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BioLiP
Download all results in tab-seperated text for 98 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 1ih7:A (2.21) BS01 GMP 2.7.7.7
    3.1.11.-    		 GO:0000166 ... Q38087 11389835
    2 1je1:A (1.8) BS02 GMP 2.4.2.1
    2.4.2.28    		 GO:0003824 ... P50389 11489901
    3 1je1:B (1.8) BS02 GMP 2.4.2.1
    2.4.2.28    		 GO:0003824 ... P50389 11489901
    4 1je1:C (1.8) BS02 GMP 2.4.2.1
    2.4.2.28    		 GO:0003824 ... P50389 11489901
    5 1je1:D (1.8) BS02 GMP 2.4.2.1
    2.4.2.28    		 GO:0003824 ... P50389 11489901
    6 1je1:E (1.8) BS02 GMP 2.4.2.1
    2.4.2.28    		 GO:0003824 ... P50389 11489901
    7 1je1:F (1.8) BS02 GMP 2.4.2.1
    2.4.2.28    		 GO:0003824 ... P50389 11489901
    8 1odj:A (2.4) BS02 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    PDBbind: -logKd/Ki=4.10, Kd=80uM
    9 1odj:A (2.4) BS03 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    PDBbind: -logKd/Ki=4.10, Kd=80uM
    10 1odj:B (2.4) BS01 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    PDBbind: -logKd/Ki=4.10, Kd=80uM
    11 1odj:B (2.4) BS03 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    PDBbind: -logKd/Ki=4.10, Kd=80uM
    12 1odj:C (2.4) BS02 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    13 1odj:D (2.4) BS02 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    14 1odj:E (2.4) BS02 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    15 1odj:E (2.4) BS03 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    16 1odj:F (2.4) BS01 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    17 1odj:F (2.4) BS03 GMP 2.4.2.3 GO:0003824 ... Q5SID9 15046984 MOAD: Kd=80uM
    18 1rfg:E (2.9) BS01 GMP 2.4.2.1 GO:0000255 ... P00491 15983407
    19 1waf:A (3.2) BS01 GMP 2.7.7.7
    3.1.11.-    		 GO:0000166 ... Q38087 9215631
    20 1waf:B (3.2) BS01 GMP 2.7.7.7
    3.1.11.-    		 GO:0000166 ... Q38087 9215631
    21 2an9:A (2.35) BS02 GMP 2.7.4.8 GO:0004385 ... P60546 16140325
    22 2an9:B (2.35) BS02 GMP 2.7.4.8 GO:0004385 ... P60546 16140325
    23 2fqx:A (1.7) BS01 GMP ? GO:0005886 ... P29724 16418175 MOAD: Kd=71nM
    PDBbind: -logKd/Ki=7.15, Kd=71nM
    24 2qvn:A (2.19) BS01 GMP 3.5.4.31
    3.5.4.4    		 GO:0004000 ... A5KE01 18602399
    25 3cfo:A (2.6) BS01 GMP 2.7.7.7
    3.1.11.-    		 GO:0000166 ... Q38087 N/A
    26 3dmh:A (1.55) BS02 GMP 2.1.1.- GO:0000154 ... Q5SKW0 18667428
    27 3iex:A (2.05) BS01 GMP 2.4.2.1 GO:0003824 ... Q9BMI9 20129792
    28 3iex:C (2.05) BS01 GMP 2.4.2.1 GO:0003824 ... Q9BMI9 20129792
    29 4dt9:A (2.1) BS01 GMP ? GO:0000166 ... O68183 22371504
    30 4dt9:B (2.1) BS01 GMP ? GO:0000166 ... O68183 22371504
    31 4dtb:A (2.1) BS01 GMP ? GO:0000166 ... O68183 22371504
    32 4dtb:B (2.1) BS01 GMP ? GO:0000166 ... O68183 22371504
    33 4i9l:A (2.6) BS01 GMP 2.7.7.7
    3.1.11.-    		 GO:0000166 ... Q38087 24116139
    34 4lc4:A (1.7) BS02 GMP ? GO:0000166 ... Q2KDX6 N/A
    35 4lc4:B (1.7) BS02 GMP ? GO:0000166 ... Q2KDX6 N/A
    36 4pz6:B (2.406) BS02 GMP 2.7.7.50 GO:0003824 ... P40997 24939935
    37 4ucz:B (2.99) BS02 GMP 2.1.1.375
    2.7.7.48
    2.7.7.88    		 N/A Q91L20 26549102
    38 4xba:A (1.5) BS01 GMP 3.6.1.71
    3.6.1.72    		 GO:0003824 ... O74859 26007660
    39 4ykl:B (2.25) BS03 GMP 3.6.1.71
    3.6.1.72    		 GO:0003824 ... O74859 26007660
    40 5gmf:A (2.5) BS02 GMP ? GO:0002224 ... B3Y653 27742543
    41 5gmf:A (2.5) BS03 GMP ? GO:0002224 ... B3Y653 27742543
    42 5gmf:B (2.5) BS02 GMP ? GO:0002224 ... B3Y653 27742543 MOAD: Kd=1uM
    43 5gmf:B (2.5) BS03 GMP ? GO:0002224 ... B3Y653 27742543 MOAD: Kd=1uM
    44 5gmf:C (2.5) BS02 GMP ? GO:0002224 ... B3Y653 27742543 MOAD: Kd=1uM
