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BioLiP
Download all results in tab-seperated text for 817662 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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    34401 1nwl:A (2.4) BS01 964 3.1.3.48 GO:0004725 ... P18031 12733877 PDBbind: -logKd/Ki=2.39, Ki=4.1mM
    34402 1nwn:A (2.8) BS01 HEM ? GO:0001666 ... P02213 12705827
    34403 1nwn:A (2.8) BS02 HEM ? GO:0001666 ... P02213 12705827
    34404 1nwn:B (2.8) BS01 HEM ? GO:0001666 ... P02213 12705827
    34405 1nwn:B (2.8) BS02 HEM ? GO:0001666 ... P02213 12705827
    34406 1nwo:A (1.92) BS01 CU ? GO:0005507 ... P34097 9761890
    34407 1nwo:B (1.92) BS01 CU ? GO:0005507 ... P34097 9761890
    34408 1nwp:A (1.6) BS01 CU ? GO:0005507 ... P34097 9761890
    34409 1nwp:A (1.6) BS02 ZN ? GO:0005507 ... P34097 9761890
    34410 1nwp:B (1.6) BS01 CU ? GO:0005507 ... P34097 9761890
    34411 1nwq:A (2.8) BS01 dna ? GO:0003700 ... P05554 12578822
    34412 1nwq:A (2.8) BS02 dna ? GO:0003700 ... P05554 12578822
    34413 1nwq:C (2.8) BS01 dna ? GO:0003700 ... P05554 12578822
    34414 1nwq:C (2.8) BS02 dna ? GO:0003700 ... P05554 12578822
    34415 1nww:A (1.2) BS01 HPN 3.3.2.8 GO:0016787 ... Q9ZAG3 12773375
    34416 1nwx:3 (3.5) BS01 rna ? GO:0003735 ... Q9RSW6 12623020
    34417 1nwx:4 (3.5) BS01 rna ? GO:0003735 ... Q9RSK0 12623020
    34418 1nwx:A (3.5) BS01 rna ? GO:0002181 ... Q9RXJ9 12623020
    34419 1nwx:B (3.5) BS01 rna ? GO:0003735 ... Q9RXK2 12623020
    34420 1nwx:C (3.5) BS01 rna ? GO:0003735 ... Q9RXK1 12623020
    34421 1nwx:E (3.5) BS01 rna ? GO:0002181 ... Q9RSL3 12623020
    34422 1nwx:I (3.5) BS01 rna ? GO:0003735 ... Q9RXJ2 12623020
    34423 1nwx:J (3.5) BS01 rna ? GO:0003735 ... Q9RSK9 12623020
    34424 1nwx:L (3.5) BS01 rna ? GO:0003735 ... Q9RSJ5 12623020
    34425 1nwx:M (3.5) BS01 rna ? GO:0003735 ... Q9RSL2 12623020
    34426 1nwx:O (3.5) BS01 rna ? GO:0000027 ... Q9RSW7 12623020
    34427 1nwx:Q (3.5) BS01 rna ? GO:0003735 ... Q9RXJ7 12623020
    34428 1nwx:T (3.5) BS01 rna ? GO:0000049 ... Q9RX88 12623020
    34429 1nwx:X (3.5) BS01 rna ? GO:0003735 ... Q9RSL0 12623020
    34430 1nwx:Y (3.5) BS01 rna ? GO:0000049 ... Q9RW44 12623020
    34431 1nwx:Z (3.5) BS01 rna ? GO:0003735 ... P49228 12623020
    34432 1nwy:3 (3.3) BS01 rna ? GO:0003735 ... Q9RSW6 12623020
    34433 1nwy:4 (3.3) BS01 rna ? GO:0003735 ... Q9RSK0 12623020
    34434 1nwy:A (3.3) BS01 rna ? GO:0002181 ... Q9RXJ9 12623020
    34435 1nwy:B (3.3) BS01 rna ? GO:0003735 ... Q9RXK2 12623020
    34436 1nwy:C (3.3) BS01 rna ? GO:0003735 ... Q9RXK1 12623020
    34437 1nwy:E (3.3) BS01 rna ? GO:0002181 ... Q9RSL3 12623020
    34438 1nwy:I (3.3) BS01 rna ? GO:0003735 ... Q9RXJ2 12623020
    34439 1nwy:J (3.3) BS01 rna ? GO:0003735 ... Q9RSK9 12623020
    34440 1nwy:L (3.3) BS01 rna ? GO:0003735 ... Q9RSJ5 12623020
    34441 1nwy:M (3.3) BS01 rna ? GO:0003735 ... Q9RSL2 12623020
    34442 1nwy:O (3.3) BS01 rna ? GO:0000027 ... Q9RSW7 12623020
    34443 1nwy:Q (3.3) BS01 rna ? GO:0003735 ... Q9RXJ7 12623020
    34444 1nwy:T (3.3) BS01 rna ? GO:0000049 ... Q9RX88 12623020
    34445 1nwy:X (3.3) BS01 rna ? GO:0003735 ... Q9RSL0 12623020
    34446 1nwy:Y (3.3) BS01 rna ? GO:0000049 ... Q9RW44 12623020
    34447 1nwy:Z (3.3) BS01 rna ? GO:0003735 ... P49228 12623020
    34448 1nx0:A (2.3) BS01 peptide ? GO:0005509 ... P04574 12684003
    34449 1nx0:A (2.3) BS02 peptide ? GO:0005509 ... P04574 12684003
    34450 1nx0:A (2.3) BS03 CA ? GO:0005509 ... P04574 12684003
    34451 1nx0:A (2.3) BS04 CA ? GO:0005509 ... P04574 12684003
    34452 1nx0:A (2.3) BS05 CA ? GO:0005509 ... P04574 12684003
