sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Cavities 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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 1y3a | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1y3a | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 1.000 | |
| 1got | GDP | Guanine nucleotide-binding protein G(t) subunit alpha-1 | / | 0.547 | |
| 3ums | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.542 | |
| 1gil | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.535 | |
| 3c15 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.514 | |
| 1gia | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.509 | |
| 4pan | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.505 | |
| 4pao | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.499 | |
| 1w5s | ADP | ORC1-type DNA replication protein 2 | / | 0.495 | |
| 3c16 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.494 | |
| 3qe0 | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.488 | |
| 1cul | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.486 | |
| 1gp2 | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.482 | |
| 1azt | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.480 | |
| 5k5z | ANP | Uncharacterized protein | / | 0.477 | |
| 3b6z | CO7 | Enoyl reductase LovC | 1 | 0.466 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.465 | |
| 4fid | GDP | G protein alpha subunit, putative | / | 0.464 | |
| 2daa | DCS | D-alanine aminotransferase | 2.6.1.21 | 0.460 | |
| 2xpv | MIY | Tetracycline repressor protein class D | / | 0.460 | |
| 2giv | ACO | Histone acetyltransferase KAT8 | / | 0.459 | |
| 1pq9 | 44B | Oxysterols receptor LXR-beta | / | 0.458 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.458 | |
| 1zcb | GDP | Guanine nucleotide-binding protein subunit alpha-13 | / | 0.457 | |
| 1m2o | GNP | Small COPII coat GTPase SAR1 | 3.6.5 | 0.455 | |
| 1x1c | SAH | C-20 methyltransferase | / | 0.451 | |
| 4e07 | ACP | Plasmid partitioning protein ParF | / | 0.451 | |
| 4mkg | AP5 | Adenylate kinase | / | 0.450 | |
| 1xts | GTP | GTP-binding protein Rheb | / | 0.448 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 0.448 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 3vgl | ANP | Glucokinase | / | 0.448 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.447 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.447 | |
| 1rj9 | GCP | Signal recognition particle receptor FtsY | / | 0.446 | |
| 2gmh | FAD | Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial | 1.5.5.1 | 0.446 | |
| 4v02 | ATP | Site-determining protein | / | 0.446 | |
| 5dn1 | AMZ | Phosphoribosyl isomerase A | 5.3.1.16 | 0.446 | |
| 1bof | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.445 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.445 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.445 | |
| 2g76 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.444 | |
| 2q3f | GNP | Ras-related GTP-binding protein D | / | 0.444 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 4dzz | ADP | Plasmid partitioning protein ParF | / | 0.444 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.443 | |
| 2hrb | NAP | Carbonyl reductase [NADPH] 3 | 1.1.1.184 | 0.443 | |
| 3r7w | GNP | GTP-binding protein GTR2 | / | 0.443 | |
| 1rne | C60 | Renin | 3.4.23.15 | 0.442 | |
| 2ylz | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.441 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 4die | C5P | Cytidylate kinase | / | 0.441 | |
| 4y4j | LNR | Endothiapepsin | 3.4.23.22 | 0.441 | |
| 1n2s | NAI | dTDP-4-dehydrorhamnose reductase | 1.1.1.133 | 0.440 | |
| 2e20 | B4P | Propionate kinase | / | 0.440 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 4c0b | ATP | mRNA cleavage and polyadenylation factor CLP1 | / | 0.440 | |
| 4dfg | 0JV | Gag-Pol polyprotein | 3.4.23.16 | 0.440 |