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 |
|---|---|---|---|
| 1nd5 | 2BF | Prostatic acid phosphatase | 3.1.3.2 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1nd5 | 2BF | Prostatic acid phosphatase | 3.1.3.2 | 1.000 | |
| 4kbn | 25U | Dihydrofolate reductase | 1.5.1.3 | 0.487 | |
| 4kd7 | 9DR | Dihydrofolate reductase | 1.5.1.3 | 0.482 | |
| 3lfz | ADP | Uncharacterized protein MJ1225 | / | 0.477 | |
| 4ajd | F04 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.472 | |
| 2w3a | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.469 | |
| 1y2k | 7DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.468 | |
| 3lfc | Z86 | Mitogen-activated protein kinase 14 | / | 0.464 | |
| 1q9m | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.462 | |
| 3aiq | HBO | 4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1b, chloroplastic | 3.2.1.182 | 0.462 | |
| 4dyp | 0MS | Nucleoprotein | / | 0.462 | |
| 1xom | CIO | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.461 | |
| 1oyn | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.458 | |
| 3aiv | HBO | 4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic | 3.2.1.182 | 0.456 | |
| 4lga | A2O | Abscisic acid receptor PYL2 | / | 0.456 | |
| 1xon | PIL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.455 | |
| 1y2c | 3DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.455 | |
| 4iyg | 1HU | Strictosidine synthase | 4.3.3.2 | 0.455 | |
| 1hfq | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 3ns2 | PYV | Abscisic acid receptor PYL2 | / | 0.454 | |
| 3nxo | D2B | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 4kak | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 1nqu | RDL | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.451 | |
| 4kfj | 1R0 | Dihydrofolate reductase | 1.5.1.3 | 0.451 | |
| 2poq | ISD | Trans-1,2-dihydrobenzene-1,2-diol dehydrogenase | 1.3.1.20 | 0.450 | |
| 1tou | B1V | Fatty acid-binding protein, adipocyte | / | 0.448 | |
| 1y2e | 5DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.448 | |
| 2fm0 | M98 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.448 | |
| 4ajg | F07 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 4m2x | TMQ | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 4imf | SI3 | N-acetylneuraminate lyase | / | 0.447 | |
| 1yw9 | A84 | Methionine aminopeptidase 2 | / | 0.446 | |
| 1zkl | IBM | High affinity cAMP-specific 3',5'-cyclic phosphodiesterase 7A | 3.1.4.53 | 0.446 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.446 | |
| 1upw | 444 | Oxysterols receptor LXR-beta | / | 0.445 | |
| 1y2b | DEE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.445 | |
| 1y2d | 4DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.445 | |
| 2zsh | GA3 | Gibberellin receptor GID1A | 3 | 0.445 | |
| 3nmv | PYV | Abscisic acid receptor PYL2 | / | 0.445 | |
| 3ntz | 3TZ | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 3nxt | D2E | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 2v8p | CDP | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.444 | |
| 3p0f | BAU | Uridine phosphorylase 2 | 2.4.2.3 | 0.444 | |
| 1dr3 | HBI | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.443 | |
| 3qpn | PFK | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.443 | |
| 4kp6 | 1S1 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.443 | |
| 4n9q | FMN | FMN-dependent NADH-azoreductase 1 | / | 0.443 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 4phl | PIL | Phosphodiesterase | / | 0.442 | |
| 1p4r | 354 | Bifunctional purine biosynthesis protein PURH | 2.1.2.3 | 0.441 | |
| 1iay | AVG | 1-aminocyclopropane-1-carboxylate synthase 2 | 4.4.1.14 | 0.440 | |
| 1mra | APG | Mandelate racemase | / | 0.440 | |
| 1ro9 | 8BR | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.440 | |
| 1tow | CRZ | Fatty acid-binding protein, adipocyte | / | 0.440 | |
| 2ga2 | A19 | Methionine aminopeptidase 2 | / | 0.440 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.440 | |
| 4wh2 | ADP | N-acetylhexosamine 1-kinase | 2.7.1.162 | 0.440 | |
| 5k8b | PDG | 8-amino-3,8-dideoxy-alpha-D-manno-octulosonate transaminase | / | 0.440 |