    34453 1nx0:B (2.3) BS01 peptide ? GO:0005509 ... P04574 12684003
    34454 1nx0:B (2.3) BS02 CA ? GO:0005509 ... P04574 12684003
    34455 1nx0:B (2.3) BS03 CA ? GO:0005509 ... P04574 12684003
    34456 1nx0:B (2.3) BS04 CA ? GO:0005509 ... P04574 12684003
    34457 1nx1:A (2.0) BS01 peptide ? GO:0005509 ... P04574 12684003
    34458 1nx1:A (2.0) BS02 CA ? GO:0005509 ... P04574 12684003
    34459 1nx1:A (2.0) BS03 CA ? GO:0005509 ... P04574 12684003
    34460 1nx1:A (2.0) BS04 CA ? GO:0005509 ... P04574 12684003
    34461 1nx1:A (2.0) BS05 CA ? GO:0005509 ... P04574 12684003
    34462 1nx1:B (2.0) BS01 peptide ? GO:0005509 ... P04574 12684003
    34463 1nx1:B (2.0) BS02 CA ? GO:0005509 ... P04574 12684003
    34464 1nx1:B (2.0) BS03 CA ? GO:0005509 ... P04574 12684003
    34465 1nx1:B (2.0) BS04 CA ? GO:0005509 ... P04574 12684003
    34466 1nx1:B (2.0) BS05 CA ? GO:0005509 ... P04574 12684003
    34467 1nx2:A (2.2) BS01 CA ? GO:0005509 ... P04574 12684003
    34468 1nx2:A (2.2) BS02 CA ? GO:0005509 ... P04574 12684003
    34469 1nx2:A (2.2) BS03 CA ? GO:0005509 ... P04574 12684003
    34470 1nx2:A (2.2) BS04 CA ? GO:0005509 ... P04574 12684003
    34471 1nx3:A (2.45) BS01 CA ? GO:0005509 ... P04574 12684003
    34472 1nx3:A (2.45) BS02 CA ? GO:0005509 ... P04574 12684003
    34473 1nx3:A (2.45) BS03 CA ? GO:0005509 ... P04574 12684003
    34474 1nx3:A (2.45) BS04 CA ? GO:0005509 ... P04574 12684003
    34475 1nx3:A (2.45) BS05 ISA ? GO:0005509 ... P04574 12684003
    34476 1nx4:A (2.4) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34477 1nx4:A (2.4) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34478 1nx4:B (2.4) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34479 1nx4:B (2.4) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34480 1nx4:C (2.4) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34481 1nx4:C (2.4) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34482 1nx6:A (2.15) BS01 PO4 1.2.1.11 GO:0004073 ... P44801 14559965
    34483 1nx6:A (2.15) BS02 PO4 1.2.1.11 GO:0004073 ... P44801 14559965
    34484 1nx7:A (-1.00) BS01 HEM ? GO:0020037 ... P00171 15273310
    34485 1nx8:A (2.3) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34486 1nx8:A (2.3) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34487 1nx8:B (2.3) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34488 1nx8:B (2.3) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34489 1nx8:B (2.3) BS03 N7P 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34490 1nx8:C (2.3) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34491 1nx8:C (2.3) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34492 1nx8:C (2.3) BS03 N7P 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    34493 1nx9:A (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    34494 1nx9:B (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    34495 1nx9:C (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    34496 1nx9:D (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    34497 1nxc:A (1.51) BS01 MAN 3.2.1.113 GO:0004571 ... P45700 15102839
    34498 1nxd:1 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    34499 1nxd:1 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    34500 1nxd:1 (1.9) BS03 AZI ? GO:0030246 ... P02866 15159564
    34501 1nxd:1 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    34502 1nxd:1 (1.9) BS05 MN ? GO:0030246 ... P02866 15159564
    34503 1nxd:1 (1.9) BS06 AZI ? GO:0030246 ... P02866 15159564
    34504 1nxd:2 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    34505 1nxd:2 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    34506 1nxd:2 (1.9) BS03 AZI ? GO:0030246 ... P02866 15159564
