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BioLiP
Download all results in tab-seperated text for 63 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 1u8a:A (2.15) BS02 SKM 2.7.1.71 GO:0000287 ... P9WPY3 15358538
    2 1zui:A (2.3) BS01 SKM 2.7.1.71 GO:0000287 ... P56073 16291688
    3 1zyu:A (2.9) BS02 SKM 2.7.1.71 GO:0000287 ... P9WPY3 16834327
    4 2aa9:A (1.5) BS01 SKM 2.5.1.19 GO:0003824 ... P0A6D3 16225867 PDBbind: -logKd/Ki=2.92, IC50=1.2mM
    BindingDB: IC50=>90000000nM
    5 2aay:A (1.55) BS01 SKM 2.5.1.19 GO:0003824 ... P0A6D3 16225867 MOAD: ic50=1.2mM
    PDBbind: -logKd/Ki=2.92, IC50=1.2mM
    BindingDB: IC50=>90000000nM
    6 2d5c:A (1.65) BS01 SKM 1.1.1.25 GO:0004764 ... Q5SJF8 17825835
    7 2d5c:B (1.65) BS01 SKM 1.1.1.25 GO:0004764 ... Q5SJF8 17825835
    8 2dfn:A (1.93) BS03 SKM 2.7.1.71 GO:0000287 ... P9WPY3 17183161
    9 2ev9:A (1.9) BS01 SKM 1.1.1.25 GO:0004764 ... Q5SJF8 17825835
    10 2ev9:B (1.9) BS01 SKM 1.1.1.25 GO:0004764 ... Q5SJF8 17825835
    11 2g1k:A (1.75) BS01 SKM 2.7.1.71 GO:0000287 ... P9WPY3 16834327
    12 2gpt:A (1.95) BS01 SKM 1.1.1.25
    4.2.1.10    		 GO:0003855 ... Q9SQT8 16784230
    13 2hk9:A (2.2) BS02 SKM 1.1.1.25 GO:0004764 ... O67049 17649975
    14 2hk9:B (2.2) BS02 SKM 1.1.1.25 GO:0004764 ... O67049 17649975
    15 2hk9:C (2.2) BS02 SKM 1.1.1.25 GO:0004764 ... O67049 17649975
    16 2hk9:D (2.2) BS02 SKM 1.1.1.25 GO:0004764 ... O67049 17649975
    17 2iyq:A (1.8) BS01 SKM 2.7.1.71 GO:0000287 ... P9WPY3 17020768
    18 2iyr:A (1.98) BS01 SKM 2.7.1.71 GO:0000287 ... P9WPY3 17020768
    19 2iyr:B (1.98) BS01 SKM 2.7.1.71 GO:0000287 ... P9WPY3 17020768
    20 2iys:A (1.4) BS01 SKM 2.7.1.71 GO:0000287 ... P9WPY3 17020768
    21 2iyx:A (1.49) BS01 SKM 2.7.1.71 GO:0000287 ... P9WPY3 17020768
    22 3baf:A (2.25) BS02 SKM 2.7.1.71 GO:0000287 ... P9WPY3 N/A
    23 3doo:A (2.2) BS01 SKM 1.1.1.25 GO:0004764 ... Q5HNV1 19215302
    24 3jyq:A (1.16) BS02 SKM 1.1.1.-
    1.1.1.24    		 GO:0004764 ... Q9X5C9 23929881
    25 3nvs:A (1.021) BS02 SKM 2.5.1.19 GO:0003824 ... Q9KRB0 N/A
    26 3pgj:A (2.49) BS01 SKM 1.1.1.25 GO:0003674 ... Q9KVT3 N/A
    27 3pgj:B (2.49) BS01 SKM 1.1.1.25 GO:0003674 ... Q9KVT3 N/A
    28 3pgj:C (2.49) BS01 SKM 1.1.1.25 GO:0003674 ... Q9KVT3 N/A
    29 3pgj:D (2.49) BS01 SKM 1.1.1.25 GO:0003674 ... Q9KVT3 N/A
    30 3phh:A (1.42) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    31 3phi:A (2.04) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    32 3phi:B (2.04) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    33 3sef:B (2.4) BS02 SKM 1.1.1.25 GO:0003674 ... Q9KVT3 N/A
