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BioLiP
Download all results in tab-seperated text for 713946 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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    25401 1m34:E (2.3) BS04 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25402 1m34:F (2.3) BS01 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25403 1m34:F (2.3) BS02 SF4 1.18.6.1 GO:0005524 ... P00459 12501184
    25404 1m34:F (2.3) BS03 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25405 1m34:F (2.3) BS04 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25406 1m34:F (2.3) BS05 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25407 1m34:G (2.3) BS01 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25408 1m34:G (2.3) BS02 SF4 1.18.6.1 GO:0005524 ... P00459 12501184
    25409 1m34:G (2.3) BS03 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25410 1m34:G (2.3) BS04 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25411 1m34:H (2.3) BS01 SF4 1.18.6.1 GO:0005524 ... P00459 12501184
    25412 1m34:H (2.3) BS02 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25413 1m34:H (2.3) BS03 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25414 1m34:H (2.3) BS04 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25415 1m34:I (2.3) BS01 CFM 1.18.6.1 GO:0005524 ... P07328 12501184
    25416 1m34:I (2.3) BS02 CLF 1.18.6.1 GO:0005524 ... P07328 12501184
    25417 1m34:J (2.3) BS01 CA 1.18.6.1 GO:0005524 ... P07329 12501184
    25418 1m34:J (2.3) BS02 CLF 1.18.6.1 GO:0005524 ... P07329 12501184
    25419 1m34:J (2.3) BS03 CA 1.18.6.1 GO:0005524 ... P07329 12501184
    25420 1m34:K (2.3) BS01 CFM 1.18.6.1 GO:0005524 ... P07328 12501184
    25421 1m34:K (2.3) BS02 CLF 1.18.6.1 GO:0005524 ... P07328 12501184
    25422 1m34:L (2.3) BS01 CA 1.18.6.1 GO:0005524 ... P07329 12501184
    25423 1m34:L (2.3) BS02 CA 1.18.6.1 GO:0005524 ... P07329 12501184
    25424 1m34:L (2.3) BS03 CLF 1.18.6.1 GO:0005524 ... P07329 12501184
    25425 1m34:M (2.3) BS01 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25426 1m34:M (2.3) BS02 SF4 1.18.6.1 GO:0005524 ... P00459 12501184
    25427 1m34:M (2.3) BS03 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25428 1m34:M (2.3) BS04 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25429 1m34:N (2.3) BS01 SF4 1.18.6.1 GO:0005524 ... P00459 12501184
    25430 1m34:N (2.3) BS02 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25431 1m34:N (2.3) BS03 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25432 1m34:N (2.3) BS04 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25433 1m34:O (2.3) BS01 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25434 1m34:O (2.3) BS02 SF4 1.18.6.1 GO:0005524 ... P00459 12501184
    25435 1m34:O (2.3) BS03 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25436 1m34:O (2.3) BS04 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25437 1m34:P (2.3) BS01 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25438 1m34:P (2.3) BS02 SF4 1.18.6.1 GO:0005524 ... P00459 12501184
    25439 1m34:P (2.3) BS03 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25440 1m34:P (2.3) BS04 ALF 1.18.6.1 GO:0005524 ... P00459 12501184
    25441 1m34:P (2.3) BS05 ADP 1.18.6.1 GO:0005524 ... P00459 12501184
    25442 1m35:A (2.4) BS01 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25443 1m35:A (2.4) BS02 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25444 1m35:B (2.4) BS01 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25445 1m35:B (2.4) BS02 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25446 1m35:C (2.4) BS01 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25447 1m35:C (2.4) BS02 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25448 1m35:D (2.4) BS01 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25449 1m35:D (2.4) BS02 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25450 1m35:E (2.4) BS01 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25451 1m35:E (2.4) BS02 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25452 1m35:F (2.4) BS01 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25453 1m35:F (2.4) BS02 MN 3.4.11.9 GO:0004177 ... P15034 12777807
