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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.
  • 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
    592001 8y0x:Lg (3.3) BS02 MG ? GO:0002181 ... P49207 38698775
    592002 8y0x:Lg (3.3) BS03 ZN ? GO:0002181 ... P49207 38698775
    592003 8y0x:Lh (3.3) BS01 rna ? GO:0000463 ... P42766 38698775
    592004 8y0x:Lh (3.3) BS02 rna ? GO:0000463 ... P42766 38698775
    592005 8y0x:Li (3.3) BS01 rna ? GO:0002181 ... Q9Y3U8 38698775
    592006 8y0x:Lj (3.3) BS01 rna ? GO:0002181 ... P61927 38698775
    592007 8y0x:Lj (3.3) BS02 rna ? GO:0002181 ... P61927 38698775
    592008 8y0x:Lj (3.3) BS03 ZN ? GO:0002181 ... P61927 38698775
    592009 8y0x:Lk (3.3) BS01 rna ? GO:0001501 ... P63173 38698775
    592010 8y0x:Ll (3.3) BS01 rna ? GO:0002181 ... P62891 38698775
    592011 8y0x:Ll (3.3) BS02 rna ? GO:0002181 ... P62891 38698775
    592012 8y0x:Lm (3.3) BS01 rna ? GO:0002181 ... P62987 38698775
    592013 8y0x:Lm (3.3) BS02 ZN ? GO:0002181 ... P62987 38698775
    592014 8y0x:Lo (3.3) BS01 rna ? GO:0002181 ... P83881 38698775
    592015 8y0x:Lo (3.3) BS02 rna ? GO:0002181 ... P83881 38698775
    592016 8y0x:Lp (3.3) BS01 rna ? GO:0002181 ... P61513 38698775
    592017 8y0x:Lp (3.3) BS02 ZN ? GO:0002181 ... P61513 38698775
    592018 8y0x:Lr (3.3) BS01 rna ? GO:0002181 ... P46779 38698775
    592019 8y0x:S (3.3) BS01 rna ? GO:0003723 ... Q8NC51 38698775
    592020 8y0x:SA (3.3) BS01 rna ? GO:0000028 ... P08865 38698775
    592021 8y0x:SB (3.3) BS01 rna ? GO:0002181 ... P61247 38698775
    592022 8y0x:SC (3.3) BS01 rna ? GO:0002181 ... P15880 38698775
    592023 8y0x:SD (3.3) BS01 rna 4.2.99.18 GO:0000977 ... P23396 38698775
    592024 8y0x:SE (3.3) BS01 rna ? GO:0002181 ... P62701 38698775
    592025 8y0x:SF (3.3) BS01 rna ? GO:0000028 ... P46782 38698775
    592026 8y0x:SG (3.3) BS01 rna ? GO:0000082 ... P62753 38698775
    592027 8y0x:SH (3.3) BS01 rna ? GO:0001843 ... P62081 38698775
    592028 8y0x:SI (3.3) BS01 rna ? GO:0000462 ... P62241 38698775
    592029 8y0x:SI (3.3) BS02 rna ? GO:0000462 ... P62241 38698775
    592030 8y0x:SJ (3.3) BS01 rna ? GO:0002181 ... P46781 38698775
    592031 8y0x:SK (3.3) BS01 rna ? GO:0002181 ... P46783 38698775
    592032 8y0x:SL (3.3) BS01 rna ? GO:0002181 ... P62280 38698775
    592033 8y0x:SN (3.3) BS01 rna ? GO:0002181 ... P62277 38698775
    592034 8y0x:SO (3.3) BS01 rna ? GO:0000028 ... P62263 38698775
    592035 8y0x:SP (3.3) BS01 rna ? GO:0000028 ... P62841 38698775
    592036 8y0x:SQ (3.3) BS01 rna ? GO:0000462 ... P62249 38698775
    592037 8y0x:SR (3.3) BS01 rna ? GO:0002181 ... P08708 38698775
    592038 8y0x:SS (3.3) BS01 rna ? GO:0002181 ... P62269 38698775
    592039 8y0x:ST (3.3) BS01 rna ? GO:0000028 ... P39019 38698775
    592040 8y0x:SU (3.3) BS01 rna ? GO:0002181 ... P60866 38698775
