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BioLiP
Download all results in tab-seperated text for 101 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 1fpp:B (2.75) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 9609683 PDBbind: -logKd/Ki=8.00, Kd=10nM
    2 1ft2:B (3.4) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 9657673
    3 1jcq:A (2.3) BS02 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... P49354 11687658 BindingDB: Kd=2.0nM
    4 1jcq:B (2.3) BS04 FPP 2.5.1.58 GO:0003824 ... P49356 11687658
    5 1jcr:A (2.0) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 11687658
    6 1jcr:B (2.0) BS03 FPP 2.5.1.58 GO:0003824 ... Q02293 11687658
    7 1kzo:B (2.2) BS03 FPP 2.5.1.58 GO:0003824 ... Q02293 12374986 MOAD: Kd=5nM
    8 1ld7:A (2.0) BS02 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... P49354 12036349 BindingDB: Kd=2.0nM
    9 1ld7:B (2.0) BS04 FPP 2.5.1.58 GO:0003824 ... P49356 12036349
    10 1ld8:B (1.8) BS04 FPP 2.5.1.58 GO:0003824 ... P49356 12036349
    11 1mzc:A (2.0) BS02 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... P49354 12825937 BindingDB: Kd=2.0nM
    12 1mzc:B (2.0) BS04 FPP 2.5.1.58 GO:0003824 ... P49356 12825937
    13 1o5m:B (2.3) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 10377218
    14 1s63:A (1.9) BS02 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... P49354 15248757 BindingDB: Kd=2.0nM
    15 1s63:B (1.9) BS04 FPP 2.5.1.58 GO:0003824 ... P49356 15248757
    16 1sa4:A (2.1) BS02 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... P49354 15170324 BindingDB: Kd=2.0nM
    17 1sa4:B (2.1) BS04 FPP 2.5.1.58 GO:0003824 ... P49356 15170324
    18 1sa5:A (2.6) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 15170324
    19 1sa5:B (2.6) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 15170324
    20 1t0a:A (1.6) BS02 FPP 4.6.1.12 GO:0008299 ... Q8EBR3 15502301
    21 1t0a:B (1.6) BS01 FPP 4.6.1.12 GO:0008299 ... Q8EBR3 15502301
    22 1t0a:C (1.6) BS01 FPP 4.6.1.12 GO:0008299 ... Q8EBR3 15502301
    23 1ubx:A (2.5) BS02 FPP 2.5.1.1
    2.5.1.10    		 GO:0004161 ... P08836 8986756
    24 1v7u:A (2.35) BS01 FPP 2.5.1.31 GO:0000287 ... P60472 15044730
    25 1v7u:A (2.35) BS02 FPP 2.5.1.31 GO:0000287 ... P60472 15044730
    26 2bed:B (2.7) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 16298128
    27 2e90:A (2.55) BS03 FPP 2.5.1.-
    2.5.1.1
    2.5.1.10
    2.5.1.29    		 GO:0004161 ... Q12051 17535895
    28 2e90:B (2.55) BS03 FPP 2.5.1.-
    2.5.1.1
    2.5.1.10
    2.5.1.29    		 GO:0004161 ... Q12051 17535895
    29 2f0y:A (2.7) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... P49354 N/A BindingDB: Kd=2.0nM
    30 2f0y:B (2.7) BS02 FPP 2.5.1.58 GO:0003824 ... P49356 N/A
    31 2r2l:B (2.23) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 17606674
