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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.
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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.
  • 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
    114401 3w98:G (3.42) BS01 dna ? GO:0000786 ... P04908 24251097
    114402 3w98:G (3.42) BS02 dna ? GO:0000786 ... P04908 24251097
    114403 3w98:H (3.42) BS01 dna ? GO:0000786 ... P06899 24251097
    114404 3w98:H (3.42) BS02 dna ? GO:0000786 ... P06899 24251097
    114405 3w99:A (3.0) BS01 dna ? GO:0000786 ... P68431 24251097
    114406 3w99:A (3.0) BS02 dna ? GO:0000786 ... P68431 24251097
    114407 3w99:C (3.0) BS01 dna ? GO:0000786 ... P04908 24251097
    114408 3w99:C (3.0) BS02 dna ? GO:0000786 ... P04908 24251097
    114409 3w99:D (3.0) BS01 dna ? GO:0000786 ... P06899 24251097
    114410 3w99:D (3.0) BS02 dna ? GO:0000786 ... P06899 24251097
    114411 3w99:E (3.0) BS01 dna ? GO:0000786 ... P68431 24251097
    114412 3w99:E (3.0) BS02 dna ? GO:0000786 ... P68431 24251097
    114413 3w99:G (3.0) BS01 dna ? GO:0000786 ... P04908 24251097
    114414 3w99:G (3.0) BS02 dna ? GO:0000786 ... P04908 24251097
    114415 3w99:H (3.0) BS01 dna ? GO:0000786 ... P06899 24251097
    114416 3w99:H (3.0) BS02 dna ? GO:0000786 ... P06899 24251097
    114417 3w9c:A (2.5) BS01 HEM 1.14.15.1 GO:0004497 ... P00183 23856620
    114418 3w9c:B (2.5) BS01 FES ? GO:0005515 ... P00259 23856620
    114419 3w9f:A (1.9) BS01 I3P ? GO:0005216 ... A0A1D5PXA5 25256292
    114420 3w9f:B (1.9) BS01 I3P ? GO:0005216 ... A0A1D5PXA5 25256292
    114421 3w9f:C (1.9) BS01 I3P ? GO:0005216 ... A0A1D5PXA5 25256292
    114422 3w9f:D (1.9) BS01 I3P ? GO:0005216 ... A0A1D5PXA5 25256292
    114423 3w9h:B (3.05) BS01 P9D ? GO:0005515 ... P31224 23812586
    114424 3w9j:B (3.15) BS01 P9D ? GO:0005515 ... P52002 23812586
    114425 3w9j:E (3.15) BS01 P9D ? GO:0005515 ... P52002 23812586
    114426 3w9r:A (1.9) BS01 A8S ? GO:0004864 ... Q84MC7 24645846 MOAD: Kd=0.66uM
    PDBbind: -logKd/Ki=6.18, Kd=0.66uM
    114427 3w9t:A (2.9) BS01 GAL ? GO:0000287 ... Q868M7 N/A
    114428 3w9t:A (2.9) BS02 GAL ? GO:0000287 ... Q868M7 N/A
    114429 3w9t:A (2.9) BS03 GAL ? GO:0000287 ... Q868M7 N/A
    114430 3w9t:A (2.9) BS04 GAL ? GO:0000287 ... Q868M7 N/A
    114431 3w9t:A (2.9) BS05 GAL ? GO:0000287 ... Q868M7 N/A
    114432 3w9t:A (2.9) BS06 CA ? GO:0000287 ... Q868M7 N/A
    114433 3w9t:A (2.9) BS07 CA ? GO:0000287 ... Q868M7 N/A
    114434 3w9t:A (2.9) BS08 CA ? GO:0000287 ... Q868M7 N/A
    114435 3w9t:A (2.9) BS09 CA ? GO:0000287 ... Q868M7 N/A
    114436 3w9t:A (2.9) BS10 CA ? GO:0000287 ... Q868M7 N/A
    114437 3w9t:A (2.9) BS11 MG ? GO:0000287 ... Q868M7 N/A
    114438 3w9t:A (2.9) BS12 MG ? GO:0000287 ... Q868M7 N/A
