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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.
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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
    32401 1n73:C (2.9) BS02 CA ? GO:0007596 ... P04115 12501189
    32402 1n73:E (2.9) BS01 peptide ? GO:0005102 ... P02678 12501189
    32403 1n73:E (2.9) BS02 CA ? GO:0005102 ... P02678 12501189
    32404 1n73:F (2.9) BS01 peptide ? GO:0007596 ... P04115 12501189
    32405 1n73:F (2.9) BS02 CA ? GO:0007596 ... P04115 12501189
    32406 1n75:A (1.9) BS01 ATP 6.1.1.17 GO:0000049 ... P27000 12554668
    32407 1n76:A (3.4) BS01 FE 3.4.21.- GO:0001503 ... P02788 N/A
    32408 1n76:A (3.4) BS02 FE 3.4.21.- GO:0001503 ... P02788 N/A
    32409 1n76:A (3.4) BS03 CO3 3.4.21.- GO:0001503 ... P02788 N/A
    32410 1n76:A (3.4) BS04 CO3 3.4.21.- GO:0001503 ... P02788 N/A
    32411 1n77:A (2.4) BS01 rna 6.1.1.17 GO:0000049 ... P27000 12554668 PDBbind: Kd=90uM
    32412 1n77:A (2.4) BS02 ATP 6.1.1.17 GO:0000049 ... P27000 12554668
    32413 1n77:B (2.4) BS01 rna 6.1.1.17 GO:0000049 ... P27000 12554668 PDBbind: Kd=90uM
    32414 1n77:B (2.4) BS02 ATP 6.1.1.17 GO:0000049 ... P27000 12554668
    32415 1n78:A (2.1) BS01 rna 6.1.1.17 GO:0000049 ... P27000 12554668 PDBbind: Ki=3uM
    32416 1n78:A (2.1) BS02 GOM 6.1.1.17 GO:0000049 ... P27000 12554668
    32417 1n78:B (2.1) BS01 rna 6.1.1.17 GO:0000049 ... P27000 12554668 PDBbind: Ki=3uM
    32418 1n78:B (2.1) BS02 GOM 6.1.1.17 GO:0000049 ... P27000 12554668
    32419 1n7d:A (3.7) BS01 CA ? GO:0005509 ... P01130 12459547
    32420 1n7d:A (3.7) BS02 CA ? GO:0005509 ... P01130 12459547
    32421 1n7d:A (3.7) BS03 CA ? GO:0005509 ... P01130 12459547
    32422 1n7d:A (3.7) BS04 CA ? GO:0005509 ... P01130 12459547
    32423 1n7d:A (3.7) BS05 CA ? GO:0005509 ... P01130 12459547
    32424 1n7d:A (3.7) BS06 CA ? GO:0005509 ... P01130 12459547
    32425 1n7d:A (3.7) BS07 CA ? GO:0005509 ... P01130 12459547
    32426 1n7d:A (3.7) BS08 CA ? GO:0005509 ... P01130 12459547
    32427 1n7d:A (3.7) BS09 KEG ? GO:0005509 ... P01130 12459547
    32428 1n7g:A (2.2) BS01 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32429 1n7g:A (2.2) BS02 GDR 4.2.1.47 GO:0005525 ... P93031 12501186
    32430 1n7g:A (2.2) BS03 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32431 1n7g:B (2.2) BS01 GDR 4.2.1.47 GO:0005525 ... P93031 12501186
    32432 1n7g:B (2.2) BS02 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32433 1n7g:B (2.2) BS03 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32434 1n7g:C (2.2) BS01 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32435 1n7g:C (2.2) BS02 GDR 4.2.1.47 GO:0005525 ... P93031 12501186
    32436 1n7g:C (2.2) BS03 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32437 1n7g:D (2.2) BS01 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32438 1n7g:D (2.2) BS02 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32439 1n7h:A (1.8) BS01 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32440 1n7h:A (1.8) BS02 GDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32441 1n7h:B (1.8) BS01 NDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32442 1n7h:B (1.8) BS02 GDP 4.2.1.47 GO:0005525 ... P93031 12501186
