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 |
|---|---|---|---|
| 2hch | N5A | Endoplasmin |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2hch | N5A | Endoplasmin | / | 1.000 | |
| 2gqp | PA7 | Endoplasmin | / | 0.732 | |
| 1u2o | NEC | Endoplasmin | / | 0.608 | |
| 1ysz | NEC | Endoplasmin | / | 0.606 | |
| 2fyp | RDE | Endoplasmin | / | 0.603 | |
| 2gfd | RDA | Endoplasmin | / | 0.599 | |
| 2hg1 | N5O | Endoplasmin | / | 0.594 | |
| 3rlq | 3RQ | Heat shock protein HSP 90-alpha | / | 0.581 | |
| 4fcr | 0TM | Heat shock protein HSP 90-alpha | / | 0.580 | |
| 3rlr | 3RR | Heat shock protein HSP 90-alpha | / | 0.572 | |
| 4xc0 | ACP | Heat shock cognate 90 kDa protein | / | 0.568 | |
| 4bqj | XKL | Heat shock protein HSP 90-alpha | / | 0.565 | |
| 1u0z | RDC | Endoplasmin | / | 0.563 | |
| 2yef | ANP | Heat shock protein HSP 90-alpha | / | 0.560 | |
| 1qy5 | NEC | Endoplasmin | / | 0.555 | |
| 3r4p | FU7 | Heat shock protein HSP 90-alpha | / | 0.555 | |
| 1u0y | PA7 | Endoplasmin | / | 0.554 | |
| 3ekr | PY9 | Heat shock protein HSP 90-alpha | / | 0.552 | |
| 1qy8 | RDI | Endoplasmin | / | 0.551 | |
| 3t0z | ATP | Heat shock protein HSP 90-alpha | / | 0.550 | |
| 2bre | KJ2 | ATP-dependent molecular chaperone HSP82 | / | 0.539 | |
| 2xx2 | 13C | ATP-dependent molecular chaperone HSP82 | / | 0.534 | |
| 2wep | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.533 | |
| 4gqt | ADP | Heat shock protein 90 | / | 0.533 | |
| 3t10 | ACP | Heat shock protein HSP 90-alpha | / | 0.530 | |
| 3wha | WHA | Heat shock protein HSP 90-alpha | / | 0.530 | |
| 1byq | ADP | Heat shock protein HSP 90-alpha | / | 0.529 | |
| 2qg0 | A94 | Heat shock protein HSP 90-alpha | / | 0.528 | |
| 3q5l | KX2 | Heat shock protein 83-1 | / | 0.527 | |
| 3hhu | 819 | Heat shock protein HSP 90-alpha | / | 0.526 | |
| 1yc1 | 4BC | Heat shock protein HSP 90-alpha | / | 0.525 | |
| 2exl | GDM | Endoplasmin | / | 0.525 | |
| 3hek | BD0 | Heat shock protein HSP 90-alpha | / | 0.524 | |
| 3t1k | ANP | Heat shock protein HSP 90-alpha | / | 0.524 | |
| 2iwu | NP5 | ATP-dependent molecular chaperone HSP82 | / | 0.523 | |
| 2xcm | ADP | Cytosolic heat shock protein 90 | / | 0.522 | |
| 2yeg | XQG | Heat shock protein HSP 90-alpha | / | 0.521 | |
| 4ipe | ANP | TNF receptor-associated protein 1 | / | 0.521 | |
| 3t2s | AGS | Heat shock protein HSP 90-alpha | / | 0.519 | |
| 2xhr | C0P | Heat shock protein HSP 90-alpha | / | 0.517 | |
| 2bz5 | AB4 | Heat shock protein HSP 90-alpha | / | 0.516 | |
| 3vha | VHA | Heat shock protein HSP 90-alpha | / | 0.516 | |
| 3r4n | FU5 | Heat shock protein HSP 90-alpha | / | 0.513 | |
| 2vw5 | BC6 | ATP-dependent molecular chaperone HSP82 | / | 0.512 | |
| 4xcj | ADP | Heat shock cognate 90 kDa protein | / | 0.512 | |
| 3b28 | B2X | Heat shock protein HSP 90-alpha | / | 0.507 | |
| 4ce2 | BO5 | ATP-dependent molecular chaperone HSP82 | / | 0.506 | |
| 2byi | 2DD | Heat shock protein HSP 90-alpha | / | 0.505 | |
| 2wi6 | ZZ6 | Heat shock protein HSP 90-alpha | / | 0.505 | |
| 1amw | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.504 | |
| 1bgq | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.504 | |
| 2wi7 | 2KL | Heat shock protein HSP 90-alpha | / | 0.503 | |
