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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 832530 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
    29201 1llm:C (1.5) BS02 dna ? GO:0003700 ... P03069
    P08046    		 14621985
    29202 1llm:C (1.5) BS03 ZN ? GO:0003700 ... P03069
    P08046    		 14621985
    29203 1llm:C (1.5) BS04 ZN ? GO:0003700 ... P03069
    P08046    		 14621985
    29204 1llm:D (1.5) BS01 dna ? GO:0003700 ... P03069
    P08046    		 14621985
    29205 1llm:D (1.5) BS02 dna ? GO:0003700 ... P03069
    P08046    		 14621985
    29206 1llm:D (1.5) BS03 ZN ? GO:0003700 ... P03069
    P08046    		 14621985
    29207 1llm:D (1.5) BS04 ZN ? GO:0003700 ... P03069
    P08046    		 14621985
    29208 1llo:A (1.85) BS01 AMI 3.2.1.14
    3.2.1.17    		 GO:0000272 ... P23472 7495789
    29209 1llp:A (1.7) BS01 MAN 1.11.1.14 GO:0000302 ... P49012 10024453
    29210 1llp:A (1.7) BS02 CA 1.11.1.14 GO:0000302 ... P49012 10024453
    29211 1llp:A (1.7) BS03 CA 1.11.1.14 GO:0000302 ... P49012 10024453
    29212 1llp:A (1.7) BS04 HEM 1.11.1.14 GO:0000302 ... P49012 10024453
    29213 1llq:A (2.3) BS01 NAD 1.1.1.38 GO:0004470 ... P27443 12033925
    29214 1llq:B (2.3) BS01 NAD 1.1.1.38 GO:0004470 ... P27443 12033925
    29215 1llr:D (1.46) BS01 FNG ? GO:0005576 ... Q57193 12137534
    29216 1llr:D (1.46) BS02 LNQ ? GO:0005576 ... Q57193 12137534
    29217 1llr:E (1.46) BS01 FNG ? GO:0005576 ... Q57193 12137534
    29218 1llr:E (1.46) BS02 LNQ ? GO:0005576 ... Q57193 12137534
    29219 1llr:F (1.46) BS01 LNQ ? GO:0005576 ... Q57193 12137534
    29220 1llr:F (1.46) BS02 FNG ? GO:0005576 ... Q57193 12137534
    29221 1llr:G (1.46) BS01 FNG ? GO:0005576 ... Q57193 12137534
    29222 1llr:H (1.46) BS01 FNG ? GO:0005576 ... Q57193 12137534
    29223 1lls:A (1.8) BS01 XE ? GO:0005515 ... P0AEX9 12217701
    29224 1llu:A (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29225 1llu:A (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29226 1llu:A (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29227 1llu:A (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29228 1llu:A (2.3) BS05 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29229 1llu:B (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29230 1llu:B (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29231 1llu:B (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29232 1llu:B (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29233 1llu:C (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29234 1llu:C (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29235 1llu:C (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29236 1llu:C (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29237 1llu:C (2.3) BS05 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29238 1llu:D (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29239 1llu:D (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29240 1llu:D (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29241 1llu:D (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29242 1llu:E (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29243 1llu:E (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29244 1llu:E (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29245 1llu:E (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29246 1llu:E (2.3) BS05 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29247 1llu:F (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29248 1llu:F (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29249 