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BioLiP
Download all results in tab-seperated text for 71 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 6vyr:0 (3.8) BS01 rna ? GO:0002181 ... P0AG48 32820061
    2 6vyr:1 (3.8) BS01 rna ? GO:0002181 ... P61175 32820061
    3 6vyr:2 (3.8) BS01 rna ? GO:0000027 ... P0ADZ0 32820061
    4 6vyr:3 (3.8) BS01 rna ? GO:0000027 ... P60624 32820061
    5 6vyr:4 (3.8) BS01 rna ? GO:0000027 ... P68919 32820061
    6 6vyr:9 (3.8) BS01 rna ? GO:0002181 ... P0A7J3 32820061
    7 6vyr:AA (3.8) BS01 dna 2.7.7.6 GO:0000345 ... P0A8V2 32820061
    8 6vyr:AA (3.8) BS02 dna 2.7.7.6 GO:0000345 ... P0A8V2 32820061
    9 6vyr:AA (3.8) BS03 rna 2.7.7.6 GO:0000345 ... P0A8V2 32820061
    10 6vyr:AA (3.8) BS04 rna 2.7.7.6 GO:0000345 ... P0A8V2 32820061
    11 6vyr:AB (3.8) BS01 dna ? GO:0005515 ... P0AFG0 32820061
    12 6vyr:AE (3.8) BS01 dna 2.7.7.6 GO:0000287 ... P0A8T7 32820061
    13 6vyr:AE (3.8) BS02 dna 2.7.7.6 GO:0000287 ... P0A8T7 32820061
    14 6vyr:AE (3.8) BS03 rna 2.7.7.6 GO:0000287 ... P0A8T7 32820061
    15 6vyr:AE (3.8) BS04 MG 2.7.7.6 GO:0000287 ... P0A8T7 32820061
    16 6vyr:AE (3.8) BS05 ZN 2.7.7.6 GO:0000287 ... P0A8T7 32820061
    17 6vyr:AE (3.8) BS06 ZN 2.7.7.6 GO:0000287 ... P0A8T7 32820061
    18 6vyr:C (3.8) BS01 rna ? GO:0002181 ... P0A7T7 32820061
    19 6vyr:E (3.8) BS01 rna ? GO:0000028 ... P0A7U7 32820061
    20 6vyr:F (3.8) BS01 rna ? GO:0000028 ... P68679 32820061
    21 6vyr:G (3.8) BS01 rna ? GO:0000028 ... P0A7V0 32820061
    22 6vyr:I (3.8) BS01 rna ? GO:0000028 ... P0A7V3 32820061
    23 6vyr:J (3.8) BS01 rna ? GO:0000028 ... P0A7V8 32820061
    24 6vyr:K (3.8) BS01 rna ? GO:0000028 ... P0A7W1 32820061
    25 6vyr:K (3.8) BS02 rna ? GO:0000028 ... P0A7W1 32820061
    26 6vyr:L (3.8) BS01 rna ? GO:0002181 ... P02358 32820061
    27 6vyr:M (3.8) BS01 rna ? GO:0000028 ... P02359 32820061
    28 6vyr:M (3.8) BS02 rna ? GO:0000028 ... P02359 32820061
    29 6vyr:N (3.8) BS01 rna ? GO:0000028 ... P0A7W7 32820061
    30 6vyr:O (3.8) BS01 rna ? GO:0000049 ... P0A7X3 32820061
    31 6vyr:P (3.8) BS01 rna ? GO:0000049 ... P0A7R5 32820061
    32 6vyr:Q (3.8) BS01 rna ? GO:0002181 ... P0A7R9 32820061
    33 6vyr:R (3.8) BS01 rna ? GO:0000049 ... P0A7S3 32820061
    34 6vyr:S (3.8) BS01 rna ? GO:0000028 ... P0AG59 32820061
    35 6vyr:T (3.8) BS01 rna ? GO:0000028 ... P0ADZ4 32820061
    36 6vyr:T (3.8) BS02 rna ? GO:0000028 ... P0ADZ4 32820061
    37 6vyr:U (3.8) BS01 rna ? GO:0000028 ... P0A7T3 32820061
    38 6vyr:V (3.8) BS01 rna ? GO:0000028 ... P0AG63 32820061
    39 6vyr:W (3.8) BS01 rna ? GO:0000028 ... P0A7U3 32820061
    40 6vyr:X (3.8) BS01 rna ? GO:0000049 ... P0A7S9 32820061
    41 6vyr:X (3.8) BS02 rna ? GO:0000049 ... P0A7S9 32820061
    42 6vyr:b (3.8) BS01 rna ? GO:0000027 ... P0A7L8 32820061
    43 6vyr:b (3.8) BS02 rna ? GO:0000027 ... P0A7L8 32820061
    44 6vyr:c (3.8) BS01 rna ? GO:0000027 ... P0A7M2 32820061
    45 6vyr:e (3.8) BS01 rna ? GO:0000027 ... P0A7M6 32820061
    46 6vyr:f (3.8) BS01 rna ? GO:0000027 ... P0AG51 32820061
    47 6vyr:f (3.8) BS02 rna ? GO:0000027 ... P0AG51 32820061
    48 6vyr:g (3.8) BS01 rna ? GO:0002181 ... P0A7M9 32820061
    49 6vyr:h (3.8) BS01 rna ? GO:0000027 ... P60422 32820061
    50 6vyr:i (3.8) BS01 rna ? GO:0000027 ... P0A7N4 32820061
    51 6vyr:j (3.8) BS01 rna ? GO:0000027 ... P60438 32820061
    52 6vyr:k (3.8) BS01 rna ? GO:0000027 ... P0A7N9 32820061
    53 6vyr:l (3.8) BS01 rna ? GO:0001070 ... P60723 32820061
    54 6vyr:m (3.8) BS01 rna ? GO:0002181 ... P0A7P5 32820061
    55 6vyr:n (3.8) BS01 rna ? GO:0000027 ... P62399 32820061
    56 6vyr:n (3.8) BS02 rna ? GO:0000027 ... P62399 32820061
    57 6vyr:o (3.8) BS01 rna ? GO:0002181 ... P0A7Q1 32820061
    58 6vyr:p (3.8) BS01 rna ? GO:0000027 ... P0AG55 32820061
    59 6vyr:q (3.8) BS01 rna ? GO:0002181 ... P0A7Q6 32820061
    60 6vyr:r (3.8) BS01 rna ? GO:0002181 ... P0A7R1 32820061
    61 6vyr:s (3.8) BS01 rna ? GO:0002181 ... P0AA10 32820061
    62 6vyr:t (3.8) BS01 rna ? GO:0002181 ... P0ADY3 32820061
    63 6vyr:t (3.8) BS02 rna ? GO:0002181 ... P0ADY3 32820061
    64 6vyr:u (3.8) BS01 rna ? GO:0002181 ... P02413 32820061
    65 6vyr:v (3.8) BS01 rna ? GO:0000027 ... P0ADY7 32820061
    66 6vyr:v (3.8) BS02 rna ? GO:0000027 ... P0ADY7 32820061
    67 6vyr:w (3.8) BS01 rna ? GO:0000027 ... P0AG44 32820061
    68 6vyr:x (3.8) BS01 rna ? GO:0002181 ... P0C018 32820061
    69 6vyr:x (3.8) BS02 rna ? GO:0002181 ... P0C018 32820061
    70 6vyr:y (3.8) BS01 rna ? GO:0000027 ... P0A7K6 32820061
    71 6vyr:z (3.8) BS01 rna ? GO:0000027 ... P0A7L3 32820061
    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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