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 |
|---|---|---|---|
| 4hbn | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 4hbn | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 1.000 | |
| 4h4q | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.484 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.483 | |
| 1ot7 | IU5 | Bile acid receptor | / | 0.482 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.476 | |
| 1g4t | FTP | Thiamine-phosphate synthase | / | 0.475 | |
| 1llu | NAD | Alcohol dehydrogenase | / | 0.474 | |
| 1fnn | ADP | ORC1-type DNA replication protein | / | 0.470 | |
| 3otf | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.466 | |
| 2zb3 | NDP | Prostaglandin reductase 2 | 1.3.1.48 | 0.465 | |
| 3inm | NDP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.463 | |
| 1nyt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.461 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.460 | |
| 3wmx | NAD | NAD dependent epimerase/dehydratase | / | 0.458 | |
| 1adf | TAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.455 | |
| 3tqh | NDP | Quinone oxidoreductase | / | 0.455 | |
| 4d0l | 093 | Phosphatidylinositol 4-kinase beta | 2.7.1.67 | 0.455 | |
| 1lbc | CYZ | Glutamate receptor 2 | / | 0.454 | |
| 1fm6 | BRL | Peroxisome proliferator-activated receptor gamma | / | 0.453 | |
| 1e5q | NDP | Saccharopine dehydrogenase [NADP(+), L-glutamate-forming] | 1.5.1.10 | 0.452 | |
| 3stx | BKA | Methylketone synthase I | / | 0.452 | |
| 3tvu | B37 | Acetyl-CoA carboxylase | / | 0.452 | |
| 1g4s | TPS | Thiamine-phosphate synthase | / | 0.451 | |
| 3flw | FLW | Mitogen-activated protein kinase 14 | / | 0.451 | |
| 3tnl | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.451 | |
| 4n9i | PCG | Catabolite expression activator | / | 0.451 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.449 | |
| 2y05 | NAP | Prostaglandin reductase 1 | / | 0.448 | |
| 3clb | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.448 | |
| 4g2r | H1L | Probable propionyl-CoA carboxylase beta chain 6 | 6.4.1.3 | 0.448 | |
| 4kl9 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 4mdh | NAD | Malate dehydrogenase, cytoplasmic | 1.1.1.37 | 0.448 | |
| 5kj6 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.448 | |
| 5kjc | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.448 | |
| 2cmv | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.447 | |
| 3e5r | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic | 1.2.1.12 | 0.447 | |
| 4i01 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.447 | |
| 2oby | NAP | Quinone oxidoreductase PIG3 | 1 | 0.446 | |
| 5cdt | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.446 | |
| 3h0a | D30 | Peroxisome proliferator-activated receptor gamma | / | 0.445 | |
| 5kje | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.445 | |
| 1i6x | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.444 | |
| 2iod | MYC | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.444 | |
| 1ayp | INB | Phospholipase A2, membrane associated | / | 0.443 | |
| 1ep4 | S11 | Gag-Pol polyprotein | 2.7.7.49 | 0.443 | |
| 1q43 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.443 | |
| 2f5z | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.443 | |
| 2y1o | T26 | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.443 | |
| 3dey | DHT | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.443 | |
| 3klm | DHT | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.443 | |
| 4y9l | FAD | Acyl-CoA dehydrogenase family member 11 | / | 0.443 | |
| 3cwk | REA | Cellular retinoic acid-binding protein 2 | / | 0.442 | |
| 3u1y | 03I | UDP-3-O-acyl-N-acetylglucosamine deacetylase | / | 0.442 | |
| 4hfm | NAP | 2-alkenal reductase (NADP(+)-dependent) | / | 0.442 | |
| 4jbi | NDP | Alcohol dehydrogenase (Zinc) | / | 0.442 | |
| 1d7y | FAD | Ferredoxin reductase | / | 0.441 | |
| 1qrp | HH0 | Pepsin A-4 | 3.4.23.1 | 0.441 | |
| 2dcn | ADP | 2-keto-3-deoxy-gluconate kinase | / | 0.441 | |
| 2zaf | FAD | Nitroalkane oxidase | 1.7.3.1 | 0.441 | |
| 3czr | 3CZ | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 4jv8 | 1M1 | Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta | / | 0.441 | |
| 4w6z | 8ID | Alcohol dehydrogenase 1 | 1.1.1.1 | 0.441 | |
| 1knu | YPA | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.440 | |
| 2g1r | 3IG | Renin | 3.4.23.15 | 0.440 | |
| 3b20 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.440 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 4fj1 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.440 | |
| 4xq9 | NAD | Homospermidine synthase | 2.5.1.44 | 0.440 | |
| 4yaf | FAD | NADPH--cytochrome P450 reductase | / | 0.440 |