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BioLiP
Download all results in tab-seperated text for 817662 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.
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  • 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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    38001 1p8j:G (2.6) BS05 CA 3.4.21.75 GO:0004252 ... P23188 12794637
    38002 1p8j:H (2.6) BS01 peptide 3.4.21.75 GO:0004252 ... P23188 12794637
    38003 1p8j:H (2.6) BS02 peptide 3.4.21.75 GO:0004252 ... P23188 12794637
    38004 1p8j:H (2.6) BS03 CA 3.4.21.75 GO:0004252 ... P23188 12794637
    38005 1p8j:H (2.6) BS04 CA 3.4.21.75 GO:0004252 ... P23188 12794637
    38006 1p8k:Z (2.6) BS01 dna 3.1.-.- GO:0004519 ... P03880 14633971 PDBbind: Kd=11nM
    38007 1p8k:Z (2.6) BS02 dna 3.1.-.- GO:0004519 ... P03880 14633971 PDBbind: Kd=11nM
    38008 1p8k:Z (2.6) BS03 dna 3.1.-.- GO:0004519 ... P03880 14633971 PDBbind: Kd=11nM
    38009 1p8k:Z (2.6) BS04 dna 3.1.-.- GO:0004519 ... P03880 14633971 PDBbind: Kd=11nM
    38010 1p8k:Z (2.6) BS05 MG 3.1.-.- GO:0004519 ... P03880 14633971
    38011 1p8l:A (2.95) BS01 AMP ? GO:0000166 ... O41026 12930960
    38012 1p8m:A (2.84) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38013 1p8m:A (2.84) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38014 1p8m:B (2.84) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38015 1p8m:B (2.84) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38016 1p8m:C (2.84) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38017 1p8m:C (2.84) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38018 1p8n:A (2.9) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38019 1p8n:B (2.9) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38020 1p8n:C (2.9) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38021 1p8o:A (2.96) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38022 1p8o:A (2.96) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38023 1p8o:B (2.96) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38024 1p8o:B (2.96) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38025 1p8o:C (2.96) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38026 1p8o:C (2.96) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38027 1p8p:A (2.5) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38028 1p8p:A (2.5) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38029 1p8p:B (2.5) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38030 1p8p:B (2.5) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38031 1p8p:C (2.5) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38032 1p8p:C (2.5) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38033 1p8q:A (2.95) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38034 1p8q:A (2.95) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38035 1p8q:B (2.95) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38036 1p8q:B (2.95) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38037 1p8q:C (2.95) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38038 1p8q:C (2.95) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38039 1p8r:A (2.5) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38040 1p8r:A (2.5) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38041 1p8r:A (2.5) BS03 S2C 3.5.3.1 GO:0000050 ... P07824 12820884
