:B (1.801) BS01 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    PDBbind: -logKd/Ki=6.28, Kd=0.53uM
    33 4zb6:B (1.801) BS02 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    PDBbind: -logKd/Ki=6.28, Kd=0.53uM
    34 4zb6:C (1.801) BS01 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    35 4zb6:C (1.801) BS02 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    36 4zb6:D (1.801) BS01 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    37 4zb6:D (1.801) BS02 GDS ? N/A A0A0R4I980 26348000 MOAD: Kd=0.53uM
    38 4zb8:A (2.0) BS01 GDS ? N/A A0A0R4I981 26348000 MOAD: Kd=0.94uM
    PDBbind: -logKd/Ki=6.03, Kd=0.94uM
    39 4zb9:A (2.403) BS01 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    40 4zb9:C (2.403) BS01 GDS ? N/A A0A0R4I985 26348000
    41 4zb9:D (2.403) BS01 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    42 4zba:A (1.501) BS01 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    PDBbind: -logKd/Ki=5.51, Kd=3.09uM
    43 4zba:A (1.501) BS02 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    PDBbind: -logKd/Ki=5.51, Kd=3.09uM
    44 4zba:B (1.501) BS01 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    PDBbind: -logKd/Ki=5.51, Kd=3.09uM
    45 4zba:B (1.501) BS02 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    PDBbind: -logKd/Ki=5.51, Kd=3.09uM
    46 4zba:C (1.501) BS01 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    47 4zba:C (1.501) BS02 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    48 4zba:D (1.501) BS01 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    49 4zba:D (1.501) BS02 GDS ? N/A A0A0R4I985 26348000 MOAD: Kd=3.09uM
    50 5o00:A (2.03) BS01 GDS ? GO:0016740 ... I7B368 N/A
    51 5thy:B (2.087) BS02 GDS ? N/A F4Y426 27723289
    52 6ap9:A (1.55) BS02 GDS 2.5.1.18 GO:0000302 ... P09211 N/A
    53 6ap9:B (1.55) BS02 GDS 2.5.1.18 GO:0000302 ... P09211 N/A
    54 6tah:AAA (1.3) BS01 GDS N/A N/A N/A N/A
    55 6tah:B (1.3) BS01 GDS N/A N/A N/A N/A
    56 6tah:CAA (1.3) BS01 GDS N/A N/A N/A N/A
    57 6tah:DAA (1.3) BS01 GDS N/A N/A N/A N/A
    58 6tho:A (1.09) BS01 GDS 2.3.2.15 GO:0010038 ... Q8YY76 35377603
    59 6tho:B (1.09) BS01 GDS 2.3.2.15 GO:0010038 ... Q8YY76 35377603
    60 7n59:A (3.6) BS01 GDS ? GO:0005524 ... Q9LVM1 35333177
    61 7n59:B (3.6) BS01 GDS ? GO:0005524 ... Q9LVM1 35333177
    62 7ncu:A (1.5) BS01 GDS 2.5.1.18 GO:0140677 ... B0Y813 33909314
    63 7ncu:B (1.5) BS01 GDS 2.5.1.18 GO:0140677 ... B0Y813 33909314
    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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