    592041 8y0x:SW (3.3) BS01 rna ? GO:0002181 ... P62244 38698775
    592042 8y0x:SX (3.3) BS01 rna ? GO:0002181 ... P62266 38698775
    592043 8y0x:SY (3.3) BS01 rna ? GO:0002181 ... P62847 38698775
    592044 8y0x:SZ (3.3) BS01 rna ? GO:0002181 ... P62851 38698775
    592045 8y0x:Sa (3.3) BS01 rna ? GO:0002181 ... P62854 38698775
    592046 8y0x:Sa (3.3) BS02 ZN ? GO:0002181 ... P62854 38698775
    592047 8y0x:Sb (3.3) BS01 rna ? GO:0000028 ... P42677 38698775
    592048 8y0x:Sc (3.3) BS01 rna ? GO:0000028 ... P62857 38698775
    592049 8y0x:Sd (3.3) BS01 rna ? GO:0002181 ... P62273 38698775
    592050 8y0x:Se (3.3) BS01 rna ? GO:0003735 ... P62861 38698775
    592051 8y0x:Sg (3.3) BS01 rna ? GO:0001891 ... P63244 38698775
    592052 8y1m:A (1.8) BS01 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592053 8y1m:A (1.8) BS02 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592054 8y1m:A (1.8) BS03 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592055 8y1m:A (1.8) BS04 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592056 8y1m:A (1.8) BS05 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592057 8y1m:A (1.8) BS06 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592058 8y1m:A (1.8) BS07 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592059 8y1m:A (1.8) BS08 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592060 8y1m:A (1.8) BS09 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592061 8y1m:B (1.8) BS01 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592062 8y1m:B (1.8) BS02 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592063 8y1m:B (1.8) BS03 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592064 8y1m:B (1.8) BS04 XYP 3.2.1.8 GO:0005576 ... P07528 38565938
    592065 8y1m:B (1.8) BS05 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592066 8y1m:B (1.8) BS06 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592067 8y1m:B (1.8) BS07 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592068 8y1m:B (1.8) BS08 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592069 8y1m:B (1.8) BS09 CA 3.2.1.8 GO:0005576 ... P07528 38565938
    592070 8y2h:B (3.3) BS01 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592071 8y2h:B (3.3) BS02 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592072 8y2h:B (3.3) BS03 ATP 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592073 8y2h:F (3.3) BS01 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592074 8y2h:F (3.3) BS02 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592075 8y2h:F (3.3) BS03 ATP 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592076 8y2h:G (3.3) BS01 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592077 8y2h:G (3.3) BS02 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592078 8y2h:G (3.3) BS03 ATP 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592079 8y2h:H (3.3) BS01 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592080 8y2h:H (3.3) BS02 peptide 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592081 8y2h:H (3.3) BS03 ATP 1.2.1.41