    114439 3w9t:B (2.9) BS01 GAL ? GO:0000287 ... Q868M7 N/A
    114440 3w9t:B (2.9) BS02 GAL ? GO:0000287 ... Q868M7 N/A
    114441 3w9t:B (2.9) BS03 GAL ? GO:0000287 ... Q868M7 N/A
    114442 3w9t:B (2.9) BS04 GAL ? GO:0000287 ... Q868M7 N/A
    114443 3w9t:B (2.9) BS05 GAL ? GO:0000287 ... Q868M7 N/A
    114444 3w9t:B (2.9) BS06 FRU ? GO:0000287 ... Q868M7 N/A
    114445 3w9t:B (2.9) BS07 CA ? GO:0000287 ... Q868M7 N/A
    114446 3w9t:B (2.9) BS08 CA ? GO:0000287 ... Q868M7 N/A
    114447 3w9t:B (2.9) BS09 CA ? GO:0000287 ... Q868M7 N/A
    114448 3w9t:B (2.9) BS10 CA ? GO:0000287 ... Q868M7 N/A
    114449 3w9t:B (2.9) BS11 CA ? GO:0000287 ... Q868M7 N/A
    114450 3w9t:B (2.9) BS12 MG ? GO:0000287 ... Q868M7 N/A
    114451 3w9t:B (2.9) BS13 MG ? GO:0000287 ... Q868M7 N/A
    114452 3w9t:C (2.9) BS01 GAL ? GO:0000287 ... Q868M7 N/A
    114453 3w9t:C (2.9) BS02 GAL ? GO:0000287 ... Q868M7 N/A
    114454 3w9t:C (2.9) BS03 GAL ? GO:0000287 ... Q868M7 N/A
    114455 3w9t:C (2.9) BS04 GAL ? GO:0000287 ... Q868M7 N/A
    114456 3w9t:C (2.9) BS05 GAL ? GO:0000287 ... Q868M7 N/A
    114457 3w9t:C (2.9) BS06 CA ? GO:0000287 ... Q868M7 N/A
    114458 3w9t:C (2.9) BS07 CA ? GO:0000287 ... Q868M7 N/A
    114459 3w9t:C (2.9) BS08 CA ? GO:0000287 ... Q868M7 N/A
    114460 3w9t:C (2.9) BS09 CA ? GO:0000287 ... Q868M7 N/A
    114461 3w9t:C (2.9) BS10 CA ? GO:0000287 ... Q868M7 N/A
    114462 3w9t:C (2.9) BS11 MG ? GO:0000287 ... Q868M7 N/A
    114463 3w9t:C (2.9) BS12 MG ? GO:0000287 ... Q868M7 N/A
    114464 3w9t:D (2.9) BS01 GAL ? GO:0000287 ... Q868M7 N/A
    114465 3w9t:D (2.9) BS02 GAL ? GO:0000287 ... Q868M7 N/A
    114466 3w9t:D (2.9) BS03 GAL ? GO:0000287 ... Q868M7 N/A
    114467 3w9t:D (2.9) BS04 GAL ? GO:0000287 ... Q868M7 N/A
    114468 3w9t:D (2.9) BS05 FRU ? GO:0000287 ... Q868M7 N/A
    114469 3w9t:D (2.9) BS06 GAL ? GO:0000287 ... Q868M7 N/A
    114470 3w9t:D (2.9) BS07 CA ? GO:0000287 ... Q868M7 N/A
    114471 3w9t:D (2.9) BS08 CA ? GO:0000287 ... Q868M7 N/A
    114472 3w9t:D (2.9) BS09 CA ? GO:0000287 ... Q868M7 N/A
    114473 3w9t:D (2.9) BS10 CA ? GO:0000287 ... Q868M7 N/A
    114474 3w9t:D (2.9) BS11 CA ? GO:0000287 ... Q868M7 N/A
    114475 3w9t:D (2.9) BS12 MG ? GO:0000287 ... Q868M7 N/A
    114476 3w9t:D (2.9) BS13 MG ? GO:0000287 ... Q868M7 N/A
    114477 3w9t:E (2.9) BS01 GAL ? GO:0000287 ... Q868M7 N/A
    114478 3w9t:E (2.9) BS02 FRU ? GO:0000287 ... Q868M7 N/A
    114479 3w9t:E (2.9) BS03 GAL ? GO:0000287 ... Q868M7 N/A
    114480 3w9t:E (2.9) BS04 FRU ? GO:0000287 ... Q868M7 N/A
    114481 3w9t:E (2.9) BS05 GAL ? GO:0000287 ... Q868M7 N/A
    114482 3w9t:E (2.9) BS06 GAL ? GO:0000287 ... Q868M7 N/A
    114483 3w9t:E (2.9) BS07 GAL ? GO:0000287 ... Q868M7 N/A
    114484 3w9t:E (2.9) BS08 GAL ? GO:0000287 ... Q868M7 N/A
    114485 3w9t:E (2.9) BS09 CA ? GO:0000287 ... Q868M7 N/A
