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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 903398 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
    873001 8u0v:C (3.89) BS03 ATP 3.6.4.- GO:0005515 ... P24004 38036174
    873002 8u0v:D (3.89) BS01 ATP 3.6.4.- GO:0005515 ... P33760 38036174
    873003 8u0v:D (3.89) BS02 ATP 3.6.4.- GO:0005515 ... P33760 38036174
    873004 8u0v:D (3.89) BS03 ATP 3.6.4.- GO:0005515 ... P33760 38036174
    873005 8u0v:E (3.89) BS01 ATP 3.6.4.- GO:0005515 ... P24004 38036174
    873006 8u0v:E (3.89) BS02 ATP 3.6.4.- GO:0005515 ... P24004 38036174
    873007 8u0v:F (3.89) BS01 ATP 3.6.4.- GO:0005515 ... P33760 38036174
    873008 8u0w:A (2.99) BS01 dna N/A N/A B9TSM3 38740055
    873009 8u0y:A (3.0) BS01 PUB N/A N/A N/A N/A
    873010 8u0y:A (3.0) BS02 PUB N/A N/A N/A N/A
    873011 8u0y:A (3.0) BS03 PUB N/A N/A N/A N/A
    873012 8u0y:B (3.0) BS01 PUB N/A N/A N/A N/A
    873013 8u0y:B (3.0) BS02 PUB N/A N/A N/A N/A
    873014 8u0y:B (3.0) BS03 PUB N/A N/A N/A N/A
    873015 8u0z:A (1.399) BS01 N 2.4.2.10
    4.1.1.23    		 GO:0004590 ... A0A6P6VUE3 38184030
    873016 8u0z:B (1.399) BS01 N 2.4.2.10
    4.1.1.23    		 GO:0004590 ... A0A6P6VUE3 38184030
    873017 8u13:A (3.8) BS01 dna ? GO:0000786 ... P68431 38242129
    873018 8u13:A (3.8) BS02 dna ? GO:0000786 ... P68431 38242129
    873019 8u13:B (3.8) BS01 dna ? GO:0000781 ... P62805 38242129
    873020 8u13:B (3.8) BS02 dna ? GO:0000781 ... P62805 38242129
    873021 8u13:C (3.8) BS01 dna ? GO:0000786 ... P04908 38242129
    873022 8u13:C (3.8) BS02 dna ? GO:0000786 ... P04908 38242129
    873023 8u13:D (3.8) BS01 dna ? GO:0000786 ... P62807 38242129
    873024 8u13:D (3.8) BS02 dna ? GO:0000786 ... P62807 38242129
    873025 8u13:E (3.8) BS01 dna ? GO:0000786 ... P68431 38242129
    873026 8u13:E (3.8) BS02 dna ? GO:0000786 ... P68431 38242129
    873027 8u13:F (3.8) BS01 dna ? GO:0000781 ... P62805 38242129
    873028 8u13:F (3.8) BS02 dna ? GO:0000781 ... P62805 38242129
    873029 8u13:G (3.8) BS01 dna ? GO:0000786 ... P04908 38242129
    873030 8u13:G (3.8) BS02 dna ? GO:0000786 ... P04908 38242129
    873031 8u13:H (3.8) BS01 dna ? GO:0000786 ... P62807 38242129
    873032 8u13:H (3.8) BS02 dna ? GO:0000786 ... P62807 38242129
    873033 8u13:K (3.8) BS01 ZN 2.3.2.27 N/A Q8IYW5 38242129
    873034 8u13:K (3.8) BS02 ZN 2.3.2.27 N/A Q8IYW5 38242129
    873035 8u14:A (3.9) BS01 dna ? GO:0000786 ... P68431 38242129
    873036 8u14:A (3.9) BS02 dna ? GO:0000786 ... P68431 38242129
    873037 8u14:B (3.9) BS01 dna ? GO:0000781 ... P62805 38242129
    873038 8u14:B (3.9) BS02 dna ? GO:0000781 ... P62805 38242129
