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●TM-score ●TM-align ●US-align ●MM-align ●RNA-align ●NW-align ●LS-align ●EDTSurf ●MVP ●MVP-Fit ●SPICKER ●HAAD ●PSSpred ●3DRobot ●MR-REX ●I-TASSER-MR ●SVMSEQ ●NeBcon ●ResPRE ●TripletRes ●DeepPotential ●WDL-RF ●ATPbind ●DockRMSD ●DeepMSA ●FASPR ●EM-Refiner ●GPU-I-TASSER

●BioLiP ●E. coli ●GLASS ●GPCR-HGmod ●GPCR-RD ●GPCR-EXP ●Tara-3D ●TM-fold ●DECOYS ●POTENTIAL ●RW/RWplus ●EvoEF ●HPSF ●THE-DB ●ADDRESS ●Alpaca-Antibody ●CASP7 ●CASP8 ●CASP9 ●CASP10 ●CASP11 ●CASP12 ●CASP13 ●CASP14

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.
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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.
  • 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
    112001 3up0:A (1.6) BS01 peptide ? GO:0000122 ... H0USY8 22170062
    112002 3up0:A (1.6) BS02 D7S ? GO:0000122 ... H0USY8 22170062
    112003 3up0:B (1.6) BS01 peptide ? GO:0000122 ... H0USY8 22170062
    112004 3up0:B (1.6) BS02 D7S ? GO:0000122 ... H0USY8 22170062
    112005 3up3:A (1.25) BS01 peptide ? GO:0000122 ... H0USY8 22170062
    112006 3up3:A (1.25) BS02 XCA ? GO:0000122 ... H0USY8 22170062
    112007 3upb:A (1.5) BS01 A5P 2.2.1.2 GO:0004801 ... Q5NFX0 24510200
    112008 3upb:B (1.5) BS01 A5P 2.2.1.2 GO:0004801 ... Q5NFX0 24510200
    112009 3upe:A (1.54) BS01 CA 3.4.21.4 GO:0004175 ... P00760 25003390
    112010 3upe:A (1.54) BS02 0CA 3.4.21.4 GO:0004175 ... P00760 25003390
    112011 3upk:A (2.0) BS01 UD1 2.5.1.7 GO:0003824 ... P33038 22378791 PDBbind: -logKd/Ki=4.30, Kd=50uM
    112012 3upm:A (1.95) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112013 3upm:A (1.95) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112014 3upm:B (1.95) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112015 3upm:B (1.95) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112016 3upn:A (2.2) BS01 IM2 3.4.16.4 GO:0005829 ... P9WKD1 22365933
    112017 3upn:B (2.2) BS01 IM2 3.4.16.4 GO:0005829 ... P9WKD1 22365933
    112018 3upo:A (2.3) BS01 PNM 3.4.16.4 GO:0005829 ... P9WKD1 22365933
    112019 3upo:B (2.3) BS01 PNM 3.4.16.4 GO:0005829 ... P9WKD1 22365933
    112020 3upp:A (2.4) BS01 CEF 3.4.16.4 GO:0005829 ... P9WKD1 22365933
    112021 3upp:B (2.4) BS01 CEF 3.4.16.4 GO:0005829 ... P9WKD1 22365933
    112022 3upt:A (2.4) BS01 CA 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112023 3upt:A (2.4) BS02 TPP 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112024 3upt:A (2.4) BS03 RP5 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112025 3upt:A (2.4) BS04 RP5 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112026 3upt:A (2.4) BS05 TPP 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112027 3upt:B (2.4) BS01 TPP 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112028 3upt:B (2.4) BS02 RP5 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112029 3upt:B (2.4) BS03 RP5 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112030 3upt:B (2.4) BS04 CA 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112031 3upt:B (2.4) BS05 TPP 2.2.1.1 GO:0003824 ... Q2SZA7 23382856
    112032 3upx:A (2.27) BS01 B6A 2.7.11.17 GO:0004672 ... Q9BJF5 22369268 MOAD: Ki=0.0075uM
    PDBbind: -logKd/Ki=8.12, Ki=7.5nM
    BindingDB: IC50=15nM
    112033 3upz:A (2.2) BS01 B5A 2.7.11.17 GO:0004672 ... Q9BJF5 22369268 PDBbind: -logKd/Ki=5.60, Ki>2.5uM
    112034 3uqd:A (2.14) BS01 ATP 2.7.1.11 GO:0000287 ... P06999 30996866
    112035 3uqd:A (2.14) BS02 F6P 2.7.1.11 GO:0000287 ... P06999 30996866
    112036 3uqd:A (2.14) BS03 FBP 2.7.1.11 GO:0000287 ... P06999 30996866
    112037 3uqd:B (2.14) BS01 FBP 2.7.1.11 GO:0000287 ... P06999 30996866
    112038 3uqd:B (2.14) BS02 ADP 2.7.1.11 GO:0000287 ... P06999 30996866
    112039 3uqd:B (2.14) BS03 ATP 2.7.1.11 GO:0000287 ... P06999 30996866
    112040 3uqd:B (2.14) BS04 F6P 2.7.1.11 GO:0000287 ... P06999 30996866