    114486 3w9t:E (2.9) BS10 CA ? GO:0000287 ... Q868M7 N/A
    114487 3w9t:E (2.9) BS11 CA ? GO:0000287 ... Q868M7 N/A
    114488 3w9t:E (2.9) BS12 CA ? GO:0000287 ... Q868M7 N/A
    114489 3w9t:E (2.9) BS13 CA ? GO:0000287 ... Q868M7 N/A
    114490 3w9t:E (2.9) BS14 MG ? GO:0000287 ... Q868M7 N/A
    114491 3w9t:E (2.9) BS15 MG ? GO:0000287 ... Q868M7 N/A
    114492 3w9t:F (2.9) BS01 GAL ? GO:0000287 ... Q868M7 N/A
    114493 3w9t:F (2.9) BS02 GAL ? GO:0000287 ... Q868M7 N/A
    114494 3w9t:F (2.9) BS03 GAL ? GO:0000287 ... Q868M7 N/A
    114495 3w9t:F (2.9) BS04 GAL ? GO:0000287 ... Q868M7 N/A
    114496 3w9t:F (2.9) BS05 GAL ? GO:0000287 ... Q868M7 N/A
    114497 3w9t:F (2.9) BS06 CA ? GO:0000287 ... Q868M7 N/A
    114498 3w9t:F (2.9) BS07 CA ? GO:0000287 ... Q868M7 N/A
    114499 3w9t:F (2.9) BS08 CA ? GO:0000287 ... Q868M7 N/A
    114500 3w9t:F (2.9) BS09 CA ? GO:0000287 ... Q868M7 N/A
    114501 3w9t:F (2.9) BS10 MG ? GO:0000287 ... Q868M7 N/A
    114502 3w9t:F (2.9) BS11 MG ? GO:0000287 ... Q868M7 N/A
    114503 3w9t:F (2.9) BS12 CA ? GO:0000287 ... Q868M7 N/A
    114504 3w9t:G (2.9) BS01 GAL ? GO:0000287 ... Q868M7 N/A
    114505 3w9t:G (2.9) BS02 GAL ? GO:0000287 ... Q868M7 N/A
    114506 3w9t:G (2.9) BS03 GAL ? GO:0000287 ... Q868M7 N/A
    114507 3w9t:G (2.9) BS04 GAL ? GO:0000287 ... Q868M7 N/A
    114508 3w9t:G (2.9) BS05 GAL ? GO:0000287 ... Q868M7 N/A
    114509 3w9t:G (2.9) BS06 CA ? GO:0000287 ... Q868M7 N/A
    114510 3w9t:G (2.9) BS07 CA ? GO:0000287 ... Q868M7 N/A
    114511 3w9t:G (2.9) BS08 CA ? GO:0000287 ... Q868M7 N/A
    114512 3w9t:G (2.9) BS09 CA ? GO:0000287 ... Q868M7 N/A
    114513 3w9t:G (2.9) BS10 CA ? GO:0000287 ... Q868M7 N/A
    114514 3w9t:G (2.9) BS11 MG ? GO:0000287 ... Q868M7 N/A
    114515 3w9t:G (2.9) BS12 MG ? GO:0000287 ... Q868M7 N/A
    114516 3w9v:A (1.031) BS01 PO4 ? GO:0005576 ... P85173 24121327
    114517 3w9v:B (1.031) BS01 PO4 ? GO:0005576 ... P85173 24121327
    114518 3w9w:A (1.35) BS01 PO4 ? GO:0005576 ... P85173 24121327
    114519 3w9w:B (1.35) BS01 PO4 ? GO:0005576 ... P85173 24121327
    114520 3wa0:A (2.31) BS01 peptide ? GO:0003779 ... P46662 24912773
    114521 3wa0:B (2.31) BS01 peptide ? GO:0003779 ... P46662 24912773
    114522 3wa0:B (2.31) BS02 peptide ? GO:0003779 ... P46662 24912773
    114523 3wa0:C (2.31) BS01 peptide ? GO:0003779 ... P46662 24912773
    114524 3wa0:E (2.31) BS01 peptide ? GO:0003779 ... P46662 24912773
    114525 3wa0:F (2.31) BS01 peptide ? GO:0003779 ... P46662 24912773
    114526 3wa5:A (1.9) BS01 CA 3.2.1.17 GO:0003796 ... Q9HYC5 24100309
    114527 3wa5:A (1.9) BS02 CA 3.2.1.17 GO:0003796 ... Q9HYC5 24100309
    114528 3wa5:A (1.9) BS03 CA 3.2.1.17 GO:0003796 ... Q9HYC5 24100309
    114529 3wa9:A (3.07) BS01 dna ? GO:0000786 ... P68431 24311584
