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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 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.
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  • 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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    2201 1axc:E (2.6) BS01 peptide ? GO:0000122 ... P12004 8861913
    2202 1axd:A (2.5) BS01 peptide 2.5.1.18 GO:0000302 ... P12653 9417926
    2203 1axd:B (2.5) BS01 peptide 2.5.1.18 GO:0000302 ... P12653 9417926
    2204 1axe:A (2.0) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2205 1axe:A (2.0) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2206 1axe:A (2.0) BS03 NAD 1.1.1.1 GO:0004022 ... P00327 9371755
    2207 1axe:B (2.0) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2208 1axe:B (2.0) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2209 1axe:B (2.0) BS03 NAD 1.1.1.1 GO:0004022 ... P00327 9371755
    2210 1axg:A (2.5) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2211 1axg:A (2.5) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2212 1axg:A (2.5) BS03 NAD 1.1.1.1 GO:0004022 ... P00327 9371755
    2213 1axg:B (2.5) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2214 1axg:B (2.5) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2215 1axg:B (2.5) BS03 NAD 1.1.1.1 GO:0004022 ... P00327 9371755
    2216 1axg:C (2.5) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2217 1axg:C (2.5) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2218 1axg:C (2.5) BS03 NAD 1.1.1.1 GO:0004022 ... P00327 9371755
    2219 1axg:D (2.5) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2220 1axg:D (2.5) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 9371755
    2221 1axg:D (2.5) BS03 NAD 1.1.1.1 GO:0004022 ... P00327 9371755
    2222 1axj:A (-1.00) BS01 FMN ? GO:0005737 ... Q46604 9406543
    2223 1axk:A (2.1) BS01 CA 3.2.1.73
    3.2.1.8
    GO:0004553 ... P18429
    P23904
    9618460
    2224 1axk:B (2.1) BS01 CA 3.2.1.73
    3.2.1.8
    GO:0004553 ... P18429
    P23904
    9618460
    2225 1axm:A (3.0) BS01 IDS ? GO:0008083 ... P05230 9655399
    2226 1axm:A (3.0) BS02 SGN ? GO:0008083 ... P05230 9655399
    2227 1axm:B (3.0) BS01 SGN ? GO:0008083 ... P05230 9655399
    2228 1axm:B (3.0) BS02 IDS ? GO:0008083 ... P05230 9655399
    2229 1axm:B (3.0) BS03 SGN ? GO:0008083 ... P05230 9655399
    2230 1axm:C (3.0) BS01 SGN ? GO:0008083 ... P05230 9655399
    2231 1axm:C (3.0) BS02 IDS ? GO:0008083 ... P05230 9655399
    2232 1axm:C (3.0) BS03 SGN ? GO:0008083 ... P05230 9655399
    2233 1axm:D (3.0) BS01 IDS ? GO:0008083 ... P05230 9655399
    2234 1axm:E (3.0) BS01 IDS ? GO:0008083 ... P05230 9655399
    2235 1axm:E (3.0) BS02 SGN ? GO:0008083 ... P05230 9655399
    2236 1axm:F (3.0) BS01 IDS ? GO:0008083 ... P05230 9655399
    2237 1axm:F (3.0) BS02 SGN ? GO:0008083 ... P05230 9655399
    2238 1axn:A (1.78) BS01 CA ? GO:0001786 ... P12429 8639653
    2239 1axn:A (1.78) BS02 CA ? GO:0001786 ... P12429 8639653
    2240 1axn:A (1.78) BS03 CA ? GO:0001786 ... P12429 8639653
    2241 1axn:A (1.78) BS04 CA ? GO:0001786 ... P12429 8639653
    2242 1axn:A (1.78) BS05 CA ? GO:0001786 ... P12429 8639653
    2243 1axq:A (2.1) BS01 SF4 ? GO:0003677 ... P00214 N/A
    2244 1axq:A (2.1) BS02 F3S ? GO:0003677 ... P00214 N/A
    2245 1axr:A (2.3) BS01 PLP 2.4.1.1 GO:0000166 ... P00489 N/A
    2246 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
    2247 1axs:A (2.6) BS01 HOP ? GO:0005576 ... Q7Z3Y4 9305839
