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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 2023 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 2r85:A (1.7) BS01 AMP 6.3.4.23 GO:0000287 ... Q8U0R7 18069798
    402 2r85:A (1.7) BS02 AMP 6.3.4.23 GO:0000287 ... Q8U0R7 18069798
    403 2r85:B (1.7) BS01 AMP 6.3.4.23 GO:0000287 ... Q8U0R7 18069798
    404 2r85:B (1.7) BS02 AMP 6.3.4.23 GO:0000287 ... Q8U0R7 18069798
    405 2rh6:A (1.45) BS03 AMP N/A N/A N/A N/A
    406 2rh6:B (1.45) BS03 AMP N/A N/A N/A N/A
    407 2rh6:B (1.45) BS04 AMP N/A N/A N/A N/A
    408 2rif:A (2.35) BS01 AMP ? GO:0000166 ... Q8ZVX8 18513746
    409 2rif:A (2.35) BS02 AMP ? GO:0000166 ... Q8ZVX8 18513746
    410 2rif:B (2.35) BS01 AMP ? GO:0000166 ... Q8ZVX8 18513746
    411 2rif:B (2.35) BS02 AMP ? GO:0000166 ... Q8ZVX8 18513746
    412 2rif:C (2.35) BS01 AMP ? GO:0000166 ... Q8ZVX8 18513746
    413 2rif:C (2.35) BS02 AMP ? GO:0000166 ... Q8ZVX8 18513746
    414 2rif:D (2.35) BS01 AMP ? GO:0000166 ... Q8ZVX8 18513746
    415 2rif:D (2.35) BS02 AMP ? GO:0000166 ... Q8ZVX8 18513746
    416 2uv4:A (1.33) BS01 AMP ? N/A P54619 17452784
    417 2uv6:A (2.0) BS01 AMP ? N/A P54619 17452784
    418 2uv7:A (2.0) BS01 AMP ? N/A P54619 17452784
    419 2v8q:E (2.1) BS01 AMP ? GO:0004672 ... P80385 17851531 MOAD: Kd=24.5uM
    420 2v8q:E (2.1) BS02 AMP ? GO:0004672 ... P80385 17851531 MOAD: Kd=24.5uM
    421 2v8q:E (2.1) BS03 AMP ? GO:0004672 ... P80385 17851531 MOAD: Kd=24.5uM
    422 2v92:E (2.4) BS03 AMP ? GO:0004672 ... P80385 17851531 MOAD: Kd=24.5uM
    423 2v9j:E (2.53) BS03 AMP ? GO:0004672 ... P80385 17851531
    424 2var:A (2.1) BS04 AMP 2.7.1.178 GO:0000166 ... Q97U29 19018105
    425 2var:B (2.1) BS04 AMP 2.7.1.178 GO:0000166 ... Q97U29 19018105
    426 2var:C (2.1) BS04 AMP 2.7.1.178 GO:0000166 ... Q97U29 19018105
    427 2vd6:A (2.0) BS01 AMP 4.3.2.2 GO:0001666 ... P30566 N/A
    428 2vd6:B (2.0) BS02 AMP 4.3.2.2 GO:0001666 ... P30566 N/A
    429 2vd6:C (2.0) BS02 AMP 4.3.2.2 GO:0001666 ... P30566 N/A
    430 2vd6:D (2.0) BS01 AMP 4.3.2.2 GO:0001666 ... P30566 N/A
    431 2vfk:A (1.5) BS01 AMP N/A N/A N/A 18082768 MOAD: Kd=194uM
    PDBbind: -logKd/Ki=3.71, Kd=194uM
    432 2vii:A (2.85) BS01 AMP ? GO:0005524 ... P37344 18082766
    433 2vso:A (2.6) BS01 AMP 3.6.4.13 GO:0002183 ... P10081 18606994
    434 2vso:B (2.6) BS01 AMP 3.6.4.13 GO:0002183 ... P10081 18606994
    435 2vsx:A (2.8) BS01 AMP 3.6.4.13 GO:0002183 ... P10081 18606994
    436 2vsx:B (2.8) BS01 AMP 3.6.4.13 GO:0002183 ... P10081 18606994
    437 2vze:A (2.45) BS01 AMP 6.2.1.2
    6.2.1.25    		 GO:0004321 ... Q08AH3 19345228
    438 2vze:B (2.45) BS01 AMP 6.2.1.2
    6.2.1.25    		 GO:0004321 ... Q08AH3 19345228
    439 2vze:C (2.45) BS02 AMP 6.2.1.2
    6.2.1.25    		 GO:0004321 ... Q08AH3 19345228
    440 2w4y:A (2.9) BS03 AMP N/A N/A N/A 19559027
    441 2w4y:A (2.9) BS04 AMP N/A N/A N/A 19559027
    442 2w4y:B (2.9) BS03 AMP N/A N/A N/A 19559027
    443 2w4y:C (2.9) BS02 AMP N/A N/A N/A 19559027
    444 2w4y:C (2.9) BS03 AMP N/A N/A N/A 19559027
    445 2w4z:A (3.6) BS02 AMP N/A N/A N/A 19559027
    446 2w4z:A (3.6) BS04 AMP N/A N/A N/A 19559027
    447 2w4z:B (3.6) BS01 AMP N/A N/A N/A 19559027
    448 2w4z:B (3.6) BS03 AMP N/A N/A N/A 19559027
    449 2w4z:C (3.6) BS01 AMP N/A N/A N/A 19559027
    450 2w4z:C (3.6) BS04 AMP N/A N/A N/A 19559027