    32 2vg1:B (1.7) BS01 FPP 2.5.1.68 GO:0016765 ... P9WFF5 18597781
    33 2zir:A (2.4) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 19217288
    34 2zir:B (2.4) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 19217288
    35 2zis:A (2.6) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 19217288
    36 2zis:B (2.6) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 19217288
    37 3aq0:A (2.65) BS03 FPP 2.5.1.85 GO:0004659 ... Q5HZ00 21220764
    38 3aq0:B (2.65) BS02 FPP 2.5.1.85 GO:0004659 ... Q5HZ00 21220764
    39 3aq0:C (2.65) BS03 FPP 2.5.1.85 GO:0004659 ... Q5HZ00 21220764
    40 3aq0:E (2.65) BS03 FPP 2.5.1.85 GO:0004659 ... Q5HZ00 21220764
    41 3aq0:G (2.65) BS02 FPP 2.5.1.85 GO:0004659 ... Q5HZ00 21220764
    42 3aq0:H (2.65) BS03 FPP 2.5.1.85 GO:0004659 ... Q5HZ00 21220764
    43 3bnx:A (2.1) BS01 FPP 4.2.3.9 GO:0016829 ... Q9UR08 18385128
    44 3bnx:B (2.1) BS01 FPP 4.2.3.9 GO:0016829 ... Q9UR08 18385128
    45 3bnx:C (2.1) BS01 FPP 4.2.3.9 GO:0016829 ... Q9UR08 18385128
    46 3dpy:A (2.7) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 18844669
    47 3dpy:B (2.7) BS03 FPP 2.5.1.58 GO:0003824 ... Q02293 18844669
    48 3dsu:B (1.9) BS01 FPP 2.5.1.60 GO:0003824 ... Q08603 18756270 MOAD: Kd=94nM
    PDBbind: -logKd/Ki=7.03, Kd=94nM
    49 3e30:B (2.45) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 19246009
    50 3e32:B (2.45) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 19246009
    51 3e33:A (1.9) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 19246009
    52 3e33:B (1.9) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 19246009
    53 3e34:A (2.05) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 19246009
    54 3e34:B (2.05) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 19246009
    55 3ksq:B (2.1) BS03 FPP 2.5.1.58 GO:0003824 ... Q02293 20056542
    56 3pz4:B (2.1) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 21520375
    57 3q7a:B (2.0) BS08 FPP N/A GO:0003824 ... N/A 21816822
    58 3q7f:B (2.2) BS07 FPP N/A GO:0003824 ... N/A 21816822
    59 4gtm:B (2.2) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 22963166
    60 4gto:B (2.15) BS03 FPP 2.5.1.58 GO:0003824 ... Q02293 22963166
    61 4gtp:B (2.75) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 22963166
    62 4gtq:B (2.6) BS02 FPP 2.5.1.58 GO:0003824 ... Q02293 22963166
    63 4gtr:A (2.2) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... Q04631 22963166
    64 4gtr:B (2.2) BS03 FPP 2.5.1.58 GO:0003824 ... Q02293 22963166
    65 4h8e:A (1.3) BS01 FPP 2.5.1.- GO:0000287 ... P60477 23248302
    66 4lnb:B (1.752) BS01 FPP 2.5.1.58 GO:0003824 ... Q4WPS9 24347326
    67 4lng:B (1.905) BS03 FPP 2.5.1.58 GO:0003824 ... Q4WPS9 24347326
    68 4mbg:B (1.74) BS01 FPP 2.5.1.58 GO:0003824 ... Q4WPS9 24347326
