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 |
|---|---|---|---|
| 1x0p | FAD | Tll0078 protein |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1x0p | FAD | Tll0078 protein | / | 1.000 | |
| 4yus | FMN | Family 3 adenylate cyclase | / | 0.587 | |
| 3gfz | FMN | Uncharacterized protein | / | 0.564 | |
| 3gfx | FMN | Uncharacterized protein | / | 0.548 | |
| 3gfy | FMN | Uncharacterized protein | / | 0.544 | |
| 2iyg | FMN | AppA, antirepressor of ppsR, sensor of blue light | / | 0.542 | |
| 4hh0 | FMN | AppA protein | / | 0.542 | |
| 1yrx | FMN | AppA protein | / | 0.536 | |
| 3gg1 | FMN | Uncharacterized protein | / | 0.533 | |
| 2hfn | FMN | Activator of photopigment and puc expression | / | 0.530 | |
| 2byc | FMN | Blue-light receptor of the BLUF-family | / | 0.526 | |
| 2iyi | FMN | AppA, antirepressor of ppsR, sensor of blue light | / | 0.522 | |
| 2hfo | FMN | Activator of photopigment and puc expression | / | 0.521 | |
| 3gg0 | FMN | Uncharacterized protein | / | 0.519 | |
| 3mzi | FMN | Activator of photopigment and puc expression | / | 0.497 | |
| 3uwq | U5P | Orotidine 5'-phosphate decarboxylase | / | 0.476 | |
| 3ime | BZ2 | Pantothenate synthetase | 6.3.2.1 | 0.469 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.467 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.466 | |
| 3mpj | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.461 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.460 | |
| 4prx | ADP | DNA gyrase subunit B | / | 0.460 | |
| 3ac5 | KZM | Tyrosine-protein kinase Lck | 2.7.10.2 | 0.459 | |
| 4yut | FMN | Family 3 adenylate cyclase | / | 0.459 | |
| 3dyq | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 2b53 | D23 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.456 | |
| 2cvu | ANP | Ribonucleoside-diphosphate reductase large chain 1 | 1.17.4.1 | 0.456 | |
| 4g2f | C07 | Ephrin type-A receptor 3 | 2.7.10.1 | 0.456 | |
| 2qo9 | ANP | Ephrin type-A receptor 3 | 2.7.10.1 | 0.455 | |
| 2x0r | NAD | Malate dehydrogenase | / | 0.455 | |
| 4yqf | GDP | Septin-9 | / | 0.455 | |
| 1drh | NAP | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 2a1n | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 2qbo | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 2zjw | REF | Casein kinase II subunit alpha | 2.7.11.1 | 0.452 | |
| 3rsr | N5P | Ribonucleoside-diphosphate reductase large chain 1 | 1.17.4.1 | 0.452 | |
| 4fuy | EK2 | Mitogen-activated protein kinase 1 | 2.7.11.24 | 0.452 | |
| 1j39 | UPG | DNA beta-glucosyltransferase | / | 0.451 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 3fwj | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.451 | |
| 3mdv | CL6 | Cholesterol 24-hydroxylase | / | 0.451 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 2y6o | 1N1 | Ephrin type-A receptor 4 | 2.7.10.1 | 0.450 | |
| 3kr8 | XAV | Tankyrase-2 | 2.4.2.30 | 0.450 | |
| 4die | C5P | Cytidylate kinase | / | 0.450 | |
| 2cvw | TTP | Ribonucleoside-diphosphate reductase large chain 1 | 1.17.4.1 | 0.449 | |
| 3cls | FAD | Electron transfer flavoprotein subunit alpha | / | 0.449 | |
| 3p0j | TYE | Putative tyrosyl-tRNA synthetase | / | 0.449 | |
| 2a1m | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.448 | |
| 3dyl | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.448 | |
| 4l2i | FAD | Electron transfer flavoprotein alpha/beta-subunit | / | 0.448 | |
| 2gr1 | FAD | Ferredoxin reductase | / | 0.447 | |
| 4opg | FDA | Conserved Archaeal protein | / | 0.447 | |
| 2yx6 | ADP | Uncharacterized protein | / | 0.446 | |
| 3fwg | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.446 | |
| 4bdh | WVI | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.446 | |
| 3cd5 | 7HI | 3-hydroxy-3-methylglutaryl-coenzyme A reductase | 1.1.1.34 | 0.445 | |
| 3ump | ATP | ATP-dependent 6-phosphofructokinase isozyme 2 | 2.7.1.11 | 0.445 | |
| 2azn | NAP | 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate reductase | / | 0.444 | |
| 3u9e | COA | Lmo1369 protein | / | 0.444 | |
| 3wrh | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.444 | |
| 4lb2 | DM5 | Serum albumin | / | 0.444 | |
| 4nt0 | 3DU | Orotidine 5'-phosphate decarboxylase | 4.1.1.23 | 0.444 | |
| 1g2v | TTP | Glucose-1-phosphate thymidylyltransferase | / | 0.443 | |
| 2ibz | UQ6 | Cytochrome b | / | 0.443 | |
| 3kjr | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.443 | |
| 3ml8 | ML8 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.443 | |
| 3wrj | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 2ji9 | TPW | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.442 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.442 | |
| 4ly9 | 1YY | Glucokinase regulatory protein | / | 0.442 | |
| 4r1l | ADP | Phenylacetate-coenzyme A ligase | / | 0.442 | |
| 1ay0 | TPP | Transketolase 1 | 2.2.1.1 | 0.441 | |
| 1u3d | FAD | Cryptochrome-1 | / | 0.441 | |
| 2xau | ADP | Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43 | 3.6.4.13 | 0.441 | |
| 4ek1 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.441 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.440 | |
| 1o76 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.440 | |
| 2xvv | 9DN | Serum albumin | / | 0.440 | |
| 3s8c | ANP | Ribonucleoside-diphosphate reductase large chain 1 | 1.17.4.1 | 0.440 | |
| 3ule | C69 | Actin-related protein 3 | / | 0.440 | |
| 3upf | 0BU | Polyprotein | / | 0.440 |