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 |
|---|---|---|---|
| 3eya | TDP | Pyruvate dehydrogenase [ubiquinone] | 1.2.5.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3eya | TDP | Pyruvate dehydrogenase [ubiquinone] | 1.2.5.1 | 1.000 | |
| 3ey9 | TDP | Pyruvate dehydrogenase [ubiquinone] | 1.2.5.1 | 0.584 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.491 | |
| 1jsc | TPP | Acetolactate synthase catalytic subunit, mitochondrial | 2.2.1.6 | 0.485 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.484 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.474 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.473 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.469 | |
| 3gob | HXX | DdmC | / | 0.468 | |
| 5itz | LOC | Tubulin beta-2B chain | / | 0.468 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.467 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.467 | |
| 2vn0 | TDZ | Cytochrome P450 2C8 | / | 0.466 | |
| 4ge4 | 0KE | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.462 | |
| 4ib4 | ERM | 5-hydroxytryptamine receptor 2B | / | 0.462 | |
| 1dxq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.461 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.461 | |
| 3nd1 | SAH | Precorrin-6A synthase (Deacetylating) | / | 0.460 | |
| 3u9e | COA | Lmo1369 protein | / | 0.460 | |
| 1bv9 | XV6 | Gag-Pol polyprotein | 3.4.23.16 | 0.458 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.458 | |
| 1o0s | NAI | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.456 | |
| 4hbm | 0Y7 | E3 ubiquitin-protein ligase Mdm2 | 6.3.2 | 0.454 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.454 | |
| 1bw9 | NAD | Phenylalanine dehydrogenase | / | 0.452 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 1noo | CAH | Camphor 5-monooxygenase | 1.14.15.1 | 0.448 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.446 | |
| 4b7x | NAP | Probable oxidoreductase | / | 0.446 | |
| 1c70 | L75 | Protease | / | 0.445 | |
| 2w9s | TOP | Dihydrofolate reductase type 1 from Tn4003 | 1.5.1.3 | 0.445 | |
| 1eup | ASD | 6-deoxyerythronolide B hydroxylase | / | 0.444 | |
| 3opd | HIE | Heat shock protein 83 | / | 0.444 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.444 | |
| 3d0b | SNX | Heat shock protein HSP 90-alpha | / | 0.443 | |
| 3rud | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.443 | |
| 1lsj | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.442 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.442 | |
| 3wfj | NAD | 2-dehydropantoate 2-reductase | / | 0.442 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.442 | |
| 4ge7 | 0K5 | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.442 | |
| 1k6p | XN3 | Gag-Pol polyprotein | 3.4.23.16 | 0.441 | |
| 1mrw | K57 | Gag-Pol polyprotein | 3.4.23.16 | 0.441 | |
| 2avv | MK1 | Gag-Pol polyprotein | 3.4.23.16 | 0.441 | |
| 1p44 | GEQ | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.440 | |
| 2ag1 | TPP | Benzaldehyde lyase | / | 0.440 | |
| 2j5x | GSP | ADP-ribosylation factor 6 | / | 0.440 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.440 |