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 |
|---|---|---|---|
| 11bg | U2G | Seminal ribonuclease | 3.1.27.5 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 11bg | U2G | Seminal ribonuclease | 3.1.27.5 | 1.000 | |
| 1gee | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.493 | |
| 3cid | 318 | Beta-secretase 1 | 3.4.23.46 | 0.477 | |
| 3udn | 09B | Beta-secretase 1 | 3.4.23.46 | 0.473 | |
| 3cic | 316 | Beta-secretase 1 | 3.4.23.46 | 0.471 | |
| 1gco | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.469 | |
| 4a6c | QG9 | Gag-Pol polyprotein | 3.4.23.16 | 0.464 | |
| 1rne | C60 | Renin | 3.4.23.15 | 0.462 | |
| 2y3r | TIR | TamL | / | 0.461 | |
| 1bil | 0IU | Renin | 3.4.23.15 | 0.457 | |
| 1ia3 | TQ5 | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 2irz | I02 | Beta-secretase 1 | 3.4.23.46 | 0.455 | |
| 2xy3 | DUP | SPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS | 3.6.1.23 | 0.454 | |
| 4zla | BES | Cytosol aminopeptidase | 3.4.11.1 | 0.453 | |
| 3lpk | Z76 | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.449 | |
| 2ntr | L00 | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 3vuc | HHE | Renin | 3.4.23.15 | 0.448 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.447 | |
| 4egb | NAD | dTDP-glucose 4,6-dehydratase | / | 0.447 | |
| 1n5d | NDP | Carbonyl reductase [NADPH] 1 | / | 0.446 | |
| 2a94 | AP0 | L-lactate dehydrogenase | 1.1.1.27 | 0.446 | |
| 2il2 | LIX | Renin | 3.4.23.15 | 0.446 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 3k5f | AYH | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.444 | |
| 5cno | ANP | Epidermal growth factor receptor | 2.7.10.1 | 0.444 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.443 | |
| 3inv | NDP | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.443 | |
| 3slz | 3TL | Putative gag-pro-pol polyprotein | / | 0.443 | |
| 3to3 | ATP | Petrobactin biosynthesis protein AsbB | / | 0.443 | |
| 4dpi | 0N1 | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 4nwz | FAD | FAD-dependent pyridine nucleotide-disulfide oxidoreductase | / | 0.443 | |
| 2fzw | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.442 | |
| 2wwj | Y28 | Lysine-specific demethylase 4A | / | 0.442 | |
| 3wle | NAD | (R)-specific carbonyl reductase | / | 0.442 | |
| 5kwv | ANP | Pantothenate synthetase | / | 0.442 | |
| 1xh4 | R69 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 2hq9 | FAD | Mll6688 protein | / | 0.441 | |
| 3dv5 | BAV | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 3mw9 | NAI | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.441 | |
| 3vsx | R32 | Renin | 3.4.23.15 | 0.441 | |
| 2ph6 | 712 | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3ixj | 586 | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3r7w | GNP | GTP-binding protein GTR2 | / | 0.440 |