    112041 3uqd:C (2.14) BS01 F6P 2.7.1.11 GO:0000287 ... P06999 30996866
    112042 3uqd:C (2.14) BS02 ATP 2.7.1.11 GO:0000287 ... P06999 30996866
    112043 3uqd:C (2.14) BS03 ATP 2.7.1.11 GO:0000287 ... P06999 30996866
    112044 3uqd:C (2.14) BS04 FBP 2.7.1.11 GO:0000287 ... P06999 30996866
    112045 3uqd:C (2.14) BS05 ADP 2.7.1.11 GO:0000287 ... P06999 30996866
    112046 3uqd:D (2.14) BS01 FBP 2.7.1.11 GO:0000287 ... P06999 30996866
    112047 3uqd:D (2.14) BS02 ATP 2.7.1.11 GO:0000287 ... P06999 30996866
    112048 3uqd:D (2.14) BS03 F6P 2.7.1.11 GO:0000287 ... P06999 30996866
    112049 3uqe:A (2.2) BS01 ATP 2.7.1.11 GO:0000287 ... P06999 N/A
    112050 3uqe:A (2.2) BS02 POP 2.7.1.11 GO:0000287 ... P06999 N/A
    112051 3uqe:B (2.2) BS01 ATP 2.7.1.11 GO:0000287 ... P06999 N/A
    112052 3uqo:A (1.8) BS01 CA 3.4.21.4 GO:0004175 ... P00760 25003390
    112053 3uqo:A (1.8) BS02 3YH 3.4.21.4 GO:0004175 ... P00760 25003390 BindingDB: Ki=21nM
    112054 3uqp:A (1.77) BS01 peptide 3.4.23.46 GO:0004190 ... P56817 23181502
    112055 3uqr:A (3.056) BS01 peptide 3.4.23.46 GO:0004190 ... P56817 23181502
    112056 3uqr:B (3.056) BS01 peptide 3.4.23.46 GO:0004190 ... P56817 23181502
    112057 3uqr:C (3.056) BS01 peptide 3.4.23.46 GO:0004190 ... P56817 23181502
    112058 3uqu:A (1.7) BS01 ZPX 3.4.23.46 GO:0004190 ... P56817 N/A
    112059 3uqv:A (2.4) BS01 CA 3.4.21.4 GO:0004175 ... P00760 25003390
    112060 3uqv:A (2.4) BS02 3YH 3.4.21.4 GO:0004175 ... P00760 25003390 BindingDB: Ki=21nM
    112061 3uqw:A (2.2) BS01 ZPY 3.4.23.46 GO:0004190 ... P56817 N/A
    112062 3uqx:A (1.7) BS01 ZPZ 3.4.23.46 GO:0004190 ... P56817 N/A
    112063 3uqy:L (1.47) BS01 FCO 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112064 3uqy:L (1.47) BS02 MG 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112065 3uqy:M (1.47) BS01 FCO 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112066 3uqy:M (1.47) BS02 MG 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112067 3uqy:S (1.47) BS01 SF4 1.12.99.6 GO:0005515 ... P69739 22431599
    112068 3uqy:S (1.47) BS02 F3S 1.12.99.6 GO:0005515 ... P69739 22431599
    112069 3uqy:S (1.47) BS03 F4S 1.12.99.6 GO:0005515 ... P69739 22431599
    112070 3uqy:T (1.47) BS01 SF4 1.12.99.6 GO:0005515 ... P69739 22431599
    112071 3uqy:T (1.47) BS02 F3S 1.12.99.6 GO:0005515 ... P69739 22431599
    112072 3uqy:T (1.47) BS03 F4S 1.12.99.6 GO:0005515 ... P69739 22431599
    112073 3ur2:A (2.0) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112074 3ur2:A (2.0) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112075 3ur2:B (2.0) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112076 3ur2:B (2.0) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112077 3ur4:A (1.8) BS01 0BW ? GO:0000122 ... P61964 22989411 BindingDB: Kd=3000nM
    112078 3ur4:B (1.8) BS01 0BW ? GO:0000122 ... P61964 22989411 BindingDB: Kd=3000nM
    112079 3ur5:A (1.6) BS01 DPF 3.1.8.1 GO:0004063 ... P0A434 22809162
    112080 3ur5:A (1.6) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112081 3ur5:A (1.6) BS03 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112082 3ur5:B (1.6) BS01 DPF 3.1.8.1 GO:0004063 ... P0A434 22809162
    112083 3ur5:B (1.6) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112084 3ur5:B (1.6) BS03 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112085 3ur5:B (1.6) BS04 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112086 3ura:A (1.88) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112087 3ura:A (1.88) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112088 3ura:B (1.88) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112089 3ura:B (1.88) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112090 3urb:A (1.77) BS01 DPF 3.1.8.1 GO:0004063 ... P0A434 22809162