    2.7.2.11    		 GO:0004349 ... P54887 38740943
    592082 8y33:A (2.9) BS01 V8U N/A GO:0015979 ... N/A 38552148
    592083 8y36:1 (2.65) BS01 rna N/A GO:0005737 ... P66232 38992047
    592084 8y36:2 (2.65) BS01 rna N/A GO:0005840 ... P66254 38992047
    592085 8y36:3 (2.65) BS01 rna N/A GO:0003735 ... P66277 38992047
    592086 8y36:4 (2.65) BS01 rna N/A GO:0005737 ... P66300 38992047
    592087 8y36:C (2.65) BS01 rna N/A GO:0002181 ... P60433 38992047
    592088 8y36:D (2.65) BS01 rna N/A GO:0003735 ... P60450 38992047
    592089 8y36:E (2.65) BS01 rna N/A GO:0003735 ... P61060 38992047
    592090 8y36:F (2.65) BS01 rna N/A GO:0000049 ... Q7A083 38992047
    592091 8y36:F (2.65) BS02 rna N/A GO:0000049 ... Q7A083 38992047
    592092 8y36:G (2.65) BS01 rna N/A GO:0002181 ... Q7A084 38992047
    592093 8y36:H (2.65) BS01 rna N/A GO:0003729 ... Q7A089 38992047
    592094 8y36:I (2.65) BS01 rna N/A GO:0003735 ... Q7A081 38992047
    592095 8y36:J (2.65) BS01 rna N/A GO:0003735 ... P0A0F7 38992047
    592096 8y36:K (2.65) BS01 rna N/A GO:0000049 ... Q7A080 38992047
    592097 8y36:K (2.65) BS02 rna N/A GO:0000049 ... Q7A080 38992047
    592098 8y36:L (2.65) BS01 rna N/A GO:0003735 ... Q7A087 38992047
    592099 8y36:M (2.65) BS01 rna N/A GO:0005737 ... Q7A085 38992047
    592100 8y36:M (2.65) BS02 rna N/A GO:0005737 ... Q7A085 38992047
    592101 8y36:N (2.65) BS01 rna N/A GO:0003735 ... Q8NX05 38992047
    592102 8y36:O (2.65) BS01 rna N/A GO:0000027 ... P66109 38992047
    592103 8y36:P (2.65) BS01 rna N/A GO:0003735 ... Q7A0Q2 38992047
    592104 8y36:Q (2.65) BS01 rna N/A GO:0003735 ... Q7A079 38992047
    592105 8y36:R (2.65) BS01 rna N/A GO:0000027 ... Q7A078 38992047
    592106 8y36:S (2.65) BS01 rna N/A GO:0005840 ... P60736 38992047
    592107 8y36:V (2.65) BS01 rna N/A GO:0005840 ... P66154 38992047
    592108 8y36:W (2.65) BS01 rna N/A GO:0005840 ... P66174 38992047
    592109 8y36:X (2.65) BS01 rna N/A GO:0005840 ... P0A0G1 38992047
    592110 8y36:X (2.65) BS02 rna N/A GO:0005840 ... P0A0G1 38992047
    592111 8y37:1 (2.53) BS01 rna N/A GO:0005737 ... P66232 38992047
    592112 8y37:2 (2.53) BS01 rna N/A GO:0005840 ... P66254 38992047
    592113 8y37:3 (2.53) BS01 rna N/A GO:0003735 ... P66277 38992047
    592114 8y37:4 (2.53) BS01 rna N/A GO:0005737 ... P66300 38992047
    592115 8y37:C (2.53) BS01 rna N/A GO:0002181 ... P60433 38992047
    592116 8y37:D (2.53) BS01 rna N/A GO:0003735 ... P60450 38992047
    592117 8y37:E (2.53) BS01 rna N/A GO:0003735 ... P61060 38992047
    592118 8y37:F (2.53) BS01 rna N/A GO:0000049 ... Q7A083 38992047
    592119 8y37:F (2.53) BS02 rna N/A GO:0000049 ... Q7A083 38992047
