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 |
|---|---|---|---|
| 4e5p | NAD | Phosphonate dehydrogenase | 1.20.1.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4e5p | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 1.000 | |
| 4ebf | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.586 | |
| 1wwk | NAD | 307aa long hypothetical phosphoglycerate dehydrogenase | / | 0.492 | |
| 4xcv | NDP | Probable hydroxyacid dehydrogenase protein | / | 0.469 | |
| 2ekl | NAD | D-3-phosphoglycerate dehydrogenase | / | 0.465 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.465 | |
| 4nxv | GDP | Mitochondrial dynamics protein MID51 | / | 0.462 | |
| 4cuk | NAI | D-lactate dehydrogenase | / | 0.457 | |
| 2cy0 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.454 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.452 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.451 | |
| 2jb4 | A14 | Isopenicillin N synthase | 1.21.3.1 | 0.451 | |
| 2p9c | NAI | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.449 | |
| 2p9e | NAI | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.448 | |
| 3oet | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.448 | |
| 4nxw | ADP | Mitochondrial dynamics protein MID51 | / | 0.447 | |
| 4oag | ADP | Mitochondrial dynamics protein MID51 | / | 0.447 | |
| 1nuq | NXX | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.446 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.446 | |
| 4geb | 0LD | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.446 | |
| 1rfv | ADP | Pyridoxal kinase | 2.7.1.35 | 0.444 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.443 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 3s1d | ZIR | Cytokinin dehydrogenase 1 | 1.5.99.12 | 0.443 | |
| 3uyl | TYD | Probable NDP-rhamnosyltransferase | / | 0.443 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 2ft9 | CHD | Fatty acid-binding protein 2, liver | / | 0.442 | |
| 3bc3 | OPT | Cathepsin L1 | 3.4.22.15 | 0.442 | |
| 4q73 | FAD | Bifunctional protein PutA | / | 0.442 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 2gv8 | NDP | Thiol-specific monooxygenase | 1.14.13 | 0.441 | |
| 3eld | SFG | Methyltransferase | / | 0.441 | |
| 4jxr | ACO | Acetyltransferase | / | 0.441 | |
| 4kzo | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.441 | |
| 5a3b | APR | SIR2 family protein | / | 0.441 | |
| 2p9g | NAI | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.440 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.440 |