    112091 3urb:A (1.77) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112092 3urb:A (1.77) BS03 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112093 3urb:B (1.77) BS01 DPF 3.1.8.1 GO:0004063 ... P0A434 22809162
    112094 3urb:B (1.77) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112095 3urb:B (1.77) BS03 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112096 3urk:A (1.5) BS01 SF4 1.17.7.4 GO:0005829 ... P62623 22948824
    112097 3urk:A (1.5) BS02 0CG 1.17.7.4 GO:0005829 ... P62623 22948824
    112098 3urk:B (1.5) BS01 SF4 1.17.7.4 GO:0005829 ... P62623 22948824
    112099 3urk:B (1.5) BS02 0CG 1.17.7.4 GO:0005829 ... P62623 22948824
    112100 3urn:A (1.95) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112101 3urn:A (1.95) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112102 3urn:A (1.95) BS03 QMP 3.1.8.1 GO:0004063 ... P0A434 22809162
    112103 3urn:B (1.95) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112104 3urn:B (1.95) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112105 3urn:B (1.95) BS03 QMP 3.1.8.1 GO:0004063 ... P0A434 22809162
    112106 3urp:A (3.19) BS01 PGP 4.6.1.24 GO:0001411 ... P00651 22505257
    112107 3urq:A (2.1) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112108 3urq:A (2.1) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112109 3urq:A (2.1) BS03 QMP 3.1.8.1 GO:0004063 ... P0A434 22809162
    112110 3urq:B (2.1) BS01 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112111 3urq:B (2.1) BS02 CO 3.1.8.1 GO:0004063 ... P0A434 22809162
    112112 3urq:B (2.1) BS03 QMP 3.1.8.1 GO:0004063 ... P0A434 22809162
    112113 3us0:A (2.5) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112114 3us0:A (2.5) BS02 dna ? GO:0000976 ... Q9H3D4 22247550
    112115 3us0:A (2.5) BS03 ZN ? GO:0000976 ... Q9H3D4 22247550
    112116 3us0:B (2.5) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112117 3us0:B (2.5) BS02 dna ? GO:0000976 ... Q9H3D4 22247550
    112118 3us0:B (2.5) BS03 ZN ? GO:0000976 ... Q9H3D4 22247550
    112119 3us0:C (2.5) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112120 3us0:C (2.5) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112121 3us0:D (2.5) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112122 3us0:D (2.5) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112123 3us1:A (2.8) BS01 ZN ? GO:0000976 ... Q9H3D4 22247550
    112124 3us1:D (2.8) BS01 ZN ? GO:0000976 ... Q9H3D4 22247550
    112125 3us2:A (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112126 3us2:A (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112127 3us2:B (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112128 3us2:B (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112129 3us2:C (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112130 3us2:C (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112131 3us2:D (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112132 3us2:D (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112133 3us2:G (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112134 3us2:G (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112135 3us2:H (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112136 3us2:H (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112137 3us2:I (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112138 3us2:I (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112139 3us2:J (4.2) BS01 dna ? GO:0000976 ... Q9H3D4 22247550
    112140 3us2:J (4.2) BS02 ZN ? GO:0000976 ... Q9H3D4 22247550
    112141 3us3:A (1.738) BS01 CA ? GO:0000287 ... P07221 22170046
    112142 3us3:A (1.738) BS02 CA ? GO:0000287 ... P07221 22170046
    112143 3us3:A (1.738) BS03 CA ? GO:0000287 ... P07221 22170046
    112144 3us9:A (2.68) BS01 CA ? GO:0007154 ... P23685 22768191
    112145 3us9:A (2.68) BS02 CA ? GO:0007154 ... P23685 22768191
    112146 3us9:A (2.68) BS03 CA ? GO:0007154 ... P23685 22768191
