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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

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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
    881001 8vfz:B (4.1) BS01 dna N/A N/A P62805 39121853
    881002 8vfz:B (4.1) BS02 dna N/A N/A P62805 39121853
    881003 8vfz:C (4.1) BS01 dna N/A N/A P04908 39121853
    881004 8vfz:C (4.1) BS02 dna N/A N/A P04908 39121853
    881005 8vfz:D (4.1) BS01 dna N/A N/A P06899 39121853
    881006 8vfz:D (4.1) BS02 dna N/A N/A P06899 39121853
    881007 8vfz:E (4.1) BS01 dna N/A N/A P68431 39121853
    881008 8vfz:E (4.1) BS02 dna N/A N/A P68431 39121853
    881009 8vfz:F (4.1) BS01 dna N/A N/A P62805 39121853
    881010 8vfz:F (4.1) BS02 dna N/A N/A P62805 39121853
    881011 8vfz:G (4.1) BS01 dna N/A N/A P04908 39121853
    881012 8vfz:G (4.1) BS02 dna N/A N/A P04908 39121853
    881013 8vfz:H (4.1) BS01 dna N/A N/A P06899 39121853
    881014 8vfz:H (4.1) BS02 dna N/A N/A P06899 39121853
    881015 8vfz:O (4.1) BS01 dna N/A N/A P55317 39121853
    881016 8vfz:O (4.1) BS02 dna N/A N/A P55317 39121853
    881017 8vfz:P (4.1) BS01 dna N/A N/A P55317 39121853
    881018 8vfz:P (4.1) BS02 dna N/A N/A P55317 39121853
    881019 8vg0:A (3.07) BS01 dna N/A N/A P68431 39121853
    881020 8vg0:A (3.07) BS02 dna N/A N/A P68431 39121853
    881021 8vg0:B (3.07) BS01 dna N/A N/A P62805 39121853
    881022 8vg0:B (3.07) BS02 dna N/A N/A P62805 39121853
    881023 8vg0:C (3.07) BS01 dna N/A N/A P04908 39121853
    881024 8vg0:C (3.07) BS02 dna N/A N/A P04908 39121853
    881025 8vg0:D (3.07) BS01 dna N/A N/A P06899 39121853
    881026 8vg0:D (3.07) BS02 dna N/A N/A P06899 39121853
    881027 8vg0:E (3.07) BS01 dna N/A N/A P68431 39121853
    881028 8vg0:E (3.07) BS02 dna N/A N/A P68431 39121853
    881029 8vg0:F (3.07) BS01 dna N/A N/A P62805 39121853
    881030 8vg0:F (3.07) BS02 dna N/A N/A P62805 39121853
    881031 8vg0:G (3.07) BS01 dna N/A N/A P04908 39121853
    881032 8vg0:G (3.07) BS02 dna N/A N/A P04908 39121853
    881033 8vg0:H (3.07) BS01 dna N/A N/A P06899 39121853
    881034 8vg0:H (3.07) BS02 dna N/A N/A P06899 39121853
    881035 8vg0:T (3.07) BS01 dna N/A N/A P0AEX9
    P43694    		 39121853
    881036 8vg0:T (3.07) BS02 dna N/A N/A P0AEX9
    P43694    		 39121853
    881037 8vg0:T (3.07) BS03 ZN N/A N/A P0AEX9
    P43694    		 39121853
    881038 8vg1:A (2.48) BS01 dna N/A N/A P68431 39121853
    881039 8vg1:A (2.48) BS02 dna N/A N/A P68431 39121853
    881040 8vg1:B (2.48) BS01 dna N/A N/A P62805 39121853
    881041 8vg1:B (2.48) BS02 dna N/A N/A P62805 39121853
    881042 8vg1:C (2.48) BS01 dna N/A N/A P04908 39121853
    881043 8vg1:C (2.48) BS02 dna N/A N/A P04908 39121853
    881044 8vg1:D (2.48) BS01 dna N/A N/A P06899 39121853
    881045 8vg1:D (2.48) BS02 dna N/A N/A P06899 39121853
    881046 8vg1:E (2.48) BS01 dna N/A N/A P68431 39121853
    881047 8vg1:E (2.48) BS02 dna N/A N/A P68431 39121853
    881048 8vg1:F (2.48) BS01 dna N/A N/A P62805 39121853
    881049 8vg1:F (2.48) BS02 dna N/A N/A P62805 39121853
    881050 8vg1:G (2.48) BS01 dna N/A N/A P04908 39121853
