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 |
|---|---|---|---|
| 1d7a | AIR | N5-carboxyaminoimidazole ribonucleotide mutase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1d7a | AIR | N5-carboxyaminoimidazole ribonucleotide mutase | / | 1.000 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.462 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.462 | |
| 3s1d | ZIR | Cytokinin dehydrogenase 1 | 1.5.99.12 | 0.462 | |
| 4jx1 | CAH | Camphor 5-monooxygenase | 1.14.15.1 | 0.461 | |
| 3had | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.460 | |
| 5b1y | NDP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.460 | |
| 4ead | 0NP | Thymidine phosphorylase | 2.4.2.4 | 0.458 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.457 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 4dbz | NDP | Putative ketoacyl reductase | 1.3.1 | 0.456 | |
| 2wat | COA | Fatty acid synthase subunit alpha | 2.3.1.86 | 0.455 | |
| 3tjz | GNP | ADP-ribosylation factor 1 | / | 0.455 | |
| 2qbo | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.454 | |
| 2ym1 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.454 | |
| 3l63 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 4dc0 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.452 | |
| 4du8 | 2P0 | Mevalonate diphosphate decarboxylase | / | 0.452 | |
| 4n6h | EJ4 | Delta-type opioid receptor | / | 0.452 | |
| 1obb | NAD | Alpha-glucosidase | 3.2.1.20 | 0.451 | |
| 4ge7 | 0K5 | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.451 | |
| 2ejv | NAD | L-threonine 3-dehydrogenase | / | 0.450 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.450 | |
| 3zcn | ATP | Adenosine monophosphate-protein transferase SoFic | 2.7.7.n1 | 0.450 | |
| 4g7g | VFV | Lanosterol 14-alpha-demethylase | / | 0.450 | |
| 4q73 | FAD | Bifunctional protein PutA | / | 0.450 | |
| 4v2g | ITC | Tetracycline repressor protein class D | / | 0.450 | |
| 2vwq | NAP | Glucose 1-dehydrogenase | / | 0.449 | |
| 1xe6 | 5FP | Plasmepsin-2 | 3.4.23.39 | 0.448 | |
| 3uyl | TYD | Probable NDP-rhamnosyltransferase | / | 0.448 | |
| 4dja | FAD | (6-4) photolyase | / | 0.448 | |
| 4m83 | ERY | Oleandomycin glycosyltransferase | 2.4.1 | 0.448 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.447 | |
| 2gcg | NDP | Glyoxylate reductase/hydroxypyruvate reductase | 1.1.1.79 | 0.447 | |
| 1h73 | ANP | Homoserine kinase | 2.7.1.39 | 0.446 | |
| 1hdc | CBO | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.446 | |
| 2nry | STU | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.446 | |
| 2rcy | NAP | Pyrroline-5-carboxylate reductase | / | 0.446 | |
| 2zba | ZBA | Trichothecene 3-O-acetyltransferase | / | 0.446 | |
| 3vdq | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.446 | |
| 5a9s | NAP | Putative dehydrogenase | / | 0.446 | |
| 2o4c | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.445 | |
| 2zsh | GA3 | Gibberellin receptor GID1A | 3 | 0.445 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 4wec | NAD | Short chain dehydrogenase | / | 0.445 | |
| 4xr9 | NAD | CalS8 | / | 0.445 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.444 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 2cv2 | GSU | Glutamate--tRNA ligase | 6.1.1.17 | 0.444 | |
| 3ox4 | NAD | Alcohol dehydrogenase 2 | 1.1.1.1 | 0.444 | |
| 4h4q | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.444 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.444 | |
| 4xz3 | COA | Acyl-CoA synthetase (NDP forming) | / | 0.444 | |
| 1cul | FOK | Adenylate cyclase type 2 | / | 0.443 | |
| 1cul | FOK | Adenylate cyclase type 5 | / | 0.443 | |
| 1pjc | NAD | Alanine dehydrogenase | / | 0.443 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.443 | |
| 2hfu | MEV | Mevalonate kinase | / | 0.443 | |
| 2nru | T12 | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.443 | |
| 5d3q | GDP | Dynamin-1 | 3.6.5.5 | 0.443 | |
| 1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.442 | |
| 1nlm | UD1 | UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase | / | 0.442 | |
| 1uda | UFG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.442 | |
| 2ft9 | CHD | Fatty acid-binding protein 2, liver | / | 0.442 | |
| 3dm5 | GDP | Signal recognition particle 54 kDa protein | / | 0.442 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.442 | |
| 4qxq | 1YE | Stimulator of interferon genes protein | / | 0.442 | |
| 5k5z | ANP | Uncharacterized protein | / | 0.442 | |
| 1bvr | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.441 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.441 | |
| 3oey | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 4trn | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 2bif | ANP | 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 4 | 2.7.1.105 | 0.440 | |
| 2fj1 | CTC | Tetracycline repressor protein class D | / | 0.440 | |
| 2v2q | NVG | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.440 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.440 | |
| 3u9e | COA | Lmo1369 protein | / | 0.440 | |
| 4r20 | AER | Cytochrome P450 family 17 polypeptide 2 | / | 0.440 |