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 |
|---|---|---|---|
| 3p0f | BAU | Uridine phosphorylase 2 | 2.4.2.3 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3p0f | BAU | Uridine phosphorylase 2 | 2.4.2.3 | 1.000 | |
| 3euf | BAU | Uridine phosphorylase 1 | / | 0.490 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.489 | |
| 2ejz | SAH | Diphthine synthase | / | 0.476 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.471 | |
| 1pr4 | MTP | Purine nucleoside phosphorylase DeoD-type | / | 0.470 | |
| 1xoq | ROF | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.469 | |
| 1pr5 | TBN | Purine nucleoside phosphorylase DeoD-type | / | 0.464 | |
| 2uag | UMA | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.464 | |
| 4phl | PIL | Phosphodiesterase | / | 0.464 | |
| 4da7 | AC2 | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.462 | |
| 4ogk | THM | Uridine phosphorylase | 2.4.2.3 | 0.462 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.460 | |
| 1tgv | 5UD | Uridine phosphorylase | 2.4.2.3 | 0.460 | |
| 1pr0 | NOS | Purine nucleoside phosphorylase DeoD-type | / | 0.458 | |
| 3k3e | PDB | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.458 | |
| 3dyl | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.454 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.450 | |
| 3zhs | TD6 | Multifunctional 2-oxoglutarate metabolism enzyme | 1.2.4.2 | 0.450 | |
| 2hk9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.449 | |
| 3dyq | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.449 | |
| 3uzw | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.449 | |
| 1b2l | NDC | Alcohol dehydrogenase | 1.1.1.1 | 0.448 | |
| 2ewm | NAD | (S)-1-Phenylethanol dehydrogenase | 1.1.1.311 | 0.448 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.447 | |
| 2bxo | OPB | Serum albumin | / | 0.446 | |
| 1ro9 | 8BR | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.445 | |
| 1u1f | 183 | Uridine phosphorylase | 2.4.2.3 | 0.445 | |
| 1uho | VDN | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.445 | |
| 3wv9 | FEG | Hmd co-occurring protein HcgE | / | 0.445 | |
| 1q0z | AKA | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.444 | |
| 2e0n | SAH | Precorrin-2 C20-methyltransferase | / | 0.444 | |
| 4a8v | 2AN | Major pollen allergen Bet v 1-J | / | 0.444 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.443 | |
| 1je1 | GMP | Purine nucleoside phosphorylase | / | 0.443 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 4bv9 | NDP | Ketimine reductase mu-crystallin | 1.5.1.25 | 0.443 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 3bv7 | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.442 | |
| 4dan | 2FA | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.442 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.442 | |
| 2oeg | UPG | UDP-glucose pyrophosphorylase | / | 0.441 | |
| 2yy2 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 1jdz | FMB | Purine nucleoside phosphorylase | / | 0.440 | |
| 4bri | UNP | Ectonucleoside triphosphate diphosphohydrolase I | / | 0.440 |