    114530 3wa9:A (3.07) BS02 dna ? GO:0000786 ... P68431 24311584
    114531 3wa9:B (3.07) BS01 dna ? GO:0000781 ... P62805 24311584
    114532 3wa9:B (3.07) BS02 dna ? GO:0000781 ... P62805 24311584
    114533 3wa9:C (3.07) BS01 dna ? GO:0000786 ... P0C0S5 24311584
    114534 3wa9:C (3.07) BS02 dna ? GO:0000786 ... P0C0S5 24311584
    114535 3wa9:D (3.07) BS01 dna ? GO:0000786 ... P06899 24311584
    114536 3wa9:D (3.07) BS02 dna ? GO:0000786 ... P06899 24311584
    114537 3wa9:E (3.07) BS01 dna ? GO:0000786 ... P68431 24311584
    114538 3wa9:E (3.07) BS02 dna ? GO:0000786 ... P68431 24311584
    114539 3wa9:F (3.07) BS01 dna ? GO:0000781 ... P62805 24311584
    114540 3wa9:F (3.07) BS02 dna ? GO:0000781 ... P62805 24311584
    114541 3wa9:G (3.07) BS01 dna ? GO:0000786 ... P0C0S5 24311584
    114542 3wa9:G (3.07) BS02 dna ? GO:0000786 ... P0C0S5 24311584
    114543 3wa9:H (3.07) BS01 dna ? GO:0000786 ... P06899 24311584
    114544 3wa9:H (3.07) BS02 dna ? GO:0000786 ... P06899 24311584
    114545 3waa:A (3.2) BS01 dna ? GO:0000786 ... P68431 24311584
    114546 3waa:A (3.2) BS02 dna ? GO:0000786 ... P68431 24311584
    114547 3waa:B (3.2) BS01 dna ? GO:0000781 ... P62805 24311584
    114548 3waa:C (3.2) BS01 dna ? GO:0000786 ... Q71UI9 24311584
    114549 3waa:C (3.2) BS02 dna ? GO:0000786 ... Q71UI9 24311584
    114550 3waa:D (3.2) BS01 dna ? GO:0000786 ... P06899 24311584
    114551 3waa:D (3.2) BS02 dna ? GO:0000786 ... P06899 24311584
    114552 3waa:E (3.2) BS01 dna ? GO:0000786 ... P68431 24311584
    114553 3waa:E (3.2) BS02 dna ? GO:0000786 ... P68431 24311584
    114554 3waa:F (3.2) BS01 dna ? GO:0000781 ... P62805 24311584
    114555 3waa:F (3.2) BS02 dna ? GO:0000781 ... P62805 24311584
    114556 3waa:G (3.2) BS01 dna ? GO:0000786 ... Q71UI9 24311584
    114557 3waa:G (3.2) BS02 dna ? GO:0000786 ... Q71UI9 24311584
    114558 3waa:H (3.2) BS01 dna ? GO:0000786 ... P06899 24311584
    114559 3waa:H (3.2) BS02 dna ? GO:0000786 ... P06899 24311584
    114560 3waj:A (2.501) BS01 ZN 2.4.99.21 GO:0004576 ... O29867 24127570
    114561 3waj:A (2.501) BS02 SO4 2.4.99.21 GO:0004576 ... O29867 24127570
    114562 3wak:A (3.413) BS01 MN 2.4.99.21 GO:0004576 ... O29867 24127570
    114563 3wav:A (1.797) BS01 MAN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114564 3wav:A (1.797) BS02 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114565 3wav:A (1.797) BS03 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114566 3wav:A (1.797) BS04 CA 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114567 3wav:A (1.797) BS05 DWV 3.1.4.39 GO:0003676 ... Q9R1E6 23688339 MOAD: ic50=180nM
    PDBbind: -logKd/Ki=6.74, IC50=180nM
    BindingDB: IC50=180nM
