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BioLiP
Download all results in tab-seperated text for 594392 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
    89001 3j16:B (7.2) BS01 rna ? GO:0000054 ... Q03195 22358840
    89002 3j16:B (7.2) BS02 rna ? GO:0000054 ... Q03195 22358840
    89003 3j16:B (7.2) BS03 MG ? GO:0000054 ... Q03195 22358840
    89004 3j16:B (7.2) BS04 ATP ? GO:0000054 ... Q03195 22358840
    89005 3j16:B (7.2) BS05 SF4 ? GO:0000054 ... Q03195 22358840
    89006 3j16:B (7.2) BS06 SF4 ? GO:0000054 ... Q03195 22358840
    89007 3j16:C (7.2) BS01 rna ? GO:0000462 ... P0CX37 22358840
    89008 3j16:D (7.2) BS01 rna ? GO:0000462 ... P0CX31 22358840
    89009 3j16:E (7.2) BS01 rna ? GO:0002181 ... P0CX33 22358840
    89010 3j16:F (7.2) BS01 rna ? GO:0002181 ... P05738 22358840
    89011 3j16:G (7.2) BS01 rna ? GO:0000027 ... P05317 22358840
    89012 3j16:H (7.2) BS01 rna ? GO:0000027 ... P0CX53 22358840
    89013 3j16:I (7.2) BS01 rna ? GO:0002181 ... P0CX41 22358840
    89014 3j1o:I (16.0) BS01 peptide ? GO:0003712 ... P32569 22579255
    89015 3j1o:J (16.0) BS01 peptide ? GO:0000122 ... P38304 22579255
    89016 3j2t:A (9.5) BS01 ATP ? GO:0000166 ... O14727 23521171
    89017 3j2t:B (9.5) BS01 ATP ? GO:0000166 ... O14727 23521171
    89018 3j2t:C (9.5) BS01 ATP ? GO:0000166 ... O14727 23521171
    89019 3j2t:D (9.5) BS01 ATP ? GO:0000166 ... O14727 23521171
    89020 3j2t:E (9.5) BS01 ATP ? GO:0000166 ... O14727 23521171
    89021 3j2t:F (9.5) BS01 ATP ? GO:0000166 ... O14727 23521171
    89022 3j2t:G (9.5) BS01 ATP ? GO:0000166 ... O14727 23521171
    89023 3j2t:H (9.5) BS01 HEM ? GO:0005739 ... P62894 23521171
    89024 3j2t:I (9.5) BS01 HEM ? GO:0005739 ... P62894 23521171
    89025 3j2t:J (9.5) BS01 HEM ? GO:0005739 ... P62894 23521171
    89026 3j2t:K (9.5) BS01 HEM ? GO:0005739 ... P62894 23521171
    89027 3j2t:L (9.5) BS01 HEM ? GO:0005739 ... P62894 23521171
    89028 3j2t:M (9.5) BS01 HEM ? GO:0005739 ... P62894 23521171
    89029 3j2t:N (9.5) BS01 HEM ? GO:0005739 ... P62894 23521171
    89030 3j3v:0 (13.3) BS01 rna ? GO:0003735 ... O34687 23700310
    89031 3j3v:2 (13.3) BS01 rna ? GO:0003735 ... P05647 23700310
    89032 3j3v:5 (13.3) BS01 rna ? GO:0000049 ... Q06797 23700310
    89033 3j3v:6 (13.3) BS01 rna ? GO:0003735 ... Q06796 23700310
    89034 3j3v:C (13.3) BS01 rna ? GO:0002181 ... P42919 23700310
    89035 3j3v:D (13.3) BS01 rna ? GO:0003735 ... P42920 23700310
    89036 3j3v:E (13.3) BS01 rna ? GO:0003735 ... P42921 23700310
    89037 3j3v:F (13.3) BS01 rna ? GO:0000049 ... P12877 23700310
    89038 3j3v:F (13.3) BS02 rna ? GO:0000049 ... P12877 23700310
