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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 1027 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
    401 3wlk:X (1.8) BS01 XYP 3.2.1.21 GO:0004553 ... Q9XEI3 31110237
    402 3wll:A (1.8) BS01 XYP 3.2.1.21 GO:0004553 ... Q9XEI3 31110237
    403 3wn1:A (2.0) BS01 XYP 3.2.1.55 GO:0005576 ... O54161 24482228
    404 3wn1:A (2.0) BS02 XYP 3.2.1.55 GO:0005576 ... O54161 24482228
    405 3wn1:A (2.0) BS03 XYP 3.2.1.55 GO:0005576 ... O54161 24482228
    406 3wn2:A (2.1) BS01 XYP 3.2.1.55 GO:0005576 ... O54161 24482228
    407 3wn2:A (2.1) BS02 XYP 3.2.1.55 GO:0005576 ... O54161 24482228
    408 3wn2:A (2.1) BS03 XYP 3.2.1.55 GO:0005576 ... O54161 24482228
    409 3wp6:A (1.43) BS01 XYP 3.2.1.8 GO:0004553 ... Q9UV68 24619408
    410 3wp6:A (1.43) BS02 XYP 3.2.1.8 GO:0004553 ... Q9UV68 24619408
    411 3wp6:A (1.43) BS03 XYP 3.2.1.8 GO:0004553 ... Q9UV68 24619408
    412 3wp6:A (1.43) BS04 XYP 3.2.1.8 GO:0004553 ... Q9UV68 24619408
    413 3wp6:A (1.43) BS05 XYP 3.2.1.8 GO:0004553 ... Q9UV68 24619408
    414 3wue:A (2.15) BS01 XYP 3.2.1.8 GO:0004553 ... B4XVN1 25193708
    415 3wue:A (2.15) BS02 XYP 3.2.1.8 GO:0004553 ... B4XVN1 25193708
    416 3wue:A (2.15) BS03 XYP 3.2.1.8 GO:0004553 ... B4XVN1 25193708
    417 3wug:A (1.88) BS01 XYP 3.2.1.8 GO:0004553 ... B4XVN1 25193708
    418 3wug:A (1.88) BS02 XYP 3.2.1.8 GO:0004553 ... B4XVN1 25193708
    419 3wug:A (1.88) BS03 XYP 3.2.1.8 GO:0004553 ... B4XVN1 25193708
    420 3wug:A (1.88) BS04 XYP 3.2.1.8 GO:0004553 ... B4XVN1 25193708
    421 3zkk:A (2.198) BS01 XYP N/A N/A N/A 24279727
    422 3zkk:A (2.198) BS02 XYP N/A N/A N/A 24279727
    423 3zkk:A (2.198) BS03 XYP N/A N/A N/A 24279727
    424 3zkl:A (2.397) BS01 XYP N/A N/A N/A 24279727
    425 3zkl:A (2.397) BS02 XYP N/A N/A N/A 24279727
    426 3zkl:A (2.397) BS03 XYP N/A N/A N/A 24279727
    427 3zse:A (1.78) BS02 XYP 3.2.1.8 GO:0004553 ... Q5RZ98 22297985
    428 3zxk:B (1.44) BS02 XYP N/A GO:0004553 ... N/A 22492980
    429 4c1p:A (2.634) BS01 XYP 3.2.1.37 GO:0003824 ... A0A067XG64 24816105
    430 4c1p:A (2.634) BS02 XYP 3.2.1.37 GO:0003824 ... A0A067XG64 24816105
    431 4c1t:A (2.39) BS01 XYP N/A N/A N/A 24279727 PDBbind: -logKd/Ki=7.15, Kd=70.8nM
    432 4c1t:A (2.39) BS02 XYP N/A N/A N/A 24279727 PDBbind: -logKd/Ki=7.15, Kd=70.8nM
    433 4c1t:A (2.39) BS03 XYP N/A N/A N/A 24279727 PDBbind: -logKd/Ki=7.15, Kd=70.8nM
    434 4c1u:A (2.0) BS01 XYP N/A N/A N/A 24279727 PDBbind: -logKd/Ki=7.09, Kd=81nM
    435 4c1u:A (2.0) BS02 XYP N/A N/A N/A 24279727 PDBbind: -logKd/Ki=7.09, Kd=81nM
    436 4d5i:A (1.42) BS01 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    437 4d5i:A (1.42) BS02 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    438 4d5i:A (1.42) BS03 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    439 4d5j:A (1.5) BS01 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    440 4d5j:A (1.5) BS02 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    441 4d5j:A (1.5) BS03 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    442 4d5o:A (1.52) BS01 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    443 4d5o:A (1.52) BS02 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    444 4d5p:A (1.89) BS01 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    445 4d5p:A (1.89) BS02 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    446 4d5q:A (1.68) BS01 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    447 4d5q:A (1.68) BS02 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    448 4d5q:A (1.68) BS03 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    449 4d5q:A (1.68) BS04 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    450 4d5v:A (1.62) BS01 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    451 4d5v:A (1.62) BS02 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    452 4d5v:A (1.62) BS03 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    453 4d5v:A (1.62) BS05 XYP 3.2.1.91 GO:0004553 ... P62694 25765184
