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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 903398 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
    39401 1p3b:G (3.0) BS01 dna ? GO:0000786 ... P06897 14739929
    39402 1p3b:G (3.0) BS02 dna ? GO:0000786 ... P06897 14739929
    39403 1p3b:H (3.0) BS01 dna ? GO:0000786 ... P02281 14739929
    39404 1p3b:H (3.0) BS02 dna ? GO:0000786 ... P02281 14739929
    39405 1p3d:A (1.7) BS01 MN 6.3.2.8 GO:0005524 ... P45066 12837790
    39406 1p3d:A (1.7) BS02 UMA 6.3.2.8 GO:0005524 ... P45066 12837790
    39407 1p3d:A (1.7) BS03 ANP 6.3.2.8 GO:0005524 ... P45066 12837790
    39408 1p3d:B (1.7) BS01 MN 6.3.2.8 GO:0005524 ... P45066 12837790
    39409 1p3d:B (1.7) BS02 UMA 6.3.2.8 GO:0005524 ... P45066 12837790
    39410 1p3d:B (1.7) BS03 ANP 6.3.2.8 GO:0005524 ... P45066 12837790
    39411 1p3f:A (2.9) BS01 dna ? GO:0000786 ... P84233 14739929
    39412 1p3f:A (2.9) BS02 dna ? GO:0000786 ... P84233 14739929
    39413 1p3f:B (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    39414 1p3f:B (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    39415 1p3f:C (2.9) BS01 dna ? GO:0000786 ... P06897 14739929
    39416 1p3f:C (2.9) BS02 dna ? GO:0000786 ... P06897 14739929
    39417 1p3f:D (2.9) BS01 dna ? GO:0000786 ... P02281 14739929
    39418 1p3f:D (2.9) BS02 dna ? GO:0000786 ... P02281 14739929
    39419 1p3f:E (2.9) BS01 dna ? GO:0000786 ... P84233 14739929
    39420 1p3f:E (2.9) BS02 dna ? GO:0000786 ... P84233 14739929
    39421 1p3f:F (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    39422 1p3f:F (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    39423 1p3f:G (2.9) BS01 dna ? GO:0000786 ... P06897 14739929
    39424 1p3f:G (2.9) BS02 dna ? GO:0000786 ... P06897 14739929
    39425 1p3f:H (2.9) BS01 dna ? GO:0000786 ... P02281 14739929
    39426 1p3f:H (2.9) BS02 dna ? GO:0000786 ... P02281 14739929
    39427 1p3g:A (2.7) BS01 dna ? GO:0000786 ... P84233 14739929
    39428 1p3g:A (2.7) BS02 dna ? GO:0000786 ... P84233 14739929
    39429 1p3g:B (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    39430 1p3g:B (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    39431 1p3g:C (2.7) BS01 dna ? GO:0000786 ... P06897 14739929
    39432 1p3g:C (2.7) BS02 dna ? GO:0000786 ... P06897 14739929
    39433 1p3g:D (2.7) BS01 dna ? GO:0000786 ... P02281 14739929
    39434 1p3g:D (2.7) BS02 dna ? GO:0000786 ... P02281 14739929
    39435 1p3g:E (2.7) BS01 dna ? GO:0000786 ... P84233 14739929
    39436 1p3g:E (2.7) BS02 dna ? GO:0000786 ... P84233 14739929
    39437 1p3g:F (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    39438 1p3g:F (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    39439 1p3g:G (2.7) BS01 dna ? GO:0000786 ... P06897 14739929
    39440 1p3g:G (2.7) BS02 dna ? GO:0000786 ... P06897 14739929
    39441 1p3g:H (2.7) BS01 dna ? GO:0000786 ... P02281 14739929
    39442 1p3g:H (2.7) BS02 dna ? GO:0000786 ... P02281 14739929
    39443 1p3i:A (2.3) BS01 dna ? GO:0000786 ... P84233 14739929
    39444 1p3i:A (2.3) BS02 dna ? GO:0000786 ... P84233 14739929
    39445 1p3i:B (2.3) BS01 dna ? GO:0000786 ... P62799 14739929
    39446 1p3i:B (2.3) BS02 dna ? GO:0000786 ... P62799 14739929
    39447 1p3i:C (2.3) BS01 dna ? GO:0000786 ... P06897 14739929
    39448 1p3i:C (2.3) BS02 dna ? GO:0000786 ... P06897 14739929
    39449 1p3i:D (2.3) BS01 dna ? GO:0000786 ... P02281 14739929
    39450 1p3i:D (2.3) BS02 dna ? GO:0000786 ... P02281 14739929