    2248 1axs:B (2.6) BS01 HOP ? N/A P01857 9305839
    2249 1axs:H (2.6) BS01 HOP ? N/A P01857 9305839 PDBbind: -logKd/Ki=7.77, Kd=17nM
    2250 1axs:L (2.6) BS01 HOP ? GO:0005576 ... Q7Z3Y4 9305839 PDBbind: -logKd/Ki=7.77, Kd=17nM
    2251 1axw:A (1.7) BS01 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2252 1axw:A (1.7) BS02 MTX 2.1.1.45 GO:0000287 ... P0A884 N/A BindingDB: IC50=90000nM
    2253 1axw:A (1.7) BS03 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2254 1axw:B (1.7) BS01 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2255 1axw:B (1.7) BS02 UMP 2.1.1.45 GO:0000287 ... P0A884 N/A
    2256 1axw:B (1.7) BS03 MTX 2.1.1.45 GO:0000287 ... P0A884 N/A BindingDB: IC50=90000nM
    2257 1axx:A (-1.00) BS01 HEM ? GO:0020037 ... P00173 9425037
    2258 1axy:A (1.95) BS01 MN ? GO:0030246 ... P16404 9545381
    2259 1axy:A (1.95) BS02 CA ? GO:0030246 ... P16404 9545381
    2260 1axz:A (1.95) BS01 GLA ? GO:0030246 ... P16404 9545381 MOAD: Ka=1570M^-1
    2261 1axz:A (1.95) BS02 GAL ? GO:0030246 ... P16404 9545381 MOAD: Ka=1570M^-1
    PDBbind: -logKd/Ki=3.20, Kd=0.637mM
    2262 1axz:A (1.95) BS03 MN ? GO:0030246 ... P16404 9545381
    2263 1axz:A (1.95) BS04 CA ? GO:0030246 ... P16404 9545381
    2264 1ay0:A (2.6) BS01 CA 2.2.1.1 GO:0003824 ... P23254 9398292
    2265 1ay0:A (2.6) BS02 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2266 1ay0:A (2.6) BS03 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2267 1ay0:B (2.6) BS01 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2268 1ay0:B (2.6) BS02 CA 2.2.1.1 GO:0003824 ... P23254 9398292
    2269 1ay0:B (2.6) BS03 TPP 2.2.1.1 GO:0003824 ... P23254 9398292
    2270 1ay4:A (2.33) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2271 1ay4:B (2.33) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2272 1ay5:A (2.5) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2273 1ay5:B (2.5) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2274 1ay6:H (1.8) BS01 peptide 3.4.21.5 GO:0004252 ... P00734 8367461
    2275 1ay6:H (1.8) BS02 peptide 3.4.21.5 GO:0004252 ... P00734 8367461
    2276 1ay6:H (1.8) BS03 1ZV 3.4.21.5 GO:0004252 ... P00734 8367461
    2277 1ay8:A (2.3) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2278 1ay8:B (2.3) BS01 PLP 2.6.1.57 GO:0004069 ... P95468 9665848
    2279 1ay8:B (2.3) BS02 HCI 2.6.1.57 GO:0004069 ... P95468 9665848
    2280 1aya:A (2.05) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2281 1aya:B (2.05) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2282 1ayb:A (3.0) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2283 1ayc:A (2.3) BS01 peptide 3.1.3.48 N/A P35235 7521735
    2284 1aye:A (1.8) BS01 ZN 3.4.17.15 GO:0004180 ... P48052 9384570
    2285 1ayf:A (1.85) BS01 FES ? GO:0051536 ... P00257 9551550
    2286 1ayf:B (1.85) BS01 FES ? GO:0051536 ... P00257 9551550
    2287 1ayg:A (-1.00) BS01 HEC ? GO:0005506 ... P15452 9657676
    2288 1ayk:A (-1.00) BS01 ZN 3.4.24.7 GO:0004222 ... P03956 9484219
    2289 1ayk:A (-1.00) BS02 ZN 3.4.24.7 GO:0004222 ... P03956 9484219
    2290 1ayk:A (-1.00) BS03 CA 3.4.24.7 GO:0004222 ... P03956 9484219
    2291 1ayl:A (1.8) BS01 OXL 4.1.1.49 GO:0000287 ... P22259 8599762
    2292 1ayl:A (1.8) BS02 ATP 4.1.1.49 GO:0000287 ... P22259 8599762
    2293 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
    2294 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
    2295 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
    2296 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