    592120 8y37:G (2.53) BS01 rna N/A GO:0002181 ... Q7A084 38992047
    592121 8y37:H (2.53) BS01 rna N/A GO:0003729 ... Q7A089 38992047
    592122 8y37:I (2.53) BS01 rna N/A GO:0003735 ... Q7A081 38992047
    592123 8y37:J (2.53) BS01 rna N/A GO:0003735 ... P0A0F7 38992047
    592124 8y37:K (2.53) BS01 rna N/A GO:0000049 ... Q7A080 38992047
    592125 8y37:K (2.53) BS02 rna N/A GO:0000049 ... Q7A080 38992047
    592126 8y37:L (2.53) BS01 rna N/A GO:0003735 ... Q7A087 38992047
    592127 8y37:M (2.53) BS01 rna N/A GO:0005737 ... Q7A085 38992047
    592128 8y37:M (2.53) BS02 rna N/A GO:0005737 ... Q7A085 38992047
    592129 8y37:N (2.53) BS01 rna N/A GO:0003735 ... Q8NX05 38992047
    592130 8y37:O (2.53) BS01 rna N/A GO:0000027 ... P66109 38992047
    592131 8y37:P (2.53) BS01 rna N/A GO:0003735 ... Q7A0Q2 38992047
    592132 8y37:Q (2.53) BS01 rna N/A GO:0003735 ... Q7A079 38992047
    592133 8y37:R (2.53) BS01 rna N/A GO:0000027 ... Q7A078 38992047
    592134 8y37:S (2.53) BS01 rna N/A GO:0005840 ... P60736 38992047
    592135 8y37:V (2.53) BS01 rna N/A GO:0005840 ... P66154 38992047
    592136 8y37:W (2.53) BS01 rna N/A GO:0005840 ... P66174 38992047
    592137 8y37:X (2.53) BS01 rna N/A GO:0005840 ... P0A0G1 38992047
    592138 8y37:X (2.53) BS02 rna N/A GO:0005840 ... P0A0G1 38992047
    592139 8y38:1 (2.58) BS01 rna N/A GO:0005737 ... P66232 38992047
    592140 8y38:2 (2.58) BS01 rna N/A GO:0005840 ... P66254 38992047
    592141 8y38:3 (2.58) BS01 rna N/A GO:0003735 ... P66277 38992047
    592142 8y38:4 (2.58) BS01 rna N/A GO:0005737 ... P66300 38992047
    592143 8y38:C (2.58) BS01 rna N/A GO:0002181 ... P60433 38992047
    592144 8y38:D (2.58) BS01 rna N/A GO:0003735 ... P60450 38992047
    592145 8y38:E (2.58) BS01 rna N/A GO:0003735 ... P61060 38992047
    592146 8y38:F (2.58) BS01 rna N/A GO:0000049 ... Q7A083 38992047
    592147 8y38:F (2.58) BS02 rna N/A GO:0000049 ... Q7A083 38992047
    592148 8y38:G (2.58) BS01 rna N/A GO:0002181 ... Q7A084 38992047
    592149 8y38:H (2.58) BS01 rna N/A GO:0003729 ... Q7A089 38992047
    592150 8y38:I (2.58) BS01 rna N/A GO:0003735 ... Q7A081 38992047
    592151 8y38:I (2.58) BS02 rna N/A GO:0003735 ... Q7A081 38992047
    592152 8y38:J (2.58) BS01 rna N/A GO:0003735 ... P0A0F7 38992047
    592153 8y38:K (2.58) BS01 rna N/A GO:0000049 ... Q7A080 38992047
    592154 8y38:K (2.58) BS02 rna N/A GO:0000049 ... Q7A080 38992047
    592155 8y38:L (2.58) BS01 rna N/A GO:0003735 ... Q7A087 38992047
    592156 8y38:M (2.58) BS01 rna N/A GO:0005737 ... Q7A085 38992047
    592157 8y38:M (2.58) BS02 rna N/A GO:0005737 ... Q7A085 38992047
    592158 8y38:N (2.58) BS01 rna N/A GO:0003735 ... Q8NX05 38992047
    592159 8y38:O (2.58) BS01 rna N/A GO:0000027 ... P66109 38992047
    592160 8y38:P (2.58) BS01 rna N/A GO:0003735 ... Q7A0Q2 38992047
