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 |
|---|---|---|---|
| 1xrp | PRO_LEU_GLY_GLY | Proline iminopeptidase | 3.4.11.5 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1xrp | PRO_LEU_GLY_GLY | Proline iminopeptidase | 3.4.11.5 | 1.000 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.492 | |
| 3own | 3OW | Renin | 3.4.23.15 | 0.477 | |
| 1lf2 | R37 | Plasmepsin-2 | 3.4.23.39 | 0.475 | |
| 3akz | GSU | Glutamate--tRNA ligase 2 | / | 0.467 | |
| 2v16 | C47 | Renin | 3.4.23.15 | 0.464 | |
| 2oc4 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.458 | |
| 2is0 | I03 | Beta-secretase 1 | 3.4.23.46 | 0.456 | |
| 2ntr | L00 | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 4ewo | 996 | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 2g24 | 7IG | Renin | 3.4.23.15 | 0.451 | |
| 2irz | I02 | Beta-secretase 1 | 3.4.23.46 | 0.451 | |
| 4h3j | 10W | Beta-secretase 1 | 3.4.23.46 | 0.451 | |
| 1r2j | FAD | FkbI | / | 0.450 | |
| 2xlr | FAD | Putative flavin-containing monooxygenase | / | 0.450 | |
| 3udq | 09E | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.449 | |
| 2fxd | DR7 | Pol polyprotein | / | 0.449 | |
| 5d5a | CAU | Beta-2 adrenergic receptor | / | 0.449 | |
| 1cg6 | MTA | S-methyl-5'-thioadenosine phosphorylase | / | 0.448 | |
| 3isj | A8D | Pantothenate synthetase | 6.3.2.1 | 0.448 | |
| 2g20 | L1A | Renin | 3.4.23.15 | 0.447 | |
| 3coy | 53H | Pantothenate synthetase | 6.3.2.1 | 0.447 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.447 | |
| 4exg | 916 | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 4h3g | 10Q | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 2g26 | 3LG | Renin | 3.4.23.15 | 0.446 | |
| 2v13 | C40 | Renin | 3.4.23.15 | 0.446 | |
| 2vnm | CM8 | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 3oad | LPO | Renin | 3.4.23.15 | 0.446 | |
| 1vbn | YSA | Tyrosine--tRNA ligase | 6.1.1.1 | 0.445 | |
| 4frk | DWD | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 1xs7 | MMI | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 2il2 | LIX | Renin | 3.4.23.15 | 0.444 | |
| 2ph6 | 712 | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 3udj | 092 | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 4h3f | 10O | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 4y3q | F02 | Endothiapepsin | 3.4.23.22 | 0.444 | |
| 3qbh | QBH | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 4l7g | 1W0 | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 4zzi | 1NS | NAD-dependent protein deacetylase sirtuin-1 | 3.5.1 | 0.442 | |
| 2wf4 | ZY4 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 3apw | DP0 | Alpha-1-acid glycoprotein 2 | / | 0.441 | |
| 3lfm | 3DT | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.441 | |
| 4a81 | DXC | Major pollen allergen Bet v 1-A | / | 0.441 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 1nuu | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.440 | |
| 2fs4 | PZ1 | Renin | 3.4.23.15 | 0.440 | |
| 2qta | TDP | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.440 | |
| 2xpu | TDC | Tetracycline repressor protein class D | / | 0.440 |