    45 5gmf:C (2.5) BS03 GMP ? GO:0002224 ... B3Y653 27742543 MOAD: Kd=1uM
    46 5gmf:D (2.5) BS02 GMP ? GO:0002224 ... B3Y653 27742543 MOAD: Kd=1uM
    47 5gmf:D (2.5) BS03 GMP ? GO:0002224 ... B3Y653 27742543 MOAD: Kd=1uM
    48 5igi:A (1.2) BS01 GMP ? GO:0016740 ... Q47396 28416110
    49 5igj:A (1.4) BS01 GMP ? GO:0016740 ... Q47396 28416110
    50 5igs:A (1.38) BS02 GMP ? GO:0016740 ... Q47396 28416110
    51 5igt:A (1.39) BS01 GMP ? GO:0016740 ... Q47396 28416110
    52 5vyr:A (1.7) BS02 GMP 2.1.2.14 GO:0004479 ... F8WJP6 28636341
    53 5vyr:B (1.7) BS02 GMP 2.1.2.14 GO:0004479 ... F8WJP6 28636341
    54 5vyr:B (1.7) BS03 GMP 2.1.2.14 GO:0004479 ... F8WJP6 28636341
    55 5vys:B (2.2) BS03 GMP 2.1.2.14 GO:0004479 ... F8WJP6 28636341
    56 6d9m:A (1.35) BS03 GMP 3.2.1.17 GO:0003796 ... P00720
    Q39UD1    		 30964001
    57 6hyq:A (2.08) BS01 GMP ? GO:0001932 ... Q86RB0 N/A
    58 6hyq:A (2.08) BS02 GMP ? GO:0001932 ... Q86RB0 N/A
    59 6hyq:B (2.08) BS01 GMP ? GO:0001932 ... Q86RB0 N/A
    60 6hyq:B (2.08) BS02 GMP ? GO:0001932 ... Q86RB0 N/A
    61 6hyq:C (2.08) BS01 GMP ? GO:0001932 ... Q86RB0 N/A
    62 6hyq:C (2.08) BS02 GMP ? GO:0001932 ... Q86RB0 N/A
    63 6hyq:D (2.08) BS01 GMP ? GO:0001932 ... Q86RB0 N/A
    64 6hyq:D (2.08) BS02 GMP ? GO:0001932 ... Q86RB0 N/A
    65 6ls1:A (1.58) BS01 GMP ? GO:0003723 ... B1Q4V2 N/A
    66 6vwo:A (1.78) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    67 6vwo:A (1.78) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    68 6vwp:A (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    69 6vwp:A (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    70 6vwp:B (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    71 6vwp:B (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    72 6vwp:C (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    73 6vwp:C (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    74 6vwp:D (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    75 6vwp:D (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    76 6vwp:E (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    77 6vwp:E (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    78 6vwp:F (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    79 6vwp:F (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    80 6vwp:G (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    81 6vwp:G (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    82 6vwp:H (3.45) BS02 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    83 6vwp:H (3.45) BS03 GMP 2.7.1.73 GO:0005515 ... P0AEW6 32857952
    84 6ya3:A (2.28) BS01 GMP ? GO:0005886 ... A0A0H2UPF3 33242497
    85 6ya3:B (2.28) BS01 GMP ? GO:0005886 ... A0A0H2UPF3 33242497
    86 6ya3:C (2.28) BS01 GMP ? GO:0005886 ... A0A0H2UPF3 33242497
    87 6ya3:D (2.28) BS01 GMP ? GO:0005886 ... A0A0H2UPF3 33242497
    88 6yk9:E (1.7) BS01 GMP N/A GO:0019386 ... N/A 32061937
    89 7dc9:A (1.7) BS02 GMP 3.5.4.15 GO:0003824 ... Q94BU8 34477187
    90 7dc9:D (1.7) BS02 GMP 3.5.4.15 GO:0003824 ... Q94BU8 34477187
    91 7dqn:A (2.6) BS01 GMP 3.5.4.15 GO:0003824 ... Q94BU8 36499303
    92 7vnx:A (1.801) BS01 GMP ? N/A Q5JDQ4 35477761
    93 7w05:A (1.29) BS01 GMP ? GO:0003723 ... B1Q4V2 N/A
    94 7w1a:A (2.17) BS01 GMP ? GO:0005525 ... A5Y459 N/A
    95 7w1a:B (2.17) BS01 GMP ? GO:0005525 ... A5Y459 N/A
    96 7x0r:A (1.47) BS01 GMP ? GO:0005886 ... A3DFS3 36069444
    97 7x0r:B (1.47) BS01 GMP ? GO:0005886 ... A3DFS3 36069444
    98 7xxk:E (2.0) BS01 GMP ? GO:0003723 ... P0DTC9 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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