    34507 1nxd:2 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    34508 1nxd:2 (1.9) BS05 MN ? GO:0030246 ... P02866 15159564
    34509 1nxd:3 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    34510 1nxd:3 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    34511 1nxd:3 (1.9) BS03 MN ? GO:0030246 ... P02866 15159564
    34512 1nxd:3 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    34513 1nxd:4 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    34514 1nxd:4 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    34515 1nxd:4 (1.9) BS03 AZI ? GO:0030246 ... P02866 15159564
    34516 1nxd:4 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    34517 1nxd:4 (1.9) BS05 MN ? GO:0030246 ... P02866 15159564
    34518 1nxf:A (1.85) BS01 HEM ? GO:0001666 ... P02213 12705827
    34519 1nxf:B (1.85) BS01 HEM ? GO:0001666 ... P02213 12705827
    34520 1nxg:A (2.5) BS01 NAI 2.3.3.16 GO:0004108 ... P0ABH7 12741811
    34521 1nxg:B (2.5) BS01 NAI 2.3.3.16 GO:0004108 ... P0ABH7 12741811
    34522 1nxj:A (1.9) BS01 GLV 4.1.1.112
    4.1.3.17
    GO:0008428 ... P9WGY3 12837779
    34523 1nxj:B (1.9) BS01 GLV 4.1.1.112
    4.1.3.17
    GO:0008428 ... P9WGY3 12837779
    34524 1nxj:C (1.9) BS01 GLV 4.1.1.112
    4.1.3.17
    GO:0008428 ... P9WGY3 12837779
    34525 1nxk:A (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    34526 1nxk:B (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    34527 1nxk:C (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    34528 1nxk:D (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    34529 1nxp:A (1.82) BS01 PHS ? GO:0000160 ... A0A0H2UQ68 15090529
    34530 1nxt:A (2.34) BS01 XE ? GO:0000160 ... A0A0H2UQ68 15090529
    34531 1nxy:A (1.6) BS01 SM2 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=7.19, Ki=64nM
    34532 1nxy:A (1.6) BS02 SM2 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=7.19, Ki=64nM
    34533 1ny0:A (1.75) BS01 NBF 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=5.85, Ki=1.4uM
    34534 1ny2:2 (2.3) BS01 peptide 3.4.21.5 GO:0004252 ... P00734 12598231
    34535 1ny2:2 (2.3) BS02 peptide 3.4.21.5 GO:0004252 ... P00734 12598231
    34536 1ny3:A (3.0) BS01 ADP 2.7.11.1 GO:0000165 ... P49137 12791252
    34537 1ny5:A (2.4) BS01 ADP ? GO:0000160 ... O67198 14561776
    34538 1ny5:B (2.4) BS01 ADP ? GO:0000160 ... O67198 14561776
    34539 1ny6:A (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34540 1ny6:B (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34541 1ny6:C (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34542 1ny6:D (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34543 1ny6:E (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34544 1ny6:F (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34545 1ny6:G (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34546 1ny6:H (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34547 1ny6:I (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34548 1ny6:J (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34549 1ny6:K (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34550 1ny6:L (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34551 1ny6:M (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34552 1ny6:N (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    34553 1nya:A (-1.00) BS01 CA ? GO:0005509 ... P06495 12755706
    34554 1nya:A (-1.00) BS02 CA ? GO:0005509 ... P06495 12755706
    34555 1nya:A (-1.00) BS03 CA ? GO:0005509 ... P06495 12755706
    34556 1nyk:A (1.31) BS01 FES ? GO:0016020 ... Q5SGZ9 12809486