    89039 3j3v:G (13.3) BS01 rna ? GO:0002181 ... P46898 23700310
    89040 3j3v:J (13.3) BS01 rna ? GO:0003729 ... P70974 23700310
    89041 3j3v:K (13.3) BS01 rna ? GO:0003735 ... P12875 23700310
    89042 3j3v:L (13.3) BS01 rna ? GO:0003735 ... P19946 23700310
    89043 3j3v:N (13.3) BS01 rna ? GO:0003735 ... P20277 23700310
    89044 3j3v:O (13.3) BS01 rna ? GO:0003735 ... P46899 23700310
    89045 3j3v:O (13.3) BS02 rna ? GO:0003735 ... P46899 23700310
    89046 3j3v:P (13.3) BS01 rna ? GO:0003735 ... O31742 23700310
    89047 3j3v:Q (13.3) BS01 rna ? GO:0000027 ... P55873 23700310
    89048 3j3v:R (13.3) BS01 rna ? GO:0003723 ... P26908 23700310
    89049 3j3v:S (13.3) BS01 rna ? GO:0003735 ... P42060 23700310
    89050 3j3v:T (13.3) BS01 rna ? GO:0000027 ... P42924 23700310
    89051 3j3v:U (13.3) BS01 rna ? GO:0003677 ... P0CI78 23700310
    89052 3j3v:X (13.3) BS01 rna ? GO:0003735 ... P12873 23700310
    89053 3j3v:Y (13.3) BS01 rna ? GO:0003735 ... P19947 23700310
    89054 3j3w:0 (10.7) BS01 rna ? GO:0003735 ... O34687 23700310
    89055 3j3w:2 (10.7) BS01 rna ? GO:0003735 ... P05647 23700310
    89056 3j3w:5 (10.7) BS01 rna ? GO:0000049 ... Q06797 23700310
    89057 3j3w:6 (10.7) BS01 rna ? GO:0003735 ... Q06796 23700310
    89058 3j3w:C (10.7) BS01 rna ? GO:0002181 ... P42919 23700310
    89059 3j3w:D (10.7) BS01 rna ? GO:0003735 ... P42920 23700310
    89060 3j3w:E (10.7) BS01 rna ? GO:0003735 ... P42921 23700310
    89061 3j3w:G (10.7) BS01 rna ? GO:0002181 ... P46898 23700310
    89062 3j3w:J (10.7) BS01 rna ? GO:0003729 ... P70974 23700310
    89063 3j3w:K (10.7) BS01 rna ? GO:0003735 ... P12875 23700310
    89064 3j3w:L (10.7) BS01 rna ? GO:0003735 ... P19946 23700310
    89065 3j3w:N (10.7) BS01 rna ? GO:0003735 ... P20277 23700310
    89066 3j3w:P (10.7) BS01 rna ? GO:0003735 ... O31742 23700310
    89067 3j3w:Q (10.7) BS01 rna ? GO:0000027 ... P55873 23700310
    89068 3j3w:R (10.7) BS01 rna ? GO:0003723 ... P26908 23700310
    89069 3j3w:S (10.7) BS01 rna ? GO:0003735 ... P42060 23700310
    89070 3j3w:T (10.7) BS01 rna ? GO:0000027 ... P42924 23700310
    89071 3j3w:U (10.7) BS01 rna ? GO:0003677 ... P0CI78 23700310
    89072 3j3w:X (10.7) BS01 rna ? GO:0003735 ... P12873 23700310
    89073 3j41:E (25.0) BS01 CA ? GO:0000086 ... P0DP23 23893133
    89074 3j41:E (25.0) BS02 CA ? GO:0000086 ... P0DP23 23893133
    89075 3j41:E (25.0) BS03 CA ? GO:0000086 ... P0DP23 23893133
    89076 3j41:E (25.0) BS04 CA ? GO:0000086 ... P0DP23 23893133
    89077 3j41:F (25.0) BS01 CA ? GO:0000086 ... P0DP23 23893133
    89078 3j41:F (25.0) BS02 CA ? GO:0000086 ... P0DP23 23893133
    89079 3j41:F (25.0) BS03 CA ? GO:0000086 ... P0DP23 23893133
