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 |
|---|---|---|---|
| 2bxq | IMN | Serum albumin |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2bxq | IMN | Serum albumin | / | 1.000 | |
| 3b9l | AZZ | Serum albumin | / | 0.719 | |
| 2xvv | 9DN | Serum albumin | / | 0.709 | |
| 2bxm | IMN | Serum albumin | / | 0.661 | |
| 2xvw | 9NR | Serum albumin | / | 0.608 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.497 | |
| 3dhe | AND | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.491 | |
| 2hrc | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.488 | |
| 3dd1 | 25D | Glycogen phosphorylase, liver form | 2.4.1.1 | 0.478 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.476 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.474 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.473 | |
| 3dyl | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.468 | |
| 4xsv | C5P | Ethanolamine-phosphate cytidylyltransferase | 2.7.7.14 | 0.467 | |
| 3pqb | VGP | Putative oxidoreductase | / | 0.466 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.465 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.464 | |
| 2qd3 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.463 | |
| 4jqh | 1MF | Alr2278 protein | / | 0.463 | |
| 4nmd | FDA | Bifunctional protein PutA | / | 0.463 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.462 | |
| 4kla | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.462 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 0.459 | |
| 5hs1 | VOR | Lanosterol 14-alpha demethylase | / | 0.459 | |
| 3mdm | FJZ | Cholesterol 24-hydroxylase | / | 0.457 | |
| 3dyq | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.456 | |
| 1phh | FAD | p-hydroxybenzoate hydroxylase | / | 0.455 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.455 | |
| 4g2l | 0WL | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.455 | |
| 1fml | RTL | Retinol dehydratase | / | 0.454 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.454 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.454 | |
| 3mg3 | ECH | Orange carotenoid-binding protein | / | 0.454 | |
| 1b2l | NDC | Alcohol dehydrogenase | 1.1.1.1 | 0.453 | |
| 2ddo | ATP | Pyridoxine/pyridoxal/pyridoxamine kinase | / | 0.453 | |
| 3jpu | TY4 | Transcriptional activator protein LasR | / | 0.451 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 4wdb | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.451 | |
| 1cju | FOK | Adenylate cyclase type 2 | / | 0.450 | |
| 1cju | FOK | Adenylate cyclase type 5 | / | 0.450 | |
| 1x8l | OXR | Retinol dehydratase | / | 0.449 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.448 | |
| 3lfm | 3DT | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.448 | |
| 4e37 | NDP | Catalase | 1.11.1.6 | 0.448 | |
| 5cpb | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.448 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.447 | |
| 5a3b | APR | SIR2 family protein | / | 0.447 | |
| 4euf | NAD | Trans-2-enoyl-CoA reductase [NADH] | / | 0.446 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.445 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.445 | |
| 1qxl | FR8 | Adenosine deaminase | 3.5.4.4 | 0.445 | |
| 1qyx | ASD | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.445 | |
| 2iod | MYC | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.445 | |
| 3c1t | MYC | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.445 | |
| 3hu2 | AGS | Transitional endoplasmic reticulum ATPase | 3.6.4.6 | 0.445 | |
| 3ozd | 4CT | S-methyl-5'-thioadenosine phosphorylase | / | 0.445 | |
| 4a83 | DXC | Major pollen allergen Bet v 1-A | / | 0.445 | |
| 4iah | 1DX | Alr2278 protein | / | 0.445 | |
| 1mp0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.444 | |
| 1zg3 | 2HI | Isoflavone 4'-O-methyltransferase | / | 0.444 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.444 | |
| 3isj | A8D | Pantothenate synthetase | 6.3.2.1 | 0.444 | |
| 3ivg | FG5 | Pantothenate synthetase | 6.3.2.1 | 0.444 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.444 | |
| 3keu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.444 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 4x7w | MVI | Mycinamicin III 3''-O-methyltransferase | 2.1.1.237 | 0.444 | |
| 5dp2 | NAP | CurF | / | 0.444 | |
| 1ay0 | TPP | Transketolase 1 | 2.2.1.1 | 0.443 | |
| 1e7a | PFL | Serum albumin | / | 0.443 | |
| 1fm7 | DFV | Chalcone--flavonone isomerase 1 | 5.5.1.6 | 0.443 | |
| 4jlk | 1NO | Deoxycytidine kinase | 2.7.1.74 | 0.443 | |
| 2ibz | UQ6 | Cytochrome b | / | 0.442 | |
| 2pnj | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.442 | |
| 3jun | AKD | Phenazine biosynthesis protein A/B | / | 0.442 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 3nmp | PYV | Abscisic acid receptor PYL2 | / | 0.442 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.442 | |
| 4eqs | COA | Coenzyme A disulfide reductase | / | 0.442 | |
| 1cjk | FOK | Adenylate cyclase type 2 | / | 0.441 | |
| 1cjk | FOK | Adenylate cyclase type 5 | / | 0.441 | |
| 2rqf | JH3 | Hemolymph juvenile hormone binding protein | / | 0.441 | |
| 3d7k | D7K | Benzaldehyde lyase | / | 0.441 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.440 | |
| 1g28 | FMN | PHY3 | / | 0.440 | |
| 1jg0 | DDT | Thymidylate synthase | / | 0.440 | |
| 1teh | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.440 | |
| 1u1g | BBB | Uridine phosphorylase | 2.4.2.3 | 0.440 | |
| 2feu | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.440 | |
| 2j3j | HC4 | NADPH-dependent oxidoreductase 2-alkenal reductase | 1.3.1.74 | 0.440 | |
| 2yyi | FAD | 4-hydroxyphenylacetate 3-monooxygenase oxygenase component | 1.14.14.9 | 0.440 | |
| 3akm | 11D | Fatty acid-binding protein, intestinal | / | 0.440 | |
| 3g45 | 988 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.440 | |
| 3ibq | ATP | Pyridoxal kinase | / | 0.440 | |
| 3k4n | FAD | Pyranose 2-oxidase | / | 0.440 |