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BioLiP
Download all results in tab-seperated text for 58 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 1a28:A (1.8) BS01 STR ? N/A P06401 9620806 MOAD: Ki=5.1nM
    PDBbind: -logKd/Ki=8.29, Ki=5.1nM
    BindingDB: Ki=3.5nM, EC50=2.9nM, IC50=>10000nM
    2 1a28:B (1.8) BS01 STR ? N/A P06401 9620806 MOAD: Ki=5.1nM
    BindingDB: Ki=3.5nM, EC50=2.9nM, IC50=>10000nM
    3 1dbb:H (2.7) BS01 STR ? N/A P01868 8496956 PDBbind: -logKd/Ki=9.00, Kd=1nM
    4 1dbb:L (2.7) BS01 STR N/A N/A N/A 8496956 PDBbind: -logKd/Ki=9.00, Kd=1nM
    5 1h60:A (1.6) BS02 STR ? GO:0000166 ... P71278 11428899 MOAD: Kd=20uM
    PDBbind: -logKd/Ki=4.70, Kd=20uM
    6 1mrq:A (1.59) BS02 STR 1.1.1.-
    1.1.1.112
    1.1.1.149
    1.1.1.209
    1.1.1.210
    1.1.1.357
    1.1.1.51
    1.1.1.53
    1.1.1.62
    1.3.1.20    		 GO:0001523 ... Q04828 12899831
    7 1w0f:A (2.65) BS01 STR 1.14.14.1
    1.14.14.55
    1.14.14.56
    1.14.14.73    		 GO:0002933 ... P08684 15256616
    8 1ya3:A (2.34) BS01 STR ? N/A P08235 15908963 BindingDB: IC50=14nM, Kd=0.390000nM
    9 1ya3:B (2.34) BS01 STR ? N/A P08235 15908963 BindingDB: IC50=14nM, Kd=0.390000nM
    10 1ya3:C (2.34) BS01 STR ? N/A P08235 15908963 BindingDB: IC50=14nM, Kd=0.390000nM
    11 2aa5:A (2.2) BS01 STR ? N/A P08235 15967794 BindingDB: IC50=14nM, Kd=0.390000nM
    12 2aa5:B (2.2) BS01 STR ? N/A P08235 15967794 BindingDB: IC50=14nM, Kd=0.390000nM
    13 2aa6:A (1.95) BS01 STR ? N/A P08235 15967794 PDBbind: -logKd/Ki=9.41, Kd=0.39nM
    BindingDB: IC50=14nM, Kd=0.390000nM
    14 2aa6:B (1.95) BS01 STR ? N/A P08235 15967794 BindingDB: IC50=14nM, Kd=0.390000nM
    15 2aba:A (1.05) BS02 STR 1.7.99.- GO:0000166 ... P71278 16156787 MOAD: Kd=0.7uM
    16 2hzq:A (1.8) BS01 STR ? GO:0000302 ... P05090 17699160 MOAD: Kd~1uM
    17 2o5y:H (2.85) BS01 STR N/A N/A N/A 18689687
    18 3cot:A (2.03) BS02 STR 1.3.1.3 GO:0004032 ... P51857 18407998
    19 3cot:B (2.03) BS02 STR 1.3.1.3 GO:0004032 ... P51857 18407998
    20 4bb2:A (2.48) BS02 STR ? GO:0004867 ... P08185 23300763 PDBbind: -logKd/Ki=7.07, Kd~85nM
    BindingDB: Ki=42nM
    21 4bb2:B (2.48) BS01 STR ? N/A P08185 23300763 PDBbind: -logKd/Ki=7.07, Kd~85nM
    BindingDB: Ki=42nM
    22 4fn9:A (3.0) BS01 STR N/A N/A N/A 23166518
    23 4fn9:B (3.0) BS01 STR N/A N/A N/A 23166518
    24 4j6c:A (1.9) BS01 STR ? GO:0004497 ... Q5YNS8 25372679
    25 4j6c:B (1.9) BS03 STR ? GO:0004497 ... Q5YNS8 25372679
    26 4l1w:A (2.2) BS02 STR 1.-.-.-
    1.1.1.112
    1.1.1.209
    1.1.1.357
    1.1.1.53
    1.1.1.62
    1.3.1.20    		 GO:0004032 ... P52895 24434280