    38042 1p8r:B (2.5) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38043 1p8r:B (2.5) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38044 1p8r:B (2.5) BS03 S2C 3.5.3.1 GO:0000050 ... P07824 12820884
    38045 1p8s:A (3.2) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38046 1p8s:A (3.2) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38047 1p8s:B (3.2) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38048 1p8s:B (3.2) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38049 1p8s:C (3.2) BS01 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38050 1p8s:C (3.2) BS02 MN 3.5.3.1 GO:0000050 ... P07824 12820884
    38051 1p8u:A (1.62) BS01 RET ? GO:0005216 ... P02945 12842471
    38052 1p8v:C (2.6) BS01 peptide 3.4.21.5 GO:0004252 ... P00734 12855811
    38053 1p8v:C (2.6) BS02 DFP 3.4.21.5 GO:0004252 ... P00734 12855811
    38054 1p8x:A (2.0) BS01 CA ? GO:0051015 ... P06396 14527664
    38055 1p8x:A (2.0) BS02 CA ? GO:0051015 ... P06396 14527664
    38056 1p8x:A (2.0) BS03 CA ? GO:0051015 ... P06396 14527664
    38057 1p8x:B (2.0) BS01 CA ? GO:0051015 ... P06396 14527664
    38058 1p8x:B (2.0) BS02 CA ? GO:0051015 ... P06396 14527664
    38059 1p8x:B (2.0) BS03 CA ? GO:0051015 ... P06396 14527664
    38060 1p8x:C (2.0) BS01 CA ? GO:0051015 ... P06396 14527664
    38061 1p8x:C (2.0) BS02 CA ? GO:0051015 ... P06396 14527664
    38062 1p8x:C (2.0) BS03 CA ? GO:0051015 ... P06396 14527664
    38063 1p8z:A (2.6) BS01 ATP 3.6.4.- GO:0000287 ... P68135 14527665
    38064 1p8z:G (2.6) BS01 CA ? GO:0051015 ... P06396 14527665
    38065 1p91:A (2.8) BS01 ZN 2.1.1.187 GO:0006364 ... P36999 14999102
    38066 1p91:A (2.8) BS02 SAM 2.1.1.187 GO:0006364 ... P36999 14999102
    38067 1p91:B (2.8) BS01 ZN 2.1.1.187 GO:0006364 ... P36999 14999102
    38068 1p91:B (2.8) BS02 SAM 2.1.1.187 GO:0006364 ... P36999 14999102
    38069 1p9b:A (2.0) BS01 MG 6.3.4.4 GO:0000166 ... Q9U8D3 14729341
    38070 1p9b:A (2.0) BS02 IMO 6.3.4.4 GO:0000166 ... Q9U8D3 14729341
    38071 1p9b:A (2.0) BS03 HDA 6.3.4.4 GO:0000166 ... Q9U8D3 14729341
    38072 1p9b:A (2.0) BS04 GDP 6.3.4.4 GO:0000166 ... Q9U8D3 14729341
    38073 1p9l:A (2.3) BS01 NAI 1.17.1.8 GO:0005737 ... P9WP23 12962488
    38074 1p9l:A (2.3) BS02 PDC 1.17.1.8 GO:0005737 ... P9WP23 12962488
    38075 1p9l:B (2.3) BS01 NAI 1.17.1.8 GO:0005737 ... P9WP23 12962488
    38076 1p9l:B (2.3) BS02 PDC 1.17.1.8 GO:0005737 ... P9WP23 12962488
    38077 1p9p:A (2.5) BS01 SAH 2.1.1.228 GO:0000287 ... P0A873 14583191 MOAD: Kd=68nM
    38078 1p9r:A (2.5) BS01 ZN 7.4.2.8 GO:0005524 ... P37093 14556751
    38079 1p9u:B (2.37) BS01 peptide 2.1.1.57
    2.7.7.48
    2.7.7.50
    3.1.13.-
    3.4.19.12
    3.4.22.-
    3.6.4.12
    3.6.4.13
    4.6.1.-
    GO:0008233 ... P0C6Y5 12746549
    38080 1p9u:F (2.37) BS01 peptide 2.1.1.57
