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 |
|---|---|---|---|
| 1dth | BAT | Snake venom metalloproteinase atrolysin-D | 3.4.24.42 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1dth | BAT | Snake venom metalloproteinase atrolysin-D | 3.4.24.42 | 1.000 | |
| 1atl | 0QI | Snake venom metalloproteinase atrolysin-D | 3.4.24.42 | 0.548 | |
| 3hy7 | 097 | A disintegrin and metalloproteinase with thrombospondin motifs 5 | 3.4.24 | 0.543 | |
| 1g05 | BBH | Stromelysin-1 | 3.4.24.17 | 0.540 | |
| 3hyg | 099 | A disintegrin and metalloproteinase with thrombospondin motifs 5 | 3.4.24 | 0.533 | |
| 4gr8 | R4C | Macrophage metalloelastase | 3.4.24.65 | 0.530 | |
| 3tsk | QEG | Macrophage metalloelastase | 3.4.24.65 | 0.529 | |
| 1b8y | IN7 | Stromelysin-1 | 3.4.24.17 | 0.515 | |
| 3hy9 | 098 | A disintegrin and metalloproteinase with thrombospondin motifs 5 | 3.4.24 | 0.513 | |
| 3aig | 0ZC | Snake venom metalloproteinase adamalysin-2 | 3.4.24.46 | 0.508 | |
| 1zvx | FIN | Neutrophil collagenase | 3.4.24.34 | 0.504 | |
| 2dw0 | GM6 | Zinc metalloproteinase-disintegrin-like VAP2B | 3.4.24 | 0.504 | |
| 2xs3 | ALA_PHE_THR_SER | Karilysin | 3.4.24 | 0.497 | |
| 1biw | S80 | Stromelysin-1 | 3.4.24.17 | 0.495 | |
| 1d7x | SPC | Stromelysin-1 | 3.4.24.17 | 0.493 | |
| 2wo8 | 023 | Macrophage metalloelastase | 3.4.24.65 | 0.493 | |
| 4i03 | L88 | Macrophage metalloelastase | 3.4.24.65 | 0.493 | |
| 3b8z | 294 | A disintegrin and metalloproteinase with thrombospondin motifs 5 | 3.4.24 | 0.492 | |
| 1sln | INH | Stromelysin-1 | 3.4.24.17 | 0.491 | |
| 1mnc | PLH | Neutrophil collagenase | 3.4.24.34 | 0.490 | |
| 2ovx | 4MR | Matrix metalloproteinase-9 | 3.4.24.35 | 0.490 | |
| 1g4k | HQQ | Stromelysin-1 | 3.4.24.17 | 0.487 | |
| 2xs4 | ALA_PHE_THR | Karilysin | 3.4.24 | 0.487 | |
| 1bzs | BSI | Neutrophil collagenase | 3.4.24.34 | 0.486 | |
| 1jk3 | BAT | Macrophage metalloelastase | 3.4.24.65 | 0.485 | |
| 2wo9 | 023 | Macrophage metalloelastase | 3.4.24.65 | 0.479 | |
| 1gkc | NFH | Matrix metalloproteinase-9 | 3.4.24.35 | 0.478 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.470 | |
| 4g9l | NGH | Stromelysin-1 | 3.4.24.17 | 0.467 | |
| 2bri | ANP | Uridylate kinase | 2.7.4.22 | 0.461 | |
| 2srt | INH | Stromelysin-1 | 3.4.24.17 | 0.461 | |
| 3ljt | LA3 | A disintegrin and metalloproteinase with thrombospondin motifs 5 | 3.4.24 | 0.459 | |
| 4h30 | 0ZD | Macrophage metalloelastase | 3.4.24.65 | 0.458 | |
| 1rm8 | BAT | Matrix metalloproteinase-16 | 3.4.24 | 0.456 | |
| 3cpp | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.456 | |
| 4frj | DWB | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 2gmh | FAD | Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial | 1.5.5.1 | 0.452 | |
| 2woa | 023 | Macrophage metalloelastase | 3.4.24.65 | 0.452 | |
| 4mok | FAD | Pyranose 2-oxidase | / | 0.452 | |
| 2abj | PLP | Branched-chain-amino-acid aminotransferase, cytosolic | 2.6.1.42 | 0.451 | |
| 3clu | FAD | Electron transfer flavoprotein subunit alpha | / | 0.448 | |
| 2y6d | TQJ | Matrilysin | 3.4.24.23 | 0.447 | |
| 3oho | Z79 | Stromelysin-1 | 3.4.24.17 | 0.447 | |
| 3t4e | NAD | Quinate/shikimate dehydrogenase | / | 0.447 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.446 | |
| 1fm1 | WAY | Collagenase 3 | 3.4.24 | 0.445 | |
| 1zs0 | EIN | Neutrophil collagenase | 3.4.24.34 | 0.445 | |
| 3m0o | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.445 | |
| 2feu | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.444 | |
| 3had | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.443 | |
| 3hyo | ADP | Pyridoxal kinase | / | 0.443 | |
| 4z54 | GDP | Neuronal-specific septin-3 | / | 0.443 | |
| 1u1i | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.442 | |
| 2a94 | AP0 | L-lactate dehydrogenase | 1.1.1.27 | 0.442 | |
| 2q1s | NAI | Putative nucleotide sugar epimerase/ dehydratase | / | 0.442 | |
| 4gyz | D5M | Tyrosyl-DNA phosphodiesterase 2 | 3.1.4 | 0.442 | |
| 1lf3 | EH5 | Plasmepsin-2 | 3.4.23.39 | 0.441 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.441 | |
| 2zz0 | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.441 | |
| 1fls | WAY | Collagenase 3 | 3.4.24 | 0.440 | |
| 2g76 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.440 | |
| 3kds | NHX | ATP-dependent zinc metalloprotease FtsH | / | 0.440 |