    32443 1n7i:A (2.8) BS01 SAH 2.1.1.28 GO:0004603 ... P11086 14695818
    32444 1n7i:A (2.8) BS02 LY1 2.1.1.28 GO:0004603 ... P11086 14695818 PDBbind: -logKd/Ki=6.59, Ki=0.26uM
    BindingDB: Ki=4400nM
    32445 1n7i:B (2.8) BS01 SAH 2.1.1.28 GO:0004603 ... P11086 14695818
    32446 1n7i:B (2.8) BS02 LY1 2.1.1.28 GO:0004603 ... P11086 14695818 BindingDB: Ki=4400nM
    32447 1n7j:A (2.7) BS01 SAH 2.1.1.28 GO:0004603 ... P11086 14695818
    32448 1n7j:A (2.7) BS02 IDI 2.1.1.28 GO:0004603 ... P11086 14695818 PDBbind: -logKd/Ki=6.43, Ki=0.37uM
    BindingDB: Ki=93nM
    32449 1n7j:B (2.7) BS01 SAH 2.1.1.28 GO:0004603 ... P11086 14695818
    32450 1n7j:B (2.7) BS02 IDI 2.1.1.28 GO:0004603 ... P11086 14695818 BindingDB: Ki=93nM
    32451 1n7q:A (2.3) BS01 BDP 4.2.2.1 GO:0003824 ... Q8CWU3 12446724
    32452 1n7q:A (2.3) BS02 BDP 4.2.2.1 GO:0003824 ... Q8CWU3 12446724
    32453 1n7q:A (2.3) BS03 GTR 4.2.2.1 GO:0003824 ... Q8CWU3 12446724
    32454 1n7r:A (2.2) BS01 BDP 4.2.2.1 GO:0003824 ... Q54873 12446724
    32455 1n7r:A (2.2) BS02 BDP 4.2.2.1 GO:0003824 ... Q54873 12446724
    32456 1n7u:A (2.4) BS01 CA ? GO:0019062 ... P27378 12623018
    32457 1n7v:A (2.2) BS01 CA ? GO:0019062 ... P27378 12623018
    32458 1n7w:A (2.2) BS01 CO3 ? GO:0005576 ... P02787 12458193
    32459 1n7w:A (2.2) BS02 FE ? GO:0005576 ... P02787 12458193
    32460 1n7x:A (2.1) BS01 CO3 ? GO:0005576 ... P02787 12458193
    32461 1n7x:A (2.1) BS02 FE ? GO:0005576 ... P02787 12458193
    32462 1n83:A (1.63) BS01 CLR ? GO:0003677 ... P35398 12467577
    32463 1n84:A (2.05) BS01 CO3 ? GO:0005576 ... P02787 12458193
    32464 1n84:A (2.05) BS02 FE ? GO:0005576 ... P02787 12458193
    32465 1n86:B (3.2) BS01 peptide ? GO:0005102 ... P02675 12501189
    32466 1n86:B (3.2) BS02 CA ? GO:0005102 ... P02675 12501189
    32467 1n86:C (3.2) BS01 peptide ? GO:0005102 ... P02679 12501189
    32468 1n86:C (3.2) BS02 CA ? GO:0005102 ... P02679 12501189
    32469 1n86:E (3.2) BS01 peptide ? GO:0005102 ... P02675 12501189
    32470 1n86:E (3.2) BS02 CA ? GO:0005102 ... P02675 12501189
    32471 1n86:F (3.2) BS01 peptide ? GO:0005102 ... P02679 12501189
    32472 1n86:F (3.2) BS02 CA ? GO:0005102 ... P02679 12501189
    32473 1n89:A (-1.00) BS01 PGM ? GO:0005576 ... P82900 12525478
    32474 1n8f:A (1.75) BS01 MN 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32475 1n8f:A (1.75) BS02 PEP 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32476 1n8f:B (1.75) BS01 MN 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32477 1n8f:B (1.75) BS02 PEP 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32478 1n8f:C (1.75) BS01 MN 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32479 1n8f:C (1.75) BS02 PEP 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32480 1n8f:D (1.75) BS01 MN 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32481 1n8f:D (1.75) BS02 PEP 2.5.1.54 GO:0003849 ... P0AB91 12667068