    2.7.7.48
    2.7.7.50
    3.1.13.-
    3.4.19.12
    3.4.22.-
    3.6.4.12
    3.6.4.13
    4.6.1.-
    GO:0008233 ... P0C6Y5 12746549
    38081 1p9w:A (2.7) BS01 ZN 7.4.2.8 GO:0005524 ... P37093 14556751
    38082 1p9w:A (2.7) BS02 ANP 7.4.2.8 GO:0005524 ... P37093 14556751
    38083 1pa2:A (1.45) BS01 CA 1.11.1.7 GO:0002215 ... Q42578 11117266
    38084 1pa2:A (1.45) BS02 CA 1.11.1.7 GO:0002215 ... Q42578 11117266
    38085 1pa2:A (1.45) BS03 HEM 1.11.1.7 GO:0002215 ... Q42578 11117266
    38086 1pa6:A (2.45) BS01 dna ? GO:0000723 ... P29549 12912928
    38087 1pa6:A (2.45) BS02 dna ? GO:0000723 ... P29549 12912928
    38088 1pa6:B (2.45) BS01 dna ? GO:0000781 ... P16458 12912928
    38089 1pa9:A (2.0) BS01 CSN 3.1.3.48 GO:0004725 ... P15273 12810712 MOAD: Ki=25uM
    PDBbind: -logKd/Ki=4.60, Ki=25uM
    38090 1pad:A (2.8) BS01 peptide 3.4.22.2 GO:0006508 ... P00784 952885
    38091 1pae:X (2.7) BS01 SE 2.7.4.6 GO:0004550 ... P22887 14604526
    38092 1pae:X (2.7) BS02 SE 2.7.4.6 GO:0004550 ... P22887 14604526
    38093 1pag:A (2.8) BS01 FMP 3.2.2.22 GO:0016787 ... P10297 8411176
    38094 1pag:B (2.8) BS01 FMP 3.2.2.22 GO:0016787 ... P10297 8411176
    38095 1pah:A (2.0) BS01 FE 1.14.16.1 GO:0004497 ... P00439 9406548
    38096 1pal:A (1.65) BS01 CA ? GO:0005509 ... P02619 1880797
    38097 1pal:A (1.65) BS02 CA ? GO:0005509 ... P02619 1880797
    38098 1pal:A (1.65) BS03 NH4 ? GO:0005509 ... P02619 1880797
    38099 1pam:A (1.8) BS01 CA 2.4.1.19 GO:0003824 ... P05618 15299574
    38100 1pam:A (1.8) BS02 CA 2.4.1.19 GO:0003824 ... P05618 15299574
    38101 1pam:B (1.8) BS01 CA 2.4.1.19 GO:0003824 ... P05618 15299574
    38102 1pam:B (1.8) BS02 CA 2.4.1.19 GO:0003824 ... P05618 15299574
    38103 1par:A (2.6) BS01 dna ? GO:0003677 ... P03050 8107872
    38104 1par:A (2.6) BS02 dna ? GO:0003677 ... P03050 8107872
    38105 1par:B (2.6) BS01 dna ? GO:0003677 ... P03050 8107872
    38106 1par:B (2.6) BS02 dna ? GO:0003677 ... P03050 8107872
    38107 1par:C (2.6) BS01 dna ? GO:0003677 ... P03050 8107872
    38108 1par:C (2.6) BS02 dna ? GO:0003677 ... P03050 8107872
    38109 1par:D (2.6) BS01 dna ? GO:0003677 ... P03050 8107872
    38110 1par:D (2.6) BS02 dna ? GO:0003677 ... P03050 8107872
    38111 1pau:A (2.5) BS01 peptide 3.4.22.56 GO:0004197 ... P42574 8673606
    38112 1pau:B (2.5) BS01 peptide 3.4.22.56 GO:0004197 ... P42574 8673606
    38113 1pax:A (2.4) BS01 DHQ 2.4.2.-
    2.4.2.30
    GO:0003950 ... P26446 8755499
    38114 1paz:A (1.55) BS01 CU ? GO:0005507 ... P04377 3271558
    38115 1pb0:A (1.95) BS01 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38116 1pb0:A (1.95) BS02 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38117 1pb0:A (1.95) BS03 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38118 1pb0:B (1.95) BS01 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38119 1pb0:B (1.95) BS02 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38120 1pb0:B (1.95) BS03 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38121 1pb0:C (1.95) BS01 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38122 1pb0:C (1.95) BS02 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38123 1pb0:C (1.95) BS03 ZN 3.1.3.- GO:0003824 ... P75914 N/A