    112147 3usc:L (2.0) BS01 FCO 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112148 3usc:L (2.0) BS02 MG 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112149 3usc:M (2.0) BS01 FCO 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112150 3usc:M (2.0) BS02 MG 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112151 3usc:S (2.0) BS01 SF4 1.12.99.6 GO:0005515 ... P69739 22431599
    112152 3usc:S (2.0) BS02 F3S 1.12.99.6 GO:0005515 ... P69739 22431599
    112153 3usc:S (2.0) BS03 SF3 1.12.99.6 GO:0005515 ... P69739 22431599
    112154 3usc:T (2.0) BS01 SF4 1.12.99.6 GO:0005515 ... P69739 22431599
    112155 3usc:T (2.0) BS02 F3S 1.12.99.6 GO:0005515 ... P69739 22431599
    112156 3usc:T (2.0) BS03 SF3 1.12.99.6 GO:0005515 ... P69739 22431599
    112157 3usd:A (2.4) BS01 peptide 3.4.21.- GO:0005576 ... P24627 N/A
    112158 3usd:A (2.4) BS02 FE 3.4.21.- GO:0005576 ... P24627 N/A
    112159 3usd:A (2.4) BS03 CO3 3.4.21.- GO:0005576 ... P24627 N/A
    112160 3usd:A (2.4) BS04 IDL 3.4.21.- GO:0005576 ... P24627 N/A
    112161 3use:L (1.67) BS01 FCO 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112162 3use:L (1.67) BS02 MG 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112163 3use:M (1.67) BS01 FCO 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112164 3use:M (1.67) BS02 MG 1.12.99.6 GO:0005515 ... P0ACD8 22431599
    112165 3use:S (1.67) BS01 SF4 1.12.99.6 GO:0005515 ... P69739 22431599
    112166 3use:S (1.67) BS02 F3S 1.12.99.6 GO:0005515 ... P69739 22431599
    112167 3use:S (1.67) BS03 F4S 1.12.99.6 GO:0005515 ... P69739 22431599
    112168 3use:S (1.67) BS04 SF3 1.12.99.6 GO:0005515 ... P69739 22431599
    112169 3use:T (1.67) BS01 SF4 1.12.99.6 GO:0005515 ... P69739 22431599
    112170 3use:T (1.67) BS02 F3S 1.12.99.6 GO:0005515 ... P69739 22431599
    112171 3use:T (1.67) BS03 F4S 1.12.99.6 GO:0005515 ... P69739 22431599
    112172 3use:T (1.67) BS04 SF3 1.12.99.6 GO:0005515 ... P69739 22431599
    112173 3usf:A (2.463) BS01 PLR 5.4.3.8 GO:0005737 ... Q31QJ2 N/A
    112174 3usf:A (2.463) BS02 HOZ 5.4.3.8 GO:0005737 ... Q31QJ2 N/A
    112175 3usf:B (2.463) BS01 HOZ 5.4.3.8 GO:0005737 ... Q31QJ2 N/A
    112176 3usf:B (2.463) BS02 PLR 5.4.3.8 GO:0005737 ... Q31QJ2 N/A
    112177 3usg:A (2.502) BS01 LEU ? GO:0005886 ... O67854 22245965
    112178 3usg:A (2.502) BS02 NA ? GO:0005886 ... O67854 22245965
    112179 3usg:A (2.502) BS03 PC ? GO:0005886 ... O67854 22245965
    112180 3usg:A (2.502) BS04 NA ? GO:0005886 ... O67854 22245965
    112181 3usi:A (3.106) BS01 NA ? GO:0005886 ... O67854 22245965
    112182 3usi:A (3.106) BS02 NA ? GO:0005886 ... O67854 22245965
    112183 3usi:A (3.106) BS03 LEU ? GO:0005886 ... O67854 22245965
    112184 3usi:B (3.106) BS01 NA ? GO:0005886 ... O67854 22245965
    112185 3usi:B (3.106) BS02 NA ? GO:0005886 ... O67854 22245965
    112186 3usi:B (3.106) BS03 LEU ? GO:0005886 ... O67854 22245965
    112187 3usj:A (3.5) BS01 LEU ? GO:0005886 ... O67854 22245965
    112188 3usj:A (3.5) BS02 NA ? GO:0005886 ... O67854 22245965
    112189 3usj:A (3.5) BS03 NA ? GO:0005886 ... O67854 22245965
    112190 3usj:B (3.5) BS01 LEU ? GO:0005886 ... O67854 22245965
    112191 3usj:B (3.5) BS02 NA ? GO:0005886 ... O67854 22245965
    112192 3usj:B (3.5) BS03 NA ? GO:0005886 ... O67854 22245965
    112193 3usk:A (4.5) BS01 LEU ? GO:0005886 ... O67854 22245965
    112194 3usk:A (4.5) BS02 NA ? GO:0005886 ... O67854 22245965
    112195 3usk:A (4.5) BS03 NA ? GO:0005886 ... O67854 22245965
    112196 3usk:B (4.5) BS01 LEU ? GO:0005886 ... O67854 22245965
    112197 3usk:B (4.5) BS02 NA ? GO:0005886 ... O67854 22245965
    112198 3usk:B (4.5) BS03 NA ? GO:0005886 ... O67854 22245965
    112199 3usk:C (4.5) BS01 LEU ? GO:0005886 ... O67854 22245965
    112200 3usk:C (4.5) BS02 NA ? GO:0005886 ... O67854 22245965
    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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