    34 3sef:C (2.4) BS01 SKM 1.1.1.25 GO:0003674 ... Q9KVT3 N/A
    35 3slh:A (1.7) BS03 SKM 2.5.1.19 GO:0003824 ... Q83E11 N/A
    36 3slh:B (1.7) BS03 SKM 2.5.1.19 GO:0003824 ... Q83E11 N/A
    37 3slh:C (1.7) BS02 SKM 2.5.1.19 GO:0003824 ... Q83E11 N/A
    38 3slh:D (1.7) BS03 SKM 2.5.1.19 GO:0003824 ... Q83E11 N/A
    39 3t39:D (2.7) BS01 SKM ? GO:0001818 ... Q9GK12 N/A
    40 3tnl:A (1.45) BS02 SKM 1.1.1.25 GO:0004764 ... Q8Y9N5 N/A
    41 3tnl:C (1.45) BS02 SKM 1.1.1.25 GO:0004764 ... Q8Y9N5 N/A
    42 4fos:A (1.72) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    43 4fq8:A (2.07) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    44 4fq8:B (2.07) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    45 4fr5:A (2.2) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    46 4fr5:B (2.2) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    47 4fsh:A (2.85) BS01 SKM 1.1.1.25 GO:0004764 ... P56119 N/A
    48 4guj:A (1.5) BS01 SKM 4.2.1.10 GO:0003855 ... P58687 24437575 PDBbind: -logKd/Ki=3.05, Kd=0.9mM
    49 4guj:B (1.5) BS01 SKM 4.2.1.10 GO:0003855 ... P58687 24437575
    50 4p4g:A (1.7) BS01 SKM 1.1.1.25 GO:0004764 ... I6Y120 N/A
    51 4p4l:A (2.009) BS01 SKM 1.1.1.25 GO:0004764 ... I6Y120 N/A
    52 4p4l:B (2.009) BS01 SKM 1.1.1.25 GO:0004764 ... I6Y120 N/A
    53 4p4l:C (2.009) BS01 SKM 1.1.1.25 GO:0004764 ... I6Y120 N/A
    54 4y0a:A (1.911) BS01 SKM 2.7.1.71 GO:0000287 ... A0A0M3KL09 26249354 PDBbind: -logKd/Ki=2.31, Ki=4950uM
    55 5ted:A (1.889) BS02 SKM ? N/A Q8Y9N7 29530613
    56 5ted:B (1.889) BS01 SKM ? N/A Q8Y9N7 29530613
    57 6bmb:A (2.077) BS01 SKM 1.1.1.25
    4.2.1.10    		 GO:0003855 ... Q9SQT8 29890023
    58 6hqv:A (3.0) BS05 SKM 1.1.1.25
    2.5.1.19
    2.7.1.71
    4.2.1.10
    4.2.3.4    		 GO:0003824 ... G0S061 32632294
    59 6hqv:A (3.0) BS06 SKM 1.1.1.25
    2.5.1.19
    2.7.1.71
    4.2.1.10
    4.2.3.4    		 GO:0003824 ... G0S061 32632294
    60 6hqv:A (3.0) BS07 SKM 1.1.1.25
    2.5.1.19
    2.7.1.71
    4.2.1.10
    4.2.3.4    		 GO:0003824 ... G0S061 32632294
    61 6hqv:B (3.0) BS05 SKM 1.1.1.25
    2.5.1.19
    2.7.1.71
    4.2.1.10
    4.2.3.4    		 GO:0003824 ... G0S061 32632294
    62 6hqv:B (3.0) BS06 SKM 1.1.1.25
    2.5.1.19
    2.7.1.71
    4.2.1.10
    4.2.3.4    		 GO:0003824 ... G0S061 32632294
    63 6hqv:B (3.0) BS07 SKM 1.1.1.25
    2.5.1.19
    2.7.1.71
    4.2.1.10
    4.2.3.4    		 GO:0003824 ... G0S061 32632294
    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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