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 |
|---|---|---|---|
| 4eqk | MGT | Polymerase basic protein 2 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4eqk | MGT | Polymerase basic protein 2 | / | 1.000 | |
| 4nce | MGT | Polymerase basic protein 2 | / | 0.579 | |
| 5fmm | MGT | Polymerase basic protein 2 | / | 0.553 | |
| 2vqz | MGT | Polymerase basic protein 2 | / | 0.541 | |
| 2cda | NAP | Glucose 1-dehydrogenase | / | 0.491 | |
| 4cb7 | 41G | Polymerase basic protein 2 | / | 0.489 | |
| 4cb4 | MGT | Polymerase basic protein 2 | / | 0.488 | |
| 4es5 | MGT | Polymerase basic protein 2 | / | 0.484 | |
| 3e34 | ED1 | Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha | / | 0.479 | |
| 3e34 | ED1 | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.479 | |
| 3zv7 | NHG | Acetylcholinesterase | 3.1.1.7 | 0.476 | |
| 2qim | ZEA | Class 10 plant pathogenesis-related protein | / | 0.473 | |
| 4cb5 | 93G | Polymerase basic protein 2 | / | 0.471 | |
| 4dz5 | NAP | Aldo-keto reductase family 1 member C3 | / | 0.471 | |
| 1dx6 | GNT | Acetylcholinesterase | 3.1.1.7 | 0.470 | |
| 1h22 | E10 | Acetylcholinesterase | 3.1.1.7 | 0.470 | |
| 4cb6 | 29R | Polymerase basic protein 2 | / | 0.470 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.470 | |
| 1i5r | HYC | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.468 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.466 | |
| 2qf2 | GDP | Phosphoenolpyruvate carboxykinase, cytosolic [GTP] | 4.1.1.32 | 0.464 | |
| 1q84 | TZ4 | Acetylcholinesterase | 3.1.1.7 | 0.462 | |
| 1s1r | NAP | Aldo-keto reductase family 1 member C3 | / | 0.461 | |
| 1u65 | CP0 | Acetylcholinesterase | 3.1.1.7 | 0.461 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.461 | |
| 4a83 | DXC | Major pollen allergen Bet v 1-A | / | 0.461 | |
| 1q20 | PLO | Sulfotransferase family cytosolic 2B member 1 | 2.8.2.2 | 0.459 | |
| 3s8p | SAM | Histone-lysine N-methyltransferase KMT5B | 2.1.1.43 | 0.458 | |
| 1vkg | CRI | Histone deacetylase 8 | 3.5.1.98 | 0.455 | |
| 4a81 | DXC | Major pollen allergen Bet v 1-A | / | 0.455 | |
| 4mrm | 2BY | Gamma-aminobutyric acid type B receptor subunit 1 | / | 0.455 | |
| 1w4l | GL8 | Acetylcholinesterase | 3.1.1.7 | 0.454 | |
| 2cek | N8T | Acetylcholinesterase | 3.1.1.7 | 0.454 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.453 | |
| 1zw9 | H64 | ATP-dependent molecular chaperone HSP82 | / | 0.453 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.453 | |
| 2zyn | BCD | Periplasmic binding protein | / | 0.451 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 1mue | CDD | Prothrombin | 3.4.21.5 | 0.450 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.450 | |
| 4nv1 | 0FX | Formyl transferase | / | 0.450 | |
| 2il2 | LIX | Renin | 3.4.23.15 | 0.449 | |
| 2yye | APC | Selenide, water dikinase | 2.7.9.3 | 0.449 | |
| 2xlp | NAP | Putative flavin-containing monooxygenase | / | 0.448 | |
| 3jpu | TY4 | Transcriptional activator protein LasR | / | 0.448 | |
| 2rqf | JH3 | Hemolymph juvenile hormone binding protein | / | 0.447 | |
| 2z4w | 749 | Geranylgeranyl pyrophosphate synthase | / | 0.447 | |
| 3dop | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.447 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.447 | |
| 4a2z | VIQ | Glycylpeptide N-tetradecanoyltransferase | / | 0.447 | |
| 4zow | CLM | Multidrug transporter MdfA | / | 0.447 | |
| 1w76 | GNT | Acetylcholinesterase | 3.1.1.7 | 0.446 | |
| 2xuh | TZ4 | Acetylcholinesterase | 3.1.1.7 | 0.445 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.445 | |
| 4arb | C57 | Acetylcholinesterase | 3.1.1.7 | 0.445 | |
| 4e0u | 0MV | Cyclic dipeptide N-prenyltransferase | / | 0.445 | |
| 4ocp | ADP | N-acetylhexosamine 1-kinase | 2.7.1.162 | 0.445 | |
| 4ozt | P1A | Ecdysone receptor, putative | / | 0.445 | |
| 2a58 | RBF | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.444 | |
| 2h3w | HC5 | Carnitine O-acetyltransferase | 2.3.1.7 | 0.443 | |
| 2w6c | BM4 | Acetylcholinesterase | 3.1.1.7 | 0.443 | |
| 3fcj | FAD | Nitroalkane oxidase | 1.7.3.1 | 0.443 | |
| 1cjk | FOK | Adenylate cyclase type 2 | / | 0.442 | |
| 1cjk | FOK | Adenylate cyclase type 5 | / | 0.442 | |
| 2g1r | 3IG | Renin | 3.4.23.15 | 0.442 | |
| 2i4j | DRJ | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 3dy8 | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 3jqp | A2P | Ferredoxin--NADP reductase, apicoplast | / | 0.442 | |
| 4wx2 | F6F | Tryptophan synthase alpha chain | / | 0.442 | |
| 4wx2 | F6F | Tryptophan synthase beta chain | 4.2.1.20 | 0.442 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 3af1 | GDP | Pantothenate kinase | 2.7.1.33 | 0.441 | |
| 3aos | JH2 | Hemolymph juvenile hormone binding protein | / | 0.441 | |
| 4ara | C56 | Acetylcholinesterase | 3.1.1.7 | 0.441 | |
| 4ey6 | GNT | Acetylcholinesterase | 3.1.1.7 | 0.441 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.440 | |
| 1cjt | FOK | Adenylate cyclase type 2 | / | 0.440 | |
| 1cjt | FOK | Adenylate cyclase type 5 | / | 0.440 | |
| 4b66 | NAP | L-ornithine N(5)-monooxygenase | / | 0.440 | |
| 4e5y | NDP | GDP-L-fucose synthase | 1.1.1.271 | 0.440 | |
| 4rn6 | 15U | Prothrombin | 3.4.21.5 | 0.440 |