sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Cavities 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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 3g2l | LEW | Glycogen phosphorylase, muscle form | 2.4.1.1 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3g2l | LEW | Glycogen phosphorylase, muscle form | 2.4.1.1 | 1.000 | |
| 1k08 | BZD | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.566 | |
| 3mt8 | 17T | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.501 | |
| 3g2h | KOT | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.490 | |
| 1xel | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.482 | |
| 1a9z | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.477 | |
| 2qn3 | F55 | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.474 | |
| 1a9y | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.471 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.471 | |
| 5a3b | APR | SIR2 family protein | / | 0.468 | |
| 2fzn | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.465 | |
| 3kji | ADP | CO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC | / | 0.463 | |
| 1h5q | NAP | NADP-dependent mannitol dehydrogenase | 1.1.1.138 | 0.462 | |
| 1uda | UFG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.458 | |
| 1udb | UFG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.458 | |
| 4fri | DWA | Beta-secretase 1 | 3.4.23.46 | 0.458 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.457 | |
| 2ylz | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.455 | |
| 3co9 | 3MS | Genome polyprotein | 2.7.7.48 | 0.455 | |
| 3fr8 | NDP | Ketol-acid reductoisomerase, chloroplastic | 1.1.1.86 | 0.455 | |
| 4fj0 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.455 | |
| 1u4o | NDD | L-lactate dehydrogenase | 1.1.1.27 | 0.454 | |
| 2v59 | LZK | Biotin carboxylase | 6.3.4.14 | 0.454 | |
| 1h7w | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.453 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.453 | |
| 4qxr | 1YE | Stimulator of interferon genes protein | / | 0.451 | |
| 1lf3 | EH5 | Plasmepsin-2 | 3.4.23.39 | 0.450 | |
| 1u7t | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.450 | |
| 4dmm | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.450 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.449 | |
| 3phj | DHK | Shikimate dehydrogenase (NADP(+)) | / | 0.448 | |
| 3qvs | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.448 | |
| 3l7d | DK5 | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.447 | |
| 2c31 | TZD | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.446 | |
| 3geg | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.446 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.446 | |
| 2a94 | AP0 | L-lactate dehydrogenase | 1.1.1.27 | 0.445 | |
| 2z4y | 252 | Geranylgeranyl pyrophosphate synthase | / | 0.445 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.444 | |
| 2xtn | GTP | GTPase IMAP family member 2 | / | 0.444 | |
| 2zvb | SAH | Precorrin-3 C17-methyltransferase | / | 0.444 | |
| 1kvs | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.443 | |
| 2qs3 | UBE | Glutamate receptor ionotropic, kainate 1 | / | 0.443 | |
| 4y35 | F90 | Endothiapepsin | 3.4.23.22 | 0.443 | |
| 1wng | SAH | Diphthine synthase | / | 0.442 | |
| 1x1c | SAH | C-20 methyltransferase | / | 0.442 | |
| 2fxv | 5GP | Xanthine phosphoribosyltransferase | 2.4.2.22 | 0.442 | |
| 3e2s | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.442 | |
| 3evb | SAH | Genome polyprotein | 2.1.1.56 | 0.442 | |
| 3cos | NAD | Alcohol dehydrogenase 4 | 1.1.1.1 | 0.441 | |
| 1gte | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.440 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.440 | |
| 3aeb | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.440 | |
| 4opi | FDA | Conserved Archaeal protein | / | 0.440 | |
| 4xj4 | 3AT | Cyclic GMP-AMP synthase | / | 0.440 | |
| 4yjd | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.440 | |
| 5b1y | NDP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.440 |