    873039 8u14:C (3.9) BS01 dna ? GO:0000786 ... P04908 38242129
    873040 8u14:C (3.9) BS02 dna ? GO:0000786 ... P04908 38242129
    873041 8u14:D (3.9) BS01 dna ? GO:0000786 ... P06899 38242129
    873042 8u14:D (3.9) BS02 dna ? GO:0000786 ... P06899 38242129
    873043 8u14:E (3.9) BS01 dna ? GO:0000786 ... P68431 38242129
    873044 8u14:E (3.9) BS02 dna ? GO:0000786 ... P68431 38242129
    873045 8u14:F (3.9) BS01 dna ? GO:0000781 ... P62805 38242129
    873046 8u14:F (3.9) BS02 dna ? GO:0000781 ... P62805 38242129
    873047 8u14:G (3.9) BS01 dna ? GO:0000786 ... P04908 38242129
    873048 8u14:G (3.9) BS02 dna ? GO:0000786 ... P04908 38242129
    873049 8u14:H (3.9) BS01 dna ? GO:0000786 ... P06899 38242129
    873050 8u14:H (3.9) BS02 dna ? GO:0000786 ... P06899 38242129
    873051 8u14:K (3.9) BS01 ZN 2.3.2.27 N/A Q8IYW5 38242129
    873052 8u14:K (3.9) BS02 ZN 2.3.2.27 N/A Q8IYW5 38242129
    873053 8u15:A (2.95) BS01 ZN ? N/A Q96SW2 38086859
    873054 8u15:A (2.95) BS02 8W7 ? N/A Q96SW2 38086859
    873055 8u15:C (2.95) BS01 8W7 ? N/A Q9UJQ4 38086859
    873056 8u15:C (2.95) BS02 ZN ? N/A Q9UJQ4 38086859
    873057 8u15:C (2.95) BS03 ZN ? N/A Q9UJQ4 38086859
    873058 8u15:D (2.95) BS01 ZN ? N/A Q96SW2 38086859
    873059 8u15:D (2.95) BS02 8W7 ? N/A Q96SW2 38086859
    873060 8u15:F (2.95) BS01 8W7 ? N/A Q9UJQ4 38086859
    873061 8u15:F (2.95) BS02 ZN ? N/A Q9UJQ4 38086859
    873062 8u15:F (2.95) BS03 ZN ? N/A Q9UJQ4 38086859
    873063 8u16:A (2.9) BS01 ZN ? N/A Q96SW2 38086859
    873064 8u16:A (2.9) BS02 Y70 ? N/A Q96SW2 38086859
    873065 8u16:C (2.9) BS01 Y70 ? N/A Q9UJQ4 38086859
    873066 8u16:C (2.9) BS02 ZN ? N/A Q9UJQ4 38086859
    873067 8u16:C (2.9) BS03 ZN ? N/A Q9UJQ4 38086859
    873068 8u16:D (2.9) BS01 ZN ? N/A Q96SW2 38086859
    873069 8u16:D (2.9) BS02 Y70 ? N/A Q96SW2 38086859
    873070 8u16:F (2.9) BS01 Y70 ? N/A Q9UJQ4 38086859
    873071 8u16:F (2.9) BS02 ZN ? N/A Q9UJQ4 38086859
    873072 8u16:F (2.9) BS03 ZN ? N/A Q9UJQ4 38086859
    873073 8u17:A (3.1) BS01 ZN ? N/A Q96SW2 38086859
    873074 8u17:A (3.1) BS02 Y70 ? N/A Q96SW2 38086859
    873075 8u17:C (3.1) BS01 Y70 ? N/A Q9UJQ4 38086859
    873076 8u17:C (3.1) BS02 ZN ? N/A Q9UJQ4 38086859
    873077 8u17:C (3.1) BS03 ZN ? N/A Q9UJQ4 38086859
    873078 8u17:D (3.1) BS01 ZN ? N/A Q96SW2 38086859
    873079 8u17:D (3.1) BS02 Y70 ? N/A Q96SW2 38086859
    873080 8u17:F (3.1) BS01 Y70 ? N/A Q9UJQ4 38086859
    873081 8u17:F (3.1) BS02 ZN ? N/A Q9UJQ4 38086859
    873082 8u17:F (3.1) BS03 ZN ? N/A Q9UJQ4 38086859
    873083 8u19:A (1.26) BS01 HEM N/A N/A N/A N/A
    873084 8u19:A (1.26) BS02 3DM N/A N/A N/A N/A
    873085 8u1f:A (3.33) BS01 UIM 2.7.10.1 GO:0004672 ... P21802 38300868