    2297 1ayo:B (1.9) BS01 CA ? GO:0005576 ... Q7SIH1 9634697
    2298 1ayp:A (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2299 1ayp:A (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2300 1ayp:A (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2301 1ayp:B (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2302 1ayp:B (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2303 1ayp:B (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2304 1ayp:C (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2305 1ayp:C (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2306 1ayp:C (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2307 1ayp:D (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2308 1ayp:D (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2309 1ayp:D (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2310 1ayp:E (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2311 1ayp:E (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2312 1ayp:E (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2313 1ayp:F (2.57) BS01 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2314 1ayp:F (2.57) BS02 CA 3.1.1.4 GO:0004623 ... P14555 15299314
    2315 1ayp:F (2.57) BS03 INB 3.1.1.4 GO:0004623 ... P14555 15299314
    2316 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
    2317 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
    2318 1ayw:A (2.4) BS01 IN3 3.4.22.38 GO:0006508 ... P43235 9405598 BindingDB: Ki=27nM
    2319 1az0:A (2.0) BS01 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2320 1az0:A (2.0) BS02 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2321 1az0:A (2.0) BS03 CA 3.1.21.4 GO:0003677 ... P04390 9367757
    2322 1az0:B (2.0) BS01 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2323 1az0:B (2.0) BS02 dna 3.1.21.4 GO:0003677 ... P04390 9367757
    2324 1az0:B (2.0) BS03 CA 3.1.21.4 GO:0003677 ... P04390 9367757
    2325 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
    2326 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
    2327 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
    2328 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
    2329 1az8:A (1.8) BS01 IN4 3.4.21.4 GO:0004175 ... P00760 N/A
    2330 1azb:A (2.2) BS01 CU ? GO:0005507 ... P00280 15299522
    2331 1azb:B (2.2) BS01 CU ? GO:0005507 ... P00280 15299522
    2332 1azc:A (1.8) BS01 CU ? GO:0005507 ... P00280 15299522
    2333 1azc:B (1.8) BS01 CU ? GO:0005507 ... P00280 15299522
    2334 1azd:A (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2335 1azd:A (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2336 1azd:B (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2337 1azd:B (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2338 1azd:C (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2339 1azd:C (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2340 1azd:D (3.0) BS01 CA ? GO:0005537 ... P55915 9094437
    2341 1azd:D (3.0) BS02 MN ? GO:0005537 ... P55915 9094437
    2342 1aze:A (-1.00) BS01 peptide ? N/A P62993 10395825
    2343 1azf:A (1.8) BS01 BR 3.2.1.17 GO:0003796 ... P00698 9757106
    2344 1azg:B (-1.00) BS01 peptide 2.7.10.2 N/A P06241 8961927
    2345 1azi:A (2.0) BS01 AZI 1.11.1.-
    1.7.-.-
    GO:0004601 ... P68082 9576852
    2346 1azi:A (2.0) BS02 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P68082 9576852
    2347 1azl:A (1.8) BS01 FMN ? GO:0009055 ... P00323 9622492 MOAD: Kd=2.4nM
    PDBbind: -logKd/Ki=8.62, Kd=2.4nM
