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 |
|---|---|---|---|
| 3gbu | ATP | Uncharacterized sugar kinase PH1459 | 2.7.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3gbu | ATP | Uncharacterized sugar kinase PH1459 | 2.7.1 | 1.000 | |
| 3lki | ATP | Fructokinase | / | 0.557 | |
| 3ih0 | ANP | Uncharacterized sugar kinase PH1459 | 2.7.1 | 0.506 | |
| 5c3y | AN2 | Ribokinase | / | 0.503 | |
| 2aa0 | MTP | Adenosine kinase | 2.7.1.20 | 0.494 | |
| 3nbv | ANP | Ketohexokinase | / | 0.489 | |
| 1gqt | ACP | Ribokinase | / | 0.483 | |
| 5c3z | ACP | Ribokinase | / | 0.483 | |
| 1rfv | ADP | Pyridoxal kinase | 2.7.1.35 | 0.482 | |
| 2giv | ACO | Histone acetyltransferase KAT8 | / | 0.479 | |
| 3fhy | ATP | Pyridoxal kinase | 2.7.1.35 | 0.475 | |
| 2yxu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.467 | |
| 1rfu | ADP | Pyridoxal kinase | 2.7.1.35 | 0.466 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.465 | |
| 1ppj | ANY | Cytochrome b | / | 0.463 | |
| 2hw1 | ANP | Ketohexokinase | / | 0.461 | |
| 4e8y | IHA | D-beta-D-heptose 7-phosphate kinase | / | 0.461 | |
| 1nyt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.460 | |
| 2ou2 | ACO | Histone acetyltransferase KAT5 | / | 0.458 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.458 | |
| 2p83 | MR0 | Beta-secretase 1 | 3.4.23.46 | 0.455 | |
| 3cid | 318 | Beta-secretase 1 | 3.4.23.46 | 0.452 | |
| 4qi5 | FAD | Cellobiose dehydrogenase | / | 0.452 | |
| 4lj6 | ACP | Chaperone protein ClpB | / | 0.451 | |
| 5c41 | ACP | Ribokinase | / | 0.451 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.450 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.450 | |
| 5dp2 | NAP | CurF | / | 0.450 | |
| 4yxm | 2BA | DNA integrity scanning protein DisA | / | 0.449 | |
| 2y0m | ACO | Histone acetyltransferase KAT8 | / | 0.448 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.447 | |
| 2eba | FAD | Putative glutaryl-CoA dehydrogenase | / | 0.447 | |
| 4bkz | 1WS | Maternal embryonic leucine zipper kinase | 2.7.11.1 | 0.446 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.445 | |
| 3hyo | ADP | Pyridoxal kinase | / | 0.445 | |
| 3lpk | Z76 | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 4a0m | NAD | Betaine aldehyde dehydrogenase, chloroplastic | 1.2.1.8 | 0.445 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.444 | |
| 1mjb | ACO | Histone acetyltransferase ESA1 | / | 0.443 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 3keu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.443 | |
| 2xaa | NAD | Secondary alcohol dehydrogenase | / | 0.442 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.442 | |
| 3to6 | LYS_CMC | Histone acetyltransferase ESA1 | / | 0.442 | |
| 1ma0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.441 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.441 | |
| 4xf7 | ACP | Carbohydrate/pyrimidine kinase, PfkB family | / | 0.441 | |
| 1mj9 | COA | Histone acetyltransferase ESA1 | / | 0.440 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3ajr | NAD | NDP-sugar epimerase | / | 0.440 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.440 | |
| 4eud | COA | Succinyl-CoA:acetate CoA-transferase | / | 0.440 | |
| 4qi4 | FAD | Cellobiose dehydrogenase | / | 0.440 |