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 |
|---|---|---|---|
| 4c8g | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4c8g | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 1.000 | |
| 3iew | CTP | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.559 | |
| 3k2x | I5A | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.558 | |
| 3jvh | HHV | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.549 | |
| 3f0g | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.538 | |
| 4c8e | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.536 | |
| 3p0z | CTN | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.531 | |
| 1h48 | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.518 | |
| 1h47 | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.515 | |
| 3q8h | AO9 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.515 | |
| 1iv4 | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.513 | |
| 2uzh | CDP | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.501 | |
| 2amt | 1AA | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.494 | |
| 1gx1 | CDP | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.491 | |
| 3ke1 | 829 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.490 | |
| 4f9f | GDP | Putative glycosyltransferase | / | 0.482 | |
| 3akm | 11D | Fatty acid-binding protein, intestinal | / | 0.475 | |
| 2z6d | FMN | Phototropin-2 | 2.7.11.1 | 0.474 | |
| 3t80 | CTN | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.465 | |
| 4ki8 | ADP | 60 kDa chaperonin | / | 0.460 | |
| 1e0a | GNP | Cell division control protein 42 homolog | / | 0.459 | |
| 1j39 | UPG | DNA beta-glucosyltransferase | / | 0.454 | |
| 3nbv | ANP | Ketohexokinase | / | 0.454 | |
| 3elc | F01 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.453 | |
| 4z34 | ON7 | Lysophosphatidic acid receptor 1 | / | 0.452 | |
| 1iv2 | CDP | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.451 | |
| 2ch6 | ADP | N-acetyl-D-glucosamine kinase | 2.7.1.59 | 0.451 | |
| 2pd7 | FAD | Vivid PAS protein VVD | / | 0.451 | |
| 2z6c | FMN | Phototropin-1 | 2.7.11.1 | 0.449 | |
| 3qiy | QI1 | Botulinum neurotoxin type A | 3.4.24.69 | 0.449 | |
| 2v9j | ATP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.448 | |
| 1jsc | TPP | Acetolactate synthase catalytic subunit, mitochondrial | 2.2.1.6 | 0.447 | |
| 2i5b | ADP | Pyridoxine kinase | / | 0.446 | |
| 4fv3 | EK6 | Mitogen-activated protein kinase 1 | 2.7.11.24 | 0.445 | |
| 3umv | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.444 | |
| 2w2l | NAD | D-mandelate dehydrogenase | / | 0.443 | |
| 3d8v | UD1 | Bifunctional protein GlmU | / | 0.443 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.442 | |
| 1mb9 | ATP | Carboxyethyl-arginine beta-lactam-synthase | 6.3.3.4 | 0.442 | |
| 2vo6 | M05 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 3vcy | UD1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.441 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.440 | |
| 4hbm | 0Y7 | E3 ubiquitin-protein ligase Mdm2 | 6.3.2 | 0.440 | |
| 4ktc | 1X3 | Genome polyprotein | 3.4.21.98 | 0.440 |