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 |
|---|---|---|---|
| 4iom | FOL | Formate--tetrahydrofolate ligase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 4iom | FOL | Formate--tetrahydrofolate ligase | / | 1.000 | |
| 4jjk | FOL | Formate--tetrahydrofolate ligase | / | 0.686 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.497 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.489 | |
| 3ske | 054 | Genome polyprotein | 2.7.7.48 | 0.472 | |
| 3uph | 0C1 | Genome polyprotein | 2.7.7.48 | 0.471 | |
| 3cso | XNI | Genome polyprotein | 2.7.7.48 | 0.470 | |
| 3dy8 | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.470 | |
| 3gnv | XNZ | Genome polyprotein | 2.7.7.48 | 0.469 | |
| 3k3e | PDB | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.468 | |
| 4a33 | PS8 | Glycylpeptide N-tetradecanoyltransferase | / | 0.466 | |
| 1c7o | PPG | Hemolysin | / | 0.463 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.460 | |
| 4g2l | 0WL | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.459 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.458 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.455 | |
| 3u4r | 08F | Genome polyprotein | 2.7.7.48 | 0.454 | |
| 4mka | 2AY | Genome polyprotein | 2.7.7.48 | 0.454 | |
| 1kyx | CRM | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.453 | |
| 1uhh | CZP | Aequorin-2 | / | 0.452 | |
| 3qi4 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 2yoj | 8Y6 | Genome polyprotein | 2.7.7.48 | 0.450 | |
| 3dys | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.449 | |
| 2qe2 | 452 | Polyprotein | / | 0.448 | |
| 2yy2 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.448 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.448 | |
| 1nqu | RDL | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.447 | |
| 1sg0 | STL | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.447 | |
| 3g86 | T18 | Genome polyprotein | 2.7.7.48 | 0.447 | |
| 1vce | SAH | Diphthine synthase | / | 0.446 | |
| 3h59 | H59 | Genome polyprotein | 2.7.7.48 | 0.446 | |
| 4b4w | 9L9 | Bifunctional protein FolD | / | 0.446 | |
| 2zev | IPE | Geranylgeranyl pyrophosphate synthase | / | 0.445 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.445 | |
| 3h2l | YAK | Genome polyprotein | 2.7.7.48 | 0.445 | |
| 3d5m | 4MS | Genome polyprotein | 2.7.7.48 | 0.444 | |
| 3n39 | FMN | Protein NrdI | / | 0.444 | |
| 1zkl | IBM | High affinity cAMP-specific 3',5'-cyclic phosphodiesterase 7A | 3.1.4.53 | 0.443 | |
| 2e9a | B28 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.443 | |
| 3hky | IX6 | Genome polyprotein | 2.7.7.48 | 0.443 | |
| 4qai | FMN | NADPH dehydrogenase | / | 0.443 | |
| 1s7g | NAD | NAD-dependent protein deacylase 2 | / | 0.442 | |
| 3o73 | O73 | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.442 | |
| 2e8u | IPE | Geranylgeranyl pyrophosphate synthase | / | 0.441 | |
| 2gz8 | F3F | Orf1a polyprotein | / | 0.441 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.441 | |
| 3d4b | DZD | NAD-dependent protein deacetylase | / | 0.441 | |
| 3g58 | 988 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 3njo | PYV | Abscisic acid receptor PYR1 | / | 0.441 | |
| 1e79 | ATP | ATP synthase subunit alpha, mitochondrial | / | 0.440 | |
| 1e79 | ATP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.440 | |
| 1udt | VIA | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.440 | |
| 2z4y | 252 | Geranylgeranyl pyrophosphate synthase | / | 0.440 | |
| 3nrr | D16 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.440 | |
| 3u4o | 08E | Genome polyprotein | 2.7.7.48 | 0.440 | |
| 4a95 | 9MT | Glycylpeptide N-tetradecanoyltransferase | / | 0.440 |