    451 2wef:A (1.8) BS03 AMP 3.1.3.57
    3.1.3.7    		 GO:0004441 ... O95861 N/A
    452 2x3k:A (2.5) BS01 AMP ? GO:0005524 ... Q93AT8 N/A
    453 2x3k:B (2.5) BS01 AMP ? GO:0005524 ... Q93AT8 N/A
    454 2x75:A (2.5) BS01 AMP 4.3.2.2 GO:0003824 ... Q7A0G9 20693687
    455 2xoy:B (2.6) BS06 AMP 2.3.2.27 N/A Q96EP1 20880844
    456 2xoz:B (2.374) BS06 AMP 2.3.2.27 N/A Q96EP1 20880844
    457 2xoz:B (2.374) BS07 AMP 2.3.2.27 N/A Q96EP1 20880844
    458 2xxb:A (2.15) BS01 AMP 1.1.1.27 GO:0003824 ... Q5SJA1 N/A
    459 2xxb:B (2.15) BS01 AMP 1.1.1.27 GO:0003824 ... Q5SJA1 N/A
    460 2y8l:E (2.5) BS03 AMP ? GO:0004672 ... P80385 21399626
    461 2y8q:E (2.8) BS02 AMP ? GO:0004672 ... P80385 21399626
    462 2ya3:E (2.51) BS03 AMP ? GO:0004672 ... P80385 21399626
    463 2yab:A (1.9) BS01 AMP 2.7.11.1 GO:0004672 ... Q8VDF3 21497605
    464 2yab:B (1.9) BS01 AMP 2.7.11.1 GO:0004672 ... Q8VDF3 21497605
    465 2yb1:A (1.898) BS04 AMP 3.1.3.97 GO:0000166 ... Q7NXD4 24401123
    466 2yj4:A (2.4) BS01 AMP 3.6.3.10 GO:0000166 ... Q97UU7 N/A
    467 2yrx:A (1.9) BS02 AMP 6.3.4.13 GO:0003824 ... Q5L3C7 20716513
    468 2ys6:A (2.21) BS02 AMP 6.3.4.13 GO:0003824 ... Q5L3C7 20716513
    469 2yvo:A (1.67) BS03 AMP 3.6.1.- GO:0000166 ... Q5SJY9 18039767
    470 2ze5:A (2.31) BS01 AMP 2.5.1.27 GO:0005515 ... P58758 18258747
    471 2ze6:A (2.1) BS02 AMP 2.5.1.27 GO:0005515 ... P58758 18258747
    472 2ze7:A (2.1) BS03 AMP 2.5.1.27 GO:0005515 ... P58758 18258747
    473 2zr2:A (2.8) BS01 AMP 6.1.1.11 GO:0000049 ... O58441 18818520
    474 2zr2:B (2.8) BS01 AMP 6.1.1.11 GO:0000049 ... O58441 18818520
    475 3a7a:A (3.1) BS01 AMP 6.3.1.20 GO:0005524 ... P32099 20089862
    476 3a7a:C (3.1) BS01 AMP 6.3.1.20 GO:0005524 ... P32099 20089862
    477 3a9v:A (2.5) BS01 AMP 6.2.1.12 GO:0000166 ... Q941M3 20841425
    478 3aw8:A (2.6) BS01 AMP 6.3.4.18 GO:0004638 ... Q5SKY0 N/A
    479 3aw8:B (2.6) BS01 AMP 6.3.4.18 GO:0004638 ... Q5SKY0 N/A
    480 3b1r:A (2.0) BS01 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    481 3b1r:A (2.0) BS02 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    482 3b1r:B (2.0) BS01 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    483 3b1r:B (2.0) BS02 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    484 3b1r:C (2.0) BS01 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    485 3b1r:C (2.0) BS02 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    486 3b1r:D (2.0) BS01 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    487 3b1r:D (2.0) BS02 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    488 3b1r:E (2.0) BS01 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    489 3b1r:E (2.0) BS02 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    490 3b1r:F (2.0) BS01 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    491 3b1r:F (2.0) BS02 AMP 2.7.1.143 GO:0000166 ... Q2SZE4 22101821
    492 3b6j:B (2.05) BS03 AMP 1.6.5.2 GO:0000166 ... P0A8G6 17951395
    493 3ber:A (1.4) BS01 AMP 3.6.4.13 GO:0003676 ... Q9H0S4 20941364
    494 3blw:A (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    495 3blw:C (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    496 3blw:E (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    497 3blw:G (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    498 3blw:I (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    499 3blw:K (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    500 3blw:M (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    501 3blw:O (4.3) BS02 AMP 1.1.1.41 GO:0000287 ... P28834 18256028