    38124 1pb7:A (1.35) BS01 GLY ? GO:0015276 ... P35439 12805203 BindingDB: IC50=6200nM
    38125 1pb8:A (1.45) BS01 DSN ? GO:0015276 ... P35439 12805203 MOAD: Ki=7.02uM
    PDBbind: -logKd/Ki=5.15, Ki=7.02uM
    BindingDB: IC50=670.0nM
    38126 1pb9:A (1.6) BS01 4AX ? GO:0015276 ... P35439 12805203 MOAD: Ki=241uM
    PDBbind: -logKd/Ki=3.62, Ki=241uM
    38127 1pbb:A (2.5) BS01 FAD 1.14.13.2 GO:0004497 ... P00438 7520279
    38128 1pbb:A (2.5) BS02 DOB 1.14.13.2 GO:0004497 ... P00438 7520279
    38129 1pbc:A (2.8) BS01 FAD 1.14.13.2 GO:0004497 ... P00438 7520279
    38130 1pbc:A (2.8) BS02 BHA 1.14.13.2 GO:0004497 ... P00438 7520279
    38131 1pbd:A (2.3) BS01 FAD 1.14.13.2 GO:0004497 ... P00438 7520279
    38132 1pbd:A (2.3) BS02 PAB 1.14.13.2 GO:0004497 ... P00438 7520279
    38133 1pbe:A (1.9) BS01 FAD 1.14.13.2 GO:0004497 ... P00438 2553983
    38134 1pbf:A (2.7) BS01 FAD 1.14.13.2 GO:0004497 ... P00438 7520279
    38135 1pbf:A (2.7) BS02 BHA 1.14.13.2 GO:0004497 ... P00438 7520279
    38136 1pbk:A (2.5) BS01 RAP 5.2.1.8 GO:0003755 ... Q00688 N/A MOAD: Ki=0.9nM
    PDBbind: -logKd/Ki=9.05, Ki=0.9nM
    38137 1pbo:A (2.2) BS01 SES ? GO:0005549 ... P07435 8901871
    38138 1pbo:B (2.2) BS01 SES ? GO:0005549 ... P07435 8901871
    38139 1pbp:A (1.9) BS01 PO4 ? GO:0006817 ... P0AG82 7929197
    38140 1pbq:A (1.9) BS01 DK1 ? GO:0015276 ... P35439 12805203 MOAD: Ki=0.54uM
    PDBbind: -logKd/Ki=6.27, Ki=0.54uM
    BindingDB: Ki=40nM, EC50=330nM, IC50=860nM
    38141 1pbq:B (1.9) BS01 DK1 ? GO:0015276 ... P35439 12805203 MOAD: Ki=0.54uM
    BindingDB: Ki=40nM, EC50=330nM, IC50=860nM
    38142 1pbx:A (2.5) BS01 HEM ? GO:0004601 ... P80043 1560461
    38143 1pbx:B (2.5) BS01 HEM ? GO:0004601 ... P80044 1560461
    38144 1pby:A (1.7) BS01 HEC 1.4.99.3 GO:0009055 ... Q8VUT0 12925784
    38145 1pby:A (1.7) BS02 HEC 1.4.99.3 GO:0009055 ... Q8VUT0 12925784
    38146 1pc3:A (2.16) BS01 PO4 ? GO:0005515 ... P9WGU1 12842040
    38147 1pc3:B (2.16) BS01 PO4 ? GO:0005515 ... P9WGU1 12842040
    38148 1pc4:A (1.65) BS01 SF4 ? GO:0003677 ... P00214 12962482
    38149 1pc4:A (1.65) BS02 F3S ? GO:0003677 ... P00214 12962482
    38150 1pc5:A (1.8) BS01 SF4 ? GO:0003677 ... P00214 12962482
    38151 1pc5:A (1.8) BS02 F3S ? GO:0003677 ... P00214 12962482
    38152 1pca:A (2.0) BS01 ZN 3.4.17.1 GO:0004181 ... P09954 1548696
    38153 1pca:A (2.0) BS02 VAL 3.4.17.1 GO:0004181 ... P09954 1548696
    38154 1pcj:X (2.0) BS01 M1P 5.4.2.2
    5.4.2.8
    GO:0000287 ... P26276 14725765
    38155 1pcj:X (2.0) BS02 ZN 5.4.2.2
    5.4.2.8
    GO:0000287 ... P26276 14725765
    38156 1pck:A (1.8) BS01 PEZ 2.5.1.55 GO:0005737 ... O66496 14675946
    38157 1pck:B (1.8) BS01 PEZ 2.5.1.55 GO:0005737 ... O66496 14675946
    38158 1pcm:X (1.9) BS01 ZN 5.4.2.2
    5.4.2.8
    GO:0000287 ... P26276 14725765
    38159 1pcm:X (1.9) BS02 M6P 5.4.2.2
    5.4.2.8
    GO:0000287 ... P26276 14725765
