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 |
|---|---|---|---|
| 2xfi | XFI | Beta-secretase 1 | 3.4.23.46 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2xfi | XFI | Beta-secretase 1 | 3.4.23.46 | 1.000 | |
| 2vj7 | VG6 | Beta-secretase 1 | 3.4.23.46 | 0.627 | |
| 2viz | VG4 | Beta-secretase 1 | 3.4.23.46 | 0.603 | |
| 2xfk | AA9 | Beta-secretase 1 | 3.4.23.46 | 0.602 | |
| 2vij | C44 | Beta-secretase 1 | 3.4.23.46 | 0.584 | |
| 2ntr | L00 | Beta-secretase 1 | 3.4.23.46 | 0.573 | |
| 2irz | I02 | Beta-secretase 1 | 3.4.23.46 | 0.568 | |
| 2is0 | I03 | Beta-secretase 1 | 3.4.23.46 | 0.568 | |
| 4gid | 0GH | Beta-secretase 1 | 3.4.23.46 | 0.567 | |
| 2vnm | CM8 | Beta-secretase 1 | 3.4.23.46 | 0.565 | |
| 2b8l | 5HA | Beta-secretase 1 | 3.4.23.46 | 0.557 | |
| 2xfj | VG5 | Beta-secretase 1 | 3.4.23.46 | 0.547 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.543 | |
| 3ixj | 586 | Beta-secretase 1 | 3.4.23.46 | 0.542 | |
| 2ph6 | 712 | Beta-secretase 1 | 3.4.23.46 | 0.541 | |
| 3i25 | MV7 | Beta-secretase 1 | 3.4.23.46 | 0.541 | |
| 2ph8 | 35A | Beta-secretase 1 | 3.4.23.46 | 0.539 | |
| 2p8h | MY9 | Beta-secretase 1 | 3.4.23.46 | 0.534 | |
| 2vie | VG0 | Beta-secretase 1 | 3.4.23.46 | 0.532 | |
| 3cid | 318 | Beta-secretase 1 | 3.4.23.46 | 0.531 | |
| 2vj9 | VG7 | Beta-secretase 1 | 3.4.23.46 | 0.528 | |
| 2b8v | 3BN | Beta-secretase 1 | 3.4.23.46 | 0.522 | |
| 4ke1 | 1R6 | Beta-secretase 1 | 3.4.23.46 | 0.509 | |
| 1w51 | L01 | Beta-secretase 1 | 3.4.23.46 | 0.495 | |
| 3te5 | NAI | 5'-AMP-activated protein kinase subunit gamma | / | 0.472 | |
| 3own | 3OW | Renin | 3.4.23.15 | 0.467 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.466 | |
| 2i4q | UA4 | Renin | 3.4.23.15 | 0.464 | |
| 3gqv | NAP | Enoyl reductase LovC | 1 | 0.464 | |
| 2ojt | UBA | Glutamate receptor ionotropic, kainate 1 | / | 0.455 | |
| 2iko | 7IG | Renin | 3.4.23.15 | 0.453 | |
| 1nuu | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.452 | |
| 1u8v | FAD | 4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase | / | 0.452 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.451 | |
| 1kbo | 340 | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.450 | |
| 4i1c | 1BE | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 2fxv | 5GP | Xanthine phosphoribosyltransferase | 2.4.2.22 | 0.449 | |
| 2iku | LIY | Renin | 3.4.23.15 | 0.449 | |
| 1bil | 0IU | Renin | 3.4.23.15 | 0.448 | |
| 1psa | 0ZL | Pepsin A | 3.4.23.1 | 0.448 | |
| 2g1n | 1IG | Renin | 3.4.23.15 | 0.447 | |
| 3d91 | REM | Renin | 3.4.23.15 | 0.447 | |
| 4blr | UTP | NTPase P4 | / | 0.447 | |
| 1f8f | NAD | Benzyl alcohol dehydrogenase | / | 0.445 | |
| 2qs3 | UBE | Glutamate receptor ionotropic, kainate 1 | / | 0.444 | |
| 2fw3 | BUI | Carnitine O-palmitoyltransferase 2, mitochondrial | 2.3.1.21 | 0.443 | |
| 2g1o | 2IG | Renin | 3.4.23.15 | 0.443 | |
| 1xe6 | 5FP | Plasmepsin-2 | 3.4.23.39 | 0.442 | |
| 2a57 | CRM | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.442 | |
| 3tox | NAP | Putative oxidoreductase | / | 0.442 | |
| 3ens | ENS | Coagulation factor X | 3.4.21.6 | 0.440 | |
| 4bby | FAD | Alkyldihydroxyacetonephosphate synthase, peroxisomal | 2.5.1.26 | 0.440 |