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 |
|---|---|---|---|
| 3zid | GDP | Tubulin-like protein CetZ |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3zid | GDP | Tubulin-like protein CetZ | / | 1.000 | |
| 4f6r | GDP | Tubulin beta chain | / | 0.586 | |
| 4b45 | GSP | Tubulin-like protein CetZ2 | / | 0.473 | |
| 1uda | UFG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.467 | |
| 3wyc | NAP | Meso-diaminopimelate D-dehydrogenase | 1.4.1.16 | 0.465 | |
| 2c20 | NAD | UDP-glucose 4-epimerase | / | 0.461 | |
| 4b79 | NAD | Probable short-chain dehydrogenase | / | 0.460 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.454 | |
| 1gco | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.453 | |
| 2ejv | NAD | L-threonine 3-dehydrogenase | / | 0.453 | |
| 4epl | JAI | Jasmonic acid-amido synthetase JAR1 | 6.3.2 | 0.453 | |
| 4yai | NAI | C alpha-dehydrogenase | / | 0.452 | |
| 1gee | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.451 | |
| 4u3j | GTP | Tubulin beta chain | / | 0.451 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.450 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.449 | |
| 3lsm | SFD | Pyranose 2-oxidase | / | 0.449 | |
| 4ei7 | GDP | Plasmid replication protein RepX | / | 0.448 | |
| 4opg | FDA | Conserved Archaeal protein | / | 0.448 | |
| 2gh5 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.447 | |
| 3ms4 | 21N | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.447 | |
| 2q1s | NAI | Putative nucleotide sugar epimerase/ dehydratase | / | 0.446 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.446 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.445 | |
| 2rab | FAD | Glutathione amide reductase | / | 0.445 | |
| 2f3r | G5P | Guanylate kinase | 2.7.4.8 | 0.444 | |
| 5la6 | GDP | Tubulin beta-2B chain | / | 0.444 | |
| 1a9z | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.443 | |
| 2ojt | UBA | Glutamate receptor ionotropic, kainate 1 | / | 0.443 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.443 | |
| 3lpj | Z75 | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 3lsi | FAD | Pyranose 2-oxidase | / | 0.443 | |
| 3uyl | TYD | Probable NDP-rhamnosyltransferase | / | 0.443 | |
| 4exg | 916 | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.443 | |
| 1bim | 0QB | Renin | 3.4.23.15 | 0.442 | |
| 2q1t | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.442 | |
| 2ztl | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.442 | |
| 5dbf | NDP | Iridoid synthase | 1.3.1.99 | 0.442 | |
| 5e5h | 0T1 | Succinyl-CoA:acetate CoA-transferase | / | 0.442 | |
| 1dxq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 2c0c | NAP | Prostaglandin reductase 3 | 1 | 0.441 | |
| 2jkv | NAP | 6-phosphogluconate dehydrogenase, decarboxylating | 1.1.1.44 | 0.441 | |
| 3hyo | ADP | Pyridoxal kinase | / | 0.441 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.441 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.441 | |
| 4h4u | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.441 | |
| 4hwk | NAP | Sepiapterin reductase | 1.1.1.153 | 0.441 | |
| 1me6 | IVS | Plasmepsin-2 | 3.4.23.39 | 0.440 | |
| 1nvm | NAD | Acetaldehyde dehydrogenase | 1.2.1.10 | 0.440 | |
| 1xkv | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.440 | |
| 2c9z | QUE | Anthocyanidin 3-O-glucosyltransferase 2 | 2.4.1.115 | 0.440 |