    454 4g68:A (1.8) BS02 XYP ? N/A J9PBT4 22918832
    455 4g68:A (1.8) BS03 XYP ? N/A J9PBT4 22918832
    456 4g68:B (1.8) BS02 XYP ? N/A J9PBT5 22918832
    457 4g68:B (1.8) BS03 XYP ? N/A J9PBT5 22918832
    458 4gby:A (2.808) BS01 XYP ? GO:0005886 ... P0AGF4 23075985
    459 4hk8:A (1.151) BS01 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    460 4hk8:A (1.151) BS02 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    461 4hk8:A (1.151) BS03 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    462 4hk8:A (1.151) BS04 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    463 4hk8:A (1.151) BS05 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    464 4hk9:A (1.55) BS01 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    465 4hk9:A (1.55) BS02 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    466 4hk9:A (1.55) BS03 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    467 4hkw:A (1.65) BS02 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    468 4hkw:A (1.65) BS03 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    469 4hkw:A (1.65) BS04 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    470 4hkw:A (1.65) BS05 XYP 3.2.1.8 GO:0004553 ... P36217 24419374
    471 4l4p:A (1.9) BS01 XYP 3.2.1.8 GO:0004553 ... B9MMA5 N/A
    472 4l4p:A (1.9) BS02 XYP 3.2.1.8 GO:0004553 ... B9MMA5 N/A
    473 4lw6:A (2.4) BS01 XYP 2.4.1.133 GO:0005975 ... Q9VBZ9 24052259
    474 4m4k:A (2.2) BS01 XYP 2.4.1.133 GO:0005975 ... Q9VBZ9 24052259
    475 4o8p:A (1.557) BS01 XYP 3.2.1.55 GO:0046373 ... Q76BV4 24951792
    476 4o8p:A (1.557) BS02 XYP 3.2.1.55 GO:0046373 ... Q76BV4 24951792
    477 4o8p:A (1.557) BS03 XYP 3.2.1.55 GO:0046373 ... Q76BV4 24951792
    478 4o8p:A (1.557) BS04 XYP 3.2.1.55 GO:0046373 ... Q76BV4 24951792
    479 4pmd:A (1.7) BS01 XYP 3.2.1.8 GO:0004553 ... B9MMA5 N/A
    480 4pmd:A (1.7) BS02 XYP 3.2.1.8 GO:0004553 ... B9MMA5 N/A
    481 4pmy:A (1.601) BS01 XYP N/A GO:0004553 ... N/A 25266726
    482 4pmy:B (1.601) BS01 XYP N/A GO:0004553 ... N/A 25266726
    483 4pmz:A (1.401) BS01 XYP N/A GO:0004553 ... N/A 25266726
    484 4pmz:A (1.401) BS02 XYP N/A GO:0004553 ... N/A 25266726
    485 4pmz:B (1.401) BS01 XYP N/A GO:0004553 ... N/A 25266726
    486 4pmz:B (1.401) BS02 XYP N/A GO:0004553 ... N/A 25266726
    487 4pn2:A (1.42) BS02 XYP N/A GO:0004553 ... N/A 25266726
    488 4pn2:A (1.42) BS03 XYP N/A GO:0004553 ... N/A 25266726
    489 4pn2:B (1.42) BS02 XYP N/A GO:0004553 ... N/A 25266726
    490 4pn2:B (1.42) BS03 XYP N/A GO:0004553 ... N/A 25266726
    491 4prw:A (1.8) BS01 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    492 4prw:A (1.8) BS02 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    493 4prw:A (1.8) BS03 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    494 4prw:A (1.8) BS04 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    495 4prw:A (1.8) BS05 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    496 4pud:A (2.01) BS01 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    497 4pud:A (2.01) BS02 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    498 4pud:A (2.01) BS03 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    499 4pud:A (2.01) BS04 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    500 4pue:A (2.2) BS01 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    501 4pue:A (2.2) BS02 XYP 3.2.1.8 GO:0004553 ... P40943 N/A
