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 |
|---|---|---|---|
| 2mse | GNP | MHC class I alpha chain |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2mse | GNP | MHC class I alpha chain | / | 1.000 | |
| 2msd | GNP | MHC class I alpha chain | / | 0.596 | |
| 3eks | CY9 | Actin-5C | / | 0.505 | |
| 1q6t | 600 | Tyrosine-protein phosphatase non-receptor type 1 | 3.1.3.48 | 0.476 | |
| 2ob0 | ACO | N-alpha-acetyltransferase 50 | / | 0.467 | |
| 3k7t | FAD | 6-hydroxy-L-nicotine oxidase | / | 0.464 | |
| 4h8a | NAI | Ureidoglycolate dehydrogenase (NAD(+)) | 1.1.1.350 | 0.462 | |
| 1g63 | FMN | Epidermin decarboxylase | 4.1.1 | 0.459 | |
| 3eku | CY9 | Actin-5C | / | 0.459 | |
| 4nwz | FAD | FAD-dependent pyridine nucleotide-disulfide oxidoreductase | / | 0.459 | |
| 1f8w | FAD | NADH peroxidase | 1.11.1.1 | 0.458 | |
| 4dpf | 0LG | Beta-secretase 1 | 3.4.23.46 | 0.456 | |
| 1m7b | GTP | Rho-related GTP-binding protein RhoE | / | 0.455 | |
| 2v13 | C40 | Renin | 3.4.23.15 | 0.455 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.455 | |
| 2psw | COA | N-alpha-acetyltransferase 50 | / | 0.454 | |
| 2rge | GNP | GTPase HRas | / | 0.454 | |
| 3b4y | F42 | F420-dependent glucose-6-phosphate dehydrogenase | / | 0.454 | |
| 3k9u | ACO | Spermidine N(1)-acetyltransferase | / | 0.454 | |
| 3pqb | VGP | Putative oxidoreductase | / | 0.454 | |
| 4dsn | GCP | GTPase KRas | / | 0.454 | |
| 1joa | FAD | NADH peroxidase | 1.11.1.1 | 0.453 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.453 | |
| 3vye | VYE | Renin | 3.4.23.15 | 0.453 | |
| 4d89 | BXD | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 1q6s | 214 | Tyrosine-protein phosphatase non-receptor type 1 | 3.1.3.48 | 0.452 | |
| 3suf | SUE | Polyprotein | / | 0.452 | |
| 3lpj | Z75 | Beta-secretase 1 | 3.4.23.46 | 0.451 | |
| 4lxk | 1YT | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 1zc4 | GNP | Ras-related protein Ral-A | / | 0.448 | |
| 3duy | AFJ | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 3lpi | Z74 | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 1zc3 | GNP | Ras-related protein Ral-A | / | 0.447 | |
| 2tps | TPS | Thiamine-phosphate synthase | / | 0.447 | |
| 3vg1 | 0GT | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 5dbf | NDP | Iridoid synthase | 1.3.1.99 | 0.447 | |
| 3em0 | CHD | Fatty acid-binding protein 6, ileal (gastrotropin) | / | 0.446 | |
| 4k9n | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.446 | |
| 3af1 | GDP | Pantothenate kinase | 2.7.1.33 | 0.445 | |
| 3vwd | ACO | Alpha-tubulin N-acetyltransferase 1 | / | 0.445 | |
| 1mr9 | ACO | Streptogramin A acetyltransferase | 2.3.1 | 0.444 | |
| 1p8d | CO1 | Oxysterols receptor LXR-beta | / | 0.444 | |
| 3dhe | AND | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.444 | |
| 3k7m | FAD | 6-hydroxy-L-nicotine oxidase | / | 0.444 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.444 | |
| 4hur | ACO | Virginiamycin A acetyltransferase | 2.3.1 | 0.444 | |
| 1f0x | FAD | D-lactate dehydrogenase | 1.1.1.28 | 0.443 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.443 | |
| 1xtr | GNP | GTP-binding protein Rheb | / | 0.443 | |
| 4h80 | 04T | Aldehyde dehydrogenase, dimeric NADP-preferring | / | 0.443 | |
| 4kcf | AKM | FAD-dependent oxidoreductase | / | 0.443 | |
| 5dbg | NAD | Iridoid synthase | 1.3.1.99 | 0.443 | |
| 5epo | TUD | 7-alpha-hydroxysteroid deydrogenase | / | 0.443 | |
| 3m9v | TYD | FAD-dependent oxidoreductase | / | 0.442 | |
| 1siq | FAD | Glutaryl-CoA dehydrogenase, mitochondrial | 1.3.8.6 | 0.441 | |
| 3lpk | Z76 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 3te4 | ACO | Dopamine N-acetyltransferase | / | 0.441 | |
| 3vfq | AR6 | Poly [ADP-ribose] polymerase 14 | 2.4.2.30 | 0.441 | |
| 1hdc | CBO | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.440 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.440 | |
| 3mjh | GTP | Ras-related protein Rab-5A | / | 0.440 | |
| 3ohf | 3HF | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3veu | 0GO | Beta-secretase 1 | 3.4.23.46 | 0.440 |