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 |
|---|---|---|---|
| 5dn1 | AMZ | Phosphoribosyl isomerase A | 5.3.1.16 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 5dn1 | AMZ | Phosphoribosyl isomerase A | 5.3.1.16 | 1.000 | |
| 4tx9 | AMZ | Phosphoribosyl isomerase A | / | 0.611 | |
| 2y88 | 2ER | Phosphoribosyl isomerase A | 5.3.1.16 | 0.586 | |
| 2fxv | 5GP | Xanthine phosphoribosyltransferase | 2.4.2.22 | 0.474 | |
| 2cv2 | GSU | Glutamate--tRNA ligase | 6.1.1.17 | 0.467 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.464 | |
| 3h3q | H13 | Collagen type IV alpha-3-binding protein | / | 0.463 | |
| 3h3s | H15 | Collagen type IV alpha-3-binding protein | / | 0.463 | |
| 3h3t | 16H | Collagen type IV alpha-3-binding protein | / | 0.460 | |
| 4djh | JDC | Kappa-type opioid receptor | / | 0.460 | |
| 2y85 | 137 | Phosphoribosyl isomerase A | 5.3.1.16 | 0.459 | |
| 3fr5 | I4A | Fatty acid-binding protein, adipocyte | / | 0.459 | |
| 3ivg | FG5 | Pantothenate synthetase | 6.3.2.1 | 0.454 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.453 | |
| 4lxa | 1YS | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 2nnq | T4B | Fatty acid-binding protein, adipocyte | / | 0.452 | |
| 2oeg | UPG | UDP-glucose pyrophosphorylase | / | 0.452 | |
| 1ijj | LAR | Actin, alpha skeletal muscle | / | 0.450 | |
| 3aez | GDP | Pantothenate kinase | 2.7.1.33 | 0.448 | |
| 3a1c | ACP | Probable copper-exporting P-type ATPase A | 3.6.3.54 | 0.447 | |
| 1me6 | IVS | Plasmepsin-2 | 3.4.23.39 | 0.445 | |
| 2bf4 | FMN | NADPH--cytochrome P450 reductase | / | 0.445 | |
| 4x7v | MIV | Mycinamicin III 3''-O-methyltransferase | 2.1.1.237 | 0.444 | |
| 2wf1 | ZY1 | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 1nup | NMN | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.441 | |
| 3cin | NAD | Myo-inositol-1-phosphate synthase-related protein | / | 0.441 | |
| 2a4x | BLM | Mitomycin-binding protein | / | 0.440 | |
| 2ojt | UBA | Glutamate receptor ionotropic, kainate 1 | / | 0.440 | |
| 2qs4 | LY5 | Glutamate receptor ionotropic, kainate 1 | / | 0.440 | |
| 5esd | TDP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.440 |