1llu:F (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29250 1llu:F (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29251 1llu:G (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29252 1llu:G (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29253 1llu:G (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29254 1llu:G (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29255 1llu:G (2.3) BS05 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29256 1llu:H (2.3) BS01 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29257 1llu:H (2.3) BS02 ZN 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29258 1llu:H (2.3) BS03 NAD 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29259 1llu:H (2.3) BS04 EDO 1.1.1.1 GO:0000166 ... Q9HTD9 15152088
    29260 1llw:A (2.7) BS01 FMN 1.4.7.1 GO:0006537 ... P55038 11967268
    29261 1llw:A (2.7) BS02 F3S 1.4.7.1 GO:0006537 ... P55038 11967268
    29262 1llw:A (2.7) BS03 AKG 1.4.7.1 GO:0006537 ... P55038 11967268
    29263 1llz:A (3.0) BS01 FMN 1.4.7.1 GO:0006537 ... P55038 11967268
    29264 1llz:A (3.0) BS02 F3S 1.4.7.1 GO:0006537 ... P55038 11967268
    29265 1lm1:A (2.8) BS01 FMN 1.4.7.1 GO:0006537 ... P55038 11967268
    29266 1lm1:A (2.8) BS02 F3S 1.4.7.1 GO:0006537 ... P55038 11967268
    29267 1lm2:A (-1.00) BS01 HEC ? GO:0009055 ... P00137 12119407
    29268 1lm2:A (-1.00) BS02 HEC ? GO:0009055 ... P00137 12119407
    29269 1lm2:A (-1.00) BS03 HEC ? GO:0009055 ... P00137 12119407
    29270 1lm3:B (2.7) BS01 MG ? GO:0005506 ... P0ABE7 11914078
    29271 1lm3:B (2.7) BS02 HEM ? GO:0005506 ... P0ABE7 11914078
    29272 1lm3:D (2.7) BS01 HEM ? GO:0005506 ... P0ABE7 11914078
    29273 1lm4:A (1.45) BS01 FE 3.5.1.88 GO:0006412 ... P68826 12823970
    29274 1lm4:B (1.45) BS01 FE 3.5.1.88 GO:0006412 ... P68826 12823970
    29275 1lm6:A (1.75) BS01 FE 3.5.1.88 GO:0006412 ... Q9F2F0 12823970
    29276 1lm8:V (1.85) BS01 peptide ? N/A P40337 12004076
    29277 1lmb:3 (1.8) BS01 dna ? GO:0003677 ... P03034 1387915
    29278 1lmb:3 (1.8) BS02 dna ? GO:0003677 ... P03034 1387915
    29279 1lmb:4 (1.8) BS01 dna ? GO:0003677 ... P03034 1387915
    29280 1lmb:4 (1.8) BS02 dna ? GO:0003677 ... P03034 1387915
    29281 1lmc:A (2.0) BS01 BUL 3.2.1.17 GO:0003796 ... P11941 15299732
    29282 1lmh:A (1.9) BS01 ZN 3.5.1.88 GO:0006412 ... P68826 12048187
    29283 1lmj:A (-1.00) BS01 CA ? GO:0005509 ... P35555 12511552
    29284 1lmj:A (-1.00) BS02 CA ? GO:0005509 ... P35555 12511552
    29285 1lml:A (1.86) BS01 ZN 3.4.24.36 GO:0004222 ... P08148 9739094
    29286 1lms:A (-1.00) BS01 HEC ? GO:0005515 ... P00044 12617658
    29287 1lmw:B (2.5) BS01 peptide 3.4.21.73 GO:0004252 ... P00749 8591045
    29288 1lmw:B (2.5) BS02 0GJ 3.4.21.73 GO:0004252 ... P00749 8591045
    29289 1lmw:D (2.5) BS01 peptide 3.4.21.73 GO:0004252 ... P00749 8591045
    29290 1lmw:D (2.5) BS02 0GJ 3.4.21.73 GO:0004252 ... P00749 8591045
    29291 1ln1:A (2.4) BS01 DLP ? GO:0005515 ... Q9UKL6 12055623
    29292 1ln2:A (2.9) BS01 DLP ? GO:0005515 ... Q9UKL6 12055623
    29293 1ln2:B (2.9) BS01 DLP ? GO:0005515 ... Q9UKL6 12055623
    29294 1ln3:A (2.9) BS01 CPL ? GO:0005515 ... Q9UKL6 12055623
    29295 1ln3:B (2.9) BS01 CPL ? GO:0005515 ... Q9UKL6 12055623
    29296 1ln6:A (-1.00) BS01 RET ? GO:0000139 ... P02699 12044163
    29297 1ln8:A (1.65) BS01 CA 3.1.1.4 GO:0004623 ... P60045 N/A
    29298 1lna:E (1.9) BS01 VAL 3.4.24.27 GO:0004222 ... P00800 8535232
    29299 1lna:E (1.9) BS02 LYS 3.4.24.27 GO:0004222 ... P00800 8535232