    39451 1p3i:E (2.3) BS01 dna ? GO:0000786 ... P84233 14739929
    39452 1p3i:E (2.3) BS02 dna ? GO:0000786 ... P84233 14739929
    39453 1p3i:F (2.3) BS01 dna ? GO:0000786 ... P62799 14739929
    39454 1p3i:F (2.3) BS02 dna ? GO:0000786 ... P62799 14739929
    39455 1p3i:G (2.3) BS01 dna ? GO:0000786 ... P06897 14739929
    39456 1p3i:G (2.3) BS02 dna ? GO:0000786 ... P06897 14739929
    39457 1p3i:H (2.3) BS01 dna ? GO:0000786 ... P02281 14739929
    39458 1p3i:H (2.3) BS02 dna ? GO:0000786 ... P02281 14739929
    39459 1p3j:A (1.9) BS01 ZN 2.7.4.3 GO:0004017 ... P16304 15100224
    39460 1p3j:A (1.9) BS02 AP5 2.7.4.3 GO:0004017 ... P16304 15100224
    39461 1p3k:A (2.9) BS01 dna ? GO:0000786 ... P84233 14739929
    39462 1p3k:A (2.9) BS02 dna ? GO:0000786 ... P84233 14739929
    39463 1p3k:B (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    39464 1p3k:B (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    39465 1p3k:C (2.9) BS01 dna ? GO:0000786 ... P06897 14739929
    39466 1p3k:C (2.9) BS02 dna ? GO:0000786 ... P06897 14739929
    39467 1p3k:D (2.9) BS01 dna ? GO:0000786 ... P02281 14739929
    39468 1p3k:E (2.9) BS01 dna ? GO:0000786 ... P84233 14739929
    39469 1p3k:E (2.9) BS02 dna ? GO:0000786 ... P84233 14739929
    39470 1p3k:F (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    39471 1p3k:F (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    39472 1p3k:G (2.9) BS01 dna ? GO:0000786 ... P06897 14739929
    39473 1p3k:G (2.9) BS02 dna ? GO:0000786 ... P06897 14739929
    39474 1p3k:H (2.9) BS01 dna ? GO:0000786 ... P02281 14739929
    39475 1p3k:H (2.9) BS02 dna ? GO:0000786 ... P02281 14739929
    39476 1p3l:A (2.4) BS01 dna ? GO:0000786 ... P84233 14739929
    39477 1p3l:A (2.4) BS02 dna ? GO:0000786 ... P84233 14739929
    39478 1p3l:B (2.4) BS01 dna ? GO:0000786 ... P62799 14739929
    39479 1p3l:B (2.4) BS02 dna ? GO:0000786 ... P62799 14739929
    39480 1p3l:C (2.4) BS01 dna ? GO:0000786 ... P06897 14739929
    39481 1p3l:C (2.4) BS02 dna ? GO:0000786 ... P06897 14739929
    39482 1p3l:D (2.4) BS01 dna ? GO:0000786 ... P02281 14739929
    39483 1p3l:D (2.4) BS02 dna ? GO:0000786 ... P02281 14739929
    39484 1p3l:E (2.4) BS01 dna ? GO:0000786 ... P84233 14739929
    39485 1p3l:E (2.4) BS02 dna ? GO:0000786 ... P84233 14739929
    39486 1p3l:F (2.4) BS01 dna ? GO:0000786 ... P62799 14739929
    39487 1p3l:F (2.4) BS02 dna ? GO:0000786 ... P62799 14739929
    39488 1p3l:G (2.4) BS01 dna ? GO:0000786 ... P06897 14739929
    39489 1p3l:G (2.4) BS02 dna ? GO:0000786 ... P06897 14739929
    39490 1p3l:H (2.4) BS01 dna ? GO:0000786 ... P02281 14739929
    39491 1p3l:H (2.4) BS02 dna ? GO:0000786 ... P02281 14739929
    39492 1p3m:A (2.9) BS01 dna ? GO:0000786 ... P84233 14739929
    39493 1p3m:A (2.9) BS02 dna ? GO:0000786 ... P84233 14739929
    39494 1p3m:B (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    39495 1p3m:B (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    39496 1p3m:C (2.9) BS01 dna ? GO:0000786 ... P06897 14739929
    39497 1p3m:C (2.9) BS02 dna ? GO:0000786 ... P06897 14739929
    39498 1p3m:D (2.9) BS01 dna ? GO:0000786 ... P02281 14739929
    39499 1p3m:D (2.9) BS02 dna ? GO:0000786 ... P02281 14739929
    39500 1p3m:E (2.9) BS01 dna ? GO:0000786 ... P84233 14739929
    39501 1p3m:E (2.9) BS02 dna ? GO:0000786 ... P84233 14739929
    39502 1p3m:F (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    39503 1p3m:F (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    39504 1p3m:G (2.9) BS01 dna ? GO:0000786 ... P06897 14739929