    502 3c0h:A (2.3) BS01 AMP 2.7.11.1 GO:0004672 ... O14936 18423203
    503 3c0h:B (2.3) BS01 AMP 2.7.11.1 GO:0004672 ... O14936 18423203
    504 3c85:C (1.9) BS01 AMP ? GO:0006813 ... Q87RG9 N/A
    505 3cj7:A (1.8) BS01 AMP 3.6.1.- GO:0016787 ... O35795 18458329
    506 3cj9:A (1.8) BS02 AMP 3.6.1.- GO:0016787 ... O35795 18458329
    507 3clr:C (1.9) BS01 AMP ? GO:0000166 ... P53570 18407658
    508 3cls:C (1.65) BS01 AMP ? GO:0000166 ... P53570 18407658
    509 3clt:C (2.0) BS01 AMP ? GO:0000166 ... P53570 18407658
    510 3clu:C (1.8) BS01 AMP ? GO:0000166 ... P53570 18407658
    511 3cw9:A (2.0) BS01 AMP 6.2.1.33 GO:0000166 ... Q8GN86 18620418
    512 3cw9:B (2.0) BS01 AMP 6.2.1.33 GO:0000166 ... Q8GN86 18620418
    513 3dah:A (2.3) BS01 AMP 2.7.6.1 GO:0000287 ... Q63XL8 23382856
    514 3dah:B (2.3) BS01 AMP 2.7.6.1 GO:0000287 ... Q63XL8 23382856
    515 3dah:B (2.3) BS02 AMP 2.7.6.1 GO:0000287 ... Q63XL8 23382856
    516 3dah:C (2.3) BS01 AMP 2.7.6.1 GO:0000287 ... Q63XL8 23382856
    517 3dah:C (2.3) BS02 AMP 2.7.6.1 GO:0000287 ... Q63XL8 23382856
    518 3ddj:A (1.8) BS01 AMP ? GO:0000166 ... Q97U20 N/A
    519 3dhv:A (2.0) BS02 AMP 6.2.1.54 GO:0005524 ... Q81G39 18847223
    520 3dlz:A (1.85) BS02 AMP 2.7.11.1 GO:0004672 ... Q8TF76 19918057
    521 3dqx:A (2.3) BS01 AMP 2.7.10.2 GO:0004672 ... P00523 18794843
    522 3dqx:B (2.3) BS01 AMP 2.7.10.2 GO:0004672 ... P00523 18794843
    523 3drw:A (1.9) BS01 AMP 2.7.1.146 GO:0000287 ... O59355 19553681
    524 3drw:B (1.9) BS01 AMP 2.7.1.146 GO:0000287 ... O59355 19553681
    525 3e3n:A (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    526 3e3n:A (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    527 3e3n:B (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    528 3e3n:B (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    529 3e3n:C (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    530 3e3n:C (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    531 3e3n:D (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    532 3e3n:D (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    533 3e3n:E (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    534 3e3n:E (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    535 3e3n:F (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    536 3e3n:F (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    537 3e3n:G (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    538 3e3n:G (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    539 3e3n:H (2.7) BS01 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    540 3e3n:H (2.7) BS02 AMP 2.4.1.1 GO:0000166 ... P00489 34473107
    541 3e7w:A (2.28) BS01 AMP 6.2.1.54 GO:0005524 ... P39581 18784082
    542 3e7x:A (2.6) BS01 AMP 6.2.1.54 GO:0005524 ... P39581 18784082
    543 3eps:A (2.8) BS01 AMP 2.7.11.5
    3.1.3.-    		 GO:0004674 ... Q8X607 20505668
    544 3eps:B (2.8) BS01 AMP 2.7.11.5
    3.1.3.-    		 GO:0004674 ... Q8X607 20505668
    545 3eq6:A (2.4) BS01 AMP 6.2.1.2
    6.2.1.25    		 GO:0004321 ... Q08AH3 19345228
    546 3eq6:B (2.4) BS01 AMP 6.2.1.2
    6.2.1.25    		 GO:0004321 ... Q08AH3 19345228
    547 3err:A (2.27) BS01 AMP ?
