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BioLiP
Download all results in tab-seperated text for 85 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 1g2a:A (1.75) BS01 BB2 3.5.1.88 GO:0005515 ... P0A6K3 11158755 MOAD: ic50=10nM
    PDBbind: -logKd/Ki=8.00, IC50=10nM
    2 1g2a:B (1.75) BS01 BB2 3.5.1.88 GO:0005515 ... P0A6K3 11158755 MOAD: ic50=10nM
    3 1g2a:C (1.75) BS01 BB2 3.5.1.88 GO:0005515 ... P0A6K3 11158755 MOAD: ic50=10nM
    4 1ix1:A (1.85) BS02 BB2 3.5.1.88 GO:0006412 ... Q9I7A8 15382235
    5 1ix1:B (1.85) BS02 BB2 3.5.1.88 GO:0006412 ... Q9I7A8 15382235
    6 1lqy:A (1.9) BS01 BB2 3.5.1.88 GO:0006412 ... O31410 12126617
    7 1lru:A (2.1) BS02 BB2 3.5.1.88 GO:0005515 ... P0A6K3 12126617
    8 1lru:B (2.1) BS02 BB2 3.5.1.88 GO:0005515 ... P0A6K3 12126617
    9 1lru:C (2.1) BS02 BB2 3.5.1.88 GO:0005515 ... P0A6K3 12126617
    10 1lry:A (2.6) BS02 BB2 3.5.1.88 GO:0006412 ... Q9I7A8 12126617
    11 1q1y:A (1.9) BS02 BB2 3.5.1.88 GO:0006412 ... P68826 15382235 PDBbind: -logKd/Ki=7.70, IC50=0.02uM
    BindingDB: IC50=<5nM
    12 1szz:A (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    13 1szz:B (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    14 1szz:C (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    15 1szz:D (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    16 1szz:E (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    17 1szz:F (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    18 1szz:G (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    19 1szz:H (3.3) BS02 BB2 3.5.1.88 GO:0006412 ... Q93LE9 16239225
    20 1ws1:A (2.0) BS01 BB2 3.5.1.88 GO:0006412 ... Q819U0 16049914 MOAD: Ki=0.28nM
    PDBbind: -logKd/Ki=9.55, Ki=0.28nM
    21 2kmn:A (-1.00) BS02 BB2 3.5.1.88 GO:0042586 ... P0A6K3 N/A
    22 2okl:A (1.7) BS02 BB2 3.5.1.88 GO:0006412 ... Q819K2 18047803
    23 2okl:A (1.7) BS03 BB2 3.5.1.88 GO:0006412 ... Q819K2 18047803
    24 2okl:B (1.7) BS02 BB2 3.5.1.88 GO:0006412 ... Q819K2 18047803
    25 2okl:B (1.7) BS03 BB2 3.5.1.88 GO:0006412 ... Q819K2 18047803
    26 2os1:A (1.5) BS01 BB2 3.5.1.88 GO:0006412 ... Q82ZJ0 N/A
    27 2os3:A (2.26) BS02 BB2 3.5.1.88 GO:0006412 ... P68771 N/A
    28 3g5k:A (1.7) BS01 BB2 3.5.1.88 GO:0042586 ... Q9HBH1 19236878 PDBbind: -logKd/Ki=9.52, Ki=0.3nM
    BindingDB: IC50=1.5nM, Ki=0.300000nM
    29 3g5k:B (1.7) BS01 BB2 3.5.1.88 GO:0042586 ... Q9HBH1 19236878 BindingDB: IC50=1.5nM, Ki=0.300000nM
    30 3g5k:C (1.7) BS01 BB2 3.5.1.88 GO:0042586 ... Q9HBH1 19236878 BindingDB: IC50=1.5nM, Ki=0.300000nM
    31 3g5k:D (1.7) BS01 BB2 3.5.1.88 GO:0042586 ... Q9HBH1 19236878 BindingDB: IC50=1.5nM, Ki=0.300000nM
    32 3m6p:A (2.0) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Ki=0.9nM
    PDBbind: -logKd/Ki=8.35, Kd=4.5nM
    33 3m6p:B (2.0) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Ki=0.9nM
    34 3m6q:A (2.4) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Kd=48nM
    PDBbind: -logKd/Ki=7.32, Kd=48nM
    35 3m6r:A (2.4) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Kd=32nM
    PDBbind: -logKd/Ki=7.49, Kd=32nM
    36 3m6r:B (2.4) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Kd=32nM
    37 3m6r:C (2.4) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Kd=32nM
    38 3m6r:D (2.4) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Kd=32nM
    39 3pn4:A (1.9) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FUZ2 21629676 MOAD: Ki=140nM
    PDBbind: -logKd/Ki=6.85, Ki=140nM
    40 3u04:A (1.7) BS02 BB2 3.5.1.88 GO:0006412 ... Q2GI30 N/A