    38160 1pcq:A (2.808) BS01 ADP 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38161 1pcq:A (2.808) BS02 AF3 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38162 1pcq:B (2.808) BS01 ADP 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38163 1pcq:B (2.808) BS02 AF3 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38164 1pcq:C (2.808) BS01 ADP 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38165 1pcq:C (2.808) BS02 AF3 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38166 1pcq:D (2.808) BS01 ADP 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38167 1pcq:D (2.808) BS02 AF3 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38168 1pcq:E (2.808) BS01 ADP 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38169 1pcq:E (2.808) BS02 AF3 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38170 1pcq:F (2.808) BS01 ADP 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38171 1pcq:F (2.808) BS02 AF3 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38172 1pcq:G (2.808) BS01 ADP 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38173 1pcq:G (2.808) BS02 AF3 5.6.1.7 GO:0000287 ... P0A6F5 14517228
    38174 1pcr:L (2.65) BS01 BCL ? GO:0009772 ... P0C0Y8 7866744
    38175 1pcr:L (2.65) BS02 BCL ? GO:0009772 ... P0C0Y8 7866744
    38176 1pcr:L (2.65) BS03 BCL ? GO:0009772 ... P0C0Y8 7866744
    38177 1pcr:L (2.65) BS04 BPH ? GO:0009772 ... P0C0Y8 7866744
    38178 1pcr:L (2.65) BS05 U10 ? GO:0009772 ... P0C0Y8 7866744
    38179 1pcr:L (2.65) BS06 FE ? GO:0009772 ... P0C0Y8 7866744
    38180 1pcr:L (2.65) BS07 BPH ? GO:0009772 ... P0C0Y8 7866744
    38181 1pcr:M (2.65) BS01 BCL ? GO:0009772 ... P0C0Y9 7866744
    38182 1pcr:M (2.65) BS02 BCL ? GO:0009772 ... P0C0Y9 7866744
    38183 1pcr:M (2.65) BS03 BPH ? GO:0009772 ... P0C0Y9 7866744
    38184 1pcr:M (2.65) BS04 FE ? GO:0009772 ... P0C0Y9 7866744
    38185 1pcr:M (2.65) BS05 BCL ? GO:0009772 ... P0C0Y9 7866744
    38186 1pcr:M (2.65) BS06 BPH ? GO:0009772 ... P0C0Y9 7866744
    38187 1pcr:M (2.65) BS07 U10 ? GO:0009772 ... P0C0Y9 7866744
    38188 1pcr:M (2.65) BS08 SPO ? GO:0009772 ... P0C0Y9 7866744
    38189 1pcs:A (2.15) BS01 CU ? GO:0005507 ... P21697 9466912
    38190 1pcw:A (1.85) BS01 H4P 2.5.1.55 GO:0005737 ... O66496 14675946
    38191 1pcw:B (1.85) BS01 H4P 2.5.1.55 GO:0005737 ... O66496 14675946
    38192 1pcx:A (2.5) BS01 peptide ? GO:0006886 ... P40482 12941276
    38193 1pcx:A (2.5) BS02 ZN ? GO:0006886 ... P40482 12941276
    38194 1pd0:A (2.6) BS01 peptide ? GO:0006886 ... P40482 12941276
    38195 1pd0:A (2.6) BS02 ZN ? GO:0006886 ... P40482 12941276
    38196 1pd1:A (2.6) BS01 peptide ? GO:0006886 ... P40482 12941276
    38197 1pd1:A (2.6) BS02 ZN ? GO:0006886 ... P40482 12941276
    38198 1pd2:1 (2.3) BS01 GSH 2.5.1.18
    5.3.99.2
    GO:0000287 ... O35543 9323136
    38199 1pd2:2 (2.3) BS01 GSH 2.5.1.18
    5.3.99.2
    GO:0000287 ... O35543 9323136
    38200 1pd7:A (-1.00) BS01 peptide ? GO:0003714 ... Q62141 14705930

    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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