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BioLiP
Download all results in tab-seperated text for 41 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 1b8o:A (1.5) BS02 IMH 2.4.2.1 GO:0003824 ... P55859 11170405 MOAD: Ki=23pM
    PDBbind: -logKd/Ki=10.64, Ki=23pM
    2 1g2o:A (1.75) BS02 IMH 2.4.2.1 GO:0003824 ... P9WP01 11444966 MOAD: Ki=28pM
    PDBbind: -logKd/Ki=10.55, Ki=28pM
    3 1g2o:B (1.75) BS02 IMH 2.4.2.1 GO:0003824 ... P9WP01 11444966 MOAD: Ki=28pM
    PDBbind: -logKd/Ki=10.55, Ki=28pM
    4 1g2o:C (1.75) BS02 IMH 2.4.2.1 GO:0003824 ... P9WP01 11444966 MOAD: Ki=28pM
    5 1nw4:A (2.2) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 14982926 MOAD: Kd=0.86nM
    PDBbind: -logKd/Ki=9.07, Kd=860pM
    6 1nw4:B (2.2) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 14982926 MOAD: Kd=0.86nM
    PDBbind: -logKd/Ki=9.07, Kd=860pM
    7 1nw4:C (2.2) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 14982926 MOAD: Kd=0.86nM
    8 1nw4:D (2.2) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 14982926 MOAD: Kd=0.86nM
    9 1nw4:E (2.2) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 14982926 MOAD: Kd=0.86nM
    10 1nw4:F (2.2) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 14982926 MOAD: Kd=0.86nM
    11 1pf7:E (2.6) BS01 IMH 2.4.2.1 GO:0000255 ... P00491 13679061 PDBbind: -logKd/Ki=10.14, Ki=72pM
    12 1rr6:A (2.5) BS01 IMH 2.4.2.1 GO:0000255 ... P00491 14982926 PDBbind: -logKd/Ki=10.25, Kd=56pM
    13 1rt9:A (2.3) BS01 IMH 2.4.2.1 GO:0000255 ... P00491 N/A PDBbind: -logKd/Ki=10.25, Ki=56pM
    14 2ff1:A (2.07) BS02 IMH 3.2.2.1 GO:0006139 ... Q9GPQ4 16630632 MOAD: Ki=6.2nM
    PDBbind: -logKd/Ki=8.21, Ki=6.2nM
    15 2ff1:B (2.07) BS02 IMH 3.2.2.1 GO:0006139 ... Q9GPQ4 16630632 MOAD: Ki=6.2nM
    16 2ff2:A (2.2) BS02 IMH 3.2.2.1 GO:0006139 ... Q9GPQ4 16630632 MOAD: Ki=6.2nM
    PDBbind: -logKd/Ki=8.21, Ki=6.2nM
    17 2ff2:B (2.2) BS02 IMH 3.2.2.1 GO:0006139 ... Q9GPQ4 16630632 MOAD: Ki=6.2nM
    18 2oc4:A (2.592) BS01 IMH 2.4.2.1 GO:0000255 ... P00491 17407325 PDBbind: -logKd/Ki=7.07, Ki=86nM
    19 2oc9:A (2.59) BS01 IMH 2.4.2.1 GO:0000255 ... P00491 17407325 PDBbind: -logKd/Ki=7.96, Ki=11nM
    20 2on6:A (2.503) BS01 IMH 2.4.2.1 GO:0000255 ... P00491 17407325 MOAD: Ki=172nM
    PDBbind: -logKd/Ki=6.76, Ki=172nM
    21 2q7o:E (2.9) BS01 IMH 2.4.2.1 GO:0000255 ... P00491 18154341 PDBbind: -logKd/Ki=7.92, Ki=12nM
    22 3b9g:A (1.4) BS02 IMH 3.2.2.1 GO:0006139 ... Q9GPQ4 18519562 MOAD: Ki=19uM
    PDBbind: -logKd/Ki=4.72, Ki=19uM
    23 3b9g:B (1.4) BS02 IMH 3.2.2.1 GO:0006139 ... Q9GPQ4 18519562 MOAD: Ki=19uM
    24 3fow:A (2.8) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 24416224
    25 3fow:B (2.8) BS01 IMH 2.4.2.1
    2.4.2.44    		 GO:0003824 ... Q8I3X4 24416224
    26 3mb8:A (1.9) BS01 IMH 2.4.2.1 GO:0003824 ... Q2HXR2 24585883
    27 3mb8:B (1.9) BS01 IMH 2.4.2.1 GO:0003824 ... Q2HXR2 24585883
    28 6zk2:A (2.2) BS02 IMH ? GO:0006139 ... B6THD4 38044809
    29 6zk2:B (2.2) BS02 IMH ? GO:0006139 ... B6THD4 38044809
    30 6zk2:C (2.2) BS02 IMH ? GO:0006139 ... B6THD4 38044809
    31 6zk2:D (2.2) BS02 IMH ? GO:0006139 ... B6THD4 38044809
    32 6zk5:A (1.9) BS02 IMH 3.2.2.- GO:0006139 ... B6T563 38044809
    33 6zk5:B (1.9) BS01 IMH 3.2.2.- GO:0006139 ... B6T563 38044809
    34 8db8:B (2.21) BS01 IMH ? GO:0005829 ... A2EYV3 35994320
    35 8db8:D (2.21) BS01 IMH ? GO:0005829 ... A2EYV3 35994320
    36 8pqp:A (1.709) BS01 IMH ? GO:0009159 ... K9TVX3 38449528
    37 8swt:A (1.66) BS01 IMH 2.4.2.1 GO:0003824 ... Q5LAA3 37812583
    38 8swt:B (1.66) BS01 IMH 2.4.2.1 GO:0003824 ... Q5LAA3 37812583
    39 8swu:A (2.34) BS01 IMH 2.4.2.1 GO:0003824 ... A0A0H2YR30 37812583
    40 8swu:B (2.34) BS01 IMH 2.4.2.1 GO:0003824 ... A0A0H2YR30 37812583
    41 8swu:C (2.34) BS01 IMH 2.4.2.1 GO:0003824 ... A0A0H2YR30 37812583
    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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