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BioLiP
Download all results in tab-seperated text for 14 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 4wr7:A (1.5) BS02 3TV 4.2.1.1
    4.2.1.69    		 GO:0004064 ... P00915 26079542 MOAD: Kd=0.002nM
    PDBbind: -logKd/Ki=11.70, Kd=0.002nM
    BindingDB: Kd=0.033nM
    2 4wr7:B (1.5) BS02 3TV 4.2.1.1
    4.2.1.69    		 GO:0004064 ... P00915 26079542 MOAD: Kd=0.002nM
    BindingDB: Kd=0.033nM
    3 4ww6:A (1.06) BS02 3TV 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 26079542 MOAD: Kd=0.062nM
    PDBbind: -logKd/Ki=10.21, Kd=0.062nM
    BindingDB: Kd=0.91nM
    4 4ww6:A (1.06) BS03 3TV 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 26079542 MOAD: Kd=0.062nM
    PDBbind: -logKd/Ki=10.21, Kd=0.062nM
    BindingDB: Kd=0.91nM
    5 5lln:A (1.6) BS02 3TV 4.2.1.1 GO:0004089 ... Q8N1Q1 N/A BindingDB: Kd=0.53nM
    6 5lln:B (1.6) BS02 3TV 4.2.1.1 GO:0004089 ... Q8N1Q1 N/A BindingDB: Kd=0.53nM
    7 5msa:A (1.2) BS02 3TV 4.2.1.1 GO:0004089 ... O43570 N/A BindingDB: Kd=19nM, koff=0.025s-1, kon=1300000M-1-s-1
    8 5msa:B (1.2) BS02 3TV 4.2.1.1 GO:0004089 ... O43570 N/A BindingDB: Kd=19nM, koff=0.025s-1, kon=1300000M-1-s-1
    9 5msa:C (1.2) BS02 3TV 4.2.1.1 GO:0004089 ... O43570 N/A BindingDB: Kd=19nM, koff=0.025s-1, kon=1300000M-1-s-1
    10 5msa:D (1.2) BS02 3TV 4.2.1.1 GO:0004089 ... O43570 N/A BindingDB: Kd=19nM, koff=0.025s-1, kon=1300000M-1-s-1
    11 6yha:A (1.25) BS03 3TV 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 33945229 BindingDB: Kd=0.91nM
    12 6yha:A (1.25) BS04 3TV 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 33945229 BindingDB: Kd=0.91nM
    13 7nzs:A (1.5) BS02 3TV 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 N/A
    14 7nzs:A (1.5) BS03 3TV 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 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).
  • 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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