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 |
|---|---|---|---|
| 3zhb | NAP | Putative dehydrogenase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3zhb | NAP | Putative dehydrogenase | / | 1.000 | |
| 1jip | KTN | 6-deoxyerythronolide B hydroxylase | / | 0.478 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.475 | |
| 2ft9 | CHD | Fatty acid-binding protein 2, liver | / | 0.473 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.473 | |
| 4ipw | 1G7 | Mycocyclosin synthase | 1.14.21.9 | 0.467 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 0.466 | |
| 5eio | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.466 | |
| 3u9e | COA | Lmo1369 protein | / | 0.465 | |
| 2a92 | NAI | L-lactate dehydrogenase | / | 0.462 | |
| 3to3 | ATP | Petrobactin biosynthesis protein AsbB | / | 0.462 | |
| 4uym | VOR | 14-alpha sterol demethylase Cyp51B | / | 0.462 | |
| 4yao | FMN | NADPH--cytochrome P450 reductase | / | 0.462 | |
| 3te5 | NAI | 5'-AMP-activated protein kinase subunit gamma | / | 0.461 | |
| 4ips | 1G4 | Mycocyclosin synthase | 1.14.21.9 | 0.461 | |
| 4p63 | NAD | Probable deoxyhypusine synthase | 2.5.1.46 | 0.461 | |
| 1psa | 0ZL | Pepsin A | 3.4.23.1 | 0.457 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.457 | |
| 4cvm | ANP | UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase | / | 0.457 | |
| 3zuy | TCH | Transporter | / | 0.456 | |
| 4g6g | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.456 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.455 | |
| 4f5y | C2E | Stimulator of interferon genes protein | / | 0.455 | |
| 4oqy | NDP | (S)-imine reductase | / | 0.454 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.453 | |
| 2o4c | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.453 | |
| 4nwz | FAD | FAD-dependent pyridine nucleotide-disulfide oxidoreductase | / | 0.453 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.452 | |
| 2ekl | NAD | D-3-phosphoglycerate dehydrogenase | / | 0.452 | |
| 4rnu | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.452 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.450 | |
| 4g7g | VFV | Lanosterol 14-alpha-demethylase | / | 0.450 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.449 | |
| 3muo | ZPR | Prolyl endopeptidase | / | 0.449 | |
| 4tqg | NDP | Putative dTDP-d-glucose 4 6-dehydratase | / | 0.449 | |
| 5a9s | NAP | Putative dehydrogenase | / | 0.449 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.448 | |
| 3oew | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.448 | |
| 3qe2 | FMN | NADPH--cytochrome P450 reductase | / | 0.448 | |
| 1p31 | EPU | UDP-N-acetylmuramate--L-alanine ligase | 6.3.2.8 | 0.447 | |
| 2f7x | 4EA | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.447 | |
| 2iyf | ERY | Oleandomycin glycosyltransferase | 2.4.1 | 0.447 | |
| 3a3g | DLZ | Lumazine protein | / | 0.447 | |
| 3kb1 | ADP | Iron-sulfur cluster carrier protein | / | 0.447 | |
| 2dfv | NAD | L-threonine 3-dehydrogenase | / | 0.446 | |
| 2ohv | NHL | Glutamate racemase | / | 0.446 | |
| 4q73 | FAD | Bifunctional protein PutA | / | 0.446 | |
| 4v2g | ITC | Tetracycline repressor protein class D | / | 0.446 | |
| 4wri | OKA | Okadaic acid binding protein 2-alpha | / | 0.446 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.445 | |
| 3of2 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.445 | |
| 4g9k | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.445 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.445 | |
| 1gco | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.444 | |
| 2eix | FAD | NADH-cytochrome b5 reductase | / | 0.444 | |
| 2fy4 | COA | Choline O-acetyltransferase | 2.3.1.6 | 0.444 | |
| 3b6z | CO7 | Enoyl reductase LovC | 1 | 0.444 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.444 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 0.443 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.443 | |
| 4ccq | FAD | Thioredoxin reductase | / | 0.443 | |
| 1hdc | CBO | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.442 | |
| 2g1n | 1IG | Renin | 3.4.23.15 | 0.442 | |
| 3gob | HXX | DdmC | / | 0.442 | |
| 3kxw | 1ZZ | Saframycin Mx1 synthetase B | / | 0.442 | |
| 3r9u | FAD | Thioredoxin reductase | / | 0.442 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 4g74 | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.441 | |
| 4gav | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.441 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.441 | |
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA | / | 0.441 | |
| 1rb2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 2ejv | NAD | L-threonine 3-dehydrogenase | / | 0.440 | |
| 2y3s | TIR | TamL | / | 0.440 | |
| 3a1n | NAD | NDP-sugar epimerase | / | 0.440 | |
| 3h3t | 16H | Collagen type IV alpha-3-binding protein | / | 0.440 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.440 | |
| 3kpk | FAD | Sulfide-quinone reductase | / | 0.440 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.440 | |
| 4e5y | NDP | GDP-L-fucose synthase | 1.1.1.271 | 0.440 |