    32482 1n8i:A (2.1) BS01 MG 2.3.3.9 GO:0000287 ... P9WK17 12393860
    32483 1n8i:A (2.1) BS02 GLV 2.3.3.9 GO:0000287 ... P9WK17 12393860
    32484 1n8k:A (1.13) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32485 1n8k:A (1.13) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32486 1n8k:A (1.13) BS03 NAJ 1.1.1.1 GO:0004022 ... P00327 12627956
    32487 1n8k:A (1.13) BS04 PZO 1.1.1.1 GO:0004022 ... P00327 12627956
    32488 1n8k:B (1.13) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32489 1n8k:B (1.13) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32490 1n8k:B (1.13) BS03 NAJ 1.1.1.1 GO:0004022 ... P00327 12627956
    32491 1n8k:B (1.13) BS04 PZO 1.1.1.1 GO:0004022 ... P00327 12627956
    32492 1n8o:B (2.0) BS01 peptide 3.4.21.1 GO:0004252 ... P00766 N/A
    32493 1n8o:C (2.0) BS01 peptide 3.4.21.1 GO:0004252 ... P00766 N/A
    32494 1n8p:A (2.6) BS01 PLP 4.4.1.1 GO:0004123 ... P31373 12715888
    32495 1n8p:B (2.6) BS01 PLP 4.4.1.1 GO:0004123 ... P31373 12715888
    32496 1n8p:B (2.6) BS02 PLP 4.4.1.1 GO:0004123 ... P31373 12715888
    32497 1n8p:C (2.6) BS01 PLP 4.4.1.1 GO:0004123 ... P31373 12715888
    32498 1n8p:D (2.6) BS01 PLP 4.4.1.1 GO:0004123 ... P31373 12715888
    32499 1n8p:D (2.6) BS02 PLP 4.4.1.1 GO:0004123 ... P31373 12715888
    32500 1n8q:A (2.1) BS01 FE2 1.13.11.58 GO:0005737 ... P09186 14705020
    32501 1n8q:A (2.1) BS02 DHB 1.13.11.58 GO:0005737 ... P09186 14705020
    32502 1n8r:1 (3.0) BS01 rna ? GO:0003735 ... P60619 12860128
    32503 1n8r:2 (3.0) BS01 rna ? GO:0003723 ... P32410 12860128
    32504 1n8r:3 (3.0) BS01 rna ? GO:0003735 ... P22452 12860128
    32505 1n8r:4 (3.0) BS01 rna ? GO:0000049 ... P32411 12860128
    32506 1n8r:4 (3.0) BS02 MG ? GO:0000049 ... P32411 12860128
    32507 1n8r:C (3.0) BS01 rna ? GO:0002181 ... P20276 12860128
    32508 1n8r:D (3.0) BS01 rna ? GO:0003723 ... P20279 12860128
    32509 1n8r:E (3.0) BS01 rna ? GO:0003723 ... P12735 12860128
    32510 1n8r:F (3.0) BS01 rna ? GO:0000049 ... P14124 12860128
    32511 1n8r:F (3.0) BS02 rna ? GO:0000049 ... P14124 12860128
    32512 1n8r:G (3.0) BS01 rna ? GO:0002181 ... P14135 12860128
    32513 1n8r:H (3.0) BS01 rna ? GO:0001682 ... P12743 12860128
    32514 1n8r:J (3.0) BS01 rna ? GO:0000027 ... P60617 12860128
    32515 1n8r:K (3.0) BS01 rna ? GO:0003729 ... P29198 12860128
    32516 1n8r:L (3.0) BS01 rna ? GO:0003735 ... P22450 12860128
    32517 1n8r:M (3.0) BS01 rna ? GO:0003735 ... P12737 12860128
    32518 1n8r:N (3.0) BS01 rna ? GO:0002181 ... P60618 12860128
    32519 1n8r:O (3.0) BS01 rna ? GO:0000027 ... P14123 12860128
    32520 1n8r:O (3.0) BS02 rna ? GO:0000027 ... P14123 12860128
    32521 1n8r:P (3.0) BS01 rna ? GO:0003723 ... P12733 12860128
    32522 1n8r:Q (3.0) BS01 rna ? GO:0003723 ... P14119 12860128
    32523 1n8r:R (3.0) BS01 rna ? GO:0003735 ... P12734 12860128
    32524 1n8r:R (3.0) BS02 rna ? GO:0003735 ... P12734 12860128
