sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Binding Sites are compared using Shaper.
For more information, please see the following publication:
Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 1u2o | NEC | Endoplasmin |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1u2o | NEC | Endoplasmin | / | 1.000 | |
| 1ysz | NEC | Endoplasmin | / | 0.625 | |
| 2gqp | PA7 | Endoplasmin | / | 0.610 | |
| 2hch | N5A | Endoplasmin | / | 0.599 | |
| 3rlq | 3RQ | Heat shock protein HSP 90-alpha | / | 0.596 | |
| 2gfd | RDA | Endoplasmin | / | 0.595 | |
| 4bqj | XKL | Heat shock protein HSP 90-alpha | / | 0.582 | |
| 4fcr | 0TM | Heat shock protein HSP 90-alpha | / | 0.581 | |
| 1qy8 | RDI | Endoplasmin | / | 0.564 | |
| 1u0y | PA7 | Endoplasmin | / | 0.564 | |
| 3rlr | 3RR | Heat shock protein HSP 90-alpha | / | 0.563 | |
| 3r4p | FU7 | Heat shock protein HSP 90-alpha | / | 0.560 | |
| 1u0z | RDC | Endoplasmin | / | 0.558 | |
| 1qy5 | NEC | Endoplasmin | / | 0.557 | |
| 3t1k | ANP | Heat shock protein HSP 90-alpha | / | 0.551 | |
| 3t2s | AGS | Heat shock protein HSP 90-alpha | / | 0.551 | |
| 2bz5 | AB4 | Heat shock protein HSP 90-alpha | / | 0.550 | |
| 3ekr | PY9 | Heat shock protein HSP 90-alpha | / | 0.548 | |
| 2xcm | ADP | Cytosolic heat shock protein 90 | / | 0.547 | |
| 2qg0 | A94 | Heat shock protein HSP 90-alpha | / | 0.546 | |
| 4ce1 | 7FK | ATP-dependent molecular chaperone HSP82 | / | 0.545 | |
| 2bt0 | CT5 | Heat shock protein HSP 90-alpha | / | 0.543 | |
| 3t10 | ACP | Heat shock protein HSP 90-alpha | / | 0.543 | |
| 3r4n | FU5 | Heat shock protein HSP 90-alpha | / | 0.542 | |
| 2exl | GDM | Endoplasmin | / | 0.540 | |
| 2byi | 2DD | Heat shock protein HSP 90-alpha | / | 0.539 | |
| 2xk2 | ADP | Heat shock protein HSP 90-alpha | / | 0.539 | |
| 2wep | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.535 | |
| 3wha | WHA | Heat shock protein HSP 90-alpha | / | 0.532 | |
| 1yc1 | 4BC | Heat shock protein HSP 90-alpha | / | 0.531 | |
| 4gqt | ADP | Heat shock protein 90 | / | 0.528 | |
| 4xc0 | ACP | Heat shock cognate 90 kDa protein | / | 0.528 | |
| 2bre | KJ2 | ATP-dependent molecular chaperone HSP82 | / | 0.526 | |
| 1yc3 | 4BC | Heat shock protein HSP 90-alpha | / | 0.524 | |
| 3hek | BD0 | Heat shock protein HSP 90-alpha | / | 0.520 | |
| 3hhu | 819 | Heat shock protein HSP 90-alpha | / | 0.520 | |
| 3vha | VHA | Heat shock protein HSP 90-alpha | / | 0.520 | |
| 2wi7 | 2KL | Heat shock protein HSP 90-alpha | / | 0.516 | |
| 1y4s | ADP | Chaperone protein HtpG | / | 0.515 | |
| 2hg1 | N5O | Endoplasmin | / | 0.514 | |
| 2byh | 2D7 | Heat shock protein HSP 90-alpha | / | 0.513 | |
| 2brc | CT5 | ATP-dependent molecular chaperone HSP82 | / | 0.512 | |
| 1am1 | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.509 | |
| 3b28 | B2X | Heat shock protein HSP 90-alpha | / | 0.509 | |
| 1byq | ADP | Heat shock protein HSP 90-alpha | / | 0.508 | |
| 2fyp | RDE | Endoplasmin | / | 0.507 | |
| 2yef | ANP | Heat shock protein HSP 90-alpha | / | 0.505 | |