    114568 3waw:A (1.954) BS01 MAN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114569 3waw:A (1.954) BS02 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114570 3waw:A (1.954) BS03 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114571 3waw:A (1.954) BS04 CA 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114572 3waw:A (1.954) BS05 DWW 3.1.4.39 GO:0003676 ... Q9R1E6 23688339 MOAD: ic50=580nM
    PDBbind: -logKd/Ki=6.24, IC50=580nM
    BindingDB: IC50=580nM
    114573 3wax:A (1.899) BS01 MAN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114574 3wax:A (1.899) BS02 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114575 3wax:A (1.899) BS03 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114576 3wax:A (1.899) BS04 CA 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114577 3wax:A (1.899) BS05 DWX 3.1.4.39 GO:0003676 ... Q9R1E6 23688339 MOAD: ic50=13nM
    PDBbind: -logKd/Ki=7.89, IC50=13nM
    BindingDB: IC50=13nM
    114578 3way:A (1.746) BS01 MAN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114579 3way:A (1.746) BS02 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114580 3way:A (1.746) BS03 ZN 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114581 3way:A (1.746) BS04 CA 3.1.4.39 GO:0003676 ... Q9R1E6 23688339
    114582 3way:A (1.746) BS05 DWY 3.1.4.39 GO:0003676 ... Q9R1E6 23688339 PDBbind: -logKd/Ki=7.66, IC50=22nM
    BindingDB: IC50=22nM
    114583 3wb4:A (2.25) BS01 0B3 3.4.23.46 GO:0004190 ... P56817 24051074 MOAD: Kd=36.6uM
    PDBbind: -logKd/Ki=4.44, Kd=36.6uM
    BindingDB: IC50=34000nM
    114584 3wb5:A (2.501) BS01 0B4 3.4.23.46 GO:0004190 ... P56817 24051074 MOAD: Kd=26.8uM
    PDBbind: -logKd/Ki=4.57, Kd=26.8uM
    114585 3wbg:A (2.15) BS01 2AN ? GO:0005515 ... P05413 24121341
    114586 3wbg:B (2.15) BS01 2AN ? GO:0005515 ... P05413 24121341
    114587 3wbg:C (2.15) BS01 2AN ? GO:0005515 ... P05413 24121341
    114588 3wbg:D (2.15) BS01 2AN ? GO:0005515 ... P05413 24121341
    114589 3wbl:A (2.0) BS01 PDY 2.7.11.22 GO:0000082 ... P24941 24121337 MOAD: ic50=23uM
    PDBbind: -logKd/Ki=4.64, IC50=23uM
    BindingDB: IC50=23000nM
    114590 3wbm:A (2.0) BS01 rna 3.1.-.- GO:0003676 ... P60848 24307170
    114591 3wbm:B (2.0) BS01 rna 3.1.-.- GO:0003676 ... P60848 24307170
    114592 3wbm:C (2.0) BS01 rna 3.1.-.- GO:0003676 ... P60848 24307170
    114593 3wbn:A (2.45) BS01 peptide ? GO:0005886 ... Q8U2X0 23535598
    114594 3wc8:A (1.8) BS01 HEC ? GO:0005515 ... P00004 24206001
    114595 3wcp:A (1.94) BS01 HEM ? GO:0004601 ... P69905 N/A
    114596 3wcp:B (1.94) BS01 HEM ? GO:0004601 ... P68871 N/A
    114597 3wcp:B (1.94) BS02 DG2 ? GO:0004601 ... P68871 N/A
    114598 3wcp:B (1.94) BS03 DG2 ? GO:0004601 ... P68871 N/A
    114599 3wcp:C (1.94) BS01 HEM ? GO:0004601 ... P69905 N/A
    114600 3wcp:D (1.94) BS01 HEM ? GO:0004601 ... P68871 N/A
    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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