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 |
|---|---|---|---|
| 1pg2 | ADN | Methionine--tRNA ligase | 6.1.1.10 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1pg2 | ADN | Methionine--tRNA ligase | 6.1.1.10 | 1.000 | |
| 1pfy | MSP | Methionine--tRNA ligase | 6.1.1.10 | 0.606 | |
| 1pg0 | MOD | Methionine--tRNA ligase | 6.1.1.10 | 0.582 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.485 | |
| 2g5w | 8PG | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.466 | |
| 2cda | NAP | Glucose 1-dehydrogenase | / | 0.464 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.460 | |
| 3cow | 52H | Pantothenate synthetase | 6.3.2.1 | 0.459 | |
| 3q44 | D50 | M1 family aminopeptidase | 3.4.11 | 0.458 | |
| 4uug | PXG | Branched-chain amino acid aminotransferase, putative | / | 0.458 | |
| 1zga | HMK | Isoflavone 4'-O-methyltransferase | / | 0.455 | |
| 3cgt | BCD | Cyclomaltodextrin glucanotransferase | 2.4.1.19 | 0.455 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.455 | |
| 1n2h | PAJ | Pantothenate synthetase | 6.3.2.1 | 0.454 | |
| 2f3e | AXQ | Beta-secretase 1 | 3.4.23.46 | 0.454 | |
| 3bv7 | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.452 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.452 | |
| 1i5r | HYC | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.451 | |
| 2iku | LIY | Renin | 3.4.23.15 | 0.451 | |
| 1foa | UD1 | Alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase | 2.4.1.101 | 0.450 | |
| 2clf | F6F | Tryptophan synthase alpha chain | / | 0.450 | |
| 2xiq | 5AD | Methylmalonyl-CoA mutase, mitochondrial | / | 0.450 | |
| 3lpi | Z74 | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 1rfv | ADP | Pyridoxal kinase | 2.7.1.35 | 0.449 | |
| 1n2i | PAJ | Pantothenate synthetase | 6.3.2.1 | 0.448 | |
| 3pbz | F02 | Endothiapepsin | 3.4.23.22 | 0.448 | |
| 3psy | RB9 | Endothiapepsin | 3.4.23.22 | 0.448 | |
| 3zki | WZV | Beta-secretase 2 | 3.4.23.45 | 0.446 | |
| 2fhj | MFN | Formylmethanofuran--tetrahydromethanopterin formyltransferase | 2.3.1.101 | 0.445 | |
| 2qs3 | UBE | Glutamate receptor ionotropic, kainate 1 | / | 0.445 | |
| 3ivc | FG4 | Pantothenate synthetase | 6.3.2.1 | 0.445 | |
| 4ttj | FMC | Purine nucleoside phosphorylase DeoD-type | / | 0.444 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.443 | |
| 4jlj | 1NM | Deoxycytidine kinase | 2.7.1.74 | 0.443 | |
| 4zea | IMI | Endothiapepsin | 3.4.23.22 | 0.443 | |
| 5c1m | CLR | Mu-type opioid receptor | / | 0.443 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.442 | |
| 2z7h | GG3 | Geranylgeranyl pyrophosphate synthase | / | 0.442 | |
| 3h3s | H15 | Collagen type IV alpha-3-binding protein | / | 0.442 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 3pke | Y10 | Methionine aminopeptidase 2 | / | 0.441 | |
| 1n77 | ATP | Glutamate--tRNA ligase | 6.1.1.17 | 0.440 | |
| 2j3q | TFL | Acetylcholinesterase | 3.1.1.7 | 0.440 | |
| 3em0 | CHD | Fatty acid-binding protein 6, ileal (gastrotropin) | / | 0.440 | |
| 4eua | COA | Succinyl-CoA:acetate CoA-transferase | / | 0.440 |