    873086 8u1f:B (3.33) BS01 UIM 2.7.10.1 GO:0004672 ... P21802 38300868
    873087 8u1h:A (3.0) BS01 ANP N/A N/A A0A0M3VGF9 N/A
    873088 8u1h:B (3.0) BS01 ANP N/A N/A A0A0M3VGF9 N/A
    873089 8u1h:B (3.0) BS02 ANP N/A N/A A0A0M3VGF9 N/A
    873090 8u1h:C (3.0) BS01 ANP N/A N/A A0A0M3VGF9 N/A
    873091 8u1h:D (3.0) BS01 ADP N/A N/A A0A0M4U1P9 N/A
    873092 8u1h:F (3.0) BS01 ANP N/A N/A A0A0M4U1P9 N/A
    873093 8u1h:F (3.0) BS02 MG N/A N/A A0A0M4U1P9 N/A
    873094 8u1i:A (1.12) BS01 HEM N/A N/A N/A N/A
    873095 8u1i:A (1.12) BS02 UB9 N/A N/A N/A N/A
    873096 8u1l:A (3.7) BS01 ATP ? GO:0005524 ... A0A7E5VSK5 38431713
    873097 8u1l:A (3.7) BS02 MG ? GO:0005524 ... A0A7E5VSK5 38431713
    873098 8u1l:B (3.7) BS01 ATP ? GO:0005524 ... A0A7E5VSK5 38431713
    873099 8u1l:B (3.7) BS02 MG ? GO:0005524 ... A0A7E5VSK5 38431713
    873100 8u1m:A (3.5) BS01 ATP ? GO:0005524 ... A0A7E5VSK5 38431713
    873101 8u1m:A (3.5) BS02 MG ? GO:0005524 ... A0A7E5VSK5 38431713
    873102 8u1m:B (3.5) BS01 ATP ? GO:0005524 ... A0A7E5VSK5 38431713
    873103 8u1m:B (3.5) BS02 MG ? GO:0005524 ... A0A7E5VSK5 38431713
    873104 8u1n:A (3.9) BS01 ATP ? GO:0005524 ... A0A7E5VSK5 38431713
    873105 8u1n:B (3.9) BS01 ATP ? GO:0005524 ... A0A7E5VSK5 38431713
    873106 8u1w:A (1.84) BS01 FHR 3.4.22.66
    3.6.1.15    		 GO:0004197 ... K4L8Z7 38005879
    873107 8u1w:A (1.84) BS02 FHR 3.4.22.66
    3.6.1.15    		 GO:0004197 ... K4L8Z7 38005879
    873108 8u1x:C (2.7) BS01 MN 3.1.3.16 GO:0000159 ... P67775 38150499
    873109 8u1x:C (2.7) BS02 MN 3.1.3.16 GO:0000159 ... P67775 38150499
    873110 8u1y:A (1.74) BS01 5V9 N/A N/A P0AEG4 N/A
    873111 8u1y:B (1.74) BS01 CU N/A N/A P0AEG4 N/A
    873112 8u1z:A (1.85) BS01 peptide N/A N/A Q9Y3D6 N/A
    873113 8u26:R (2.5) BS01 peptide ? GO:0002118 ... P25103 37973972
    873114 8u27:A (-1.00) BS01 ULL ? GO:0042981 ... P10415
    Q07817    		 37875561
    873115 8u2a:A (1.99) BS01 5N6 N/A N/A N/A 39251137
    873116 8u2d:A (1.95) BS01 UQX 2.7.10.2 GO:0004672 ... Q06187 38300987
    873117 8u2e:A (1.9) BS01 UP9 2.7.10.2 GO:0004672 ... Q06187 38300987
    873118 8u2m:A (1.79) BS01 peptide 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873119 8u2m:A (1.79) BS02 HEM 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873120 8u2m:A (1.79) BS03 MRY 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873121 8u2m:B (1.79) BS01 MRY 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873122 8u2m:B (1.79) BS02 HEM 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873123 8u2m:B (1.79) BS03 TFA 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873124 8u2m:B (1.79) BS04 TFA 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873125 8u2m:C (1.79) BS01 HEM 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873126 8u2m:C (1.79) BS02 TFA 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873127 8u2m:C (1.79) BS03 TFA 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873128 8u2o:A (2.15) BS01 V3O 2.7.11.22 GO:0004672 ... Q8IDW1 N/A
