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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.
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    # PDB
    (Resolution Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    2201 1axm:E (3.0) BS02 SGN ? GO:0008083 ... P05230 9655399
    2202 1axm:F (3.0) BS01 IDS ? GO:0008083 ... P05230 9655399
    2203 1axm:F (3.0) BS02 SGN ? GO:0008083 ... P05230 9655399
    2204 1axn:A (1.78) BS01 CA ? GO:0001786 ... P12429 8639653
    2205 1axn:A (1.78) BS02 CA ? GO:0001786 ... P12429 8639653
    2206 1axn:A (1.78) BS03 CA ? GO:0001786 ... P12429 8639653
    2207 1axn:A (1.78) BS04 CA ? GO:0001786 ... P12429 8639653
    2208 1axn:A (1.78) BS05 CA ? GO:0001786 ... P12429 8639653
    2209 1axq:A (2.1) BS01 SF4 ? GO:0003677 ... P00214 N/A
    2210 1axq:A (2.1) BS02 F3S ? GO:0003677 ... P00214 N/A
    2211 1axr:A (2.3) BS01 PLP 2.4.1.1 GO:0000166 ... P00489 N/A
    2212 1axr:A (2.3) BS02 HTP 2.4.1.1 GO:0000166 ... P00489 N/A MOAD: Ki=540uM
    PDBbind: -logKd/Ki=3.27, Ki=540uM
    2213 1axs:A (2.6) BS01 HOP ? GO:0005576 ... Q7Z3Y4 9305839
    2214 1axs:B (2.6) BS01 HOP ? N/A P01857 9305839
    2215 1axs:H (2.6) BS01 HOP ? N/A P01857 9305839 PDBbind: -logKd/Ki=7.77, Kd=17nM
    2216 1axs:L (2.6) BS01 HOP ? GO:0005576 ... Q7Z3Y4 9305839 PDBbind: -logKd/Ki=7.77, Kd=17nM
    2217 1axw:A (1.7) BS01 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2218 1axw:A (1.7) BS02 MTX 2.1.1.45 GO:0000287 ... P0A884 N/A BindingDB: IC50=90000nM
    2219 1axw:A (1.7) BS03 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2220 1axw:B (1.7) BS01 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2221 1axw:B (1.7) BS02 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2222 1axw:B (1.7) BS03 MTX 2.1.1.45 GO:0000287 ... P0A884 N/A BindingDB: IC50=90000nM
    2223 1axx:A (-1.00) BS01 HEM ? GO:0020037 ... P00173 9425037
    2224 1axy:A (1.95) BS01 MN ? GO:0030246 ... P16404 9545381
    2225 1axy:A (1.95) BS02 CA ? GO:0030246 ... P16404 9545381
    2226 1axz:A (1.95) BS01 GLA ? GO:0030246 ... P16404 9545381 MOAD: Ka=1570M^-1
    2227 1axz:A (1.95) BS02 GAL ? GO:0030246 ... P16404 9545381 MOAD: Ka=1570M^-1
    PDBbind: -logKd/Ki=3.20, Kd=0.637mM
    2228 1axz:A (1.95) BS03 MN ? GO:0030246 ... P16404 9545381
    2229 1axz:A (1.95) BS04 CA ? GO:0030246 ... P16404 9545381
    2230 1ay0:A (2.6) BS01 CA 2.2.1.1 GO:0003824 ... P23254 9398292
    2231 1ay0:A (2.6) BS02 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2232 1ay0:A (2.6) BS03 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2233 1ay0:B (2.6) BS01 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2234 1ay0:B (2.6) BS02 CA 2.2.1.1 GO:0003824 ... P23254 9398292
    2235 1ay0:B (2.6) BS03 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2236 1ay4:A (2.33) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2237 1ay4:B (2.33) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2238 1ay5:A (2.5) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2239 1ay5:B (2.5) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2240 1ay6:H (1.8) BS01 peptide 3.4.21.5 GO:0004252 ... P00734 8367461
    2241 1ay6:H (1.8) BS02 peptide 3.4.21.5 GO:0004252 ... P00734 8367461
    2242 1ay6:H (1.8) BS03 1ZV 3.4.21.5 GO:0004252 ... P00734 8367461
    2243 1ay8:A (2.3) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2244 1ay8:B (2.3) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2245 1ay8:B (2.3) BS02 HCI 2.6.1.57 GO:0004069 ... P95468 9665848