    32525 1n8r:S (3.0) BS01 rna ? GO:0002181 ... P10970 12860128
    32526 1n8r:T (3.0) BS01 rna ? GO:0000027 ... P12732 12860128
    32527 1n8r:U (3.0) BS01 rna ? GO:0002181 ... P10972 12860128
    32528 1n8r:U (3.0) BS02 MG ? GO:0002181 ... P10972 12860128
    32529 1n8r:V (3.0) BS01 rna ? GO:0003735 ... P14116 12860128
    32530 1n8r:W (3.0) BS01 rna ? GO:0003735 ... P10971 12860128
    32531 1n8r:X (3.0) BS01 rna ? GO:0000463 ... P14121 12860128
    32532 1n8r:X (3.0) BS02 rna ? GO:0000463 ... P14121 12860128
    32533 1n8r:Y (3.0) BS01 rna ? GO:0002181 ... P18138 12860128
    32534 1n8r:Z (3.0) BS01 rna ? GO:0000166 ... P12736 12860128
    32535 1n8r:Z (3.0) BS02 MG ? GO:0000166 ... P12736 12860128
    32536 1n8w:A (2.7) BS01 MG 2.3.3.9 GO:0000287 ... P9WK17 12393860
    32537 1n8w:A (2.7) BS02 COA 2.3.3.9 GO:0000287 ... P9WK17 12393860
    32538 1n8w:B (2.7) BS01 MG 2.3.3.9 GO:0000287 ... P9WK17 12393860
    32539 1n8w:B (2.7) BS02 GLV 2.3.3.9 GO:0000287 ... P9WK17 12393860
    32540 1n90:A (2.9) BS01 HEC 1.7.2.1
    1.7.99.1
    GO:0009055 ... P24474 10329702
    32541 1n90:A (2.9) BS02 DHE 1.7.2.1
    1.7.99.1
    GO:0009055 ... P24474 10329702
    32542 1n90:B (2.9) BS01 HEC 1.7.2.1
    1.7.99.1
    GO:0009055 ... P24474 10329702
    32543 1n90:B (2.9) BS02 DHE 1.7.2.1
    1.7.99.1
    GO:0009055 ... P24474 10329702
    32544 1n92:A (1.47) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32545 1n92:A (1.47) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32546 1n92:A (1.47) BS03 NAJ 1.1.1.1 GO:0004022 ... P00327 12627956
    32547 1n92:A (1.47) BS04 PYZ 1.1.1.1 GO:0004022 ... P00327 12627956
    32548 1n92:B (1.47) BS01 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32549 1n92:B (1.47) BS02 ZN 1.1.1.1 GO:0004022 ... P00327 12627956
    32550 1n92:B (1.47) BS03 NAJ 1.1.1.1 GO:0004022 ... P00327 12627956
    32551 1n92:B (1.47) BS04 PYZ 1.1.1.1 GO:0004022 ... P00327 12627956
    32552 1n94:A (3.5) BS01 HFP 2.5.1.58
    2.5.1.59
    GO:0008318 ... Q04631 12657282
    32553 1n94:A (3.5) BS02 TIN 2.5.1.58
    2.5.1.59
    GO:0008318 ... Q04631 12657282 PDBbind: -logKd/Ki=8.96, IC50=1.1nM
    32554 1n94:B (3.5) BS01 HFP 2.5.1.58 GO:0003824 ... Q02293 12657282
    32555 1n94:B (3.5) BS02 TIN 2.5.1.58 GO:0003824 ... Q02293 12657282 PDBbind: -logKd/Ki=8.96, IC50=1.1nM
    32556 1n94:B (3.5) BS03 ZN 2.5.1.58 GO:0003824 ... Q02293 12657282
    32557 1n95:B (2.3) BS01 ZN 2.5.1.58 GO:0003824 ... Q02293 12657282
    32558 1n95:B (2.3) BS02 HFP 2.5.1.58 GO:0003824 ... Q02293 12657282
    32559 1n95:B (2.3) BS03 FTH 2.5.1.58 GO:0003824 ... Q02293 12657282 PDBbind: -logKd/Ki=8.92, IC50=1.2nM
    32560 1n97:A (1.8) BS01 HEM ? GO:0004497 ... Q746J6 12401810
    32561 1n97:B (1.8) BS01 HEM ? GO:0004497 ... Q746J6 12401810
    32562 1n9a:B (3.2) BS01 ZN 2.5.1.58 GO:0003824 ... Q02293 12657283
    32563 1n9a:B (3.2) BS02 HFP 2.5.1.58 GO:0003824 ... Q02293 12657283
    32564 1n9a:B (3.2) BS03 FTI 2.5.1.58 GO:0003824 ... Q02293 12657283 PDBbind: -logKd/Ki=8.66, IC50=2.2nM