    69 4q9m:A (2.06) BS02 FPP 2.5.1.- GO:0000287 ... Q8DRB3 25287857
    70 4q9m:B (2.06) BS02 FPP 2.5.1.- GO:0000287 ... Q8DRB3 25287857
    71 5ik0:A (2.2) BS03 FPP 4.2.3.61 GO:0000287 ... Q40577 27328867
    72 5ja0:F (1.9) BS02 FPP 2.5.1.1
    2.5.1.10    		 GO:0004659 ... P14324 28098152 MOAD: Kd=5.3uM
    PDBbind: -logKd/Ki=5.22, Kd=6uM
    73 5kh4:A (3.2) BS01 FPP 2.5.1.- GO:0000287 ... Q97SR4 27379833
    74 5kh4:B (3.2) BS01 FPP 2.5.1.- GO:0000287 ... Q97SR4 27379833
    75 6a2c:A (1.94) BS01 FPP ? GO:0000287 ... A0A0A0RCB5 N/A
    76 6a2c:B (1.94) BS01 FPP ? GO:0000287 ... A0A0A0RCB5 N/A
    77 6lcd:A (2.7) BS01 FPP N/A N/A N/A N/A
    78 6lcd:B (2.7) BS01 FPP N/A N/A N/A N/A
    79 6ob5:B (2.208) BS03 FPP ? GO:0008643 ... P0AEX9 31754004
    80 6ob5:D (2.208) BS01 FPP N/A N/A N/A 31754004 MOAD: Kd=6.1uM
    81 6z1n:A (2.3) BS01 FPP 2.5.1.87 GO:0002094 ... Q86SQ9 33077723
    82 7t08:B (1.803) BS06 FPP 2.5.1.58 GO:0003824 ... T2BPA1 36218371
    83 7t09:B (1.984) BS06 FPP 2.5.1.58 GO:0003824 ... T2BPA1 36218371
    84 7t0b:B (2.026) BS06 FPP 2.5.1.58 GO:0003824 ... T2BPA1 36218371
    85 7t0c:B (1.903) BS06 FPP 2.5.1.58 GO:0003824 ... T2BPA1 36218371
    86 7t0d:B (1.906) BS06 FPP 2.5.1.58 GO:0003824 ... T2BPA1 36218371
    87 7t0e:A (2.223) BS01 FPP 2.5.1.58
    2.5.1.59    		 GO:0004659 ... J9VSJ6 36218371
    88 7t0e:B (2.223) BS05 FPP 2.5.1.58 GO:0003824 ... T2BPA1 36218371
    89 7vqb:A (2.11) BS02 FPP ? GO:0016094 ... Q8TPS4 35764165
    90 7vqb:B (2.11) BS02 FPP ? GO:0016094 ... Q8TPS4 35764165
    91 7vqd:A (2.39) BS01 FPP ? GO:0016094 ... Q8TPS4 35764165
    92 7w5i:A (2.13) BS01 FPP 4.2.3.-
    4.2.3.104
    4.2.3.137
    4.2.3.157
    4.2.3.182
    4.2.3.57    		 GO:0016829 ... A0A5S9I252 35504416
    93 7w5i:B (2.13) BS01 FPP 4.2.3.-
    4.2.3.104
    4.2.3.137
    4.2.3.157
    4.2.3.182
    4.2.3.57    		 GO:0016829 ... A0A5S9I252 35504416
    94 7w5j:B (2.05) BS01 FPP 4.2.3.-
    4.2.3.104
    4.2.3.137
    4.2.3.157
    4.2.3.182
    4.2.3.57    		 GO:0016829 ... A0A5S9I252 35504416
    95 7xr7:A (1.63) BS01 FPP ? GO:0003824 ... A0A2P2GK84 36416740
    96 7xra:A (1.95) BS01 FPP ? GO:0003824 ... A0A2P2GK84 36416740
    97 8bm3:A (3.5) BS01 FPP 3.1.3.27
    3.1.3.4
    3.6.1.27
    3.6.1.75    		 GO:0000810 ... P0A924 N/A
    98 8bm3:B (3.5) BS01 FPP 3.1.3.27
    3.1.3.4
    3.6.1.27
    3.6.1.75    		 GO:0000810 ... P0A924 N/A
    99 8bm3:C (3.5) BS01 FPP 3.1.3.27
    3.1.3.4
    3.6.1.27
    3.6.1.75    		 GO:0000810 ... P0A924 N/A
    100 8bm3:D (3.5) BS01 FPP 3.1.3.27
    3.1.3.4
    3.6.1.27
    3.6.1.75    		 GO:0000810 ... P0A924 N/A
    101 8e9e:B (2.844) BS01 FPP 2.5.1.58 GO:0003824 ... Q02293 36218371
    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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