    2246 1aya:A (2.05) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2247 1aya:B (2.05) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2248 1ayb:A (3.0) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2249 1ayc:A (2.3) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2250 1aye:A (1.8) BS01 ZN 3.4.17.15 GO:0004180 ... P48052 9384570
    2251 1ayf:A (1.85) BS01 FES ? GO:0051536 ... P00257 9551550
    2252 1ayf:B (1.85) BS01 FES ? GO:0051536 ... P00257 9551550
    2253 1ayg:A (-1.00) BS01 HEC ? GO:0005506 ... P15452 9657676
    2254 1ayk:A (-1.00) BS01 ZN 3.4.24.7 GO:0004222 ... P03956 9484219
    2255 1ayk:A (-1.00) BS02 ZN 3.4.24.7 GO:0004222 ... P03956 9484219
    2256 1ayk:A (-1.00) BS03 CA 3.4.24.7 GO:0004222 ... P03956 9484219
    2257 1ayl:A (1.8) BS01 OXL 4.1.1.49 GO:0000287 ... P22259 8599762
    2258 1ayl:A (1.8) BS02 ATP 4.1.1.49 GO:0000287 ... P22259 8599762
    2259 1aym:1 (2.15) BS01 peptide 2.7.7.48
    3.4.22.28
    3.4.22.29
    3.6.1.15    		 GO:0005198 ... Q82122 9083115
    2260 1aym:3 (2.15) BS01 peptide 2.7.7.48
    3.4.22.28
    3.4.22.29
    3.6.1.15    		 GO:0005198 ... Q82122 9083115
    2261 1ayn:1 (2.9) BS01 peptide 2.7.7.48
    3.4.22.28
    3.4.22.29
    3.6.1.15    		 GO:0005198 ... Q82122 7915182
    2262 1ayn:3 (2.9) BS01 peptide 2.7.7.48
    3.4.22.28
    3.4.22.29
    3.6.1.15    		 GO:0005198 ... Q82122 7915182
    2263 1ayo:B (1.9) BS01 CA ? GO:0005576 ... Q7SIH1 9634697
    2264 1ayp:A (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2265 1ayp:A (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2266 1ayp:A (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2267 1ayp:B (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2268 1ayp:B (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2269 1ayp:B (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2270 1ayp:C (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2271 1ayp:C (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2272 1ayp:C (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2273 1ayp:D (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2274 1ayp:D (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2275 1ayp:D (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2276 1ayp:E (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2277 1ayp:E (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2278 1ayp:E (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2279 1ayp:F (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2280 1ayp:F (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2281 1ayp:F (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2282 1ayu:A (2.2) BS01 INA 3.4.22.38 GO:0006508 ... P43235 9405598 PDBbind: -logKd/Ki=9.15, Ki=0.7nM
    BindingDB: Ki=0.7nM
    2283 1ayv:A (2.3) BS01 IN6 3.4.22.38 GO:0006508 ... P43235 9405598 PDBbind: -logKd/Ki=8.00, Ki=10nM
    BindingDB: Ki=10.0nM
    2284 1ayw:A (2.4) BS01 IN3 3.4.22.38 GO:0006508 ... P43235 9405598 BindingDB: Ki=27nM
    2285 1az0:A (2.0) BS01 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2286 1az0:A (2.0) BS02 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2287 1az0:A (2.0) BS03 CA 3.1.21.4 GO:0003677 ... P04390 9367757
    2288 1az0:B (2.0) BS01 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2289 1az0:B (2.0) BS02 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2290 1az0:B (2.0) BS03 CA 3.1.21.4 GO:0003677 ... P04390 9367757
    2291 1az1:A (1.8) BS01 NAP 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54    		 GO:0001523 ... P15121 9405046
    2292 1az1:A (1.8) BS02 ALR 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54    		 GO:0001523 ... P15121 9405046 BindingDB: IC50=79000nM, Ki=2000nM
    2293 1az1:A (1.8) BS03 ALR 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54    		 GO:0001523 ... P15121 9405046 BindingDB: IC50=79000nM, Ki=2000nM
