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 |
|---|---|---|---|
| 1f3l | SAH | Protein arginine N-methyltransferase 3 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1f3l | SAH | Protein arginine N-methyltransferase 3 | / | 1.000 | |
| 2y1w | SFG | Histone-arginine methyltransferase CARM1 | / | 0.587 | |
| 2y1x | SAH | Histone-arginine methyltransferase CARM1 | / | 0.570 | |
| 5dwq | SFG | Histone-arginine methyltransferase CARM1 | / | 0.568 | |
| 5dx1 | SFG | Histone-arginine methyltransferase CARM1 | / | 0.558 | |
| 5dx8 | SFG | Histone-arginine methyltransferase CARM1 | / | 0.558 | |
| 5dxj | SFG | Histone-arginine methyltransferase CARM1 | / | 0.551 | |
| 5dxa | SFG | Histone-arginine methyltransferase CARM1 | / | 0.548 | |
| 4c03 | SFG | Protein arginine N-methyltransferase 6 | / | 0.527 | |
| 5dst | SAH | Protein arginine N-methyltransferase 8 | 2.1.1 | 0.492 | |
| 2bzg | SAH | Thiopurine S-methyltransferase | 2.1.1.67 | 0.478 | |
| 5icf | SAH | (S)-norcoclaurine 6-O-methyltransferase | / | 0.477 | |
| 1nbi | SAM | Glycine N-methyltransferase | 2.1.1.20 | 0.473 | |
| 1dfo | PLG | Serine hydroxymethyltransferase | 2.1.2.1 | 0.471 | |
| 4ax8 | SAM | O-antigen chain terminator bifunctional methyltransferase/kinase WbdD | / | 0.469 | |
| 4eue | NAI | Trans-2-enoyl-CoA reductase [NADH] | / | 0.469 | |
| 4ft4 | SAH | DNA (cytosine-5)-methyltransferase 1 | 2.1.1.37 | 0.469 | |
| 1x1c | SAH | C-20 methyltransferase | / | 0.468 | |
| 3p9k | SAH | Caffeic acid O-methyltransferase | / | 0.456 | |
| 3tm4 | SAM | Uncharacterized protein | / | 0.456 | |
| 3tm5 | SFG | Uncharacterized protein | / | 0.456 | |
| 4kwc | SAH | Methyltransferase domain family | / | 0.456 | |
| 2hiz | LIJ | Beta-secretase 1 | 3.4.23.46 | 0.452 | |
| 1upw | 444 | Oxysterols receptor LXR-beta | / | 0.450 | |
| 3gyt | DL4 | Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily | / | 0.448 | |
| 3o7w | SAM | Leucine carboxyl methyltransferase 1 | 2.1.1.233 | 0.447 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.446 | |
| 1xs7 | MMI | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 3tlj | SAH | Uncharacterized protein | / | 0.446 | |
| 4r6x | SAH | Phosphoethanolamine N-methyltransferase | / | 0.446 | |
| 3dlc | SAM | SAM (And some other nucleotide) binding motif:Generic methyltransferase | / | 0.445 | |
| 4b66 | NAP | L-ornithine N(5)-monooxygenase | / | 0.443 | |
| 3ldg | SAH | Uncharacterized protein | / | 0.442 | |
| 1p8d | CO1 | Oxysterols receptor LXR-beta | / | 0.441 | |
| 3cic | 316 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 3cid | 318 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 3ean | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.441 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.441 | |
| 3skg | PB8 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 3ou6 | SAM | SAM-dependent methyltransferase | / | 0.440 |