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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
    90201 3j81:c (4.0) BS01 rna ? GO:0000028 ... P33285 25417110
    90202 3j81:c (4.0) BS02 rna ? GO:0000028 ... P33285 25417110
    90203 3j81:d (4.0) BS01 rna ? GO:0003735 ... Q6CPG3 25417110
    90204 3j81:e (4.0) BS01 rna ? GO:0003735 ... Q6CUH5 25417110
    90205 3j81:f (4.0) BS01 rna ? GO:0003735 ... P69061 25417110
    90206 3j81:g (4.0) BS01 rna ? GO:0001934 ... Q6CNI7 25417110
    90207 3j81:i (4.0) BS01 rna ? GO:0001677 ... P38912 25417110
    90208 3j81:i (4.0) BS02 rna ? GO:0001677 ... P38912 25417110
    90209 3j81:i (4.0) BS03 rna ? GO:0001677 ... P38912 25417110
    90210 3j81:j (4.0) BS01 rna ? GO:0001731 ... P20459 25417110
    90211 3j81:j (4.0) BS02 rna ? GO:0001731 ... P20459 25417110
    90212 3j81:j (4.0) BS03 rna ? GO:0001731 ... P20459 25417110
    90213 3j81:k (4.0) BS01 rna 3.6.5.3 GO:0000049 ... P32481 25417110
    90214 3j81:k (4.0) BS02 MET 3.6.5.3 GO:0000049 ... P32481 25417110
    90215 3j81:m (4.0) BS01 rna ? GO:0001731 ... P32911 25417110
    90216 3j81:m (4.0) BS02 rna ? GO:0001731 ... P32911 25417110
    90217 3j82:A (7.7) BS01 CA ? GO:0006898 ... Q8BRU4 25979418
    90218 3j82:B (7.7) BS01 ADP 3.6.4.- GO:0000079 ... P60709 25979418
    90219 3j82:C (7.7) BS01 ADP 3.6.4.- GO:0000079 ... P60709 25979418
    90220 3j82:D (7.7) BS01 ADP 3.6.4.- GO:0000079 ... P60709 25979418
    90221 3j8a:A (3.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25470062
    90222 3j8a:B (3.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25470062
    90223 3j8a:C (3.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25470062
    90224 3j8a:D (3.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25470062
    90225 3j8a:E (3.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25470062
    90226 3j8g:0 (5.0) BS01 rna ? GO:0000027 ... P0A7M2 25389271
    90227 3j8g:1 (5.0) BS01 rna ? GO:0000027 ... P0A7M6 25389271
    90228 3j8g:2 (5.0) BS01 rna ? GO:0000027 ... P0AG51 25389271
    90229 3j8g:2 (5.0) BS02 rna ? GO:0000027 ... P0AG51 25389271
    90230 3j8g:3 (5.0) BS01 rna ? GO:0000027 ... P0A7N4 25389271
    90231 3j8g:5 (5.0) BS01 rna ? GO:0000027 ... P0A7L0 25389271
    90232 3j8g:6 (5.0) BS01 rna ? GO:0002181 ... P0A7P5 25389271
    90233 3j8g:7 (5.0) BS01 rna ? GO:0002181 ... P0A7Q1 25389271
    90234 3j8g:8 (5.0) BS01 rna ? GO:0002181 ... P0A7Q6 25389271
    90235 3j8g:C (5.0) BS01 rna ? GO:0000027 ... P60422 25389271
    90236 3j8g:D (5.0) BS01 rna ? GO:0000027 ... P60438 25389271
    90237 3j8g:E (5.0) BS01 rna ? GO:0001070 ... P60723 25389271
    90238 3j8g:F (5.0) BS01 rna ? GO:0000027 ... P62399 25389271
    90239 3j8g:F (5.0) BS02 rna ? GO:0000027 ... P62399 25389271
    90240 3j8g:G (5.0) BS01 rna ? GO:0000027 ... P0AG55 25389271
    90241 3j8g:H (5.0) BS01 rna ? GO:0002181 ... P0A7R1 25389271
    90242 3j8g:I (5.0) BS01 rna ? GO:0000027 ... P0A7J7 25389271
    90243 3j8g:J (5.0) BS01 rna ? GO:0002181 ... P0AA10 25389271
    90244 3j8g:K (5.0) BS01 rna ? GO:0002181 ... P0ADY3 25389271
    90245 3j8g:L (5.0) BS01 rna ? GO:0002181 ... P02413 25389271
    90246 3j8g:M (5.0) BS01 rna ? GO:0000027 ... P0ADY7 25389271
    90247 3j8g:M (5.0) BS02 rna ? GO:0000027 ... P0ADY7 25389271
    90248 3j8g:N (5.0) BS01 rna ? GO:0000027 ... P0AG44 25389271
    90249 3j8g:O (5.0) BS01 rna ? GO:0002181 ... P0C018 25389271