    592161 8y38:Q (2.58) BS01 rna N/A GO:0003735 ... Q7A079 38992047
    592162 8y38:R (2.58) BS01 rna N/A GO:0000027 ... Q7A078 38992047
    592163 8y38:S (2.58) BS01 rna N/A GO:0005840 ... P60736 38992047
    592164 8y38:V (2.58) BS01 rna N/A GO:0005840 ... P66154 38992047
    592165 8y38:W (2.58) BS01 rna N/A GO:0005840 ... P66174 38992047
    592166 8y38:X (2.58) BS01 rna N/A GO:0005840 ... P0A0G1 38992047
    592167 8y38:X (2.58) BS02 rna N/A GO:0005840 ... P0A0G1 38992047
    592168 8y38:b (2.58) BS01 rna N/A GO:0003735 ... A0A2X2M020 38992047
    592169 8y38:c (2.58) BS01 rna N/A GO:0003729 ... P66554 38992047
    592170 8y38:d (2.58) BS01 rna N/A GO:0003735 ... P66564 38992047
    592171 8y38:e (2.58) BS01 rna N/A GO:0005737 ... P66580 38992047
    592172 8y38:f (2.58) BS01 rna N/A GO:0003735 ... P66596 38992047
    592173 8y38:g (2.58) BS01 rna N/A GO:0000028 ... P66617 38992047
    592174 8y38:h (2.58) BS01 rna N/A GO:0003735 ... P66631 38992047
    592175 8y38:i (2.58) BS01 rna N/A GO:0003723 ... P66647 38992047
    592176 8y38:j (2.58) BS01 rna N/A GO:0000049 ... P66335 38992047
    592177 8y38:k (2.58) BS01 rna N/A GO:0005840 ... P66358 38992047
    592178 8y38:m (2.58) BS01 rna N/A GO:0000049 ... P66389 38992047
    592179 8y38:n (2.58) BS01 rna N/A GO:0003735 ... P66413 38992047
    592180 8y38:o (2.58) BS01 rna N/A GO:0005737 ... Q7A116 38992047
    592181 8y38:p (2.58) BS01 rna N/A GO:0003735 ... P66441 38992047
    592182 8y38:q (2.58) BS01 rna N/A GO:0003735 ... Q8NVB4 38992047
    592183 8y38:r (2.58) BS01 rna N/A GO:0003735 ... P66469 38992047
    592184 8y38:t (2.58) BS01 rna N/A GO:0005829 ... Q7A0R9 38992047
    592185 8y39:1 (3.6) BS01 rna N/A GO:0005737 ... P66232 38992047
    592186 8y39:2 (3.6) BS01 rna N/A GO:0005840 ... P66254 38992047
    592187 8y39:3 (3.6) BS01 rna N/A GO:0003735 ... P66277 38992047
    592188 8y39:4 (3.6) BS01 rna N/A GO:0005737 ... P66300 38992047
    592189 8y39:C (3.6) BS01 rna N/A GO:0002181 ... P60433 38992047
    592190 8y39:D (3.6) BS01 rna N/A GO:0003735 ... P60450 38992047
    592191 8y39:E (3.6) BS01 rna N/A GO:0003735 ... P61060 38992047
    592192 8y39:F (3.6) BS01 rna N/A GO:0000049 ... Q7A083 38992047
    592193 8y39:F (3.6) BS02 rna N/A GO:0000049 ... Q7A083 38992047
    592194 8y39:G (3.6) BS01 rna N/A GO:0002181 ... Q7A084 38992047
    592195 8y39:H (3.6) BS01 rna N/A GO:0003729 ... Q7A089 38992047
    592196 8y39:I (3.6) BS01 rna N/A GO:0003735 ... Q7A081 38992047
    592197 8y39:I (3.6) BS02 rna N/A GO:0003735 ... Q7A081 38992047
    592198 8y39:J (3.6) BS01 rna N/A GO:0003735 ... P0A0F7 38992047
    592199 8y39:K (3.6) BS01 rna N/A GO:0000049 ... Q7A080 38992047
    592200 8y39:K (3.6) BS02 rna N/A GO:0000049 ... Q7A080 38992047
    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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