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BioLiP
Download all results in tab-seperated text for 82 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 1b0o:A (2.5) BS01 PLM ? GO:0005515 ... P02754 9867826
    2 1e12:A (1.8) BS02 PLM ? GO:0005216 ... P0DMH7 10827943
    3 1gxa:A (2.35) BS01 PLM ? GO:0005515 ... P02754 12054801
    4 1jtb:A (-1.00) BS02 PLM ? GO:0006869 ... P07597 9032083
    5 1lv2:A (2.7) BS01 PLM ? N/A Q14541 12220494
    6 1o8v:A (1.6) BS01 PLM ? GO:0005504 ... Q02970 12818189
    7 1pq2:A (2.7) BS02 PLM 1.14.14.1 GO:0002933 ... P10632 14676196
    8 1pq2:B (2.7) BS01 PLM 1.14.14.1 GO:0002933 ... P10632 14676196
    9 2e9l:A (1.6) BS02 PLM 3.2.1.21
    3.2.1.45
    3.2.1.46    		 GO:0004336 ... Q9H227 17595169
    10 2e9m:A (1.8) BS02 PLM 3.2.1.21
    3.2.1.45
    3.2.1.46    		 GO:0004336 ... Q9H227 17595169
    11 2fik:A (1.8) BS02 PLM ? N/A P11609 16537470
    12 2iu8:A (2.2) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    13 2iu8:A (2.2) BS03 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    14 2iu8:B (2.2) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    15 2iu8:B (2.2) BS03 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    16 2iu8:C (2.2) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    17 2iu8:C (2.2) BS02 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    18 2iu9:A (3.1) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    19 2iu9:A (3.1) BS03 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    20 2iu9:B (3.1) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    21 2iu9:B (3.1) BS03 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    22 2iu9:C (3.1) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    23 2iu9:C (3.1) BS03 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    24 2iua:A (2.7) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    25 2iua:C (2.7) BS01 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    26 2iua:C (2.7) BS02 PLM 2.3.1.191 GO:0009245 ... P0CD76 17360522
    27 2qzt:A (1.7) BS01 PLM ? GO:0005829 ... Q0GY13 18084051
    28 2qzt:A (1.7) BS02 PLM ? GO:0005829 ... Q0GY13 18084051
    29 2qzt:B (1.7) BS01 PLM ? GO:0005829 ... Q0GY13 18084051
    30 2z6v:A (2.6) BS02 PLM ? N/A A0A0H2ZS19 N/A
    31 3awm:A (1.65) BS02 PLM 1.11.2.4 GO:0004497 ... O24782 21719702
    32 3awp:A (1.8) BS02 PLM 1.11.2.4 GO:0004497 ... O24782 21719702
    33 3awq:A (1.9) BS02 PLM 1.11.2.4 GO:0004497 ... O24782 21719702
    34 3bdq:A (2.0) BS01 PLM ? GO:0005829 ... Q0GY13 18084051
    35 3bdq:A (2.0) BS02 PLM ? GO:0005829 ... Q0GY13 18084051
    36 3bdq:B (2.0) BS01 PLM ? GO:0005829 ... Q0GY13 18084051
    37 3dbx:A (2.0) BS01 PLM ? N/A Q5GL29 19004781
    38 3l1n:A (1.3) BS01 PLM ? N/A O42721 20053994 MOAD: Kd=6.34uM
    PDBbind: -logKd/Ki=5.63, Kd=2.34uM
    39 3qh0:A (2.1) BS02 PLM 1.14.99.1 GO:0001516 ... Q05769 21467029
    40 3stk:A (1.55) BS01 PLM ? GO:0003682 ... P07148 21757748
