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 |
|---|---|---|---|
| 2yp0 | OVE | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 2yp0 | OVE | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 1.000 | |
| 2ydd | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.632 | |
| 4wdb | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.599 | |
| 2yph | QQY | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.587 | |
| 4wdg | A2P | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.581 | |
| 3zbs | OVE | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.573 | |
| 2yq9 | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.567 | |
| 3zbz | OVE | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.557 | |
| 4wdf | A2P | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.552 | |
| 4wda | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.550 | |
| 2yoz | OVE | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.545 | |
| 3zbr | NAP | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.524 | |
| 4wfr | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.509 | |
| 4xsv | C5P | Ethanolamine-phosphate cytidylyltransferase | 2.7.7.14 | 0.496 | |
| 3c3x | NAP | Eugenol synthase 1 | 1.1.1.318 | 0.474 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.472 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.472 | |
| 1y2b | DEE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.467 | |
| 4f4d | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.460 | |
| 2g8y | NAD | Hydroxycarboxylate dehydrogenase B | / | 0.458 | |
| 2iya | ZIO | Oleandomycin glycosyltransferase | / | 0.458 | |
| 4bft | ZVT | Pantothenate kinase | 2.7.1.33 | 0.458 | |
| 5bn3 | ADP | V-type ATP synthase alpha chain | / | 0.455 | |
| 5bn3 | ADP | NEQ263 | / | 0.455 | |
| 2ydb | NAP | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.454 | |
| 1i5r | HYC | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.451 | |
| 1q0z | AKA | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.450 | |
| 3b9o | FMN | Alkane monoxygenase | / | 0.450 | |
| 4a8v | 2AN | Major pollen allergen Bet v 1-J | / | 0.449 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.447 | |
| 2vn1 | FK5 | Peptidylprolyl isomerase | / | 0.446 | |
| 3pqb | VGP | Putative oxidoreductase | / | 0.446 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.445 | |
| 4m9a | FDA | Acyl-CoA dehydrogenase | / | 0.444 | |
| 1fml | RTL | Retinol dehydratase | / | 0.443 | |
| 1h60 | STR | Pentaerythritol tetranitrate reductase | / | 0.443 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.443 | |
| 3fzn | D7K | Benzoylformate decarboxylase | 4.1.1.7 | 0.443 | |
| 1fvp | FMA | Non-fluorescent flavoprotein | / | 0.441 | |
| 2zev | IPE | Geranylgeranyl pyrophosphate synthase | / | 0.441 | |
| 3ld6 | BCD | Lanosterol 14-alpha demethylase | 1.14.13.70 | 0.441 | |
| 1lwi | NAP | 3-alpha-hydroxysteroid dehydrogenase | 1.1.1.50 | 0.440 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.440 |