    873129 8u2o:B (2.15) BS01 V3O 2.7.11.22 GO:0004672 ... Q8IDW1 N/A
    873130 8u2p:A (2.25) BS01 G5A 6.1.1.14 GO:0000166 ... P9WFV7 N/A
    873131 8u2q:A (2.45) BS01 G5A 6.1.1.14 GO:0000166 ... G7CIG9 N/A
    873132 8u2q:B (2.45) BS01 ZN 6.1.1.14 GO:0000166 ... G7CIG9 N/A
    873133 8u2q:B (2.45) BS02 G5A 6.1.1.14 GO:0000166 ... G7CIG9 N/A
    873134 8u2r:A (1.55) BS01 WTA 6.2.1.1 GO:0003987 ... A4I093 N/A
    873135 8u2s:A (2.52) BS01 WTA 6.2.1.1 GO:0003987 ... A4I093 N/A
    873136 8u2s:B (2.52) BS01 WTA 6.2.1.1 GO:0003987 ... A4I093 N/A
    873137 8u2t:A (1.65) BS01 AMP 6.2.1.1 GO:0003987 ... A4I093 N/A
    873138 8u2t:A (1.65) BS02 COA 6.2.1.1 GO:0003987 ... A4I093 N/A
    873139 8u2u:A (1.97) BS01 AMP 6.2.1.1 GO:0003987 ... A4I093 N/A
    873140 8u2u:A (1.97) BS02 COA 6.2.1.1 GO:0003987 ... A4I093 N/A
    873141 8u2w:A (2.35) BS01 NAP N/A GO:0004345 ... N/A N/A
    873142 8u2w:B (2.35) BS01 NAP N/A GO:0004345 ... N/A N/A
    873143 8u2y:B (-1.00) BS01 peptide N/A N/A O14686 38579707
    873144 8u2y:B (-1.00) BS02 ZN N/A N/A O14686 38579707
    873145 8u2y:B (-1.00) BS03 ZN N/A N/A O14686 38579707
    873146 8u2z:A (3.6) BS01 PIO ? GO:0005216 ... O35433 38698206
    873147 8u2z:A (3.6) BS02 CLR ? GO:0005216 ... O35433 38698206
    873148 8u2z:A (3.6) BS03 CLR ? GO:0005216 ... O35433 38698206
    873149 8u2z:A (3.6) BS04 PIO ? GO:0005216 ... O35433 38698206
    873150 8u2z:B (3.6) BS01 CLR ? GO:0005216 ... O35433 38698206
    873151 8u2z:B (3.6) BS02 PIO ? GO:0005216 ... O35433 38698206
    873152 8u2z:B (3.6) BS03 CLR ? GO:0005216 ... O35433 38698206
    873153 8u2z:B (3.6) BS04 PIO ? GO:0005216 ... O35433 38698206
    873154 8u2z:C (3.6) BS01 PIO ? GO:0005216 ... O35433 38698206
    873155 8u2z:C (3.6) BS02 CLR ? GO:0005216 ... O35433 38698206
    873156 8u2z:C (3.6) BS03 CLR ? GO:0005216 ... O35433 38698206
    873157 8u2z:C (3.6) BS04 PIO ? GO:0005216 ... O35433 38698206
    873158 8u2z:D (3.6) BS01 PIO ? GO:0005216 ... O35433 38698206
    873159 8u2z:D (3.6) BS02 CLR ? GO:0005216 ... O35433 38698206
    873160 8u2z:D (3.6) BS03 PIO ? GO:0005216 ... O35433 38698206
    873161 8u2z:D (3.6) BS04 CLR ? GO:0005216 ... O35433 38698206
    873162 8u30:A (3.0) BS01 PIO ? GO:0000122 ... O35433 38698206
    873163 8u30:B (3.0) BS01 PIO ? GO:0000122 ... O35433 38698206