    90250 3j8g:O (5.0) BS02 rna ? GO:0002181 ... P0C018 25389271
    90251 3j8g:P (5.0) BS01 rna ? GO:0000027 ... P0A7K6 25389271
    90252 3j8g:Q (5.0) BS01 rna ? GO:0000027 ... P0A7L3 25389271
    90253 3j8g:R (5.0) BS01 rna ? GO:0002181 ... P0AG48 25389271
    90254 3j8g:S (5.0) BS01 rna ? GO:0002181 ... P61175 25389271
    90255 3j8g:T (5.0) BS01 rna ? GO:0000027 ... P0ADZ0 25389271
    90256 3j8g:U (5.0) BS01 rna ? GO:0000027 ... P60624 25389271
    90257 3j8g:W (5.0) BS01 rna ? GO:0000027 ... P68919 25389271
    90258 3j8g:X (5.0) BS01 rna ? GO:0000027 ... P0A6P5 25389271
    90259 3j8g:Y (5.0) BS01 rna ? GO:0000027 ... P0A7L8 25389271
    90260 3j8g:Y (5.0) BS02 rna ? GO:0000027 ... P0A7L8 25389271
    90261 3j8h:A (3.8) BS01 ZN ? GO:0003151 ... P11716 25517095
    90262 3j8h:C (3.8) BS01 ZN ? GO:0003151 ... P11716 25517095
    90263 3j8h:E (3.8) BS01 ZN ? GO:0003151 ... P11716 25517095
    90264 3j8h:G (3.8) BS01 ZN ? GO:0003151 ... P11716 25517095
    90265 3j8i:D (4.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25533486
    90266 3j8i:E (4.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25533486
    90267 3j8i:F (4.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25533486
    90268 3j8i:G (4.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25533486
    90269 3j8i:H (4.7) BS01 ADP 3.6.4.- GO:0000287 ... P68135 25533486
    90270 3j8x:A (5.0) BS01 GTP 3.6.5.- GO:0000226 ... Q2XVP4 25415053
    90271 3j8x:B (5.0) BS01 GTP ? GO:0003924 ... F2Z5B2 25415053
    90272 3j8x:B (5.0) BS02 GDP ? GO:0003924 ... F2Z5B2 25415053
    90273 3j8y:A (5.0) BS01 GTP 3.6.5.- GO:0000226 ... Q2XVP4 25415053
    90274 3j8y:B (5.0) BS01 GTP ? GO:0003924 ... F2Z5B2 25415053
    90275 3j8y:B (5.0) BS02 GDP ? GO:0003924 ... F2Z5B2 25415053
    90276 3j92:0 (3.6) BS01 rna 2.3.2.27 GO:0004842 ... O94822 25578875
    90277 3j92:A (3.6) BS01 rna N/A GO:0003723 ... N/A 25578875
    90278 3j92:B (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90279 3j92:C (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90280 3j92:C (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90281 3j92:D (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90282 3j92:D (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90283 3j92:E (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90284 3j92:G (3.6) BS01 rna N/A GO:0042254 ... N/A 25578875
    90285 3j92:G (3.6) BS02 rna N/A GO:0042254 ... N/A 25578875
    90286 3j92:H (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90287 3j92:I (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90288 3j92:I (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90289 3j92:I (3.6) BS03 rna N/A GO:0003735 ... N/A 25578875
    90290 3j92:J (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90291 3j92:J (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90292 3j92:L (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90293 3j92:L (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90294 3j92:M (3.6) BS01 rna N/A GO:0003723 ... N/A 25578875
    90295 3j92:N (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90296 3j92:N (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90297 3j92:O (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90298 3j92:P (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90299 3j92:P (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90300 3j92:Q (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90301 3j92:R (3.6) BS01 rna N/A GO:0003723 ... N/A 25578875