| 4ce1 | 7FK | ATP-dependent molecular chaperone HSP82 | / | 0.503 | |
| 1uyh | PU0 | Heat shock protein HSP 90-alpha | / | 0.502 | |
| 3peh | IBD | Endoplasmin homolog, putative | / | 0.500 | |
| 4eft | EFT | Heat shock protein HSP 90-alpha | / | 0.500 | |
| 1yt0 | ADP | Endoplasmin | / | 0.499 | |
| 2byh | 2D7 | Heat shock protein HSP 90-alpha | / | 0.499 | |
| 2wer | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.499 | |
| 2xk2 | ADP | Heat shock protein HSP 90-alpha | / | 0.495 | |
| 4jql | VJ6 | Heat shock protein HSP 90-alpha | / | 0.495 | |
| 2bt0 | CT5 | Heat shock protein HSP 90-alpha | / | 0.494 | |
| 3c11 | GDM | ATP-dependent molecular chaperone HSP82 | / | 0.494 | |
| 2brc | CT5 | ATP-dependent molecular chaperone HSP82 | / | 0.491 | |
| 3qdd | 94M | Heat shock protein HSP 90-alpha | / | 0.490 | |
| 3k98 | 1RC | Heat shock protein HSP 90-alpha | / | 0.489 | |
| 1am1 | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.487 | |
| 1yc3 | 4BC | Heat shock protein HSP 90-alpha | / | 0.486 | |
| 2bu8 | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.486 | |
| 1osf | KOS | Heat shock protein HSP 90-alpha | / | 0.483 | |
| 2o1u | ANP | Endoplasmin | / | 0.482 | |
| 5f5r | ANP | Heat shock protein 75 kDa, mitochondrial | / | 0.482 | |
| 2xd6 | XD6 | ATP-dependent molecular chaperone HSP82 | / | 0.480 | |
| 1y4s | ADP | Chaperone protein HtpG | / | 0.479 | |
| 2xht | C0Y | Heat shock protein HSP 90-alpha | / | 0.479 | |
| 2fxs | RDA | ATP-dependent molecular chaperone HSP82 | / | 0.478 | |
| 4ivg | ANP | TNF receptor-associated protein 1 | / | 0.477 | |
| 3omu | IBD | Heat shock protein 83 | / | 0.475 | |
| 1uyi | PUZ | Heat shock protein HSP 90-alpha | / | 0.474 | |
| 4ce3 | L4V | ATP-dependent molecular chaperone HSP82 | / | 0.473 | |
| 2h55 | DZ8 | Heat shock protein HSP 90-alpha | / | 0.470 | |
| 2yee | 2EC | Heat shock protein HSP 90-alpha | / | 0.470 | |
| 1uyk | PUX | Heat shock protein HSP 90-alpha | / | 0.469 | |
| 2xab | VHD | Heat shock protein HSP 90-alpha | / | 0.469 | |
| 3ft8 | MOJ | Heat shock protein HSP 90-alpha | / | 0.469 | |
| 3hz5 | Z64 | Heat shock protein HSP 90-alpha | / | 0.469 | |
| 2wi5 | ZZ5 | Heat shock protein HSP 90-alpha | / | 0.468 | |
| 2gmj | FAD | Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial | 1.5.5.1 | 0.467 | |
| 3r4o | FU3 | Heat shock protein HSP 90-alpha | / | 0.467 | |
| 4bqg | 50Q | Heat shock protein HSP 90-alpha | / | 0.466 | |
| 4xdm | GDM | Heat shock cognate 90 kDa protein | / | 0.466 | |
| 1yc4 | 43P | Heat shock protein HSP 90-alpha | / | 0.465 | |
| 3k97 | 4CD | Heat shock protein HSP 90-alpha | / | 0.464 | |
| 4asg | 814 | ATP-dependent molecular chaperone HSP82 | / | 0.464 | |
| 1uyf | PU1 | Heat shock protein HSP 90-alpha | / | 0.463 | |
| 1uym | PU3 | Heat shock protein HSP 90-beta | / | 0.463 | |
| 2g37 | FAD | Proline dehydrogenase | / | 0.462 | |
| 1uye | PU9 | Heat shock protein HSP 90-alpha | / | 0.461 | |
| 5ftf | ADP | TPR domain protein | / | 0.461 | |
| 1uyc | PU7 | Heat shock protein HSP 90-alpha | / | 0.460 | |
| 1uyd | PU8 | Heat shock protein HSP 90-alpha | / | 0.460 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.460 | |
| 2zjm | F1M | Beta-secretase 1 | 3.4.23.46 | 0.458 | |
