sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 3lcv | SAM | 16S rRNA (guanine(1405)-N(7))-methyltransferase | 2.1.1.179 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3lcv | SAM | 16S rRNA (guanine(1405)-N(7))-methyltransferase | 2.1.1.179 | 1.000 | |
| 5dp2 | NAP | CurF | / | 0.485 | |
| 3fri | SAH | 16S rRNA methylase | / | 0.461 | |
| 4i6h | 1C8 | Serine/threonine-protein kinase PLK2 | 2.7.11.21 | 0.461 | |
| 1g63 | FMN | Epidermin decarboxylase | 4.1.1 | 0.459 | |
| 1ma0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.459 | |
| 3ssn | MVI | Mycinamicin VI 2''-O-methyltransferase | / | 0.459 | |
| 2e94 | 364 | Geranylgeranyl pyrophosphate synthase | / | 0.458 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.454 | |
| 1x1b | SAH | C-20 methyltransferase | / | 0.453 | |
| 4a31 | 2CB | Glycylpeptide N-tetradecanoyltransferase | / | 0.452 | |
| 2dvl | FAD | Acyl-CoA dehydrogenase | / | 0.451 | |
| 2f7x | 4EA | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.451 | |
| 4j53 | 1J4 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.451 | |
| 1l2t | ATP | Uncharacterized ABC transporter ATP-binding protein MJ0796 | / | 0.450 | |
| 2nmt | MIM | Glycylpeptide N-tetradecanoyltransferase | 2.3.1.97 | 0.450 | |
| 3tif | ADP | Uncharacterized ABC transporter ATP-binding protein MJ0796 | / | 0.450 | |
| 2z4z | SC0 | Geranylgeranyl pyrophosphate synthase | / | 0.448 | |
| 3ahn | 3A1 | Oligopeptidase | / | 0.448 | |
| 4kdr | SAH | Ubiquinone biosynthesis O-methyltransferase | / | 0.447 | |
| 1q12 | ATP | Maltose/maltodextrin import ATP-binding protein MalK | / | 0.445 | |
| 1siq | FAD | Glutaryl-CoA dehydrogenase, mitochondrial | 1.3.8.6 | 0.444 | |
| 2j9f | THV | 2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial | 1.2.4.4 | 0.444 | |
| 2j9f | THV | 2-oxoisovalerate dehydrogenase subunit beta, mitochondrial | 1.2.4.4 | 0.444 | |
| 1j1b | ANP | Glycogen synthase kinase-3 beta | 2.7.11.26 | 0.443 | |
| 3vw7 | VPX | Proteinase-activated receptor 1 | / | 0.442 | |
| 2c1b | CQP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 4kx6 | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.441 |