    2348 1azm:A (2.0) BS01 ZN 4.2.1.1
    4.2.1.69
    GO:0004064 ... P00915 7932756
    2349 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
    2350 1azn:A (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2351 1azn:B (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2352 1azn:C (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2353 1azn:D (2.6) BS01 CU ? GO:0005507 ... P00282 15299318
    2354 1azp:A (1.6) BS01 dna ? GO:0003677 ... P13123 9515968
    2355 1azp:A (1.6) BS02 dna ? GO:0003677 ... P13123 9515968
    2356 1azq:A (1.94) BS01 dna ? GO:0003677 ... P13123 9515968
    2357 1azq:A (1.94) BS02 dna ? GO:0003677 ... P13123 9515968
    2358 1azr:A (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2359 1azr:B (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2360 1azr:C (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2361 1azr:D (2.4) BS01 CU ? GO:0005507 ... P00282 15299504
    2362 1azs:A (2.3) BS01 FKP 4.6.1.1 GO:0009190 ... P30803 9417641
    2363 1azs:C (2.3) BS01 MG ? GO:0003924 ... P04896 9417641
    2364 1azs:C (2.3) BS02 GSP ? GO:0003924 ... P04896 9417641
    2365 1azt:A (2.3) BS01 MG ? GO:0003924 ... P04896 9395396
    2366 1azt:A (2.3) BS02 GSP ? GO:0003924 ... P04896 9395396
    2367 1azt:B (2.3) BS01 MG ? GO:0003924 ... P04896 9395396
    2368 1azt:B (2.3) BS02 GSP ? GO:0003924 ... P04896 9395396
    2369 1azu:A (2.7) BS01 CU ? GO:0005507 ... P00282 N/A
    2370 1azv:A (1.9) BS01 CU 1.15.1.1 GO:0000302 ... P00441 9541385
    2371 1azv:A (1.9) BS02 ZN 1.15.1.1 GO:0000302 ... P00441 9541385
    2372 1azv:B (1.9) BS01 CU 1.15.1.1 GO:0000302 ... P00441 9541385
    2373 1azv:B (1.9) BS02 ZN 1.15.1.1 GO:0000302 ... P00441 9541385
    2374 1azx:I (2.9) BS01 Z9L ? GO:0002020 ... P01008 9405673
    2375 1azx:I (2.9) BS02 GU6 ? GO:0002020 ... P01008 9405673
    2376 1azx:I (2.9) BS03 GU1 ? GO:0002020 ... P01008 9405673
    2377 1azx:I (2.9) BS04 Z9H ? GO:0002020 ... P01008 9405673
    2378 1azx:L (2.9) BS01 Z9L ? GO:0002020 ... P01008 9405673
    2379 1azx:L (2.9) BS02 Z9K ? GO:0002020 ... P01008 9405673
    2380 1azx:L (2.9) BS03 GU6 ? GO:0002020 ... P01008 9405673
    2381 1azx:L (2.9) BS04 GU1 ? GO:0002020 ... P01008 9405673
    2382 1azx:L (2.9) BS05 Z9H ? GO:0002020 ... P01008 9405673
    2383 1b01:A (2.56) BS01 dna ? GO:0003677 ... P13920 9857196
    2384 1b01:A (2.56) BS02 dna ? GO:0003677 ... P13920 9857196
    2385 1b01:B (2.56) BS01 dna ? GO:0003677 ... P13920 9857196
    2386 1b01:B (2.56) BS02 dna ? GO:0003677 ... P13920 9857196
    2387 1b02:A (2.5) BS01 UFP 2.1.1.45 GO:0004799 ... P0CI79 10091656
    2388 1b02:A (2.5) BS02 C2F 2.1.1.45 GO:0004799 ... P0CI79 10091656
    2389 1b05:A (2.0) BS01 peptide ? GO:0015031 ... P06202 10438628
    2390 1b06:A (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2391 1b06:B (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2392 1b06:C (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2393 1b06:D (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2394 1b06:E (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2395 1b06:F (2.2) BS01 FE 1.15.1.1 GO:0004784 ... Q08713 9878438
    2396 1b07:A (2.5) BS01 peptide ? N/A Q64010 9851931
    2397 1b08:A (2.3) BS01 CA ? N/A P35247 10368295
    2398 1b08:A (2.3) BS02 CA ? N/A P35247 10368295
    2399 1b08:A (2.3) BS03 CA ? N/A P35247 10368295
    2400 1b08:B (2.3) BS01 CA ? N/A P35247 10368295

    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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