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 |
|---|---|---|---|
| 3o03 | NAP | Dehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3o03 | NAP | Dehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) | / | 1.000 | |
| 4dbz | NDP | Putative ketoacyl reductase | 1.3.1 | 0.510 | |
| 4hp8 | NAP | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.499 | |
| 4dc0 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.498 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.494 | |
| 3sj7 | NDP | 3-oxoacyl-(Acyl-carrier-protein) reductase, putative | / | 0.492 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.484 | |
| 4egb | NAD | dTDP-glucose 4,6-dehydratase | / | 0.482 | |
| 4eso | NAP | Putative oxidoreductase | / | 0.481 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.479 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.476 | |
| 3ruf | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.476 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.470 | |
| 3tox | NAP | Putative oxidoreductase | / | 0.470 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.470 | |
| 2ztu | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.469 | |
| 1fxs | NAP | GDP-L-fucose synthase | / | 0.468 | |
| 3te5 | NAI | 5'-AMP-activated protein kinase subunit gamma | / | 0.468 | |
| 2ag5 | NAD | 3-hydroxybutyrate dehydrogenase type 2 | / | 0.465 | |
| 2hun | NAD | 336aa long hypothetical dTDP-glucose 4,6-dehydratase | / | 0.465 | |
| 1b2l | NDC | Alcohol dehydrogenase | 1.1.1.1 | 0.463 | |
| 4uwm | FMN | 3,6-diketocamphane 1,6 monooxygenase | 1.14.13 | 0.463 | |
| 4enh | FVX | Cholesterol 24-hydroxylase | / | 0.461 | |
| 1e3s | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.460 | |
| 2y05 | NAP | Prostaglandin reductase 1 | / | 0.460 | |
| 4fj1 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.459 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.458 | |
| 4n5n | NAP | Acetoacetyl-CoA reductase | 1.1.1.36 | 0.458 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.458 | |
| 5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.458 | |
| 4gll | NAD | UDP-glucuronic acid decarboxylase 1 | 4.1.1.35 | 0.457 | |
| 1h6c | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.456 | |
| 3mpj | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.456 | |
| 5b1y | NDP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.456 | |
| 1bxk | NAD | dTDP-glucose 4,6-dehydratase 2 | / | 0.455 | |
| 1dir | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.455 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.455 | |
| 2ejv | NAD | L-threonine 3-dehydrogenase | / | 0.455 | |
| 1bsv | NDP | GDP-L-fucose synthase | / | 0.454 | |
| 1f8f | NAD | Benzyl alcohol dehydrogenase | / | 0.453 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.453 | |
| 4is3 | NAD | 3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 | 1.17.98.1 | 0.453 | |
| 3lu1 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.452 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.451 | |
| 2q1s | NAI | Putative nucleotide sugar epimerase/ dehydratase | / | 0.451 | |
| 2qn3 | F55 | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.451 | |
| 3p19 | NDP | Putative blue fluorescent protein | / | 0.451 | |
| 1zem | NAD | Xylitol dehydrogenase | / | 0.450 | |
| 2gv8 | NDP | Thiol-specific monooxygenase | 1.14.13 | 0.450 | |
| 4g9k | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.450 | |
| 4k6f | NAP | Putative Acetoacetyl-CoA reductase | / | 0.450 | |
| 3s55 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.449 | |
| 4l4x | NDP | AmphI | / | 0.449 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.449 | |
| 4wec | NAD | Short chain dehydrogenase | / | 0.449 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.448 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.448 | |
| 3ruc | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.448 | |
| 4yai | NAI | C alpha-dehydrogenase | / | 0.448 | |
| 2b4q | NAP | Rhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase | 1.1.1.100 | 0.447 | |
| 2c12 | FAD | Nitroalkane oxidase | 1.7.3.1 | 0.447 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.447 | |
| 3rfa | SAM | Dual-specificity RNA methyltransferase RlmN | / | 0.447 | |
| 3rud | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.447 | |
| 4yag | NAI | C alpha-dehydrogenase | / | 0.447 | |
| 5jsf | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.447 | |
| 1nuu | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.446 | |
| 4qec | NAP | ElxO | / | 0.446 | |
| 1kc1 | NDP | dTDP-4-dehydrorhamnose reductase | 1.1.1.133 | 0.445 | |
| 1n2s | NAI | dTDP-4-dehydrorhamnose reductase | 1.1.1.133 | 0.445 | |
| 2he5 | NDP | Aldo-keto reductase family 1 member C21 | 1.1.1 | 0.445 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.445 | |
| 2y6f | M9F | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 3k5c | 0BI | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.445 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.444 | |
| 3c1y | 2BA | DNA integrity scanning protein DisA | / | 0.444 | |
| 4r81 | FMN | Predicted NADH dehydrogenase | / | 0.444 | |
| 4yxm | 2BA | DNA integrity scanning protein DisA | / | 0.444 | |
| 5cfp | C2E | Stimulator of interferon genes protein | / | 0.444 | |
| 2giv | ACO | Histone acetyltransferase KAT8 | / | 0.443 | |
| 2wns | OMP | Uridine 5'-monophosphate synthase | 2.4.2.10 | 0.443 | |
| 1u7t | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.442 | |
| 2q1w | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.442 | |
| 2q9f | C3S | Cholesterol 24-hydroxylase | / | 0.442 | |
| 4gk3 | L87 | Ephrin type-A receptor 3 | 2.7.10.1 | 0.442 | |
| 4hbg | NDP | 3-oxoacyl-[acyl-carrier-protein] reductase | 1.1.1.100 | 0.442 | |
| 4kwh | NAP | Reductase homolog | / | 0.442 | |
| 1dbv | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.441 | |
| 2o23 | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.441 | |
| 3doc | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.441 | |
| 4nbw | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.441 | |
| 1e3e | NAI | Alcohol dehydrogenase 4 | 1.1.1.1 | 0.440 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.440 | |
| 2vna | NAP | Prostaglandin reductase 2 | 1.3.1.48 | 0.440 | |
| 2y99 | NAD | Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase | 1.3.1.56 | 0.440 | |
| 3mk6 | ACO | Pantothenate kinase 3 | 2.7.1.33 | 0.440 | |
| 3rua | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.440 | |
| 4ejm | NAP | Putative zinc-binding dehydrogenase | / | 0.440 |