    90302 3j92:S (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90303 3j92:S (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90304 3j92:T (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90305 3j92:T (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90306 3j92:U (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90307 3j92:V (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90308 3j92:X (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90309 3j92:X (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90310 3j92:Y (3.6) BS01 rna N/A GO:0003723 ... N/A 25578875
    90311 3j92:Y (3.6) BS02 rna N/A GO:0003723 ... N/A 25578875
    90312 3j92:Z (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90313 3j92:a (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90314 3j92:b (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90315 3j92:c (3.6) BS01 rna N/A GO:0003723 ... N/A 25578875
    90316 3j92:d (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90317 3j92:e (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90318 3j92:f (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90319 3j92:g (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90320 3j92:g (3.6) BS02 ZN N/A GO:0003735 ... N/A 25578875
    90321 3j92:h (3.6) BS01 rna N/A GO:0000463 ... N/A 25578875
    90322 3j92:h (3.6) BS02 rna N/A GO:0000463 ... N/A 25578875
    90323 3j92:i (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90324 3j92:j (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90325 3j92:j (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90326 3j92:j (3.6) BS03 ZN N/A GO:0003735 ... N/A 25578875
    90327 3j92:k (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90328 3j92:l (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90329 3j92:l (3.6) BS02 rna N/A GO:0003735 ... N/A 25578875
    90330 3j92:m (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90331 3j92:m (3.6) BS02 ZN N/A GO:0003735 ... N/A 25578875
    90332 3j92:o (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90333 3j92:o (3.6) BS02 ZN N/A GO:0003735 ... N/A 25578875
    90334 3j92:p (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90335 3j92:p (3.6) BS02 ZN N/A GO:0003735 ... N/A 25578875
    90336 3j92:r (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90337 3j92:t (3.6) BS01 rna N/A GO:0003735 ... N/A 25578875
    90338 3j92:z (3.6) BS01 rna 2.3.2.27 GO:0004842 ... O94822 25578875
    90339 3j94:A (4.2) BS01 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90340 3j94:A (4.2) BS02 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90341 3j94:B (4.2) BS01 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90342 3j94:B (4.2) BS02 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90343 3j94:B (4.2) BS03 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90344 3j94:C (4.2) BS01 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90345 3j94:C (4.2) BS02 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90346 3j94:D (4.2) BS01 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90347 3j94:D (4.2) BS02 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90348 3j94:E (4.2) BS01 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90349 3j94:E (4.2) BS02 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90350 3j94:F (4.2) BS01 ATP 3.6.4.6 GO:0000149 ... P18708 25581794
