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 |
|---|---|---|---|
| 4pan | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4pan | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 1.000 | |
| 3ums | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.567 | |
| 3qe0 | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.556 | |
| 4pao | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.514 | |
| 1gil | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.505 | |
| 3c15 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.495 | |
| 1gia | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.492 | |
| 2gvd | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.484 | |
| 3c14 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.483 | |
| 1u0h | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.480 | |
| 1azt | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.477 | |
| 3c16 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.477 | |
| 1y3a | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.476 | |
| 2dft | ADP | Shikimate kinase | 2.7.1.71 | 0.472 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.471 | |
| 2xtz | GSP | Guanine nucleotide-binding protein alpha-1 subunit | / | 0.469 | |
| 4fid | GDP | G protein alpha subunit, putative | / | 0.469 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.468 | |
| 3tjz | GNP | ADP-ribosylation factor 1 | / | 0.468 | |
| 2wo7 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.467 | |
| 1got | GDP | Guanine nucleotide-binding protein G(t) subunit alpha-1 | / | 0.463 | |
| 2fe4 | GDP | Ras-related protein Rab-6B | / | 0.462 | |
| 2jb4 | A14 | Isopenicillin N synthase | 1.21.3.1 | 0.461 | |
| 3t1t | GDP | Probable gliding protein mglA | / | 0.461 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.461 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.459 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.458 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.457 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.457 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 1gp2 | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.455 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.453 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.452 | |
| 3mjh | GTP | Ras-related protein Rab-5A | / | 0.452 | |
| 5k5z | ANP | Uncharacterized protein | / | 0.452 | |
| 1uzw | CDH | Isopenicillin N synthase | 1.21.3.1 | 0.450 | |
| 2y05 | NAP | Prostaglandin reductase 1 | / | 0.450 | |
| 1me6 | IVS | Plasmepsin-2 | 3.4.23.39 | 0.449 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 1qjf | ACS | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 3d84 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 5d3q | GDP | Dynamin-1 | 3.6.5.5 | 0.446 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.445 | |
| 3kpk | FAD | Sulfide-quinone reductase | / | 0.445 | |
| 1cs4 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.444 | |
| 2bfr | ADP | [Protein ADP-ribosylglutamate] hydrolase AF_1521 | 3.2.2 | 0.444 | |
| 3d8b | ADP | Fidgetin-like protein 1 | 3.6.4 | 0.444 | |
| 2y6f | M9F | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 3u9e | COA | Lmo1369 protein | / | 0.442 | |
| 1blz | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.440 |