    502 4pvi:A (1.48) BS01 XYP 3.2.1.55 GO:0005576 ... A0A059U759 N/A
    503 4pvi:A (1.48) BS02 XYP 3.2.1.55 GO:0005576 ... A0A059U759 N/A
    504 4qpw:A (1.14) BS01 XYP ? N/A B3CET4 25136124
    505 4qpw:A (1.14) BS02 XYP ? N/A B3CET4 25136124
    506 4u5i:A (2.5) BS01 XYP 3.2.1.4 GO:0000272 ... P16218 25575592
    507 4u5i:B (2.5) BS01 XYP 3.2.1.4 GO:0000272 ... P16218 25575592
    508 4u5i:B (2.5) BS02 XYP 3.2.1.4 GO:0000272 ... P16218 25575592
    509 4xuq:A (1.95) BS01 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    510 4xuq:A (1.95) BS02 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    511 4xuq:B (1.95) BS01 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    512 4xuq:B (1.95) BS02 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    513 4xuq:C (1.95) BS01 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    514 4xuq:C (1.95) BS02 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    515 4xur:A (1.67) BS01 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    516 4xur:A (1.67) BS02 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    517 4xur:B (1.67) BS01 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    518 4xur:B (1.67) BS02 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    519 4xur:C (1.67) BS01 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    520 4xur:C (1.67) BS02 XYP 3.2.1.8 GO:0016798 ... O69230 26001782
    521 4ywh:A (2.35) BS01 XYP 3.6.3.17 GO:0015753 ... A6VLM7 N/A
    522 4ywh:B (2.35) BS01 XYP 3.6.3.17 GO:0015753 ... A6VLM7 N/A
    523 5a03:A (1.848) BS02 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    524 5a03:A (1.848) BS03 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    525 5a03:A (1.848) BS04 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    526 5a03:B (1.848) BS02 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    527 5a03:C (1.848) BS02 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    528 5a03:D (1.848) BS02 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    529 5a03:D (1.848) BS03 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    530 5a03:E (1.848) BS02 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    531 5a03:E (1.848) BS03 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    532 5a03:F (1.848) BS02 XYP 1.1.99.- GO:0000166 ... Q9A8X3 26438878
    533 5a6l:A (1.8) BS01 XYP 3.2.1.8 GO:0004348 ... A3DJS9 27841749
    534 5a6l:A (1.8) BS02 XYP 3.2.1.8 GO:0004348 ... A3DJS9 27841749
    535 5a6l:A (1.8) BS03 XYP 3.2.1.8 GO:0004348 ... A3DJS9 27841749
    536 5a6m:A (1.17) BS02 XYP 3.2.1.8 GO:0004348 ... A3DJS9 27841749
    537 5a6m:A (1.17) BS03 XYP 3.2.1.8 GO:0004348 ... A3DJS9 27841749
    538 5a6m:A (1.17) BS04 XYP 3.2.1.8 GO:0004348 ... A3DJS9 27841749
    539 5ae6:A (2.1) BS03 XYP 3.2.1.37 GO:0004553 ... Q92458 N/A
    540 5ae6:B (2.1) BS02 XYP 3.2.1.37 GO:0004553 ... Q92458 N/A
    541 5d4y:A (2.5) BS01 XYP N/A GO:0004553 ... N/A 26719223
    542 5d4y:A (2.5) BS02 XYP N/A GO:0004553 ... N/A 26719223
    543 5d4y:A (2.5) BS03 XYP N/A GO:0004553 ... N/A 26719223
    544 5d4y:B (2.5) BS01 XYP N/A GO:0004553 ... N/A 26719223
    545 5d4y:B (2.5) BS02 XYP N/A GO:0004553 ... N/A 26719223