    90351 3j95:B (7.6) BS01 ADP 3.6.4.6 GO:0000149 ... P18708 25581794
    90352 3j95:C (7.6) BS01 ADP 3.6.4.6 GO:0000149 ... P18708 25581794
    90353 3j95:D (7.6) BS01 ADP 3.6.4.6 GO:0000149 ... P18708 25581794
    90354 3j95:E (7.6) BS01 ADP 3.6.4.6 GO:0000149 ... P18708 25581794
    90355 3j9c:A (2.9) BS01 CA ? GO:0005576 ... P13423 25778700
    90356 3j9c:A (2.9) BS02 CA ? GO:0005576 ... P13423 25778700
    90357 3j9m:0 (3.5) BS01 rna ? GO:0003723 ... Q9BYC8 25838379
    90358 3j9m:0 (3.5) BS02 ZN ? GO:0003723 ... Q9BYC8 25838379
    90359 3j9m:1 (3.5) BS01 rna ? GO:0003735 ... O75394 25838379
    90360 3j9m:2 (3.5) BS01 rna ? GO:0003735 ... Q9BQ48 25838379
    90361 3j9m:3 (3.5) BS01 rna ? GO:0003735 ... Q9NZE8 25838379
    90362 3j9m:4 (3.5) BS01 rna ? GO:0003735 ... Q9P0J6 25838379
    90363 3j9m:4 (3.5) BS02 ZN ? GO:0003735 ... Q9P0J6 25838379
    90364 3j9m:5 (3.5) BS01 rna ? GO:0003723 ... Q9BZE1 25838379
    90365 3j9m:6 (3.5) BS01 rna ? GO:0005515 ... Q96DV4 25838379
    90366 3j9m:6 (3.5) BS02 rna ? GO:0005515 ... Q96DV4 25838379
    90367 3j9m:8 (3.5) BS01 rna ? GO:0003723 ... Q9NQ50 25838379
    90368 3j9m:9 (3.5) BS01 rna ? GO:0003723 ... Q8IXM3 25838379
    90369 3j9m:A0 (3.5) BS01 rna ? GO:0003735 ... P82930 25838379
    90370 3j9m:A2 (3.5) BS01 rna ? GO:0001650 ... Q96BP2 25838379
    90371 3j9m:A3 (3.5) BS01 rna ? GO:0005515 ... Q9NWT8 25838379
    90372 3j9m:A3 (3.5) BS02 rna ? GO:0005515 ... Q9NWT8 25838379
    90373 3j9m:AB (3.5) BS01 rna ? GO:0003735 ... Q9Y399 25838379
    90374 3j9m:AB (3.5) BS02 ZN ? GO:0003735 ... Q9Y399 25838379
    90375 3j9m:AC (3.5) BS01 rna ? GO:0003723 ... Q96EL2 25838379
    90376 3j9m:AD (3.5) BS01 rna ? GO:0003723 ... P82675 25838379
    90377 3j9m:AE (3.5) BS01 rna ? GO:0003735 ... P82932 25838379
    90378 3j9m:AF (3.5) BS01 rna ? GO:0000028 ... Q9Y2R9 25838379
    90379 3j9m:AG (3.5) BS01 rna ? GO:0003723 ... P82933 25838379
    90380 3j9m:AH (3.5) BS01 rna ? GO:0003674 ... P82664 25838379
    90381 3j9m:AI (3.5) BS01 rna ? GO:0003723 ... P82912 25838379
    90382 3j9m:AJ (3.5) BS01 rna ? GO:0003723 ... O15235 25838379
    90383 3j9m:AK (3.5) BS01 rna ? GO:0003723 ... O60783 25838379
    90384 3j9m:AL (3.5) BS01 rna ? GO:0003723 ... P82914 25838379
    90385 3j9m:AM (3.5) BS01 rna ? GO:0003735 ... Q9Y3D3 25838379
    90386 3j9m:AN (3.5) BS01 rna ? GO:0003735 ... Q9Y2R5 25838379
    90387 3j9m:AO (3.5) BS01 rna ? GO:0003735 ... Q9Y676 25838379
    90388 3j9m:AP (3.5) BS01 rna ? GO:0003735 ... Q9Y3D5 25838379
    90389 3j9m:AQ (3.5) BS01 rna ? GO:0003723 ... P82921 25838379
    90390 3j9m:AS (3.5) BS01 rna ? GO:0003723 ... Q9Y3D9 25838379
    90391 3j9m:AT (3.5) BS01 rna ? GO:0003735 ... P82663 25838379
    90392 3j9m:AU (3.5) BS01 rna ? GO:0003723 ... Q9BYN8 25838379
    90393 3j9m:AV (3.5) BS01 rna ? GO:0000049 ... Q92552 25838379
    90394 3j9m:AX (3.5) BS01 rna ? GO:0003723 ... P51398 25838379
    90395 3j9m:AX (3.5) BS02 GDP ? GO:0003723 ... P51398 25838379
    90396 3j9m:AZ (3.5) BS01 rna ? GO:0003735 ... Q9Y291 25838379
    90397 3j9m:D (3.5) BS01 rna ? GO:0003723 ... Q5T653 25838379
    90398 3j9m:E (3.5) BS01 rna ? GO:0003723 ... P09001 25838379
    90399 3j9m:F (3.5) BS01 rna ? GO:0003723 ... Q9BYD3 25838379
    90400 3j9m:H (3.5) BS01 rna ? GO:0003723 ... Q9BYD2 25838379
    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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