    881051 8vg1:G (2.48) BS02 dna N/A N/A P04908 39121853
    881052 8vg1:H (2.48) BS01 dna N/A N/A P06899 39121853
    881053 8vg1:H (2.48) BS02 dna N/A N/A P06899 39121853
    881054 8vg1:O (2.48) BS01 dna N/A N/A P55317 39121853
    881055 8vg1:O (2.48) BS02 dna N/A N/A P55317 39121853
    881056 8vg1:T (2.48) BS01 dna N/A N/A P0AEX9
    P43694    		 39121853
    881057 8vg1:T (2.48) BS02 dna N/A N/A P0AEX9
    P43694    		 39121853
    881058 8vg1:T (2.48) BS03 ZN N/A N/A P0AEX9
    P43694    		 39121853
    881059 8vg2:A (3.04) BS01 dna N/A N/A P68431 N/A
    881060 8vg2:A (3.04) BS02 dna N/A N/A P68431 N/A
    881061 8vg2:B (3.04) BS01 dna N/A N/A P62805 N/A
    881062 8vg2:B (3.04) BS02 dna N/A N/A P62805 N/A
    881063 8vg2:C (3.04) BS01 dna N/A N/A P04908 N/A
    881064 8vg2:C (3.04) BS02 dna N/A N/A P04908 N/A
    881065 8vg2:D (3.04) BS01 dna N/A N/A P06899 N/A
    881066 8vg2:D (3.04) BS02 dna N/A N/A P06899 N/A
    881067 8vg2:E (3.04) BS01 dna N/A N/A P68431 N/A
    881068 8vg2:E (3.04) BS02 dna N/A N/A P68431 N/A
    881069 8vg2:F (3.04) BS01 dna N/A N/A P62805 N/A
    881070 8vg2:F (3.04) BS02 dna N/A N/A P62805 N/A
    881071 8vg2:G (3.04) BS01 dna N/A N/A P04908 N/A
    881072 8vg2:G (3.04) BS02 dna N/A N/A P04908 N/A
    881073 8vg2:H (3.04) BS01 dna N/A N/A P06899 N/A
    881074 8vg2:H (3.04) BS02 dna N/A N/A P06899 N/A
    881075 8vg2:O (3.04) BS01 dna N/A N/A P55317 N/A
    881076 8vg2:O (3.04) BS02 dna N/A N/A P55317 N/A
    881077 8vg2:U (3.04) BS01 dna N/A N/A P10412 N/A
    881078 8vg2:U (3.04) BS02 dna N/A N/A P10412 N/A
    881079 8vg5:A (1.5) BS01 7L9 4.1.1.84 GO:0004167 ... P30046 38670943
    881080 8vg8:A (1.33) BS01 7L9 4.1.1.84 GO:0004167 ... P30046 38670943
    881081 8vgc:A (1.42) BS01 peptide ? GO:0022857 ... P0ABV2 38311172
    881082 8vgc:B (1.42) BS01 peptide ? GO:0022857 ... P0ABV2 38311172
    881083 8vgd:A (1.42) BS01 peptide ? GO:0022857 ... P0ABV2 38311172
    881084 8vgd:B (1.42) BS01 peptide ? GO:0022857 ... P0ABV2 38311172
    881085 8vgz:A (2.09) BS01 MN 3.1.-.- GO:0003723 ... C3W5S0 38190441
    881086 8vgz:A (2.09) BS02 MN 3.1.-.- GO:0003723 ... C3W5S0 38190441
    881087 8vh7:A (1.982) BS01 UDP N/A N/A Q5SGE1 N/A
    881088 8vh7:A (1.982) BS02 MN N/A N/A Q5SGE1 N/A
    881089 8vh7:A (1.982) BS03 UDP N/A N/A Q5SGE1 N/A
    881090 8vh7:B (1.982) BS01 UDP N/A N/A Q5SGE1 N/A
    881091 8vh7:B (1.982) BS02 MN N/A N/A Q5SGE1 N/A
    881092 8vh7:B (1.982) BS03 UDP N/A N/A Q5SGE1 N/A
    881093 8vh8:A (2.85) BS01 UDP N/A N/A Q5SGE1 N/A
    881094 8vh8:A (2.85) BS02 MN N/A N/A Q5SGE1 N/A
    881095 8vh8:A (2.85) BS03 UDP N/A N/A Q5SGE1 N/A
    881096 8vh8:B (2.85) BS01 UDP N/A N/A Q5SGE1 N/A
    881097 8vh8:B (2.85) BS02 MN N/A N/A Q5SGE1 N/A
    881098 8vh8:B (2.85) BS03 UDP N/A N/A Q5SGE1 N/A
    881099 8vh8:C (2.85) BS01 UDP N/A N/A Q5SGE1 N/A
    881100 8vh8:C (2.85) BS02 MN N/A N/A Q5SGE1 N/A
    881101 8vh8:C (2.85) BS03 UDP N/A N/A Q5SGE1 N/A
    881102 8vh8:D (2.85) BS01 UDP N/A N/A Q5SGE1 N/A
    881103 8vh8:D (2.85) BS02 MN N/A N/A Q5SGE1 N/A
    881104 8vh8:D (2.85) BS03 UDP N/A N/A Q5SGE1 N/A