| 1uy6 | PU3 | Heat shock protein HSP 90-alpha | / | 0.457 | |
| 2z1m | NDP | GDP-mannose 4,6-dehydratase | / | 0.456 | |
| 1uy8 | PU5 | Heat shock protein HSP 90-alpha | / | 0.455 | |
| 2zdy | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.455 | |
| 3nl6 | TPS | Uncharacterized protein | / | 0.453 | |
| 3q5k | D1U | Heat shock protein 83-1 | / | 0.453 | |
| 4hms | FMN | Phenazine biosynthesis protein PhzG | 1.4 | 0.453 | |
| 1m4d | COA | Aminoglycoside 2'-N-acetyltransferase | 2.3.1 | 0.452 | |
| 2esa | GDM | Endoplasmin | / | 0.452 | |
| 1uda | UFG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.451 | |
| 2w0d | CGS | Macrophage metalloelastase | 3.4.24.65 | 0.451 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.451 | |
| 1uy9 | PU6 | Heat shock protein HSP 90-alpha | / | 0.449 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.449 | |
| 2iwx | M1S | ATP-dependent molecular chaperone HSP82 | / | 0.449 | |
| 2zkj | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.449 | |
| 1kf6 | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.448 | |
| 2b37 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.447 | |
| 4en4 | ATP | Pyridoxal kinase | 2.7.1.35 | 0.446 | |
| 1qo8 | FAD | Fumarate reductase flavoprotein subunit | / | 0.445 | |
| 1uy7 | PU4 | Heat shock protein HSP 90-alpha | / | 0.445 | |
| 3d2r | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.445 | |
| 3hyz | 42C | Heat shock protein HSP 90-alpha | / | 0.445 | |
| 4a6n | FAD | TetX family tetracycline inactivation enzyme | / | 0.445 | |
| 2iws | NP4 | ATP-dependent molecular chaperone HSP82 | / | 0.444 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.444 | |
| 3o0i | P54 | Heat shock protein HSP 90-alpha | / | 0.444 | |
| 1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.443 | |
| 1m4i | COA | Aminoglycoside 2'-N-acetyltransferase | 2.3.1 | 0.443 | |
| 2bhi | SFT | Cytotoxin 3 | / | 0.443 | |
| 2qg2 | A91 | Heat shock protein HSP 90-alpha | / | 0.443 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.443 | |
| 3uyl | TYD | Probable NDP-rhamnosyltransferase | / | 0.443 | |
| 3vdq | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.443 | |
| 4efu | EFU | Heat shock protein HSP 90-alpha | / | 0.443 | |
| 4fk1 | FAD | Putative thioredoxin reductase | / | 0.443 | |
| 3qv1 | NAD | Glyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic | 1.2.1.13 | 0.442 | |
| 3w32 | W32 | Epidermal growth factor receptor | 2.7.10.1 | 0.442 | |
| 2ien | 017 | Gag-Pol polyprotein | 3.4.23.16 | 0.441 | |
| 3flk | NAI | Tartrate dehydrogenase/decarboxylase | 1.1.1.93 | 0.441 | |
| 3o96 | IQO | RAC-alpha serine/threonine-protein kinase | 2.7.11.1 | 0.441 | |
| 4xcl | AGS | Heat shock cognate 90 kDa protein | / | 0.441 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.440 | |
| 2bu2 | ATP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.440 | |
| 2igo | FAD | Pyranose 2-oxidase | / | 0.440 | |
| 2yi5 | YI5 | Heat shock protein HSP 90-alpha | / | 0.440 | |
| 2yjw | YJW | Heat shock protein HSP 90-alpha | / | 0.440 | |
| 3fhy | ATP | Pyridoxal kinase | 2.7.1.35 | 0.440 | |
| 4dpw | AGS | Mevalonate diphosphate decarboxylase | / | 0.440 | |
| 4egi | B2J | Heat shock protein HSP 90-alpha | / | 0.440 |