    25454 1m36:A (-1.00) BS01 ZN 2.3.1.48 GO:0004402 ... Q92794 N/A
    25455 1m38:A (1.8) BS01 CO 3.6.1.1 GO:0000287 ... P00817 N/A
    25456 1m38:A (1.8) BS02 CO 3.6.1.1 GO:0000287 ... P00817 N/A
    25457 1m38:B (1.8) BS01 CO 3.6.1.1 GO:0000287 ... P00817 N/A
    25458 1m3h:A (2.05) BS01 dna 3.2.2.-
    4.2.99.18
    GO:0000978 ... O15527 15610848
    25459 1m3h:A (2.05) BS02 dna 3.2.2.-
    4.2.99.18
    GO:0000978 ... O15527 15610848
    25460 1m3h:A (2.05) BS03 dna 3.2.2.-
    4.2.99.18
    GO:0000978 ... O15527 15610848
    25461 1m3q:A (1.9) BS01 dna 3.2.2.-
    4.2.99.18
    GO:0000978 ... O15527 15610848
    25462 1m3q:A (1.9) BS02 dna 3.2.2.-
    4.2.99.18
    GO:0000978 ... O15527 15610848
    25463 1m3q:A (1.9) BS03 ANG 3.2.2.-
    4.2.99.18
    GO:0000978 ... O15527 15610848
    25464 1m3u:A (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25465 1m3u:A (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25466 1m3u:B (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25467 1m3u:B (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25468 1m3u:C (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25469 1m3u:C (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25470 1m3u:D (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25471 1m3u:D (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25472 1m3u:E (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25473 1m3u:E (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25474 1m3u:F (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25475 1m3u:F (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25476 1m3u:G (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25477 1m3u:G (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25478 1m3u:H (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25479 1m3u:H (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25480 1m3u:I (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25481 1m3u:I (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25482 1m3u:J (1.8) BS01 MG 2.1.2.11 GO:0000287 ... P31057 12906829
    25483 1m3u:J (1.8) BS02 KPL 2.1.2.11 GO:0000287 ... P31057 12906829
    25484 1m3x:L (2.55) BS01 BCL ? GO:0009772 ... P0C0Y8 12167672
    25485 1m3x:L (2.55) BS02 BCL ? GO:0009772 ... P0C0Y8 12167672
    25486 1m3x:L (2.55) BS03 BCL ? GO:0009772 ... P0C0Y8 12167672
    25487 1m3x:L (2.55) BS04 BPH ? GO:0009772 ... P0C0Y8 12167672
    25488 1m3x:L (2.55) BS05 U10 ? GO:0009772 ... P0C0Y8 12167672
    25489 1m3x:L (2.55) BS06 FE ? GO:0009772 ... P0C0Y8 12167672
    25490 1m3x:M (2.55) BS01 BCL ? GO:0009772 ... P0C0Y9 12167672
    25491 1m3x:M (2.55) BS02 BCL ? GO:0009772 ... P0C0Y9 12167672
    25492 1m3x:M (2.55) BS03 BPH ? GO:0009772 ... P0C0Y9 12167672
    25493 1m3x:M (2.55) BS04 FE ? GO:0009772 ... P0C0Y9 12167672
    25494 1m3x:M (2.55) BS05 BCL ? GO:0009772 ... P0C0Y9 12167672
    25495 1m3x:M (2.55) BS06 BPH ? GO:0009772 ... P0C0Y9 12167672
    25496 1m3x:M (2.55) BS07 U10 ? GO:0009772 ... P0C0Y9 12167672
    25497 1m3x:M (2.55) BS08 SPO ? GO:0009772 ... P0C0Y9 12167672
    25498 1m3x:M (2.55) BS09 CDL ? GO:0009772 ... P0C0Y9 12167672
    25499 1m3z:A (1.87) BS01 ACO 2.3.1.9 GO:0003985 ... P07097 12501183
    25500 1m3z:B (1.87) BS01 ACO 2.3.1.9 GO:0003985 ... P07097 12501183
    25501 1m3z:C (1.87) BS01 ACO 2.3.1.9 GO:0003985 ... P07097 12501183
    25502 1m3z:D (1.87) BS01 ACO 2.3.1.9 GO:0003985 ... P07097 12501183