    41 3stk:A (1.55) BS02 PLM ? GO:0003682 ... P07148 21757748
    42 3stm:X (2.216) BS01 PLM ? GO:0003682 ... P07148 21757748
    43 3uew:A (2.0) BS01 PLM ? GO:0005515 ... P02754 22425630 MOAD: Ka=2043000M^-1
    PDBbind: -logKd/Ki=6.31, Kd=0.49uM
    44 4jgx:A (2.2) BS01 PLM ? GO:0005777 ... P80547 24241823
    45 4jgx:B (2.2) BS01 PLM ? GO:0005777 ... P80547 24241823
    46 4kvl:A (1.96) BS02 PLM 1.13.11.92 GO:0001561 ... Q2QRV3 23934749
    47 4z69:A (2.187) BS02 PLM ? GO:0003677 ... P02768 25958880
    48 4z69:A (2.187) BS04 PLM ? GO:0003677 ... P02768 25958880
    49 4z69:I (2.187) BS02 PLM ? GO:0003677 ... P02768 25958880
    50 4z69:I (2.187) BS04 PLM ? GO:0003677 ... P02768 25958880
    51 4zfb:A (2.84) BS02 PLM 1.14.14.1
    1.6.2.4    		 GO:0004497 ... P14779 27267136
    52 5azb:A (1.6) BS01 PLM 2.5.1.145 GO:0005886 ... P60955 26729647
    53 5azb:A (1.6) BS02 PLM 2.5.1.145 GO:0005886 ... P60955 26729647
    54 5d1w:A (3.59) BS01 PLM ? GO:0000976 ... O05892 26396194 PDBbind: -logKd/Ki=5.12, Kd=7.5uM
    55 5d1w:B (3.59) BS01 PLM ? GO:0000976 ... O05892 26396194
    56 5d1w:C (3.59) BS01 PLM ? GO:0000976 ... O05892 26396194
    57 5d1w:D (3.59) BS01 PLM ? GO:0000976 ... O05892 26396194
    58 5e7x:A (1.8) BS01 PLM ? N/A A8HBN5 30670555
    59 5yb1:A (2.616) BS01 PLM ? GO:0003677 ... P02768 29722993
    60 5yb1:A (2.616) BS02 PLM ? GO:0003677 ... P02768 29722993
    61 5yb1:A (2.616) BS03 PLM ? GO:0003677 ... P02768 29722993
    62 5yb1:A (2.616) BS04 PLM ? GO:0003677 ... P02768 29722993
    63 5yb1:A (2.616) BS05 PLM ? GO:0003677 ... P02768 29722993
    64 5yb1:A (2.616) BS06 PLM ? GO:0003677 ... P02768 29722993
    65 5yb1:A (2.616) BS07 PLM ? GO:0003677 ... P02768 29722993
    66 5yb1:B (2.616) BS01 PLM ? GO:0003677 ... P02768 29722993
    67 5yb1:B (2.616) BS02 PLM ? GO:0003677 ... P02768 29722993
    68 5yb1:B (2.616) BS03 PLM ? GO:0003677 ... P02768 29722993
    69 5yb1:B (2.616) BS04 PLM ? GO:0003677 ... P02768 29722993
    70 5yb1:B (2.616) BS05 PLM ? GO:0003677 ... P02768 29722993
    71 5yb1:B (2.616) BS06 PLM ? GO:0003677 ... P02768 29722993
    72 6kax:A (1.23) BS02 PLM ? GO:0003677 ... Q07869 33205029
    73 6lx6:A (1.3) BS02 PLM ? GO:0003677 ... Q07869 33205029
    74 6ubl:A (1.499) BS01 PLM ? N/A B2BM43 34981769
    75 6ubl:B (1.499) BS01 PLM ? N/A B2BM43 34981769
    76 7a77:A (1.5) BS02 PLM ? GO:0003677 ... P19793 33187070
    77 7a78:A (1.72) BS02 PLM ? GO:0003677 ... P28702 33187070
    78 7a79:A (2.05) BS02 PLM ? GO:0003677 ... P48443 33187070
    79 7a79:B (2.05) BS02 PLM ? GO:0003677 ... P48443 33187070
    80 7bq1:A (1.521) BS02 PLM ? GO:0003677 ... Q07869 33205029
    81 7e25:A (1.6) BS01 PLM ? GO:0005504 ... O15540 34196621
    82 8hdf:A (2.24) BS01 PLM 6.2.1.57 GO:0005524 ... P9WQ47 36896429
    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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