    873164 8u30:C (3.0) BS01 PIO ? GO:0000122 ... O35433 38698206
    873165 8u30:D (3.0) BS01 PIO ? GO:0000122 ... O35433 38698206
    873166 8u36:A (2.6) BS01 peptide ? GO:0005737 ... P52293 N/A
    873167 8u36:A (2.6) BS02 peptide ? GO:0005737 ... P52293 N/A
    873168 8u37:A (2.48) BS01 V5U 2.7.11.13 GO:0004672 ... P17252 38198520
    873169 8u3a:A (2.3) BS01 VPN ? GO:0005216 ... O35433 38698206
    873170 8u3a:D (2.3) BS01 VPN ? GO:0005216 ... O35433 38698206
    873171 8u3b:A (3.23) BS01 dna 2.7.7.6 GO:0000345 ... P0A7Z4 38197271
    873172 8u3b:C (3.23) BS01 dna 2.7.7.6 GO:0000345 ... P0A8V2 38197271
    873173 8u3b:C (3.23) BS02 dna 2.7.7.6 GO:0000345 ... P0A8V2 38197271
    873174 8u3b:C (3.23) BS03 rna 2.7.7.6 GO:0000345 ... P0A8V2 38197271
    873175 8u3b:D (3.23) BS01 dna 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    873176 8u3b:D (3.23) BS02 dna 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    873177 8u3b:D (3.23) BS03 ZN 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    873178 8u3b:D (3.23) BS04 ZN 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    873179 8u3b:D (3.23) BS05 MG 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    873180 8u3b:F (3.23) BS01 dna ? GO:0000345 ... P00579 38197271
    873181 8u3b:F (3.23) BS02 dna ? GO:0000345 ... P00579 38197271
    873182 8u3b:G (3.23) BS01 dna ? GO:0003677 ... P0AF28 38197271
    873183 8u3b:G (3.23) BS02 dna ? GO:0003677 ... P0AF28 38197271
    873184 8u3b:H (3.23) BS01 dna ? GO:0003677 ... P0AF28 38197271
    873185 8u3b:H (3.23) BS02 dna ? GO:0003677 ... P0AF28 38197271
    873186 8u3c:A (2.3) BS01 VPN ? GO:0000122 ... O35433 38698206
    873187 8u3c:A (2.3) BS02 3PH ? GO:0000122 ... O35433 38698206
    873188 8u3c:D (2.3) BS01 3PH ? GO:0000122 ... O35433 38698206
    873189 8u3g:A (3.42) BS01 ASP ? GO:0005351 ... Q9NRA2 N/A
    873190 8u3g:A (3.42) BS02 GLU ? GO:0005351 ... Q9NRA2 N/A
    873191 8u3h:A (3.67) BS01 VP1 ? GO:0005351 ... Q9NRA2 N/A
    873192 8u3h:A (3.67) BS02 LEU ? GO:0005351 ... Q9NRA2 N/A
    873193 8u3k:A (2.5) BS01 dna N/A N/A Q9KR72 38740055
    873194 8u3k:E (2.5) BS01 dna N/A N/A Q9KR73 38740055
    873195 8u3k:E (2.5) BS02 dna N/A N/A Q9KR73 38740055
    873196 8u3k:F (2.5) BS01 dna N/A N/A Q9KR72 38740055
    873197 8u3n:A (2.15) BS01 HEM 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873198 8u3n:A (2.15) BS02 BGC 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873199 8u3n:B (2.15) BS01 HEM 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    873200 8u3n:B (2.15) BS02 BGC 1.14.-.- GO:0004497 ... A0A3E2YLT4 N/A
    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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