    2294 1az2:A (2.9) BS01 NAP 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54    		 GO:0001523 ... P15121 9405046
    2295 1az8:A (1.8) BS01 IN4 3.4.21.4 GO:0004175 ... P00760 N/A
    2296 1azb:A (2.2) BS01 CU ? GO:0005507 ... P00280 15299522
    2297 1azb:B (2.2) BS01 CU ? GO:0005507 ... P00280 15299522
    2298 1azc:A (1.8) BS01 CU ? GO:0005507 ... P00280 15299522
    2299 1azc:B (1.8) BS01 CU ? GO:0005507 ... P00280 15299522
    2300 1azd:A (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2301 1azd:A (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2302 1azd:B (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2303 1azd:B (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2304 1azd:C (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2305 1azd:C (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2306 1azd:D (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2307 1azd:D (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2308 1aze:A (-1.00) BS01 peptide ? N/A P62993 10395825
    2309 1azf:A (1.8) BS01 BR 3.2.1.17 GO:0003796 ... P00698 9757106
    2310 1azg:B (-1.00) BS01 peptide 2.7.10.2 N/A P06241 8961927
    2311 1azi:A (2.0) BS01 AZI 1.11.1.-
    1.7.-.-    		 GO:0004601 ... P68082 9576852
    2312 1azi:A (2.0) BS02 HEM 1.11.1.-
    1.7.-.-    		 GO:0004601 ... P68082 9576852
    2313 1azl:A (1.8) BS01 FMN ? GO:0009055 ... P00323 9622492 MOAD: Kd=2.4nM
    PDBbind: -logKd/Ki=8.62, Kd=2.4nM
    2314 1azm:A (2.0) BS01 ZN 4.2.1.1
    4.2.1.69    		 GO:0004064 ... P00915 7932756
    2315 1azm:A (2.0) BS02 AZM 4.2.1.1
    4.2.1.69    		 GO:0004064 ... P00915 7932756 PDBbind: -logKd/Ki=6.10, Ki=0.8uM
    BindingDB: Ki=250nM, Kd=1400nM, IC50=5.8nM
    2316 1azn:A (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2317 1azn:B (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2318 1azn:C (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2319 1azn:D (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2320 1azp:A (1.6) BS01 dna ? GO:0003677 ... P13123 9515968
    2321 1azp:A (1.6) BS02 dna ? GO:0003677 ... P13123 9515968
    2322 1azq:A (1.94) BS01 dna ? GO:0003677 ... P13123 9515968
    2323 1azq:A (1.94) BS02 dna ? GO:0003677 ... P13123 9515968
    2324 1azr:A (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2325 1azr:B (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2326 1azr:C (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2327 1azr:D (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2328 1azs:A (2.3) BS01 FKP 4.6.1.1 GO:0009190 ... P30803 9417641
    2329 1azs:C (2.3) BS01 MG ? GO:0003924 ... P04896 9417641
    2330 1azs:C (2.3) BS02 GSP ? GO:0003924 ... P04896 9417641
    2331 1azt:A (2.3) BS01 MG ? GO:0003924 ... P04896 9395396
    2332 1azt:A (2.3) BS02 GSP ? GO:0003924 ... P04896 9395396
    2333 1azt:B (2.3) BS01 MG ? GO:0003924 ... P04896 9395396
    2334 1azt:B (2.3) BS02 GSP ? GO:0003924 ... P04896 9395396
    2335 1azu:A (2.7) BS01 CU ? GO:0005507 ... P00282 N/A
    2336 1azv:A (1.9) BS01 CU 1.15.1.1 GO:0000302 ... P00441 9541385
    2337 1azv:A (1.9) BS02 ZN 1.15.1.1 GO:0000302 ... P00441 9541385
    2338 1azv:B (1.9) BS01 CU 1.15.1.1 GO:0000302 ... P00441 9541385
    2339 1azv:B (1.9) BS02 ZN 1.15.1.1 GO:0000302 ... P00441 9541385
    2340 1azx:I (2.9) BS01 Z9L ? GO:0002020 ... P01008 9405673
    2341 1azx:I (2.9) BS02 GU6 ? GO:0002020 ... P01008 9405673
    2342 1azx:I (2.9) BS03 GU1 ? GO:0002020 ... P01008 9405673
    2343 1azx:I (2.9) BS04 Z9H ? GO:0002020 ... P01008 9405673
    2344 1azx:L (2.9) BS01 Z9L ? GO:0002020 ... P01008 9405673
    2345 1azx:L (2.9) BS02 Z9K ? GO:0002020 ... P01008 9405673