    89080 3j41:F (25.0) BS04 CA ? GO:0000086 ... P0DP23 23893133
    89081 3j45:T (9.5) BS01 rna ? GO:0000027 ... P0ADZ0 24153188
    89082 3j45:T (9.5) BS02 rna ? GO:0000027 ... P0ADZ0 24153188
    89083 3j45:U (9.5) BS01 rna ? GO:0000027 ... P60624 24153188
    89084 3j45:Y (9.5) BS01 rna ? GO:0000027 ... P0A7M6 24153188
    89085 3j45:y (9.5) BS01 rna ? GO:0005048 ... P0AGA2 24153188
    89086 3j45:y (9.5) BS02 rna ? GO:0005048 ... P0AGA2 24153188
    89087 3j46:5 (10.1) BS01 rna ? GO:0000027 ... P0A7L0 24153188
    89088 3j46:T (10.1) BS01 rna ? GO:0000027 ... P0ADZ0 24153188
    89089 3j46:T (10.1) BS02 rna ? GO:0000027 ... P0ADZ0 24153188
    89090 3j46:U (10.1) BS01 rna ? GO:0000027 ... P60624 24153188
    89091 3j46:Y (10.1) BS01 rna ? GO:0000027 ... P0A7M6 24153188
    89092 3j46:y (10.1) BS01 rna ? GO:0005048 ... P0AGA2 24153188
    89093 3j46:y (10.1) BS02 rna ? GO:0005048 ... P0AGA2 24153188
    89094 3j4k:A (8.0) BS01 ADP 3.6.4.- GO:0000287 ... P68135 24021812
    89095 3j4k:B (8.0) BS01 ADP 3.6.4.- GO:0000287 ... P68135 24021812
    89096 3j4k:C (8.0) BS01 ADP 3.6.4.- GO:0000287 ... P68135 24021812
    89097 3j4k:D (8.0) BS01 ADP 3.6.4.- GO:0000287 ... P68135 24021812
    89098 3j4k:E (8.0) BS01 ADP 3.6.4.- GO:0000287 ... P68135 24021812
    89099 3j4p:A (4.8) BS01 YYJ ? GO:0005198 ... P03135 24036405
    89100 3j4s:A (6.8) BS01 GDP 3.6.5.- GO:0003924 ... Q8KNP3 24550513
    89101 3j5l:0 (6.6) BS01 rna ? GO:0000027 ... P0A7N4 24662426
    89102 3j5l:1 (6.6) BS01 rna ? GO:0000027 ... P0A7N9 24662426
    89103 3j5l:2 (6.6) BS01 rna ? GO:0002181 ... P0A7P5 24662426
    89104 3j5l:3 (6.6) BS01 rna ? GO:0002181 ... P0A7Q1 24662426
    89105 3j5l:4 (6.6) BS01 rna ? GO:0002181 ... P0A7Q6 24662426
    89106 3j5l:C (6.6) BS01 rna ? GO:0000027 ... P60422 24662426
    89107 3j5l:D (6.6) BS01 rna ? GO:0000027 ... P60438 24662426
    89108 3j5l:E (6.6) BS01 rna ? GO:0001070 ... P60723 24662426
    89109 3j5l:F (6.6) BS01 rna ? GO:0000027 ... P62399 24662426
    89110 3j5l:F (6.6) BS02 rna ? GO:0000027 ... P62399 24662426
    89111 3j5l:G (6.6) BS01 rna ? GO:0000027 ... P0AG55 24662426
    89112 3j5l:H (6.6) BS01 rna ? GO:0003735 ... P0A7R1 24662426
    89113 3j5l:I (6.6) BS01 rna ? GO:0000027 ... P0A7J7 24662426
    89114 3j5l:J (6.6) BS01 rna ? GO:0002181 ... P0AA10 24662426
    89115 3j5l:K (6.6) BS01 rna ? GO:0002181 ... P0ADY3 24662426
    89116 3j5l:L (6.6) BS01 rna ? GO:0002181 ... P02413 24662426
    89117 3j5l:M (6.6) BS01 rna ? GO:0000027 ... P0ADY7 24662426
    89118 3j5l:M (6.6) BS02 rna ? GO:0000027 ... P0ADY7 24662426
    89119 3j5l:N (6.6) BS01 rna ? GO:0000027 ... P0AG44 24662426
    89120 3j5l:O (6.6) BS01 rna ? GO:0002181 ... P0C018 24662426