    32565 1n9b:A (0.9) BS01 MA4 3.5.2.6 GO:0008800 ... P30896 12684014
    32566 1n9b:A (0.9) BS02 MA4 3.5.2.6 GO:0008800 ... P30896 12684014
    32567 1n9c:A (-1.00) BS01 HEC ? GO:0005506 ... P82599 12534286
    32568 1n9e:A (1.65) BS01 CU 1.4.3.- GO:0005507 ... Q96X16 14690425
    32569 1n9e:A (1.65) BS02 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32570 1n9e:A (1.65) BS03 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32571 1n9e:B (1.65) BS01 CU 1.4.3.- GO:0005507 ... Q96X16 14690425
    32572 1n9e:B (1.65) BS02 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32573 1n9e:B (1.65) BS03 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32574 1n9e:C (1.65) BS01 CU 1.4.3.- GO:0005507 ... Q96X16 14690425
    32575 1n9e:C (1.65) BS02 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32576 1n9e:C (1.65) BS03 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32577 1n9e:D (1.65) BS01 CU 1.4.3.- GO:0005507 ... Q96X16 14690425
    32578 1n9e:D (1.65) BS02 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32579 1n9e:D (1.65) BS03 CA 1.4.3.- GO:0005507 ... Q96X16 14690425
    32580 1n9f:A (1.8) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 12777759
    32581 1n9g:A (1.98) BS01 NAP 1.3.1.104 GO:0005739 ... Q8WZM4 12890667
    32582 1n9g:B (1.98) BS01 NAP 1.3.1.104 GO:0005739 ... Q8WZM3 12890667
    32583 1n9g:E (1.98) BS01 NAP 1.3.1.104 GO:0005739 ... Q8WZM3 12890667
    32584 1n9h:A (1.8) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 12777759
    32585 1n9i:A (1.6) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 12777759
    32586 1n9k:A (2.2) BS01 MG 3.1.3.2 GO:0000287 ... P0AE22 14687572
    32587 1n9k:B (2.2) BS01 MG 3.1.3.2 GO:0000287 ... P0AE22 14687572
    32588 1n9m:A (1.6) BS01 BTN ? GO:0009374 ... P22629 12925786 PDBbind: -logKd/Ki=10.96, Kd~11pM
    BindingDB: Kd=1.000000nM
    32589 1n9m:B (1.6) BS01 BTN ? GO:0009374 ... P22629 12925786 BindingDB: Kd=1.000000nM
    32590 1n9m:C (1.6) BS01 BTN ? GO:0009374 ... P22629 12925786 BindingDB: Kd=1.000000nM
    32591 1n9m:D (1.6) BS01 BTN ? GO:0009374 ... P22629 12925786 PDBbind: -logKd/Ki=10.96, Kd~11pM
    BindingDB: Kd=1.000000nM
    32592 1n9x:A (1.6) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 12777759
    32593 1na1:A (3.3) BS01 W11 2.7.7.48
    3.4.22.28
    3.4.22.29
    3.6.1.15
    GO:0005198 ... P03303 15452226
    32594 1naa:A (1.8) BS01 6FA 1.1.99.18 GO:0016614 ... Q01738 12493734
    32595 1naa:A (1.8) BS02 ABL 1.1.99.18 GO:0016614 ... Q01738 12493734 MOAD: Ki=0.25mM
    32596 1naa:B (1.8) BS01 6FA 1.1.99.18 GO:0016614 ... Q01738 12493734
    32597 1naa:B (1.8) BS02 ABL 1.1.99.18 GO:0016614 ... Q01738 12493734 MOAD: Ki=0.25mM
    32598 1nae:A (2.05) BS01 XYP 3.2.1.8 GO:0030246 ... Q8GJ44 12634060
    32599 1nae:A (2.05) BS02 XYP 3.2.1.8 GO:0030246 ... Q8GJ44 12634060
    32600 1nae:A (2.05) BS03 CA 3.2.1.8 GO:0030246 ... Q8GJ44 12634060

    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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