    39505 1p3m:G (2.9) BS02 dna ? GO:0000786 ... P06897 14739929
    39506 1p3m:H (2.9) BS01 dna ? GO:0000786 ... P02281 14739929
    39507 1p3m:H (2.9) BS02 dna ? GO:0000786 ... P02281 14739929
    39508 1p3o:A (2.75) BS01 dna ? GO:0000786 ... P84233 14739929
    39509 1p3o:A (2.75) BS02 dna ? GO:0000786 ... P84233 14739929
    39510 1p3o:B (2.75) BS01 dna ? GO:0000786 ... P62799 14739929
    39511 1p3o:B (2.75) BS02 dna ? GO:0000786 ... P62799 14739929
    39512 1p3o:C (2.75) BS01 dna ? GO:0000786 ... P06897 14739929
    39513 1p3o:C (2.75) BS02 dna ? GO:0000786 ... P06897 14739929
    39514 1p3o:D (2.75) BS01 dna ? GO:0000786 ... P02281 14739929
    39515 1p3o:D (2.75) BS02 dna ? GO:0000786 ... P02281 14739929
    39516 1p3o:E (2.75) BS01 dna ? GO:0000786 ... P84233 14739929
    39517 1p3o:E (2.75) BS02 dna ? GO:0000786 ... P84233 14739929
    39518 1p3o:F (2.75) BS01 dna ? GO:0000786 ... P62799 14739929
    39519 1p3o:F (2.75) BS02 dna ? GO:0000786 ... P62799 14739929
    39520 1p3o:G (2.75) BS01 dna ? GO:0000786 ... P06897 14739929
    39521 1p3o:G (2.75) BS02 dna ? GO:0000786 ... P06897 14739929
    39522 1p3o:H (2.75) BS01 dna ? GO:0000786 ... P02281 14739929
    39523 1p3o:H (2.75) BS02 dna ? GO:0000786 ... P02281 14739929
    39524 1p3p:A (2.7) BS01 dna ? GO:0000786 ... P84233 14739929
    39525 1p3p:A (2.7) BS02 dna ? GO:0000786 ... P84233 14739929
    39526 1p3p:B (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    39527 1p3p:B (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    39528 1p3p:C (2.7) BS01 dna ? GO:0000786 ... P06897 14739929
    39529 1p3p:C (2.7) BS02 dna ? GO:0000786 ... P06897 14739929
    39530 1p3p:D (2.7) BS01 dna ? GO:0000786 ... P02281 14739929
    39531 1p3p:D (2.7) BS02 dna ? GO:0000786 ... P02281 14739929
    39532 1p3p:E (2.7) BS01 dna ? GO:0000786 ... P84233 14739929
    39533 1p3p:E (2.7) BS02 dna ? GO:0000786 ... P84233 14739929
    39534 1p3p:F (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    39535 1p3p:F (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    39536 1p3p:G (2.7) BS01 dna ? GO:0000786 ... P06897 14739929
    39537 1p3p:G (2.7) BS02 dna ? GO:0000786 ... P06897 14739929
    39538 1p3p:H (2.7) BS01 dna ? GO:0000786 ... P02281 14739929
    39539 1p3p:H (2.7) BS02 dna ? GO:0000786 ... P02281 14739929
    39540 1p3t:A (2.1) BS01 HEM 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    39541 1p3u:A (1.75) BS01 HEM 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    39542 1p3v:A (2.25) BS01 HEM 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    39543 1p3v:A (2.25) BS02 CMO 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    39544 1p3w:A (2.1) BS01 PLP 2.8.1.7 GO:0002143 ... P0A6B7 12860127
    39545 1p3w:B (2.1) BS01 PLP 2.8.1.7 GO:0002143 ... P0A6B7 12860127
    39546 1p3y:1 (2.54) BS01 FAD 4.1.1.- GO:0003824 ... Q9RC23 12876343
    39547 1p42:A (2.0) BS01 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    39548 1p42:A (2.0) BS02 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    39549 1p42:A (2.0) BS03 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    39550 1p42:A (2.0) BS04 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    39551 1p42:B (2.0) BS01 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    39552 1p42:B (2.0) BS02 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    39553 1p42:B (2.0) BS03 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    39554 1p43:A (1.8) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    39555 1p43:A (1.8) BS02 2PG 4.2.1.11 GO:0000015 ... P00924 12846578