    89121 3j5l:O (6.6) BS02 rna ? GO:0002181 ... P0C018 24662426
    89122 3j5l:P (6.6) BS01 rna ? GO:0000027 ... P0A7K6 24662426
    89123 3j5l:Q (6.6) BS01 rna ? GO:0000027 ... P0A7L3 24662426
    89124 3j5l:R (6.6) BS01 rna ? GO:0002181 ... P0AG48 24662426
    89125 3j5l:S (6.6) BS01 rna ? GO:0002181 ... P61175 24662426
    89126 3j5l:T (6.6) BS01 rna ? GO:0000027 ... P0ADZ0 24662426
    89127 3j5l:U (6.6) BS01 rna ? GO:0000027 ... P60624 24662426
    89128 3j5l:V (6.6) BS01 rna ? GO:0000027 ... P68919 24662426
    89129 3j5l:V (6.6) BS02 rna ? GO:0000027 ... P68919 24662426
    89130 3j5l:W (6.6) BS01 rna ? GO:0000027 ... P0A7L8 24662426
    89131 3j5l:X (6.6) BS01 rna ? GO:0000027 ... P0A7M2 24662426
    89132 3j5l:Y (6.6) BS01 rna ? GO:0000027 ... P0A7M6 24662426
    89133 3j5l:Z (6.6) BS01 rna ? GO:0000027 ... P0AG51 24662426
    89134 3j5l:Z (6.6) BS02 rna ? GO:0000027 ... P0AG51 24662426
    89135 3j5s:D (7.5) BS01 rna 3.6.1.- GO:0000049 ... P0A9W3 24389465
    89136 3j5s:D (7.5) BS02 rna 3.6.1.- GO:0000049 ... P0A9W3 24389465
    89137 3j5s:D (7.5) BS03 rna 3.6.1.- GO:0000049 ... P0A9W3 24389465
    89138 3j5s:F (7.5) BS01 rna ? GO:0000027 ... P0A7L0 24389465
    89139 3j5s:I (7.5) BS01 rna ? GO:0003723 ... P02359 24389465
    89140 3j5v:a (7.1) BS01 GDP 3.6.5.- GO:0003924 ... B3FK34 24631461
    89141 3j5y:A (9.7) BS01 rna ? GO:0000184 ... P62495 24335085
    89142 3j5y:A (9.7) BS02 rna ? GO:0000184 ... P62495 24335085
    89143 3j6b:0 (3.2) BS01 rna ? GO:0003735 ... O14464 24675956
    89144 3j6b:0 (3.2) BS02 ZN ? GO:0003735 ... O14464 24675956
    89145 3j6b:1 (3.2) BS01 rna ? GO:0003735 ... Q06678 24675956
    89146 3j6b:2 (3.2) BS01 rna ? GO:0003735 ... P36527 24675956
    89147 3j6b:3 (3.2) BS01 rna ? GO:0003735 ... P36526 24675956
    89148 3j6b:4 (3.2) BS01 rna ? GO:0000002 ... Q06090 24675956
    89149 3j6b:5 (3.2) BS01 rna ? GO:0003723 ... P36516 24675956
    89150 3j6b:6 (3.2) BS01 rna ? GO:0003735 ... P36528 24675956
    89151 3j6b:7 (3.2) BS01 rna ? GO:0003735 ... P25642 24675956
    89152 3j6b:8 (3.2) BS01 rna ? GO:0003735 ... Q02204 24675956
    89153 3j6b:9 (3.2) BS01 rna ? GO:0003735 ... P36523 24675956
    89154 3j6b:B (3.2) BS01 rna ? GO:0003723 ... P32611 24675956
    89155 3j6b:C (3.2) BS01 rna ? GO:0003735 ... P31334 24675956
    89156 3j6b:D (3.2) BS01 rna ? GO:0003735 ... P51998 24675956
    89157 3j6b:E (3.2) BS01 rna ? GO:0003723 ... P36519 24675956
    89158 3j6b:F (3.2) BS01 rna ? GO:0003735 ... P32904 24675956
    89159 3j6b:G (3.2) BS01 rna ? GO:0003735 ... P53724 24675956
    89160 3j6b:H (3.2) BS01 rna ? GO:0003729 ... Q12487 24675956
    89161 3j6b:I (3.2) BS01 rna ? GO:0003735 ... P35996 24675956