    34557 1nyk:B (1.31) BS01 FES ? GO:0016020 ... Q5SGZ9 12809486
    34558 1nym:A (1.2) BS01 CXB 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=5.40, Ki=4.0uM
    34559 1nyq:A (3.2) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34560 1nyq:A (3.2) BS02 TSB 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34561 1nyq:B (3.2) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34562 1nyq:B (3.2) BS02 TSB 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34563 1nyr:A (2.8) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34564 1nyr:A (2.8) BS02 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34565 1nyr:A (2.8) BS03 ATP 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34566 1nyr:A (2.8) BS04 THR 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34567 1nyr:B (2.8) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34568 1nyr:B (2.8) BS02 ATP 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34569 1nyr:B (2.8) BS03 THR 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    34570 1nyt:A (1.5) BS01 NAP 1.1.1.25 GO:0000166 ... P15770 12637497
    34571 1nyt:B (1.5) BS01 NAP 1.1.1.25 GO:0000166 ... P15770 12637497
    34572 1nyt:C (1.5) BS01 NAP 1.1.1.25 GO:0000166 ... P15770 12637497
    34573 1nyt:D (1.5) BS01 NAP 1.1.1.25 GO:0000166 ... P15770 12637497
    34574 1nyw:A (1.6) BS01 DAU 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34575 1nyw:A (1.6) BS02 DAU 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34576 1nyw:B (1.6) BS01 DAU 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34577 1nyw:B (1.6) BS02 DAU 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34578 1nyx:A (2.65) BS01 DRF ? GO:0003677 ... P37231 12672231 PDBbind: -logKd/Ki=7.04, IC50=0.092uM
    BindingDB: EC50=575nM, Ki=90nM
    34579 1nyy:A (1.9) BS01 105 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=4.68, Ki=21uM
    34580 1nz2:A (1.9) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P68082 12644706
    34581 1nz3:A (1.6) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P68082 12644706
    34582 1nz4:A (1.8) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P68082 12644706
    34583 1nz5:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P68082 12644706
    34584 1nz7:A (2.4) BS01 901 3.1.3.48 GO:0004725 ... P18031 12749891 PDBbind: -logKd/Ki=7.12, Ki=0.076uM
    BindingDB: Ki=76nM
    34585 1nzb:A (3.1) BS01 dna ? GO:0003677 ... P06956 12954782
    34586 1nzb:A (3.1) BS02 dna ? GO:0003677 ... P06956 12954782
    34587 1nzb:B (3.1) BS01 dna ? GO:0003677 ... P06956 12954782
    34588 1nzb:B (3.1) BS02 dna ? GO:0003677 ... P06956 12954782
    34589 1nzb:E (3.1) BS01 dna ? GO:0003677 ... P06956 12954782
    34590 1nzb:E (3.1) BS02 dna ? GO:0003677 ... P06956 12954782
    34591 1nzb:F (3.1) BS01 dna ? GO:0003677 ... P06956 12954782
    34592 1nzb:F (3.1) BS02 dna ? GO:0003677 ... P06956 12954782
    34593 1nzc:A (1.8) BS01 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34594 1nzc:A (1.8) BS02 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34595 1nzc:B (1.8) BS01 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34596 1nzc:B (1.8) BS02 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34597 1nzc:C (1.8) BS01 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34598 1nzc:C (1.8) BS02 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34599 1nzc:D (1.8) BS01 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259
    34600 1nzc:D (1.8) BS02 TDX 5.1.3.13 GO:0005829 ... Q8GIQ0 12791259

    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).
  • yangzhanglabumich.edu | (734) 647-1549 | 100 Washtenaw Avenue, Ann Arbor, MI 48109-2218