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 |
|---|---|---|---|
| 3kpj | SAH | Phenylethanolamine N-methyltransferase | 2.1.1.28 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3kpj | SAH | Phenylethanolamine N-methyltransferase | 2.1.1.28 | 1.000 | |
| 2i62 | SAH | Nicotinamide N-methyltransferase | 2.1.1.1 | 0.505 | |
| 2a14 | SAH | Indolethylamine N-methyltransferase | 2.1.1.49 | 0.496 | |
| 4krh | SAM | Phosphoethanolamine N-methyltransferase 2 | / | 0.488 | |
| 3ou7 | SAM | SAM-dependent methyltransferase | / | 0.484 | |
| 4r6x | SAH | Phosphoethanolamine N-methyltransferase | / | 0.479 | |
| 4nec | SAH | Putative SAM-dependent methyltransferase | / | 0.474 | |
| 4qtu | SAM | 18S rRNA (guanine(1575)-N(7))-methyltransferase | / | 0.468 | |
| 3tm4 | SAM | Uncharacterized protein | / | 0.467 | |
| 3up0 | D7S | aceDAF-12 | / | 0.467 | |
| 3uj8 | SFG | Phosphoethanolamine N-methyltransferase | / | 0.463 | |
| 1kia | SAM | Glycine N-methyltransferase | 2.1.1.20 | 0.460 | |
| 4iv0 | SAM | Phosphoethanolamine N-methyltransferase, putative | / | 0.460 | |
| 3ou6 | SAM | SAM-dependent methyltransferase | / | 0.459 | |
| 1nbi | SAM | Glycine N-methyltransferase | 2.1.1.20 | 0.458 | |
| 2ph6 | 712 | Beta-secretase 1 | 3.4.23.46 | 0.457 | |
| 3uj7 | SAM | Phosphoethanolamine N-methyltransferase | / | 0.457 | |
| 1skm | SAH | Modification methylase HhaI | 2.1.1.37 | 0.455 | |
| 2bju | IH4 | Plasmepsin-2 | 3.4.23.39 | 0.455 | |
| 4fgz | SAH | Phosphoethanolamine N-methyltransferase | / | 0.454 | |
| 1af7 | SAH | Chemotaxis protein methyltransferase | 2.1.1.80 | 0.453 | |
| 2g1a | 5HG | Class B acid phosphatase | 3.1.3.2 | 0.453 | |
| 4to1 | DCP | Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 | 3.1.5 | 0.453 | |
| 5jjr | SAH | Genome polyprotein | / | 0.452 | |
| 1bim | 0QB | Renin | 3.4.23.15 | 0.451 | |
| 1yf3 | SAH | DNA adenine methylase | / | 0.449 | |
| 3e8s | SAH | Uncharacterized protein | / | 0.449 | |
| 3tlj | SAH | Uncharacterized protein | / | 0.449 | |
| 5icf | SAH | (S)-norcoclaurine 6-O-methyltransferase | / | 0.448 | |
| 3bgv | SAH | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.447 | |
| 5bp9 | SAH | Putative methyltransferase protein | / | 0.447 | |
| 2fk8 | SAM | Hydroxymycolate synthase MmaA4 | 2.1.1 | 0.446 | |
| 2zfu | SAH | Ribosomal RNA-processing protein 8 | / | 0.446 | |
| 3reo | SAH | (Iso)eugenol O-methyltransferase | 2.1.1.146 | 0.446 | |
| 3vsx | R32 | Renin | 3.4.23.15 | 0.445 | |
| 1fwm | CB3 | Thymidylate synthase | / | 0.444 | |
| 2jds | L20 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.444 | |
| 3byz | H11 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.444 | |
| 1jtq | LY3 | Thymidylate synthase | / | 0.442 | |
| 2is0 | I03 | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 2xvv | 9DN | Serum albumin | / | 0.442 | |
| 3tm5 | SFG | Uncharacterized protein | / | 0.442 | |
| 4obw | SAM | 2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial | / | 0.442 | |
| 3bw4 | FMN | Putative 2-nitropropane dioxygenase | / | 0.441 | |
| 3jpu | TY4 | Transcriptional activator protein LasR | / | 0.441 | |
| 3p9k | SAH | Caffeic acid O-methyltransferase | / | 0.441 | |
| 10mh | SAH | Modification methylase HhaI | 2.1.1.37 | 0.440 | |
| 1s3u | TQD | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 3f6s | FMN | Flavodoxin | / | 0.440 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.440 |