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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
    581201 8u3b:D (3.23) BS01 dna 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    581202 8u3b:D (3.23) BS02 dna 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    581203 8u3b:D (3.23) BS03 ZN 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    581204 8u3b:D (3.23) BS04 ZN 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    581205 8u3b:D (3.23) BS05 MG 2.7.7.6 GO:0000287 ... P0A8T7 38197271
    581206 8u3b:F (3.23) BS01 dna ? GO:0000345 ... P00579 38197271
    581207 8u3b:F (3.23) BS02 dna ? GO:0000345 ... P00579 38197271
    581208 8u3c:A (2.3) BS01 VPN ? GO:0000122 ... O35433 38698206
    581209 8u3c:A (2.3) BS02 3PH ? GO:0000122 ... O35433 38698206
    581210 8u3c:D (2.3) BS01 3PH ? GO:0000122 ... O35433 38698206
    581211 8u3g:A (3.42) BS01 ASP ? GO:0005351 ... Q9NRA2 N/A
    581212 8u3g:A (3.42) BS02 GLU ? GO:0005351 ... Q9NRA2 N/A
    581213 8u3h:A (3.67) BS01 VP1 ? GO:0005351 ... Q9NRA2 N/A
    581214 8u3h:A (3.67) BS02 LEU ? GO:0005351 ... Q9NRA2 N/A
    581215 8u3z:A (3.6) BS01 GTP 3.6.5.- GO:0000226 ... P68363 38658656
    581216 8u3z:A (3.6) BS02 MG 3.6.5.- GO:0000226 ... P68363 38658656
    581217 8u3z:B (3.6) BS01 G2P ? GO:0000226 ... P07437 38658656
    581218 8u3z:E (3.6) BS01 G2P ? GO:0000226 ... P07437 38658656
    581219 8u3z:E (3.6) BS02 MG ? GO:0000226 ... P07437 38658656
    581220 8u3z:F (3.6) BS01 GTP 3.6.5.- GO:0000226 ... P68363 38658656
    581221 8u3z:N (3.6) BS01 ATP 6.3.2.- GO:0001578 ... A4Q9E8 38658656
    581222 8u43:A (2.4) BS01 V5H ? GO:0005216 ... O35433 38698206
    581223 8u43:B (2.4) BS01 V5H ? GO:0005216 ... O35433 38698206
    581224 8u43:C (2.4) BS01 V5H ? GO:0005216 ... O35433 38698206
    581225 8u43:D (2.4) BS01 V5H ? GO:0005216 ... O35433 38698206
    581226 8u4d:A (2.2) BS01 VPN ? GO:0005216 ... O35433 38698206
    581227 8u4d:A (2.2) BS02 VPN ? GO:0005216 ... O35433 38698206
    581228 8u4d:B (2.2) BS01 VPN ? GO:0005216 ... O35433 38698206
    581229 8u4d:B (2.2) BS02 VPN ? GO:0005216 ... O35433 38698206
    581230 8u4d:C (2.2) BS01 VPN ? GO:0005216 ... O35433 38698206
    581231 8u4d:C (2.2) BS02 VPN ? GO:0005216 ... O35433 38698206
    581232 8u4d:D (2.2) BS01 VPN ? GO:0005216 ... O35433 38698206
    581233 8u4d:D (2.2) BS02 VPN ? GO:0005216 ... O35433 38698206
    581234 8u4n:R (2.72) BS01 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581235 8u4o:R (3.29) BS01 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581236 8u4p:R (3.15) BS01 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581237 8u4p:R (3.15) BS02 VH6 ? GO:0001618 ... P42212
    P61073    		 N/A
    581238 8u4q:R (3.36) BS01 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581239 8u4r:R (3.1) BS01 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581240 8u4s:C (3.35) BS01 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581241 8u4s:C (3.35) BS02 D21 ? GO:0001618 ... P42212
    P61073    		 N/A
    581242 8u4s:C (3.35) BS03 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581243 8u4s:C (3.35) BS04 D21 ? GO:0001618 ... P42212
    P61073    		 N/A
    581244 8u4s:G (3.35) BS01 D21 ? GO:0001618 ... P42212
    P61073    		 N/A
    581245 8u4s:G (3.35) BS02 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581246 8u4s:G (3.35) BS03 D21 ? GO:0001618 ... P42212
    P61073    		 N/A
    581247 8u4s:G (3.35) BS04 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581248 8u4s:R (3.35) BS01 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581249 8u4s:R (3.35) BS02 D21 ? GO:0001618 ... P42212
    P61073    		 N/A
    581250 8u4s:R (3.35) BS03 CLR ? GO:0001618 ... P42212
    P61073    		 N/A
    581251 8u4s:R (3.35) BS04 D21 ? GO:0001618 ... P42212
    P61073    		 N/A
    581252 8u4t:AA (3.38) BS01 CLR ? GO:0001618 ... P61073 N/A
    581253 8u4t:AA (3.38) BS02 D21 ? GO:0001618 ... P61073 N/A
    581254 8u4t:AA (3.38) BS03 CLR ? GO:0001618 ... P61073 N/A
    581255 8u4t:I (3.38) BS01 CLR ? GO:0001618 ... P61073 N/A
    581256 8u4t:I (3.38) BS02 D21 ? GO:0001618 ... P61073 N/A
    581257 8u4t:I (3.38) BS03 CLR ? GO:0001618 ... P61073 N/A
    581258 8u4t:Q (3.38) BS01 CLR ? GO:0001618 ... P61073 N/A
    581259 8u4t:Q (3.38) BS02 D21 ? GO:0001618 ... P61073 N/A
    581260 8u4t:Q (3.38) BS03 CLR ? GO:0001618 ... P61073 N/A
    581261 8u4t:R (3.38) BS01 CLR ? GO:0001618 ... P61073 N/A
    581262 8u4t:R (3.38) BS02 D21 ? GO:0001618 ... P61073 N/A
    581263 8u4t:R (3.38) BS03 CLR ? GO:0001618 ... P61073 N/A
    581264 8u4v:A (2.99) BS01 AV0 ? GO:0004888 ... O14493 38886509
    581265 8u53:A (2.6) BS01 CPL ? GO:0000325 ... Q9C8G5 38592763
    581266 8u53:A (2.6) BS02 82T ? GO:0000325 ... Q9C8G5 38592763
