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BioLiP
Download all results in tab-seperated text for 53 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 3e22:A (3.8) BS03 LOC 3.6.5.- GO:0000226 ... Q3ZCJ7 18787557
    2 3e22:B (3.8) BS02 LOC ? GO:0000226 ... Q6B856 18787557 BindingDB: IC50=800nM, Ki=780nM
    3 3e22:C (3.8) BS04 LOC 3.6.5.- GO:0000226 ... Q3ZCJ7 18787557
    4 3e22:D (3.8) BS02 LOC ? GO:0000226 ... Q6B856 18787557 BindingDB: IC50=800nM, Ki=780nM
    5 3ut5:A (2.73) BS02 LOC ? GO:0000226 ... D0VWZ0 22868758
    6 3ut5:B (2.73) BS03 LOC ? GO:0000226 ... D0VWY9 22868758
    7 3ut5:D (2.73) BS02 LOC ? GO:0000226 ... D0VWY9 22868758
    8 4lzr:A (1.85) BS01 LOC ? N/A O60885 24272870 MOAD: Kd=20uM
    PDBbind: -logKd/Ki=4.70, Kd=20uM
    9 4o2b:A (2.3) BS03 LOC 3.6.5.- GO:0000226 ... P81947 24530796 PDBbind: -logKd/Ki=5.74, Ki=1.8uM
    10 4o2b:B (2.3) BS02 LOC ? GO:0000226 ... Q6B856 24530796 MOAD: Ki=1.8uM
    PDBbind: -logKd/Ki=5.74, Ki=1.8uM
    BindingDB: IC50=800nM, Ki=780nM
    11 4o2b:C (2.3) BS02 LOC 3.6.5.- GO:0000226 ... P81947 24530796
    12 4o2b:D (2.3) BS02 LOC ? GO:0000226 ... Q6B856 24530796 MOAD: Ki=1.8uM
    BindingDB: IC50=800nM, Ki=780nM
    13 4x1i:A (3.11) BS03 LOC ? GO:0000226 ... D0VWZ0 25431858
    14 4x1i:B (3.11) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    15 4x1i:C (3.11) BS04 LOC ? GO:0000226 ... D0VWZ0 25431858
    16 4x1i:D (3.11) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    17 4x1k:A (3.5) BS03 LOC ? GO:0000226 ... D0VWZ0 25431858
    18 4x1k:B (3.5) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    19 4x1k:C (3.5) BS04 LOC ? GO:0000226 ... D0VWZ0 25431858
    20 4x1k:D (3.5) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    21 4x1y:A (3.19) BS03 LOC ? GO:0000226 ... D0VWZ0 25431858
    22 4x1y:B (3.19) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    23 4x1y:C (3.19) BS03 LOC ? GO:0000226 ... D0VWZ0 25431858
    24 4x1y:D (3.19) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    25 4x20:A (3.5) BS03 LOC ? GO:0000226 ... D0VWZ0 25431858
    26 4x20:B (3.5) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    27 4x20:D (3.5) BS02 LOC ? GO:0000226 ... D0VWY9 25431858
    28 5eyp:A (1.9) BS02 LOC ? GO:0000226 ... D0VWZ0 27380724
    29 5eyp:B (1.9) BS02 LOC ? GO:0000226 ... D0VWY9 27380724
    30 5itz:A (2.2) BS03 LOC 3.6.5.- GO:0000226 ... P81947 27219064
    31 5itz:B (2.2) BS03 LOC ? GO:0000226 ... Q6B856 27219064 BindingDB: IC50=800nM, Ki=780nM
    32 5mio:B (3.19) BS02 LOC ? GO:0000226 ... D0VWY9 28694425
    33 5nkn:A (2.2) BS01 LOC ? GO:0005506 ... P80188 30517073 MOAD: Kd=120pM
    PDBbind: -logKd/Ki=9.92, Kd=120pM
    34 5nm5:A (2.05) BS02 LOC 3.6.5.- GO:0000226 ... P81947 28912485
    35 5nm5:B (2.05) BS02 LOC ? GO:0000226 ... Q6B856 28912485 BindingDB: IC50=800nM, Ki=780nM
    36 5xiw:A (2.9) BS03 LOC 3.6.5.- GO:0000226 ... Q2XVP4 29691282 PDBbind: -logKd/Ki=4.96, Kd=11.03uM
    37 5xiw:B (2.9) BS02 LOC ? GO:0000226 ... P02554 29691282 PDBbind: -logKd/Ki=4.96, Kd=11.03uM
    BindingDB: IC50=1400nM, Kd=3700nM, Ki=5750nM
    38 5xiw:C (2.9) BS03 LOC 3.6.5.- GO:0000226 ... Q2XVP4 29691282
    39 5xiw:D (2.9) BS02 LOC ? GO:0000226 ... P02554 29691282 BindingDB: IC50=1400nM, Kd=3700nM, Ki=5750nM
    40 6ajz:A (1.301) BS01 LOC ? N/A O60885 30565859 PDBbind: -logKd/Ki=4.34, Kd=46uM
    41 6in1:A (1.5) BS01 LOC ? N/A O60885 N/A
    42 6xer:A (2.5) BS02 LOC 3.6.5.- GO:0000226 ... Q2XVP4 34378386
    43 6xer:B (2.5) BS02 LOC ? GO:0000226 ... P02554 34378386 BindingDB: IC50=1400nM, Kd=3700nM, Ki=5750nM
    44 6xer:C (2.5) BS02 LOC 3.6.5.- GO:0000226 ... Q2XVP4 34378386
    45 6xer:D (2.5) BS02 LOC ? GO:0000226 ... P02554 34378386 BindingDB: IC50=1400nM, Kd=3700nM, Ki=5750nM
    46 8clb:A (3.0) BS04 LOC 3.6.5.- GO:0000226 ... P81947 38042952
    47 8clb:B (3.0) BS02 LOC ? GO:0000226 ... Q6B856 38042952
    48 8clb:C (3.0) BS04 LOC 3.6.5.- GO:0000226 ... P81947 38042952
    49 8clb:D (3.0) BS02 LOC ? GO:0000226 ... Q6B856 38042952
    50 8clg:A (2.8) BS04 LOC 3.6.5.- GO:0000226 ... P81947 38042952
    51 8clg:B (2.8) BS02 LOC ? GO:0000226 ... Q6B856 38042952
    52 8clh:A (2.5) BS03 LOC 3.6.5.- GO:0000226 ... P81947 38042952
    53 8clh:B (2.5) BS02 LOC ? GO:0000226 ... Q6B856 38042952
    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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