    89162 3j6b:J (3.2) BS01 rna ? GO:0003735 ... P36520 24675956
    89163 3j6b:K (3.2) BS01 rna ? GO:0003735 ... P38064 24675956
    89164 3j6b:L (3.2) BS01 rna ? GO:0003735 ... P22353 24675956
    89165 3j6b:M (3.2) BS01 rna ? GO:0003735 ... P25626 24675956
    89166 3j6b:N (3.2) BS01 rna ? GO:0003735 ... P40858 24675956
    89167 3j6b:O (3.2) BS01 rna ? GO:0003735 ... P53881 24675956
    89168 3j6b:P (3.2) BS01 rna ? GO:0003735 ... P32387 24675956
    89169 3j6b:Q (3.2) BS01 rna ? GO:0003735 ... P36534 24675956
    89170 3j6b:R (3.2) BS01 rna ? GO:0003735 ... P12687 24675956
    89171 3j6b:S (3.2) BS01 rna ? GO:0003735 ... P36525 24675956
    89172 3j6b:T (3.2) BS01 rna ? GO:0003735 ... P36517 24675956
    89173 3j6b:U (3.2) BS01 rna ? GO:0003735 ... P20084 24675956
    89174 3j6b:V (3.2) BS01 rna ? GO:0003735 ... P36531 24675956
    89175 3j6b:W (3.2) BS01 rna ? GO:0003735 ... P25348 24675956
    89176 3j6b:W (3.2) BS02 ZN ? GO:0003735 ... P25348 24675956
    89177 3j6b:X (3.2) BS01 rna ? GO:0003735 ... P36533 24675956
    89178 3j6b:Y (3.2) BS01 rna ? GO:0003735 ... Q04598 24675956
    89179 3j6b:Z (3.2) BS01 rna ? GO:0003735 ... P53921 24675956
    89180 3j6b:a (3.2) BS01 rna ? GO:0003735 ... P22354 24675956
    89181 3j6b:b (3.2) BS01 rna ? GO:0003735 ... P23369 24675956
    89182 3j6b:c (3.2) BS01 rna ? GO:0003735 ... P14063 24675956
    89183 3j6b:d (3.2) BS01 rna ? GO:0000002 ... Q06630 24675956
    89184 3j6e:A (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89185 3j6e:B (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89186 3j6e:C (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89187 3j6e:D (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89188 3j6e:E (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89189 3j6e:F (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89190 3j6e:G (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89191 3j6e:H (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89192 3j6e:I (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89193 3j6e:J (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89194 3j6e:K (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89195 3j6e:L (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89196 3j6e:M (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89197 3j6e:N (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89198 3j6e:O (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    89199 3j6e:P (4.7) BS01 G2P ? GO:0000226 ... P02554 24855948
    89200 3j6e:Q (4.7) BS01 GTP 3.6.5.- GO:0000226 ... P02550 24855948
    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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