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BioLiP
Download all results in tab-seperated text for 74 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 1b57:A (2.0) BS04 PGH 4.1.2.13 GO:0004332 ... P0AB71 10080900 PDBbind: -logKd/Ki=8.00, Ki=0.01uM
    2 1b57:B (2.0) BS04 PGH 4.1.2.13 GO:0004332 ... P0AB71 10080900 PDBbind: -logKd/Ki=8.00, Ki=0.01uM
    3 1gt7:A (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    4 1gt7:B (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    5 1gt7:C (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    6 1gt7:D (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    7 1gt7:E (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    8 1gt7:F (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    9 1gt7:G (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    10 1gt7:H (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    11 1gt7:I (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    12 1gt7:J (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    13 1gt7:K (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    14 1gt7:L (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    15 1gt7:M (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    16 1gt7:N (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    17 1gt7:O (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    18 1gt7:P (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    19 1gt7:Q (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    20 1gt7:R (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    21 1gt7:S (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    22 1gt7:T (2.7) BS02 PGH 4.1.2.19 GO:0005737 ... P32169 11976494
    23 1gvf:A (1.45) BS01 PGH 4.1.2.40 GO:0005515 ... P0AB74 11940603
    24 1gvf:B (1.45) BS01 PGH 4.1.2.40 GO:0005515 ... P0AB74 11940603
    25 1ik4:A (2.0) BS01 PGH 4.2.3.3 GO:0005737 ... P0A731 11389594 MOAD: Ki=39nM
    PDBbind: -logKd/Ki=7.41, Ki=39nM
    26 1ik4:B (2.0) BS01 PGH 4.2.3.3 GO:0005737 ... P0A731 11389594 MOAD: Ki=39nM
    27 1ik4:C (2.0) BS01 PGH 4.2.3.3 GO:0005737 ... P0A731 11389594 MOAD: Ki=39nM
    28 1ik4:D (2.0) BS01 PGH 4.2.3.3 GO:0005737 ... P0A731 11389594 MOAD: Ki=39nM
    29 1ik4:E (2.0) BS01 PGH 4.2.3.3 GO:0005737 ... P0A731 11389594 MOAD: Ki=39nM
    30 1ik4:F (2.0) BS01 PGH 4.2.3.3 GO:0005737 ... P0A731 11389594 MOAD: Ki=39nM
    PDBbind: -logKd/Ki=7.41, Ki=39nM
    31 1tpb:1 (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 7577950
    32 1tpb:2 (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 7577950
    33 1tpc:1 (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 7577950
    34 1tpc:2 (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 7577950
    35 1tph:1 (1.8) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 8130195
    36 1tph:2 (1.8) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 8130195
    37 1tpu:A (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 8952501
    38 1tpu:B (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 8952501
    39 1tpv:A (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 8952501
    40 1tpv:B (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 8952501
    41 1tpw:A (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 10194358 MOAD: Ki=0.5mM
    PDBbind: -logKd/Ki=3.30, Ki=0.5mM
    42 1tpw:B (1.9) BS01 PGH 4.2.3.3
    5.3.1.1    		 GO:0004807 ... P00940 10194358 MOAD: Ki=0.5mM
    PDBbind: -logKd/Ki=3.30, Ki=0.5mM
    43 1trd:B (2.5) BS01 PGH 5.3.1.1 GO:0004807 ... P04789 8356028 MOAD: Ki=4uM
    PDBbind: -logKd/Ki=5.40, Ki=4uM
    44 1ttj:A (2.4) BS01 PGH 5.3.1.1 GO:0004807 ... P04789 8591044
    45 2isv:A (2.3) BS02 PGH 4.1.2.13 GO:0004332 ... A8B2U2 17166851 MOAD: Ki=37nM
    PDBbind: -logKd/Ki=7.43, Ki=37nM
    46 2isv:B (2.3) BS02 PGH 4.1.2.13 GO:0004332 ... A8B2U2 17166851 MOAD: Ki=37nM
    PDBbind: -logKd/Ki=7.43, Ki=37nM
    47 2isw:A (1.75) BS02 PGH 4.1.2.13 GO:0004332 ... A8B2U2 17166851 MOAD: Ki=37nM
    PDBbind: -logKd/Ki=7.43, Ki=37nM
    48 2vxn:A (0.82) BS01 PGH 5.3.1.1 GO:0004807 ... P48499 20235230 PDBbind: -logKd/Ki=5.00, Kd=10uM
    49 3c52:A (2.3) BS03 PGH 4.1.2.13 GO:0004332 ... P56109 18688832 PDBbind: -logKd/Ki=7.30, Ki=0.05uM
    50 3c52:B (2.3) BS03 PGH 4.1.2.13 GO:0004332 ... P56109 18688832 PDBbind: -logKd/Ki=7.30, Ki=0.05uM
    51 3tao:A (1.45) BS01 PGH 5.3.1.1 GO:0004807 ... P9WG43 22120738 MOAD: Kd=7.28uM
    PDBbind: -logKd/Ki=5.14, Kd=7.28uM
    52 3tao:A (1.45) BS02 PGH 5.3.1.1 GO:0004807 ... P9WG43 22120738 MOAD: Kd=7.28uM
    PDBbind: -logKd/Ki=5.14, Kd=7.28uM
    53 3ypi:A (2.8) BS01 PGH 5.3.1.1 GO:0004807 ... P00942 2007138
    54 3ypi:B (2.8) BS01 PGH 5.3.1.1 GO:0004807 ... P00942 2007138
    55 4del:A (1.58) BS03 PGH 4.1.2.13 GO:0004332 ... P9WQA3 23298222 MOAD: Kd=21.1nM
    PDBbind: -logKd/Ki=7.68, Kd=21.1nM
    56 4fua:A (2.43) BS02 PGH 4.1.2.17 GO:0005829 ... P0AB87 8676381 MOAD: Ki=4uM
    57 5f33:A (1.45) BS02 PGH 2.5.1.72 GO:0005737 ... Q9X1X7 27545412
    58 6f4d:A (2.0) BS02 PGH 2.5.1.72 GO:0005737 ... Q9X1X7 29641168
    59 6nee:A (1.9) BS01 PGH N/A GO:0004807 ... N/A 30589511
    60 6nee:B (1.9) BS01 PGH N/A GO:0004807 ... N/A 30589511
    61 7az9:A (1.1) BS01 PGH 5.3.1.1 GO:0004807 ... P48499 34258011
    62 7aza:A (1.1) BS01 PGH 5.3.1.1 GO:0004807 ... P48499 34258011
    63 7tim:A (1.9) BS01 PGH 5.3.1.1 GO:0004807 ... P00942 2043623
    64 7tim:B (1.9) BS01 PGH 5.3.1.1 GO:0004807 ... P00942 2043623
    65 8v09:A (1.61) BS01 PGH N/A N/A N/A 39145435
    66 8v0a:B (2.05) BS01 PGH N/A N/A N/A 39145435
    67 8w06:A (2.06) BS01 PGH N/A N/A N/A 39145435
    68 8w06:B (2.06) BS01 PGH N/A N/A N/A 39145435
    69 8w06:C (2.06) BS01 PGH N/A N/A N/A 39145435
    70 8w06:D (2.06) BS01 PGH N/A N/A N/A 39145435
    71 8w06:E (2.06) BS01 PGH N/A N/A N/A 39145435
    72 8w06:F (2.06) BS01 PGH N/A N/A N/A 39145435
    73 8w06:G (2.06) BS01 PGH N/A N/A N/A 39145435
    74 8w06:H (2.06) BS01 PGH N/A N/A N/A 39145435
    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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