    581267 8u53:B (2.6) BS01 CPL ? GO:0000325 ... Q9C8G5 38592763
    581268 8u53:B (2.6) BS02 82T ? GO:0000325 ... Q9C8G5 38592763
    581269 8u5b:A (5.3) BS01 AV0 ? GO:0004888 ... O14493 38886509
    581270 8u5h:I (3.23) BS01 dna ? GO:0000786 ... P02302 N/A
    581271 8u5h:I (3.23) BS02 dna ? GO:0000786 ... P02302 N/A
    581272 8u5h:J (3.23) BS01 dna ? GO:0000786 ... P62799 N/A
    581273 8u5h:J (3.23) BS02 dna ? GO:0000786 ... P62799 N/A
    581274 8u5h:K (3.23) BS01 peptide ? GO:0000786 ... P06897 N/A
    581275 8u5h:K (3.23) BS02 dna ? GO:0000786 ... P06897 N/A
    581276 8u5h:K (3.23) BS03 dna ? GO:0000786 ... P06897 N/A
    581277 8u5h:M (3.23) BS01 peptide ? GO:0000786 ... P02281 N/A
    581278 8u5h:M (3.23) BS02 dna ? GO:0000786 ... P02281 N/A
    581279 8u5h:M (3.23) BS03 dna ? GO:0000786 ... P02281 N/A
    581280 8u5h:O (3.23) BS01 peptide ? GO:0000786 ... P02302 N/A
    581281 8u5h:O (3.23) BS02 dna ? GO:0000786 ... P02302 N/A
    581282 8u5h:O (3.23) BS03 dna ? GO:0000786 ... P02302 N/A
    581283 8u5h:Q (3.23) BS01 dna ? GO:0000786 ... P62799 N/A
    581284 8u5h:Q (3.23) BS02 dna ? GO:0000786 ... P62799 N/A
    581285 8u5h:R (3.23) BS01 dna ? GO:0000786 ... P06897 N/A
    581286 8u5h:R (3.23) BS02 dna ? GO:0000786 ... P06897 N/A
    581287 8u5h:S (3.23) BS01 dna ? GO:0000786 ... P02281 N/A
    581288 8u5h:S (3.23) BS02 dna ? GO:0000786 ... P02281 N/A
    581289 8u5y:A (3.01) BS01 dna ? GO:0003677 ... Q6NSI4 37786681
    581290 8u5y:B (3.01) BS01 dna ? GO:0003677 ... Q6NSI4 37786681
    581291 8u5y:C (3.01) BS01 dna ? GO:0003677 ... Q6NSI4 37786681
    581292 8u61:A (4.0) BS01 dna ? GO:0003677 ... Q6NSI4 38466836
    581293 8u61:B (4.0) BS01 dna ? GO:0003677 ... Q6NSI4 38466836
    581294 8u61:C (4.0) BS01 dna ? GO:0003677 ... Q6NSI4 38466836
    581295 8u7j:M (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581296 8u7j:N (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581297 8u7j:O (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581298 8u7j:P (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581299 8u7j:Q (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581300 8u7j:R (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581301 8u7j:S (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581302 8u7j:T (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581303 8u7j:U (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581304 8u7j:V (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581305 8u7j:W (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581306 8u7j:X (3.02) BS01 GLN N/A GO:0004359 ... A7WYT2 38782204
    581307 8u7l:A (3.6) BS01 GDP 2.7.11.1
    3.6.5.-    		 GO:0000139 ... Q5S007 38263358
    581308 8u7l:A (3.6) BS02 T3X 2.7.11.1
    3.6.5.-    		 GO:0000139 ... Q5S007 38263358
    581309 8u7l:B (3.6) BS01 GDP 2.7.11.1
    3.6.5.-    		 GO:0000139 ... Q5S007 38263358
    581310 8u7l:B (3.6) BS02 T3X 2.7.11.1
    3.6.5.-    		 GO:0000139 ... Q5S007 38263358
    581311 8u7m:A (3.1) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581312 8u7m:A (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581313 8u7m:A (3.1) BS03 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581314 8u7m:A (3.1) BS04 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581315 8u7m:A (3.1) BS05 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581316 8u7m:A (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581317 8u7m:B (3.1) BS01 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581318 8u7m:B (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581319 8u7m:B (3.1) BS03 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581320 8u7m:B (3.1) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581321 8u7m:B (3.1) BS05 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581322 8u7m:B (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581323 8u7m:C (3.1) BS01 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581324 8u7m:C (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581325 8u7m:C (3.1) BS03 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581326 8u7m:C (3.1) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581327 8u7m:C (3.1) BS05 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581328 8u7m:C (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581329 8u7m:D (3.1) BS01 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581330 8u7m:D (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581331 8u7m:D (3.1) BS03 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581332 8u7m:D (3.1) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581333 8u7m:D (3.1) BS05 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581334 8u7m:D (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581335 8u7m:E (3.1) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581336 8u7m:E (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581337 8u7m:E (3.1) BS03 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581338 8u7m:E (3.1) BS04 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581339 8u7m:E (3.1) BS05 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581340 8u7m:E (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581341 8u7m:F (3.1) BS01 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581342 8u7m:F (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581343 8u7m:F (3.1) BS03 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581344 8u7m:F (3.1) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581345 8u7m:F (3.1) BS05 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581346 8u7m:F (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581347 8u7m:G (3.1) BS01 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581348 8u7m:G (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581349 8u7m:G (3.1) BS03 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581350 8u7m:G (3.1) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581351 8u7m:G (3.1) BS05 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581352 8u7m:G (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581353 8u7m:H (3.1) BS01 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581354 8u7m:H (3.1) BS02 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581355 8u7m:H (3.1) BS03 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581356 8u7m:H (3.1) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581357 8u7m:H (3.1) BS05 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581358 8u7m:H (3.1) BS06 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581359 8u7q:A (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581360 8u7q:A (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581361 8u7q:A (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581362 8u7q:A (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581363 8u7q:A (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581364 8u7q:B (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581365 8u7q:B (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581366 8u7q:B (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581367 8u7q:B (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581368 8u7q:B (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581369 8u7q:C (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581370 8u7q:C (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581371 8u7q:C (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581372 8u7q:C (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581373 8u7q:C (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581374 8u7q:D (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581375 8u7q:D (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581376 8u7q:D (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581377 8u7q:D (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581378 8u7q:D (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581379 8u7q:E (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581380 8u7q:E (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581381 8u7q:E (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581382 8u7q:E (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581383 8u7q:E (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581384 8u7q:F (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581385 8u7q:F (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581386 8u7q:F (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581387 8u7q:F (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581388 8u7q:F (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581389 8u7q:G (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581390 8u7q:G (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581391 8u7q:G (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581392 8u7q:G (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581393 8u7q:G (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581394 8u7q:H (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581395 8u7q:H (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    581396 8u7q:H (3.3) BS03 IMP 1.1.1.205 GO:0000166 ... P20839 38323936
    581397 8u7q:H (3.3) BS04 ATP 1.1.1.205 GO:0000166 ... P20839 38323936
    581398 8u7q:H (3.3) BS05 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581399 8u7v:A (3.3) BS01 GTP 1.1.1.205 GO:0000166 ... P20839 38323936
    581400 8u7v:A (3.3) BS02 NAD 1.1.1.205 GO:0000166 ... P20839 38323936
    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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