    546 5glm:A (1.8) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    547 5glm:A (1.8) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    548 5glm:A (1.8) BS03 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    549 5glm:A (1.8) BS04 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    550 5glm:A (1.8) BS05 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    551 5glm:B (1.8) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    552 5glm:B (1.8) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    553 5glm:B (1.8) BS03 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    554 5glm:B (1.8) BS04 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    555 5gln:A (1.7) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    556 5gln:A (1.7) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    557 5gln:A (1.7) BS03 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    558 5gln:A (1.7) BS04 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    559 5gln:A (1.7) BS05 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    560 5gln:A (1.7) BS07 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    561 5gln:B (1.7) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    562 5gln:B (1.7) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    563 5gln:B (1.7) BS03 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    564 5gln:B (1.7) BS04 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    565 5glq:A (1.7) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    566 5glq:A (1.7) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    567 5glq:B (1.7) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    568 5glq:B (1.7) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    569 5glr:A (1.7) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    570 5glr:A (1.7) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    571 5glr:B (1.7) BS01 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    572 5glr:B (1.7) BS02 XYP ? GO:0004553 ... A0A0H5BL38 28204531
    573 5gqd:A (1.8) BS02 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    574 5gqd:B (1.8) BS02 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    575 5gqe:A (2.5) BS01 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    576 5gqe:A (2.5) BS02 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    577 5gqe:A (2.5) BS03 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    578 5gqe:A (2.5) BS04 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    579 5gqe:A (2.5) BS05 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    580 5gqe:A (2.5) BS06 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    581 5gqe:A (2.5) BS07 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    582 5gqe:A (2.5) BS08 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    583 5gqe:A (2.5) BS09 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    584 5gqe:B (2.5) BS01 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    585 5gqe:B (2.5) BS02 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    586 5gqe:B (2.5) BS03 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    587 5gqe:B (2.5) BS04 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    588 5gqe:B (2.5) BS05 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    589 5gqe:B (2.5) BS06 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    590 5gqe:B (2.5) BS07 XYP 3.2.1.8 GO:0000272 ... Q7SI98 N/A
    591 5k6n:A (2.08) BS01 XYP N/A GO:0004553 ... N/A 27679487
    592 5l6f:A (1.8) BS01 XYP 1.1.3.- GO:0016491 ... G2QG48 27629413
    593 5l6f:A (1.8) BS02 XYP 1.1.3.- GO:0016491 ... G2QG48 27629413
    594 5l6f:A (1.8) BS03 XYP 1.1.3.- GO:0016491 ... G2QG48 27629413
    595 5l6f:A (1.8) BS04 XYP 1.1.3.- GO:0016491 ... G2QG48 27629413
    596 5l6g:A (1.79) BS02 XYP 1.1.3.- GO:0016491 ... G2QG48 27629413
    597 5l6g:A (1.79) BS03 XYP 1.1.3.- GO:0016491 ... G2QG48 27629413
    598 5la1:A (1.9) BS01 XYP ? GO:0000272 ... A3DHG6 27531750
    599 5la1:A (1.9) BS02 XYP ? GO:0000272 ... A3DHG6 27531750
    600 5la2:A (1.65) BS02 XYP ? GO:0000272 ... A3DHG6 27531750
    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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