    29300 1lna:E (1.9) BS03 CO 3.4.24.27 GO:0004222 ... P00800 8535232
    29301 1lna:E (1.9) BS04 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29302 1lna:E (1.9) BS05 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29303 1lna:E (1.9) BS06 CO 3.4.24.27 GO:0004222 ... P00800 8535232
    29304 1lna:E (1.9) BS07 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29305 1lnb:E (1.8) BS01 VAL 3.4.24.27 GO:0004222 ... P00800 8535232
    29306 1lnb:E (1.8) BS02 FE 3.4.24.27 GO:0004222 ... P00800 8535232
    29307 1lnb:E (1.8) BS03 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29308 1lnb:E (1.8) BS04 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29309 1lnb:E (1.8) BS05 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29310 1lnb:E (1.8) BS06 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29311 1lnc:E (1.8) BS01 LYS 3.4.24.27 GO:0004222 ... P00800 8535232
    29312 1lnc:E (1.8) BS02 MN 3.4.24.27 GO:0004222 ... P00800 8535232
    29313 1lnc:E (1.8) BS03 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29314 1lnc:E (1.8) BS04 MN 3.4.24.27 GO:0004222 ... P00800 8535232
    29315 1lnc:E (1.8) BS05 MN 3.4.24.27 GO:0004222 ... P00800 8535232
    29316 1lnc:E (1.8) BS06 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29317 1lnd:E (1.7) BS01 VAL 3.4.24.27 GO:0004222 ... P00800 8535232
    29318 1lnd:E (1.7) BS02 LYS 3.4.24.27 GO:0004222 ... P00800 8535232
    29319 1lnd:E (1.7) BS03 ZN 3.4.24.27 GO:0004222 ... P00800 8535232
    29320 1lnd:E (1.7) BS04 ZN 3.4.24.27 GO:0004222 ... P00800 8535232
    29321 1lnd:E (1.7) BS05 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29322 1lnd:E (1.7) BS06 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29323 1lnd:E (1.7) BS07 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29324 1lnd:E (1.7) BS08 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29325 1lne:E (1.7) BS01 VAL 3.4.24.27 GO:0004222 ... P00800 8535232
    29326 1lne:E (1.7) BS02 LYS 3.4.24.27 GO:0004222 ... P00800 8535232
    29327 1lne:E (1.7) BS03 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29328 1lne:E (1.7) BS04 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29329 1lnf:E (1.7) BS01 VAL 3.4.24.27 GO:0004222 ... P00800 8535232
    29330 1lnf:E (1.7) BS02 LYS 3.4.24.27 GO:0004222 ... P00800 8535232
    29331 1lnf:E (1.7) BS03 ZN 3.4.24.27 GO:0004222 ... P00800 8535232
    29332 1lnf:E (1.7) BS04 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29333 1lnf:E (1.7) BS05 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29334 1lnf:E (1.7) BS06 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29335 1lnf:E (1.7) BS07 CA 3.4.24.27 GO:0004222 ... P00800 8535232
    29336 1lng:A (2.3) BS01 rna ? GO:0003723 ... Q58440 12050674
    29337 1lnh:A (2.6) BS01 FE2 1.13.11.58 GO:0005737 ... P09186 9294864
    29338 1lnl:A (3.3) BS01 CU ? GO:0005344 ... P83040 12767214
    29339 1lnl:A (3.3) BS02 CU ? GO:0005344 ... P83040 12767214
    29340 1lnl:B (3.3) BS01 CU ? GO:0005344 ... P83040 12767214
    29341 1lnl:B (3.3) BS02 CU ? GO:0005344 ... P83040 12767214
    29342 1lnl:B (3.3) BS03 CU ? GO:0005344 ... P83040 12767214
    29343 1lnl:C (3.3) BS01 CU ? GO:0005344 ... P83040 12767214
    29344 1lnl:C (3.3) BS02 CU ? GO:0005344 ... P83040 12767214
    29345 1lnl:C (3.3) BS03 CU ? GO:0005344 ... P83040 12767214
    29346 1lnm:A (1.9) BS01 DTX ? GO:0000302 ... P09464 12823976 MOAD: Kd=2nM
    PDBbind: -logKd/Ki=8.70, Kd=2.0nM