    881105 8vh9:A (2.13) BS01 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881106 8vh9:B (2.13) BS01 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881107 8vha:A (2.28) BS01 EE1 1.1.1.42 GO:0000287 ... O75874 38710674
    881108 8vha:A (2.28) BS02 CA 1.1.1.42 GO:0000287 ... O75874 38710674
    881109 8vha:B (2.28) BS01 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881110 8vha:B (2.28) BS02 AKG 1.1.1.42 GO:0000287 ... O75874 38710674
    881111 8vha:C (2.28) BS01 EE1 1.1.1.42 GO:0000287 ... O75874 38710674
    881112 8vha:D (2.28) BS01 EE1 1.1.1.42 GO:0000287 ... O75874 38710674
    881113 8vha:D (2.28) BS02 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881114 8vhb:A (1.89) BS01 AKG 1.1.1.42 GO:0000287 ... O75874 38710674
    881115 8vhb:A (1.89) BS02 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881116 8vhb:B (1.89) BS01 EE1 1.1.1.42 GO:0000287 ... O75874 38710674
    881117 8vhb:C (1.89) BS01 AKG 1.1.1.42 GO:0000287 ... O75874 38710674
    881118 8vhb:C (1.89) BS02 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881119 8vhb:D (1.89) BS01 EE1 1.1.1.42 GO:0000287 ... O75874 38710674
    881120 8vhc:A (2.44) BS01 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881121 8vhc:B (2.44) BS01 NDP 1.1.1.42 GO:0000287 ... O75874 38710674
    881122 8vhd:A (2.38) BS01 NAP 1.1.1.42 GO:0000287 ... O75874 38710674
    881123 8vhd:A (2.38) BS02 CA 1.1.1.42 GO:0000287 ... O75874 38710674
    881124 8vhd:B (2.38) BS01 NAP 1.1.1.42 GO:0000287 ... O75874 38710674
    881125 8vhd:C (2.38) BS01 NAP 1.1.1.42 GO:0000287 ... O75874 38710674
    881126 8vhd:D (2.38) BS01 NAP 1.1.1.42 GO:0000287 ... O75874 38710674
    881127 8vhd:D (2.38) BS02 NAP 1.1.1.42 GO:0000287 ... O75874 38710674
    881128 8vhd:D (2.38) BS03 CA 1.1.1.42 GO:0000287 ... O75874 38710674
    881129 8vhe:A (2.16) BS01 A1AAX 1.1.1.42 GO:0000287 ... O75874 38710674
    881130 8vhe:A (2.16) BS02 CA 1.1.1.42 GO:0000287 ... O75874 38710674
    881131 8vhe:B (2.16) BS01 A1AAX 1.1.1.42 GO:0000287 ... O75874 38710674
    881132 8vhe:B (2.16) BS02 CA 1.1.1.42 GO:0000287 ... O75874 38710674
    881133 8vhe:C (2.16) BS01 A1AAX 1.1.1.42 GO:0000287 ... O75874 38710674
    881134 8vhe:C (2.16) BS02 CA 1.1.1.42 GO:0000287 ... O75874 38710674
    881135 8vhe:D (2.16) BS01 A1AAX 1.1.1.42 GO:0000287 ... O75874 38710674
    881136 8vhe:D (2.16) BS02 CA 1.1.1.42 GO:0000287 ... O75874 38710674
    881137 8vhh:A (2.15) BS01 PLP N/A N/A P50909 39074291
    881138 8vhh:B (2.15) BS01 PLP N/A N/A P50909 39074291
    881139 8vhl:A (1.93) BS01 FMN 1.3.5.2 GO:0004151 ... Q02127 38505861
    881140 8vhl:A (1.93) BS02 A1AA2 1.3.5.2 GO:0004151 ... Q02127 38505861
    881141 8vhm:A (2.26) BS01 FMN 1.3.5.2 GO:0004151 ... Q02127 38505861
    881142 8vhm:A (2.26) BS02 A1AA1 1.3.5.2 GO:0004151 ... Q02127 38505861
    881143 8vhn:A (2.62) BS01 ATP N/A N/A P00452 39164005
    881144 8vhn:A (2.62) BS02 ATP N/A N/A P00452 39164005
    881145 8vhn:A (2.62) BS03 ATP N/A N/A P00452 39164005
    881146 8vhn:A (2.62) BS04 ATP N/A N/A P00452 39164005
    881147 8vhn:B (2.62) BS01 ATP N/A N/A P00452 39164005
    881148 8vhn:B (2.62) BS02 ATP N/A N/A P00452 39164005