    39556 1p43:B (1.8) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    39557 1p43:B (1.8) BS02 2PG 4.2.1.11 GO:0000015 ... P00924 12846578
    39558 1p44:A (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39559 1p44:A (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    39560 1p44:B (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39561 1p44:B (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    39562 1p44:C (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39563 1p44:C (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    39564 1p44:D (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39565 1p44:D (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    39566 1p44:E (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39567 1p44:F (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39568 1p45:A (2.6) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39569 1p45:A (2.6) BS02 TCL 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: Ki=220nM, IC50=1000nM
    39570 1p45:A (2.6) BS03 TCL 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: Ki=220nM, IC50=1000nM
    39571 1p45:B (2.6) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    39572 1p45:B (2.6) BS02 TCL 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: Ki=220nM, IC50=1000nM
    39573 1p47:A (2.2) BS01 dna ? N/A P08046 12818197 PDBbind: Kd=2.1fM
    39574 1p47:A (2.2) BS02 dna ? N/A P08046 12818197 PDBbind: Kd=2.1fM
    39575 1p47:A (2.2) BS03 ZN ? N/A P08046 12818197
    39576 1p47:A (2.2) BS04 ZN ? N/A P08046 12818197
    39577 1p47:A (2.2) BS05 ZN ? N/A P08046 12818197
    39578 1p47:B (2.2) BS01 dna ? N/A P08046 12818197 PDBbind: Kd=2.1fM
    39579 1p47:B (2.2) BS02 dna ? N/A P08046 12818197 PDBbind: Kd=2.1fM
    39580 1p47:B (2.2) BS03 ZN ? N/A P08046 12818197
    39581 1p47:B (2.2) BS04 ZN ? N/A P08046 12818197
    39582 1p47:B (2.2) BS05 ZN ? N/A P08046 12818197
    39583 1p48:A (2.0) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    39584 1p48:A (2.0) BS02 PEP 4.2.1.11 GO:0000015 ... P00924 12846578
    39585 1p48:B (2.0) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    39586 1p48:B (2.0) BS02 PEP 4.2.1.11 GO:0000015 ... P00924 12846578
    39587 1p49:A (2.6) BS01 CA 3.1.6.2 GO:0004065 ... P08842 12657638
    39588 1p4a:A (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    39589 1p4a:B (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    39590 1p4a:C (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    39591 1p4a:D (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    39592 1p4b:H (2.35) BS01 peptide ? GO:0002250 ... P01820 14754898
    39593 1p4b:L (2.35) BS01 peptide ? N/A P01723 14754898
    39594 1p4c:A (1.35) BS01 FMN 1.1.3.15
    1.1.99.31    		 GO:0010181 ... P05414
    P20932    		 14604988
    39595 1p4d:A (2.6) BS01 MG 3.6.4.12
    5.6.2.1    		 N/A P14565 14604527
    39596 1p4d:B (2.6) BS01 MG 3.6.4.12
    5.6.2.1    		 N/A P14565 14604527
    39597 1p4d:C (2.6) BS01 MG 3.6.4.12
    5.6.2.1    		 N/A P14565 14604527
    39598 1p4e:A (2.7) BS01 dna ? GO:0003677 ... P03870 12716882
    39599 1p4e:A (2.7) BS02 dna ? GO:0003677 ... P03870 12716882
    39600 1p4e:A (2.7) BS03 dna ? GO:0003677 ... P03870 12716882
    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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