    2346 1azx:L (2.9) BS03 GU6 ? GO:0002020 ... P01008 9405673
    2347 1azx:L (2.9) BS04 GU1 ? GO:0002020 ... P01008 9405673
    2348 1azx:L (2.9) BS05 Z9H ? GO:0002020 ... P01008 9405673
    2349 1b01:A (2.56) BS01 dna ? GO:0003677 ... P13920 9857196
    2350 1b01:A (2.56) BS02 dna ? GO:0003677 ... P13920 9857196
    2351 1b01:B (2.56) BS01 dna ? GO:0003677 ... P13920 9857196
    2352 1b01:B (2.56) BS02 dna ? GO:0003677 ... P13920 9857196
    2353 1b02:A (2.5) BS01 UFP 2.1.1.45 GO:0004799 ... P0CI79 10091656
    2354 1b02:A (2.5) BS02 C2F 2.1.1.45 GO:0004799 ... P0CI79 10091656
    2355 1b05:A (2.0) BS01 peptide ? GO:0015031 ... P06202 10438628
    2356 1b06:A (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2357 1b06:B (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2358 1b06:C (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2359 1b06:D (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2360 1b06:E (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2361 1b06:F (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2362 1b07:A (2.5) BS01 peptide ? N/A Q64010 9851931
    2363 1b08:A (2.3) BS01 CA ? N/A P35247 10368295
    2364 1b08:A (2.3) BS02 CA ? N/A P35247 10368295
    2365 1b08:A (2.3) BS03 CA ? N/A P35247 10368295
    2366 1b08:B (2.3) BS01 CA ? N/A P35247 10368295
    2367 1b08:B (2.3) BS02 CA ? N/A P35247 10368295
    2368 1b08:B (2.3) BS03 CA ? N/A P35247 10368295
    2369 1b08:C (2.3) BS01 CA ? N/A P35247 10368295
    2370 1b08:C (2.3) BS02 CA ? N/A P35247 10368295
    2371 1b08:C (2.3) BS03 CA ? N/A P35247 10368295
    2372 1b09:A (2.5) BS01 CA ? GO:0001849 ... P02741 10368284
    2373 1b09:A (2.5) BS02 CA ? GO:0001849 ... P02741 10368284
    2374 1b09:A (2.5) BS03 PC ? GO:0001849 ... P02741 10368284
    2375 1b09:B (2.5) BS01 CA ? GO:0001849 ... P02741 10368284
    2376 1b09:B (2.5) BS02 CA ? GO:0001849 ... P02741 10368284
    2377 1b09:B (2.5) BS03 PC ? GO:0001849 ... P02741 10368284
    2378 1b09:C (2.5) BS01 CA ? GO:0001849 ... P02741 10368284
    2379 1b09:C (2.5) BS02 CA ? GO:0001849 ... P02741 10368284
    2380 1b09:C (2.5) BS03 PC ? GO:0001849 ... P02741 10368284
    2381 1b09:D (2.5) BS01 CA ? GO:0001849 ... P02741 10368284
    2382 1b09:D (2.5) BS02 CA ? GO:0001849 ... P02741 10368284
    2383 1b09:D (2.5) BS03 PC ? GO:0001849 ... P02741 10368284
    2384 1b09:E (2.5) BS01 CA ? GO:0001849 ... P02741 10368284
    2385 1b09:E (2.5) BS02 CA ? GO:0001849 ... P02741 10368284
    2386 1b09:E (2.5) BS03 PC ? GO:0001849 ... P02741 10368284
    2387 1b0b:A (1.43) BS01 CYN ? GO:0005576 ... P41260 10423453
    2388 1b0b:A (1.43) BS02 HEM ? GO:0005576 ... P41260 10423453
    2389 1b0d:A (1.84) BS01 TSU 3.2.1.17 GO:0003796 ... P00698 11418760
    2390 1b0e:A (1.8) BS01 CA 3.4.21.36 GO:0004252 ... P00772 9651152
    2391 1b0e:A (1.8) BS02 SEI 3.4.21.36 GO:0004252 ... P00772 9651152
    2392 1b0f:A (3.0) BS01 FUC 3.4.21.37 GO:0000122 ... P08246 9651152
    2393 1b0f:A (3.0) BS02 SEI 3.4.21.37 GO:0000122 ... P08246 9651152 PDBbind: -logKd/Ki=7.70, Ki=20nM
    BindingDB: Ki=25nM
    2394 1b0g:A (2.5) BS01 peptide ? N/A P04439 9892618
    2395 1b0g:D (2.5) BS01 peptide ? N/A P04439 9892618
    2396 1b0h:A (1.9) BS01 peptide ? GO:0015031 ... P06202 10422831
    2397 1b0i:A (2.4) BS01 CA 3.2.1.1 GO:0003824 ... P29957 9862804
    2398 1b0j:A (2.5) BS01 SF4 4.2.1.3 GO:0003994 ... P16276 10631981
    2399 1b0k:A (2.5) BS01 FLC 4.2.1.3 GO:0003994 ... P16276 10631981
    2400 1b0k:A (2.5) BS02 SF4 4.2.1.3 GO:0003994 ... P16276 10631981
    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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