    881149 8vhn:B (2.62) BS03 ATP N/A N/A P00452 39164005
    881150 8vhn:B (2.62) BS04 ATP N/A N/A P00452 39164005
    881151 8vho:A (2.548) BS01 DTP N/A N/A P00452 39164005
    881152 8vho:A (2.548) BS02 DTP N/A N/A P00452 39164005
    881153 8vho:A (2.548) BS03 DTP N/A N/A P00452 39164005
    881154 8vho:B (2.548) BS01 DTP N/A N/A P00452 39164005
    881155 8vho:B (2.548) BS02 DTP N/A N/A P00452 39164005
    881156 8vho:B (2.548) BS03 DTP N/A N/A P00452 39164005
    881157 8vhp:A (2.608) BS01 ATP N/A N/A P00452 39164005
    881158 8vhp:A (2.608) BS02 ATP N/A N/A P00452 39164005
    881159 8vhp:A (2.608) BS03 ATP N/A N/A P00452 39164005
    881160 8vhp:A (2.608) BS04 CDP N/A N/A P00452 39164005
    881161 8vhp:A (2.608) BS05 ATP N/A N/A P00452 39164005
    881162 8vhp:B (2.608) BS01 ATP N/A N/A P00452 39164005
    881163 8vhp:B (2.608) BS02 ATP N/A N/A P00452 39164005
    881164 8vhp:B (2.608) BS03 ATP N/A N/A P00452 39164005
    881165 8vhp:B (2.608) BS04 ATP N/A N/A P00452 39164005
    881166 8vhp:B (2.608) BS05 CDP N/A N/A P00452 39164005
    881167 8vhp:C (2.608) BS01 ATP N/A N/A P00452 39164005
    881168 8vhp:C (2.608) BS02 ATP N/A N/A P00452 39164005
    881169 8vhp:C (2.608) BS03 ATP N/A N/A P00452 39164005
    881170 8vhp:C (2.608) BS04 CDP N/A N/A P00452 39164005
    881171 8vhp:C (2.608) BS05 ATP N/A N/A P00452 39164005
    881172 8vhp:D (2.608) BS01 ATP N/A N/A P00452 39164005
    881173 8vhp:D (2.608) BS02 ATP N/A N/A P00452 39164005
    881174 8vhp:D (2.608) BS03 ATP N/A N/A P00452 39164005
    881175 8vhp:D (2.608) BS04 ATP N/A N/A P00452 39164005
    881176 8vhp:D (2.608) BS05 CDP N/A N/A P00452 39164005
    881177 8vhp:E (2.608) BS01 ATP N/A N/A P00452 39164005
    881178 8vhp:E (2.608) BS02 ATP N/A N/A P00452 39164005
    881179 8vhp:E (2.608) BS03 ATP N/A N/A P00452 39164005
    881180 8vhp:E (2.608) BS04 CDP N/A N/A P00452 39164005
    881181 8vhp:E (2.608) BS05 ATP N/A N/A P00452 39164005
    881182 8vhp:F (2.608) BS01 ATP N/A N/A P00452 39164005
    881183 8vhp:F (2.608) BS02 ATP N/A N/A P00452 39164005
    881184 8vhp:F (2.608) BS03 ATP N/A N/A P00452 39164005
    881185 8vhp:F (2.608) BS04 ATP N/A N/A P00452 39164005
    881186 8vhp:F (2.608) BS05 CDP N/A N/A P00452 39164005
    881187 8vhp:G (2.608) BS01 ATP N/A N/A P00452 39164005
    881188 8vhp:G (2.608) BS02 ATP N/A N/A P00452 39164005
    881189 8vhp:G (2.608) BS03 ATP N/A N/A P00452 39164005
    881190 8vhp:G (2.608) BS04 CDP N/A N/A P00452 39164005
    881191 8vhp:G (2.608) BS05 ATP N/A N/A P00452 39164005
    881192 8vhp:H (2.608) BS01 ATP N/A N/A P00452 39164005
    881193 8vhp:H (2.608) BS02 ATP N/A N/A P00452 39164005
    881194 8vhp:H (2.608) BS03 ATP N/A N/A P00452 39164005
    881195 8vhp:H (2.608) BS04 ATP N/A N/A P00452 39164005
    881196 8vhp:H (2.608) BS05 CDP N/A N/A P00452 39164005
    881197 8vhq:A (3.4) BS01 DTP N/A N/A P00452 39164005
    881198 8vhq:A (3.4) BS02 ATP N/A N/A P00452 39164005
    881199 8vhq:A (3.4) BS03 DTP N/A N/A P00452 39164005
    881200 8vhq:A (3.4) BS04 DTP N/A N/A P00452 39164005
    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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