    25503 1m40:A (0.85) BS01 CB4 3.5.2.6 GO:0005515 ... P62593 11996574
    25504 1m43:A (2.4) BS01 peptide 3.4.23.39 GO:0004190 ... P46925 N/A
    25505 1m43:B (2.4) BS01 peptide 3.4.23.39 GO:0004190 ... P46925 N/A
    25506 1m45:A (1.65) BS01 peptide ? GO:0000142 ... P53141 12554638
    25507 1m46:A (2.103) BS01 peptide ? GO:0000142 ... P53141 12554638
    25508 1m48:A (1.95) BS01 FRG ? GO:0002250 ... P60568 12582206 MOAD: Kd=8.2uM
    PDBbind: -logKd/Ki=5.09, Kd=8.2uM
    25509 1m48:B (1.95) BS01 FRG ? GO:0002250 ... P60568 12582206 MOAD: Kd=8.2uM
    25510 1m49:A (2.0) BS01 CMM ? GO:0002250 ... P60568 12582206
    25511 1m49:B (2.0) BS01 CMM ? GO:0002250 ... P60568 12582206
    25512 1m4a:A (2.18) BS01 MPE ? GO:0002250 ... P60568 12582206
    25513 1m4b:A (2.15) BS01 NMP ? GO:0002250 ... P60568 12582206
    25514 1m4d:A (1.8) BS01 TOY 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25515 1m4d:A (1.8) BS02 COA 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25516 1m4d:A (1.8) BS03 PAP 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25517 1m4d:B (1.8) BS01 TOY 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25518 1m4d:B (1.8) BS02 COA 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25519 1m4g:A (1.8) BS01 COA 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25520 1m4g:A (1.8) BS02 RIO 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25521 1m4g:B (1.8) BS01 COA 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25522 1m4g:B (1.8) BS02 RIO 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25523 1m4g:B (1.8) BS03 PAP 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25524 1m4h:A (2.1) BS01 peptide 3.4.23.46 GO:0004190 ... P56817 12206667
    25525 1m4h:B (2.1) BS01 peptide 3.4.23.46 GO:0004190 ... P56817 12206667
    25526 1m4i:A (1.5) BS01 COA 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25527 1m4i:A (1.5) BS02 KAN 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25528 1m4i:A (1.5) BS03 PAP 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25529 1m4i:B (1.5) BS01 COA 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25530 1m4i:B (1.5) BS02 KAN 2.3.1.- GO:0005886 ... P9WQG9 12161746
    25531 1m4l:A (1.25) BS01 ZN 3.4.17.1 GO:0004181 ... P00730 12554943
    25532 1m4m:A (2.8) BS01 ZN ? GO:0000086 ... O70201 10949038
    25533 1m4m:A (2.8) BS02 ZN ? GO:0000086 ... O70201 10949038
    25534 1m4n:A (2.01) BS01 PLP 1.4.-.-
    4.4.1.14
    GO:0003824 ... P37821 12686108
    25535 1m4n:A (2.01) BS02 AAD 1.4.-.-
    4.4.1.14
    GO:0003824 ... P37821 12686108
    25536 1m4p:A (-1.00) BS01 peptide ? GO:0015031 ... Q99816 12379843
    25537 1m4q:A (-1.00) BS01 peptide ? GO:0015031 ... Q99816 12379843
    25538 1m51:A (2.25) BS01 MN 2.7.11.-
    4.1.1.32
    GO:0000287 ... P35558 14552798
    25539 1m51:A (2.25) BS02 TSX 2.7.11.-
    4.1.1.32
    GO:0000287 ... P35558 14552798 MOAD: ic50=18.8uM
    PDBbind: -logKd/Ki=4.73, IC50=18.8uM
    25540 1m52:A (2.6) BS01 P17 2.7.10.2 GO:0004672 ... P00520 12154025
    25541 1m52:B (2.6) BS01 P17 2.7.10.2 GO:0004672 ... P00520 12154025
    25542 1m54:A (2.9) BS01 PLP 4.2.1.22 GO:0004122 ... P35520 12173932
    25543 1m54:A (2.9) BS02 HEM 4.2.1.22 GO:0004122 ... P35520 12173932
    25544 1m54:B (2.9) BS01 PLP 4.2.1.22 GO:0004122 ... P35520 12173932
    25545 1m54:B (2.9) BS02 HEM 4.2.1.22 GO:0004122 ... P35520 12173932
    25546 1m54:C (2.9) BS01 PLP 4.2.1.22 GO:0004122 ... P35520 12173932
    25547 1m54:C (2.9) BS02 HEM 4.2.1.22 GO:0004122 ... P35520 12173932
    25548 1m54:D (2.9) BS01 PLP 4.2.1.22 GO:0004122 ... P35520 12173932
    25549 1m54:D (2.9) BS02 HEM 4.2.1.22 GO:0004122 ... P35520 12173932
    25550 1m54:E (2.9) BS01 PLP 4.2.1.22 GO:0004122 ... P35520 12173932
    25551 1m54:E (2.9) BS02 HEM 4.2.1.22 GO:0004122 ... P35520 12173932
