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 |
|---|---|---|---|
| 1clq | GDP | DNA-directed DNA polymerase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1clq | GDP | DNA-directed DNA polymerase | / | 1.000 | |
| 1ih7 | GMP | DNA-directed DNA polymerase | / | 0.587 | |
| 1waj | 5GP | DNA-directed DNA polymerase | / | 0.564 | |
| 3cfo | GMP | DNA-directed DNA polymerase | / | 0.553 | |
| 4i9q | XG4 | DNA-directed DNA polymerase | / | 0.553 | |
| 4khn | XG4 | DNA-directed DNA polymerase | / | 0.519 | |
| 4ajm | 3A6 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.500 | |
| 2v2z | CDM | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.490 | |
| 1x8b | 824 | Wee1-like protein kinase | 2.7.10.2 | 0.476 | |
| 1y2c | 3DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.473 | |
| 4g8j | THM | Uridine phosphorylase | / | 0.471 | |
| 4zzi | 1NS | NAD-dependent protein deacetylase sirtuin-1 | 3.5.1 | 0.468 | |
| 4fcd | 0T6 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.466 | |
| 4ajg | F07 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.463 | |
| 4l0o | PLP | Cystathionine gamma-synthase | 2.5.1.48 | 0.461 | |
| 1xom | CIO | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.460 | |
| 4zas | TYD | CalS13 | / | 0.460 | |
| 4ajf | F03 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.459 | |
| 3gc4 | AAQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.458 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.457 | |
| 3koy | Z97 | D-ornithine 4,5-aminomutase subunit beta | / | 0.457 | |
| 4ajd | F04 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.454 | |
| 4g2y | NI5 | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.453 | |
| 3hmv | HBT | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.451 | |
| 2ouu | 35G | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.449 | |
| 2q0k | NAP | Thioredoxin reductase | 1.8.1.9 | 0.449 | |
| 1udt | VIA | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.448 | |
| 1y2b | DEE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.448 | |
| 2ouy | CMP | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 2wey | EV1 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 3sni | 546 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 4hf4 | 15H | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 4i9z | 5BA | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.448 | |
| 1n71 | COA | Aac(6')-Ii protein | / | 0.447 | |
| 2zsh | GA3 | Gibberellin receptor GID1A | 3 | 0.446 | |
| 2v8p | CDP | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.445 | |
| 3ebl | GA4 | Gibberellin receptor GID1 | / | 0.445 | |
| 4j0z | 1H5 | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 4mvh | 2F5 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.445 | |
| 4muw | 2F4 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.444 | |
| 3bi6 | 396 | Wee1-like protein kinase | 2.7.10.2 | 0.443 | |
| 4ysw | NAI | Xanthine dehydrogenase/oxidase | / | 0.443 | |
| 1n4p | CYS_VAL_ILE_LEU_GER | Geranylgeranyl transferase type-1 subunit beta | 2.5.1.59 | 0.442 | |
| 1zyd | ATP | eIF-2-alpha kinase GCN2 | / | 0.442 | |
| 2oc4 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.442 | |
| 3wb5 | 0B4 | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 4j7h | TRH | PCZA361.3 | / | 0.442 | |
| 1rr6 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.441 | |
| 2e94 | 364 | Geranylgeranyl pyrophosphate synthase | / | 0.441 | |
| 2zsi | GA4 | Gibberellin receptor GID1A | 3 | 0.441 | |
| 4heu | 15J | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.441 | |
| 1rq1 | FAD | Endoplasmic oxidoreductin-1 | 1.8.4 | 0.440 | |
| 3d3p | 20A | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.440 | |
| 4ddl | 0JQ | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 |