| 3k98 | 1RC | Heat shock protein HSP 90-alpha | / | 0.502 | |
| 3t0z | ATP | Heat shock protein HSP 90-alpha | / | 0.502 | |
| 4xcj | ADP | Heat shock cognate 90 kDa protein | / | 0.502 | |
| 1bgq | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.500 | |
| 3omu | IBD | Heat shock protein 83 | / | 0.499 | |
| 2h55 | DZ8 | Heat shock protein HSP 90-alpha | / | 0.498 | |
| 4ce2 | BO5 | ATP-dependent molecular chaperone HSP82 | / | 0.497 | |
| 3k97 | 4CD | Heat shock protein HSP 90-alpha | / | 0.496 | |
| 2xab | VHD | Heat shock protein HSP 90-alpha | / | 0.495 | |
| 2iwu | NP5 | ATP-dependent molecular chaperone HSP82 | / | 0.492 | |
| 3hyz | 42C | Heat shock protein HSP 90-alpha | / | 0.492 | |
| 2vw5 | BC6 | ATP-dependent molecular chaperone HSP82 | / | 0.491 | |
| 2xht | C0Y | Heat shock protein HSP 90-alpha | / | 0.490 | |
| 5f5r | ANP | Heat shock protein 75 kDa, mitochondrial | / | 0.489 | |
| 1uym | PU3 | Heat shock protein HSP 90-beta | / | 0.486 | |
| 2wi6 | ZZ6 | Heat shock protein HSP 90-alpha | / | 0.485 | |
| 2xx2 | 13C | ATP-dependent molecular chaperone HSP82 | / | 0.485 | |
| 1osf | KOS | Heat shock protein HSP 90-alpha | / | 0.484 | |
| 2xd6 | XD6 | ATP-dependent molecular chaperone HSP82 | / | 0.483 | |
| 2xhr | C0P | Heat shock protein HSP 90-alpha | / | 0.483 | |
| 2zjm | F1M | Beta-secretase 1 | 3.4.23.46 | 0.483 | |
| 3c11 | GDM | ATP-dependent molecular chaperone HSP82 | / | 0.482 | |
| 3ft8 | MOJ | Heat shock protein HSP 90-alpha | / | 0.481 | |
| 1uy8 | PU5 | Heat shock protein HSP 90-alpha | / | 0.480 | |
| 1uy7 | PU4 | Heat shock protein HSP 90-alpha | / | 0.479 | |
| 4egi | B2J | Heat shock protein HSP 90-alpha | / | 0.479 | |
| 2yeg | XQG | Heat shock protein HSP 90-alpha | / | 0.478 | |
| 4eft | EFT | Heat shock protein HSP 90-alpha | / | 0.478 | |
| 2cgf | P2N | ATP-dependent molecular chaperone HSP82 | / | 0.477 | |
| 2wer | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.476 | |
| 3peh | IBD | Endoplasmin homolog, putative | / | 0.473 | |
| 4asg | 814 | ATP-dependent molecular chaperone HSP82 | / | 0.472 | |
| 1uye | PU9 | Heat shock protein HSP 90-alpha | / | 0.470 | |
| 2iws | NP4 | ATP-dependent molecular chaperone HSP82 | / | 0.468 | |
| 1amw | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.467 | |
| 2o1u | ANP | Endoplasmin | / | 0.467 | |
| 2wi5 | ZZ5 | Heat shock protein HSP 90-alpha | / | 0.467 | |
| 4ce3 | L4V | ATP-dependent molecular chaperone HSP82 | / | 0.466 | |
| 4ivg | ANP | TNF receptor-associated protein 1 | / | 0.466 | |
| 2yee | 2EC | Heat shock protein HSP 90-alpha | / | 0.465 | |
| 3r4o | FU3 | Heat shock protein HSP 90-alpha | / | 0.465 | |
| 2iwx | M1S | ATP-dependent molecular chaperone HSP82 | / | 0.463 | |
| 2fwy | H64 | Heat shock protein HSP 90-alpha | / | 0.462 | |
| 1uyc | PU7 | Heat shock protein HSP 90-alpha | / | 0.461 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.461 | |
| 3b6z | CO7 | Enoyl reductase LovC | 1 | 0.458 | |
| 3h86 | AP5 | Adenylate kinase | / | 0.457 | |
| 4jql | VJ6 | Heat shock protein HSP 90-alpha | / | 0.457 | |