    25552 1m54:F (2.9) BS01 PLP 4.2.1.22 GO:0004122 ... P35520 12173932
    25553 1m54:F (2.9) BS02 HEM 4.2.1.22 GO:0004122 ... P35520 12173932
    25554 1m56:A (2.3) BS01 CU 7.1.1.9 GO:0004129 ... P33517 12144789
    25555 1m56:A (2.3) BS02 MG 7.1.1.9 GO:0004129 ... P33517 12144789
    25556 1m56:A (2.3) BS03 CA 7.1.1.9 GO:0004129 ... P33517 12144789
    25557 1m56:A (2.3) BS04 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25558 1m56:A (2.3) BS05 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25559 1m56:B (2.3) BS01 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25560 1m56:B (2.3) BS02 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25561 1m56:G (2.3) BS01 CU 7.1.1.9 GO:0004129 ... P33517 12144789
    25562 1m56:G (2.3) BS02 MG 7.1.1.9 GO:0004129 ... P33517 12144789
    25563 1m56:G (2.3) BS03 CA 7.1.1.9 GO:0004129 ... P33517 12144789
    25564 1m56:G (2.3) BS04 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25565 1m56:G (2.3) BS05 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25566 1m56:H (2.3) BS01 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25567 1m56:H (2.3) BS02 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25568 1m57:A (3.0) BS01 CU 7.1.1.9 GO:0004129 ... P33517 12144789
    25569 1m57:A (3.0) BS02 MG 7.1.1.9 GO:0004129 ... P33517 12144789
    25570 1m57:A (3.0) BS03 CA 7.1.1.9 GO:0004129 ... P33517 12144789
    25571 1m57:A (3.0) BS04 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25572 1m57:A (3.0) BS05 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25573 1m57:B (3.0) BS01 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25574 1m57:B (3.0) BS02 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25575 1m57:G (3.0) BS01 CU 7.1.1.9 GO:0004129 ... P33517 12144789
    25576 1m57:G (3.0) BS02 MG 7.1.1.9 GO:0004129 ... P33517 12144789
    25577 1m57:G (3.0) BS03 CA 7.1.1.9 GO:0004129 ... P33517 12144789
    25578 1m57:G (3.0) BS04 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25579 1m57:G (3.0) BS05 HEA 7.1.1.9 GO:0004129 ... P33517 12144789
    25580 1m57:H (3.0) BS01 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25581 1m57:H (3.0) BS02 CU 7.1.1.9 GO:0004129 ... Q03736 12144789
    25582 1m5n:S (2.9) BS01 peptide ? GO:0006606 ... Q14974 12504010
    25583 1m5r:A (1.8) BS01 dna 2.4.1.27 GO:0006304 ... P04547 12445783
    25584 1m5r:A (1.8) BS02 dna 2.4.1.27 GO:0006304 ... P04547 12445783
    25585 1m5r:A (1.8) BS03 UDP 2.4.1.27 GO:0006304 ... P04547 12445783
    25586 1m5r:B (1.8) BS01 dna 2.4.1.27 GO:0006304 ... P04547 12445783
    25587 1m5r:B (1.8) BS02 dna 2.4.1.27 GO:0006304 ... P04547 12445783
    25588 1m5r:B (1.8) BS03 dna 2.4.1.27 GO:0006304 ... P04547 12445783
    25589 1m5r:B (1.8) BS04 UDP 2.4.1.27 GO:0006304 ... P04547 12445783
    25590 1m5w:A (1.96) BS01 DXP 2.6.99.2 GO:0005737 ... P0A794 12269807 MOAD: Kd=54uM
    PDBbind: -logKd/Ki=4.27, Kd=54uM
    25591 1m5w:A (1.96) BS02 PO4 2.6.99.2 GO:0005737 ... P0A794 12269807
    25592 1m5w:B (1.96) BS01 DXP 2.6.99.2 GO:0005737 ... P0A794 12269807 MOAD: Kd=54uM
    25593 1m5w:C (1.96) BS01 DXP 2.6.99.2 GO:0005737 ... P0A794 12269807 MOAD: Kd=54uM
    25594 1m5w:C (1.96) BS02 PO4 2.6.99.2 GO:0005737 ... P0A794 12269807
    25595 1m5w:E (1.96) BS01 DXP 2.6.99.2 GO:0005737 ... P0A794 12269807 MOAD: Kd=54uM
    PDBbind: -logKd/Ki=4.27, Kd=54uM
    25596 1m5w:F (1.96) BS01 DXP 2.6.99.2 GO:0005737 ... P0A794 12269807 MOAD: Kd=54uM
    25597 1m5w:G (1.96) BS01 DXP 2.6.99.2 GO:0005737 ... P0A794 12269807 MOAD: Kd=54uM
    25598 1m60:A (-1.00) BS01 HES ? GO:0005515 ... P00004 12761660
    25599 1m63:A (2.8) BS01 peptide 3.1.3.16 GO:0016787 ... Q08209 12218175
    25600 1m63:A (2.8) BS02 ZN 3.1.3.16 GO:0016787 ... Q08209 12218175

    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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