    41 3uwb:A (1.7) BS02 BB2 ? GO:0018206 ... E3SLL2 23407310 MOAD: ic50=10nM
    42 4dr9:A (1.9) BS02 BB2 3.5.1.88 GO:0006412 ... A0A0H3JZJ4 23407310 MOAD: ic50=10nM
    PDBbind: -logKd/Ki=8.00, IC50=10nM
    43 4dr9:B (1.9) BS02 BB2 3.5.1.88 GO:0006412 ... A0A0H3JZJ4 23407310 MOAD: ic50=10nM
    44 4dr9:C (1.9) BS02 BB2 3.5.1.88 GO:0006412 ... A0A0H3JZJ4 23407310 MOAD: ic50=10nM
    45 4dr9:D (1.9) BS02 BB2 3.5.1.88 GO:0006412 ... A0A0H3JZJ4 23407310 MOAD: ic50=10nM
    46 4e9b:A (1.7) BS02 BB2 3.5.1.88 GO:0006412 ... Q672W7 N/A
    47 4je7:A (2.1) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FV53 24531459 MOAD: Kd=395nM
    PDBbind: -logKd/Ki=6.40, Kd=395nM
    BindingDB: IC50=27nM
    48 4je7:B (2.1) BS01 BB2 3.5.1.88 GO:0042586 ... Q9FV53 24531459 MOAD: Kd=395nM
    BindingDB: IC50=27nM
    49 4q4e:A (1.9) BS02 BB2 3.4.11.2 GO:0004177 ... P04825 25644575 MOAD: ic50=0.19uM
    PDBbind: -logKd/Ki=6.72, IC50=0.19uM
    50 4wxl:A (2.33) BS01 BB2 3.5.1.88 GO:0006412 ... Q4QMV6 N/A
    51 4wxl:B (2.33) BS01 BB2 3.5.1.88 GO:0006412 ... Q4QMV6 N/A
    52 4wxl:C (2.33) BS01 BB2 3.5.1.88 GO:0006412 ... Q4QMV6 N/A
    53 4wxl:D (2.33) BS01 BB2 3.5.1.88 GO:0006412 ... Q4QMV6 N/A
    54 5cvq:A (2.5) BS01 BB2 3.5.1.88 GO:0042586 ... Q5H3Z2 N/A
    55 5i2b:A (1.7) BS02 BB2 3.5.1.88 GO:0006412 ... B1FPK4 N/A
    56 5jf1:A (2.0) BS01 BB2 3.5.1.88 GO:0006412 ... Q8E378 27762275 MOAD: Ki=64nM
    PDBbind: -logKd/Ki=7.19, Ki=64nM
    57 5mte:A (1.4) BS01 BB2 ? GO:0018206 ... Q6VT21 29101077 PDBbind: -logKd/Ki=6.78, Ki=167nM
    58 5mte:B (1.4) BS01 BB2 ? GO:0018206 ... Q6VT21 29101077
    59 5njb:A (1.5) BS02 BB2 3.4.-.- GO:0005506 ... P0AGG8 28943336
    60 5njb:C (1.5) BS02 BB2 3.4.-.- GO:0005506 ... P0AGG8 28943336
    61 5nsq:A (3.0) BS03 BB2 ? GO:0004177 ... Q385B0 28815215
    62 5nsq:B (3.0) BS03 BB2 ? GO:0004177 ... Q385B0 28815215
    63 5nsq:C (3.0) BS03 BB2 ? GO:0004177 ... Q385B0 28815215
    64 5nsq:D (3.0) BS03 BB2 ? GO:0004177 ... Q385B0 28815215
    65 5nsq:E (3.0) BS03 BB2 ? GO:0004177 ... Q385B0 28815215
    66 5nsq:F (3.0) BS03 BB2 ? GO:0004177 ... Q385B0 28815215
    67 5nth:A (2.5) BS04 BB2 3.4.11.- GO:0004177 ... Q4QH17 28815215
    68 5t8z:A (1.85) BS01 BB2 3.5.1.88 GO:0006412 ... A0A0H3KPJ9 N/A
    69 5vcp:A (1.95) BS02 BB2 3.5.1.88 GO:0006412 ... Q13XB1 N/A
    70 5vcp:B (1.95) BS02 BB2 3.5.1.88 GO:0006412 ... Q13XB1 N/A
    71 5vcp:C (1.95) BS02 BB2 3.5.1.88 GO:0006412 ... Q13XB1 N/A
    72 5vcp:D (1.95) BS02 BB2 3.5.1.88 GO:0006412 ... Q13XB1 N/A
    73 5y1x:A (1.55) BS02 BB2 3.4.11.- GO:0006508 ... O96935 N/A
    74 6ck7:A (1.65) BS02 BB2 3.5.1.88 GO:0006412 ... Q5ZSC4 N/A
    75 6ck7:B (1.65) BS02 BB2 3.5.1.88 GO:0006412 ... Q5ZSC4 N/A
    76 6ck7:C (1.65) BS02 BB2 3.5.1.88 GO:0006412 ... Q5ZSC4 N/A
    77 6ck7:C (1.65) BS03 BB2 3.5.1.88 GO:0006412 ... Q5ZSC4 N/A
    78 6ck7:D (1.65) BS01 BB2 3.5.1.88 GO:0006412 ... Q5ZSC4 N/A
    79 6ck7:D (1.65) BS03 BB2 3.5.1.88 GO:0006412 ... Q5ZSC4 N/A
    80 6jet:A (2.6) BS02 BB2 3.5.1.88 GO:0006412 ... B0VNL8 N/A
    81 6jet:B (2.6) BS02 BB2 3.5.1.88 GO:0006412 ... B0VNL8 N/A
    82 6jf3:A (2.01) BS02 BB2 N/A GO:0042586 ... N/A N/A
    83 6jf3:B (2.01) BS02 BB2 N/A GO:0042586 ... N/A N/A
    84 6jfc:A (2.04) BS01 BB2 3.5.1.88 GO:0006412 ... A0A071LDC0 N/A
    85 6jfc:B (2.04) BS01 BB2 3.5.1.88 GO:0006412 ... A0A071LDC0 N/A
    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)(download the PDF file).
  • 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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