| 1yt0 | ADP | Endoplasmin | / | 0.456 | |
| 2qfo | A51 | Heat shock protein HSP 90-alpha | / | 0.456 | |
| 3flk | NAI | Tartrate dehydrogenase/decarboxylase | 1.1.1.93 | 0.456 | |
| 3kjr | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.453 | |
| 1kzk | JE2 | Gag-Pol polyprotein | 3.4.23.16 | 0.452 | |
| 3r83 | Z14 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.452 | |
| 2bu8 | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.451 | |
| 2jds | L20 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.451 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.451 | |
| 1r2j | FAD | FkbI | / | 0.450 | |
| 3ied | AN2 | HSP90 | / | 0.450 | |
| 1uyk | PUX | Heat shock protein HSP 90-alpha | / | 0.449 | |
| 2fxs | RDA | ATP-dependent molecular chaperone HSP82 | / | 0.449 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.449 | |
| 3gqv | NAP | Enoyl reductase LovC | 1 | 0.449 | |
| 3o0i | P54 | Heat shock protein HSP 90-alpha | / | 0.449 | |
| 1qo8 | FAD | Fumarate reductase flavoprotein subunit | / | 0.448 | |
| 1uyh | PU0 | Heat shock protein HSP 90-alpha | / | 0.448 | |
| 3i7e | DJR | Gag-Pol polyprotein | / | 0.448 | |
| 2esa | GDM | Endoplasmin | / | 0.447 | |
| 4eag | ATP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.447 | |
| 1c6y | MK1 | Protease | / | 0.446 | |
| 1lf2 | R37 | Plasmepsin-2 | 3.4.23.39 | 0.446 | |
| 1msn | JE2 | Gag-Pol polyprotein | 3.4.23.16 | 0.446 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.446 | |
| 3ieu | GDP | GTPase Era | / | 0.446 | |
| 4r21 | STR | Cytochrome P450 family 17 polypeptide 2 | / | 0.446 | |
| 5d3q | GDP | Dynamin-1 | 3.6.5.5 | 0.446 | |
| 1uyi | PUZ | Heat shock protein HSP 90-alpha | / | 0.444 | |
| 2gjn | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.444 | |
| 3d2r | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.444 | |
| 4efu | EFU | Heat shock protein HSP 90-alpha | / | 0.444 | |
| 1dhr | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.443 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 2qg2 | A91 | Heat shock protein HSP 90-alpha | / | 0.442 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.442 | |
| 3mnr | SD1 | Heat shock protein HSP 90-alpha | / | 0.442 | |
| 4z24 | FAD | Putative GMC-type oxidoreductase R135 | 1 | 0.442 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.441 | |
| 3hz5 | Z64 | Heat shock protein HSP 90-alpha | / | 0.441 | |
| 3q5k | D1U | Heat shock protein 83-1 | / | 0.441 | |
| 4gdy | 0X1 | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.441 | |
| 4xcl | AGS | Heat shock cognate 90 kDa protein | / | 0.441 | |
| 5cno | ANP | Epidermal growth factor receptor | 2.7.10.1 | 0.441 | |
| 1fxs | NAP | GDP-L-fucose synthase | / | 0.440 | |
| 1lf3 | EH5 | Plasmepsin-2 | 3.4.23.39 | 0.440 | |
| 2o1v | ADP | Endoplasmin | / | 0.440 | |
| 2q59 | 240 | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 2w9s | TOP | Dihydrofolate reductase type 1 from Tn4003 | 1.5.1.3 | 0.440 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.440 |