    27 4l1w:B (2.2) BS02 STR 1.-.-.-
    1.1.1.112
    1.1.1.209
    1.1.1.357
    1.1.1.53
    1.1.1.62
    1.3.1.20    		 GO:0004032 ... P52895 24434280
    28 4l1x:A (2.0) BS02 STR 1.-.-.-
    1.1.1.112
    1.1.1.209
    1.1.1.357
    1.1.1.53
    1.1.1.62
    1.3.1.20    		 GO:0004032 ... P52895 24434280
    29 4l1x:B (2.0) BS02 STR 1.-.-.-
    1.1.1.112
    1.1.1.209
    1.1.1.357
    1.1.1.53
    1.1.1.62
    1.3.1.20    		 GO:0004032 ... P52895 24434280
    30 4ltw:A (2.045) BS01 STR N/A N/A N/A 24260475
    31 4nkx:A (2.794) BS02 STR 1.14.14.19
    1.14.14.32    		 GO:0004497 ... P05093 25301938
    32 4nkx:B (2.794) BS02 STR 1.14.14.19
    1.14.14.32    		 GO:0004497 ... P05093 25301938
    33 4nkx:C (2.794) BS02 STR 1.14.14.19
    1.14.14.32    		 GO:0004497 ... P05093 25301938
    34 4nkx:D (2.794) BS02 STR 1.14.14.19
    1.14.14.32    		 GO:0004497 ... P05093 25301938
    35 4r21:A (2.7) BS02 STR ? GO:0004497 ... A7U483 25533464
    36 4r21:B (2.7) BS02 STR ? GO:0004497 ... A7U483 25533464
    37 4y8w:A (2.64) BS02 STR 1.14.14.16 GO:0004497 ... P08686 25855791
    38 4y8w:B (2.64) BS02 STR 1.14.14.16 GO:0004497 ... P08686 25855791
    39 4y8w:C (2.64) BS02 STR 1.14.14.16 GO:0004497 ... P08686 25855791
    40 5a1p:A (2.5) BS02 STR 1.14.14.1
    1.14.14.55
    1.14.14.56
    1.14.14.73    		 GO:0002933 ... P08684 26066995
    41 5a1r:A (2.45) BS01 STR 1.14.14.1
    1.14.14.55
    1.14.14.56
    1.14.14.73    		 GO:0002933 ... P08684 26066995
    42 5lur:A (2.7) BS01 STR ? GO:0009374 ... P02701 N/A
    43 5lur:B (2.7) BS01 STR ? GO:0009374 ... P02701 N/A
    44 5mlm:A (2.563) BS01 STR 1.1.1.145 GO:0000166 ... D6N9X1 30287897
    45 6f88:A (1.75) BS02 STR 1.14.15.19 GO:0004497 ... A9FDB7 29509407
    46 6f88:B (1.75) BS02 STR 1.14.15.19 GO:0004497 ... A9FDB7 29509407
    47 6f8c:A (1.9) BS02 STR 1.14.15.19 GO:0004497 ... A9FDB7 29509407
    48 6f8c:B (1.9) BS02 STR 1.14.15.19 GO:0004497 ... A9FDB7 29509407
    49 6gsd:A (2.7) BS01 STR 1.1.1.145 GO:0000166 ... D6N9X1 30287897
    50 6hgk:A (1.855) BS01 STR ? GO:0003677 ... P01011 31103428
    51 6hgk:B (1.855) BS01 STR ? N/A P01011 31103428
    52 7raf:A (1.551) BS02 STR N/A N/A N/A N/A
    53 8fw8:B (2.31) BS01 STR ? GO:0003677 ... P39897 38326294
    54 8fw8:C (2.31) BS01 STR ? GO:0003677 ... P39897 38326294
    55 8fw8:D (2.31) BS01 STR ? GO:0003677 ... P39897 38326294
    56 8gl7:A (2.4) BS02 STR N/A N/A N/A N/A
    57 8w4b:A (2.152) BS01 STR N/A GO:0005634 ... Q6DCU6 38965213
    58 8w4c:A (2.676) BS01 STR N/A GO:0005634 ... Q6DCU6 38965213
    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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