    29347 1lnq:A (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29348 1lnq:B (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29349 1lnq:C (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29350 1lnq:D (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29351 1lnq:E (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29352 1lnq:F (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29353 1lnq:G (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29354 1lnq:H (3.3) BS01 CA ? GO:0005886 ... O27564 12037559
    29355 1lnx:A (2.05) BS01 URI ? GO:0000398 ... Q8ZYG5 12649441
    29356 1lnx:B (2.05) BS01 URI ? GO:0000398 ... Q8ZYG5 12649441
    29357 1lnx:C (2.05) BS01 URI ? GO:0000398 ... Q8ZYG5 12649441
    29358 1lnx:D (2.05) BS01 URI ? GO:0000398 ... Q8ZYG5 12649441
    29359 1lnx:E (2.05) BS01 URI ? GO:0000398 ... Q8ZYG5 12649441
    29360 1lnx:E (2.05) BS02 URI ? GO:0000398 ... Q8ZYG5 12649441
    29361 1lnx:F (2.05) BS01 URI ? GO:0000398 ... Q8ZYG5 12649441
    29362 1lnx:G (2.05) BS01 URI ? GO:0000398 ... Q8ZYG5 12649441
    29363 1lny:A (2.2) BS01 MG 6.3.4.4 GO:0000166 ... P28650 12004071
    29364 1lny:A (2.2) BS02 IMO 6.3.4.4 GO:0000166 ... P28650 12004071
    29365 1lny:A (2.2) BS03 GDP 6.3.4.4 GO:0000166 ... P28650 12004071
    29366 1lny:B (2.2) BS01 MG 6.3.4.4 GO:0000166 ... P28650 12004071
    29367 1lny:B (2.2) BS02 GDP 6.3.4.4 GO:0000166 ... P28650 12004071
    29368 1lny:B (2.2) BS03 IMO 6.3.4.4 GO:0000166 ... P28650 12004071
    29369 1lnz:A (2.6) BS01 MG 3.6.5.- GO:0000287 ... P20964 12429099
    29370 1lnz:B (2.6) BS01 G4P 3.6.5.- GO:0000287 ... P20964 12429099
    29371 1lo0:H (2.0) BS01 BC1 ? N/A P01865 12093912
    29372 1lo0:Y (2.0) BS01 BC1 ? N/A P01865 12093912
    29373 1lo1:A (-1.00) BS01 dna ? GO:0003700 ... O95718 12654265 PDBbind: Kd=7.1nM
    29374 1lo1:A (-1.00) BS02 dna ? GO:0003700 ... O95718 12654265 PDBbind: Kd=7.1nM
    29375 1lo1:A (-1.00) BS03 ZN ? GO:0003700 ... O95718 12654265
    29376 1lo1:A (-1.00) BS04 ZN ? GO:0003700 ... O95718 12654265
    29377 1lo2:H (2.0) BS01 OX1 ? N/A Q91Z05 12093912
    29378 1lo2:Y (2.0) BS01 OX1 ? N/A Q91Z05 12093912
    29379 1lo3:H (2.3) BS01 AN1 ? N/A Q91Z05 12093912
    29380 1lo3:L (2.3) BS01 AN1 ? GO:0046872 ... Q65ZC0 12093912
    29381 1lo3:X (2.3) BS01 AN1 ? GO:0046872 ... Q65ZC0 12093912
    29382 1lo3:Y (2.3) BS01 AN1 ? N/A Q91Z05 12093912
    29383 1lo5:A (3.2) BS01 peptide ? GO:0006955 ... P01903 12467569
    29384 1lo5:B (3.2) BS01 peptide ? GO:0006955 ... P01911 12467569
    29385 1lo7:A (1.5) BS01 4CO 3.1.2.23 GO:0016787 ... P56653 11997398 MOAD: Kd=0.33uM
    29386 1lo8:A (1.8) BS01 4CA 3.1.2.23 GO:0016787 ... P56653 11997398 MOAD: Ki=0.26uM
    29387 1lo9:A (2.8) BS01 BCA 3.1.2.23 GO:0016787 ... P56653 11997398
    29388 1loa:A (2.2) BS01 GYP ? GO:0005515 ... P04122 2091026
    29389 1loa:A (2.2) BS02 CA ? GO:0005515 ... P04122 2091026
    29390 1loa:A (2.2) BS03 MN ? GO:0005515 ... P04122 2091026
    29391 1loa:B (2.2) BS01 GYP ? GO:0005537 ... P12306 2091026
    29392 1loa:C (2.2) BS01 GYP ? GO:0005515 ... P04122 2091026
    29393 1loa:C (2.2) BS02 CA ? GO:0005515 ... P04122 2091026
    29394 1loa:C (2.2) BS03 MN ? GO:0005515 ... P04122 2091026
    29395 1loa:D (2.2) BS01 GYP ? GO:0005537 ... P12306 2091026
    29396 1loa:E (2.2) BS01 GYP ? GO:0005515 ... P04122 2091026
    29397 1loa:E (2.2) BS02 CA ? GO:0005515 ... P04122 2091026
    29398 1loa:F (2.2) BS01 GYP ? GO:0005537 ... P12306 2091026
    29399 1loa:G (2.2) BS01 GYP ? GO:0005515 ... P04122 2091026
    29400 1loa:G (2.2) BS02 CA ? GO:0005515 ... P04122 2091026
    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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