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 |
|---|---|---|---|
| 4dja | DLZ | (6-4) photolyase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 4dja | DLZ | (6-4) photolyase | / | 1.000 | |
| 3zxs | DLZ | Deoxyribodipyrimidine photolyase-related protein | / | 0.505 | |
| 4jzr | 4JR | Egl nine homolog 1 | / | 0.493 | |
| 4xym | COA | Acyl-CoA synthetase (NDP forming) | / | 0.482 | |
| 4la7 | A1O | Abscisic acid receptor PYL2 | / | 0.472 | |
| 1mc0 | PCG | cGMP-dependent 3',5'-cyclic phosphodiesterase | / | 0.470 | |
| 1f3e | DPZ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.468 | |
| 2ea2 | F77 | Methionine aminopeptidase 2 | / | 0.463 | |
| 3qbw | ADP | Anhydro-N-acetylmuramic acid kinase | / | 0.463 | |
| 3nx2 | FER | Ferulic acid decarboxylase | / | 0.460 | |
| 2j5s | KTA | Alr4455 protein | / | 0.459 | |
| 4j8t | DOG | Uncharacterized PhzA/B-like protein PA3332 | / | 0.459 | |
| 1db5 | 6IN | Phospholipase A2, membrane associated | / | 0.458 | |
| 2v58 | LZJ | Biotin carboxylase | 6.3.4.14 | 0.458 | |
| 1e2n | RCA | Thymidine kinase | / | 0.456 | |
| 3kig | DA4 | Carbonic anhydrase 2 | 4.2.1.1 | 0.456 | |
| 4jqa | ID8 | Aldo-keto reductase family 1 member C2 | / | 0.456 | |
| 4jtr | IBP | Aldo-keto reductase family 1 member C2 | / | 0.456 | |
| 1fdu | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.454 | |
| 1r58 | AO5 | Methionine aminopeptidase 2 | / | 0.454 | |
| 4jlm | 1NN | Deoxycytidine kinase | 2.7.1.74 | 0.454 | |
| 3be2 | RAJ | Vascular endothelial growth factor receptor 2 | 2.7.10.1 | 0.453 | |
| 4jtq | NAP | Aldo-keto reductase family 1 member C2 | / | 0.453 | |
| 2ga2 | A19 | Methionine aminopeptidase 2 | / | 0.452 | |
| 4xg1 | LLP | Diaminopimelate decarboxylase | / | 0.452 | |
| 7std | CRP | Scytalone dehydratase | 4.2.1.94 | 0.452 | |
| 1zdg | UPG | Glycogenin-1 | 2.4.1.186 | 0.451 | |
| 3ukr | CKH | Actin-related protein 3 | / | 0.451 | |
| 3ukr | CKH | Actin-related protein 2 | / | 0.451 | |
| 4qtu | SAM | 18S rRNA (guanine(1575)-N(7))-methyltransferase | / | 0.451 | |
| 1mc1 | PCX | Carboxyethyl-arginine beta-lactam-synthase | 6.3.3.4 | 0.450 | |
| 2oaz | I96 | Methionine aminopeptidase 2 | / | 0.450 | |
| 1k4g | AIQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.449 | |
| 1yw7 | A41 | Methionine aminopeptidase 2 | / | 0.449 | |
| 1pfy | MSP | Methionine--tRNA ligase | 6.1.1.10 | 0.448 | |
| 2std | CRP | Scytalone dehydratase | 4.2.1.94 | 0.448 | |
| 4fgc | PQ0 | NADPH-dependent 7-cyano-7-deazaguanine reductase | 1.7.1.13 | 0.448 | |
| 4daj | 0HK | Muscarinic acetylcholine receptor M3 | / | 0.448 | |
| 1xzq | FON | tRNA modification GTPase MnmE | 3.6.5 | 0.447 | |
| 1yw8 | A75 | Methionine aminopeptidase 2 | / | 0.447 | |
| 3rmw | UPG | Glycogenin-1 | 2.4.1.186 | 0.447 | |
| 1ovm | TPP | Indole-3-pyruvate decarboxylase | 4.1.1.74 | 0.446 | |
| 2wm3 | NFL | NmrA-like family domain-containing protein 1 | / | 0.446 | |
| 3we0 | FAD | Lysine 2-monooxygenase | / | 0.446 | |
| 4a86 | H35 | Major pollen allergen Bet v 1-A | / | 0.446 | |
| 4ko0 | JLJ | Gag-Pol polyprotein | 2.7.7.49 | 0.446 | |
| 4l5b | 1UX | Deoxycytidine kinase | 2.7.1.74 | 0.446 | |
| 4std | BFS | Scytalone dehydratase | 4.2.1.94 | 0.446 | |
| 1qy2 | IPZ | Major urinary protein 1 | / | 0.445 | |
| 4dxa | GSP | Ras-related protein Rap-1b | / | 0.445 | |
| 4ivr | N50 | Thymidine kinase | / | 0.445 | |
| 4ej4 | EJ4 | Delta-type opioid receptor | / | 0.445 | |
| 1k4h | APQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.444 | |
| 1pxg | PRF | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.444 | |
| 2ouz | C3D | Estrogen receptor | / | 0.444 | |
| 2w3a | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 3ae4 | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.444 | |
| 3d76 | NBB | Pheromone-binding protein ASP1 | / | 0.444 | |
| 3l6j | Z90 | Alr2278 protein | / | 0.444 | |
| 3mte | SAM | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.444 | |
| 3p0f | BAU | Uridine phosphorylase 2 | 2.4.2.3 | 0.444 | |
| 4gqi | M49 | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.444 | |
| 4ivq | I43 | Thymidine kinase | / | 0.444 | |
| 2bfp | H4B | Pteridine reductase 1 | 1.5.1.33 | 0.443 | |
| 2ipj | FFA | Aldo-keto reductase family 1 member C2 | / | 0.443 | |
| 2w6p | OA4 | Biotin carboxylase | 6.3.4.14 | 0.443 | |
| 4twn | B96 | Ephrin type-A receptor 3 | 2.7.10.1 | 0.443 | |
| 1ejb | INJ | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.442 | |
| 2bf7 | HBI | Pteridine reductase 1 | 1.5.1.33 | 0.442 | |
| 4bqy | FNT | Egl nine homolog 1 | / | 0.442 | |
| 4mm9 | FVX | Na(+):neurotransmitter symporter (Snf family) | / | 0.442 | |
| 4pnm | NU1 | Tankyrase-2 | 2.4.2.30 | 0.442 | |
| 3nxr | D2D | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 3o76 | GTB | Glutathione S-transferase P 1 | 2.5.1.18 | 0.441 | |
| 3sqw | ANP | ATP-dependent RNA helicase MSS116, mitochondrial | 3.6.4.13 | 0.441 | |
| 4eh8 | IRG | Mitogen-activated protein kinase 14 | / | 0.441 | |
| 1v79 | FR7 | Adenosine deaminase | 3.5.4.4 | 0.440 | |
| 4fr1 | 0V2 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.440 | |
| 5fbh | TCR | Extracellular calcium-sensing receptor | / | 0.440 | |
| 6std | MS2 | Scytalone dehydratase | 4.2.1.94 | 0.440 |