    6.1.1.11    		 GO:0000166 ... Q5SJX7
    Q9JHU4    		 19074350
    548 3err:B (2.27) BS01 AMP ?
    6.1.1.11    		 GO:0000166 ... Q5SJX7
    Q9JHU4    		 19074350
    549 3feg:A (1.302) BS03 AMP 2.7.1.32
    2.7.1.82    		 GO:0004103 ... Q9Y259 20299452
    550 3fhj:A (2.65) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    551 3fhj:B (2.65) BS03 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    552 3fhj:C (2.65) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    553 3fhj:D (2.65) BS03 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    554 3fhj:E (2.65) BS03 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    555 3fhj:F (2.65) BS03 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    556 3fhm:A (2.7) BS01 AMP ? GO:0000166 ... A9CIP4 N/A
    557 3fhm:B (2.7) BS01 AMP ? GO:0000166 ... A9CIP4 N/A
    558 3fhm:C (2.7) BS02 AMP ? GO:0000166 ... A9CIP4 N/A
    559 3fhm:D (2.7) BS02 AMP ? GO:0000166 ... A9CIP4 N/A
    560 3fi0:A (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    561 3fi0:B (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    562 3fi0:C (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    563 3fi0:D (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    564 3fi0:E (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    565 3fi0:F (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    566 3fi0:G (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    567 3fi0:H (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    568 3fi0:I (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    569 3fi0:J (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    570 3fi0:K (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    571 3fi0:L (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    572 3fi0:M (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    573 3fi0:N (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    574 3fi0:O (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    575 3fi0:P (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    576 3fi0:Q (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    577 3fi0:R (2.7) BS02 AMP 6.1.1.2 GO:0000166 ... P00953 19174517
    578 3fiu:A (1.85) BS02 AMP N/A GO:0003952 ... N/A 19204287
    579 3fiu:B (1.85) BS02 AMP N/A GO:0003952 ... N/A 19204287
    580 3fiu:C (1.85) BS02 AMP N/A GO:0003952 ... N/A 19204287
    581 3fiu:D (1.85) BS02 AMP N/A GO:0003952 ... N/A 19204287
    582 3fna:A (2.1) BS01 AMP N/A N/A N/A N/A
    583 3fna:B (2.1) BS01 AMP N/A N/A N/A N/A
    584 3fwz:A (1.79) BS01 AMP ? GO:0006813 ... P39830 N/A
    585 3fwz:B (1.79) BS01 AMP ? GO:0006813 ... P39830 N/A
    586 3g1z:A (1.95) BS01 AMP 6.3.1.- GO:0000049 ... Q9ZJ12 20670890
    587 3g1z:B (1.95) BS01 AMP 6.3.1.- GO:0000049 ... Q9ZJ12 20670890
    588 3g89:A (1.5) BS02 AMP 2.1.1.170 GO:0005737 ... Q9LCY2 19622680
    589 3g89:B (1.5) BS02 AMP 2.1.1.170 GO:0005737 ... Q9LCY2 19622680
    590 3gc0:A (2.0) BS01 AMP ? GO:0000082 ... A8BZ95 21904054
    591 3glv:B (1.99) BS01 AMP 2.7.7.2 GO:0003824 ... Q979C2 N/A
    592 3gru:A (1.6) BS01 AMP 2.1.1.- GO:0000154 ... Q58435 20163168
    593 3hf7:A (2.75) BS01 AMP ? N/A A6TCM0 N/A
    594 3hw5:A (1.81) BS02 AMP 3.1.-.- GO:0003723 ... Q9Q0U9 19587036
    595 3i0q:A (2.8) BS01 AMP ? GO:0000166 ... O06916 20089863
    596 3ib8:A (1.8) BS03 AMP 3.1.4.16
    3.1.4.17    		 GO:0000166 ... P9WP65 19801656
    597 3ifa:A (1.93) BS01 AMP 3.1.3.11 GO:0005515 ... O00757 22120740
    598 3ifa:B (1.93) BS01 AMP 3.1.3.11 GO:0005515 ... O00757 22120740
    599 3ifa:C (1.93) BS01 AMP 3.1.3.11 GO:0005515 ... O00757 22120740
    600 3ifa:D (1.93) BS01 AMP 3.1.3.11 GO:0005515 ... O00757 22120740
    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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