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 |
|---|---|---|---|
| 3cyz | 9OD | Pheromone-binding protein ASP1 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3cyz | 9OD | Pheromone-binding protein ASP1 | / | 1.000 | |
| 3cz0 | 9OD | Pheromone-binding protein ASP1 | / | 0.732 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.477 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.475 | |
| 3fwj | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.474 | |
| 2hrc | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.472 | |
| 6cp4 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.472 | |
| 1kkq | 471 | Peroxisome proliferator-activated receptor alpha | / | 0.466 | |
| 2j14 | GNI | Peroxisome proliferator-activated receptor delta | / | 0.466 | |
| 2uxi | G50 | HTH-type transcriptional regulator TtgR | / | 0.464 | |
| 2pnj | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.462 | |
| 2uxo | TAC | HTH-type transcriptional regulator TtgR | / | 0.462 | |
| 3bfb | 9OD | Pheromone-binding protein ASP1 | / | 0.462 | |
| 4b4o | NDP | Epimerase family protein SDR39U1 | / | 0.462 | |
| 3w1w | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.461 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.461 | |
| 2qbn | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.459 | |
| 3zv6 | 4HB | Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase | 1.3.1.56 | 0.458 | |
| 3t8x | T8X | T-cell surface glycoprotein CD1b | / | 0.457 | |
| 1iwj | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.456 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.456 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.456 | |
| 2z97 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.456 | |
| 3ibd | CPZ | Cytochrome P450 2B6 | 1.14.13 | 0.456 | |
| 4l4c | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.456 | |
| 2y00 | Y01 | Beta-1 adrenergic receptor | / | 0.455 | |
| 4ktl | 1CQ | Cytochrome P450 | / | 0.455 | |
| 3a1l | 2CC | Cytochrome P450 | / | 0.453 | |
| 4hnc | 0UT | Mandelate racemase | / | 0.453 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.452 | |
| 3vjh | J35 | Peroxisome proliferator-activated receptor gamma | / | 0.452 | |
| 1l2j | ETC | Estrogen receptor beta | / | 0.451 | |
| 1ppj | SMA | Cytochrome b | / | 0.451 | |
| 2npa | MMB | Peroxisome proliferator-activated receptor alpha | / | 0.451 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.451 | |
| 1iyz | NDP | Probable quinone oxidoreductase | / | 0.450 | |
| 2j5x | GSP | ADP-ribosylation factor 6 | / | 0.450 | |
| 4nc3 | ERM | 5-hydroxytryptamine receptor 2B | / | 0.450 | |
| 5cp4 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.450 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.449 | |
| 1phg | MYT | Camphor 5-monooxygenase | 1.14.15.1 | 0.449 | |
| 3tk3 | CPZ | Cytochrome P450 2B4 | 1.14.14.1 | 0.449 | |
| 4bgi | I4I | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.449 | |
| 4cql | NAD | Estradiol 17-beta-dehydrogenase 8 | 1.1.1.62 | 0.449 | |
| 4l4b | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.449 | |
| 1dz6 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.448 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.448 | |
| 4o76 | 1M3 | Bromodomain-containing protein 4 | / | 0.448 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.447 | |
| 2qbl | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.446 | |
| 3pgq | GY3 | Acetyl-CoA carboxylase | / | 0.446 | |
| 3sp6 | IL2 | Peroxisome proliferator-activated receptor alpha | / | 0.446 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.446 | |
| 4ktf | 1TM | Cytochrome P450 | / | 0.446 | |
| 1t85 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.445 | |
| 2e9c | B75 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.445 | |
| 2i4p | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.445 | |
| 3h0a | D30 | Peroxisome proliferator-activated receptor gamma | / | 0.445 | |
| 3oew | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.445 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.445 | |
| 3ssn | MVI | Mycinamicin VI 2''-O-methyltransferase | / | 0.445 | |
| 3vso | EK1 | Peroxisome proliferator-activated receptor gamma | / | 0.445 | |
| 1dz4 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.444 | |
| 1y4l | SVR | Basic phospholipase A2 homolog 2 | / | 0.444 | |
| 2om9 | AJA | Peroxisome proliferator-activated receptor gamma | / | 0.444 | |
| 2oyu | IMS | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.444 | |
| 2q5g | 1FA | Peroxisome proliferator-activated receptor delta | / | 0.444 | |
| 2uxp | CLM | HTH-type transcriptional regulator TtgR | / | 0.444 | |
| 3bfa | 9OD | Odorant binding protein ASP1 | / | 0.444 | |
| 3dxj | NE6 | DNA-directed RNA polymerase subunit beta | / | 0.444 | |
| 3dxj | NE6 | DNA-directed RNA polymerase subunit beta' | / | 0.444 | |
| 3t3r | 9PL | Cytochrome P450 2A6 | 1.14.13 | 0.444 | |
| 4dqu | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.444 | |
| 4g48 | PZB | Mycocyclosin synthase | 1.14.21.9 | 0.444 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.443 | |
| 1o76 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 1og5 | SWF | Cytochrome P450 2C9 | / | 0.443 | |
| 1t88 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 2hfp | NSI | Peroxisome proliferator-activated receptor gamma | / | 0.443 | |
| 3fwf | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 3h18 | PMS | Esterase/lipase | / | 0.443 | |
| 4ktk | KTK | Cytochrome P450 | / | 0.443 | |
| 1fm9 | 570 | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 1jio | DEB | 6-deoxyerythronolide B hydroxylase | / | 0.442 | |
| 1suo | CPZ | Cytochrome P450 2B4 | 1.14.14.1 | 0.442 | |
| 2jn3 | JN3 | Fatty acid-binding protein, liver | / | 0.442 | |
| 3s79 | ASD | Aromatase | 1.14.14.14 | 0.442 | |
| 3uag | UMA | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.442 | |
| 4q73 | FAD | Bifunctional protein PutA | / | 0.442 | |
| 4xuh | SFI | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 2uxh | QUE | HTH-type transcriptional regulator TtgR | / | 0.441 | |
| 3icr | FAD | Coenzyme A disulfide reductase | / | 0.441 | |
| 3kb1 | ADP | Iron-sulfur cluster carrier protein | / | 0.441 | |
| 3sgv | 2BJ | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.441 | |
| 3th8 | TH9 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.441 | |
| 4jv6 | 18F | Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta | / | 0.441 | |
| 4kla | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.441 | |
| 4uyf | 73B | Bromodomain-containing protein 2 | / | 0.441 | |
| 1qnf | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.440 | |
| 1xuo | LA1 | Integrin alpha-L | / | 0.440 | |
| 2i4j | DRJ | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 2qo4 | CHD | Fatty acid-binding protein 10-A, liver basic | / | 0.440 | |
| 4cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 4o4f | ATP | Kinase | / | 0.440 |