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 |
|---|---|---|---|
| 3ke1 | 829 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3ke1 | 829 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 1.000 | |
| 3k14 | 535 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.746 | |
| 4c8e | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.608 | |
| 3jvh | HHV | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.598 | |
| 3p0z | CTN | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.592 | |
| 1h48 | CDI | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.585 | |
| 3k2x | I5A | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.557 | |
| 1iv4 | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.550 | |
| 1h47 | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.549 | |
| 3t80 | CTN | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.545 | |
| 3f0g | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.540 | |
| 1h48 | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.526 | |
| 3elc | F01 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.522 | |
| 4c8g | C5P | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.515 | |
| 1gx1 | CDP | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.504 | |
| 1k6c | MK1 | Gag-Pol polyprotein | 3.4.23.16 | 0.489 | |
| 2amt | 1AA | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.483 | |
| 3q8h | AO9 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.482 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.480 | |
| 1iv2 | CDP | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.479 | |
| 1k6t | XN1 | Gag-Pol polyprotein | 3.4.23.16 | 0.476 | |
| 1k6p | XN3 | Gag-Pol polyprotein | 3.4.23.16 | 0.468 | |
| 3rga | ILD | Epoxide hydrolase LasB | 5.5.1 | 0.466 | |
| 2uzh | CDP | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | / | 0.459 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.457 | |
| 4bfv | ZVV | Pantothenate kinase | 2.7.1.33 | 0.456 | |
| 4bdc | ODH | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.454 | |
| 4z61 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.454 | |
| 1j39 | UPG | DNA beta-glucosyltransferase | / | 0.453 | |
| 3dmg | SAH | Probable ribosomal RNA small subunit methyltransferase | / | 0.453 | |
| 4ly9 | 1YY | Glucokinase regulatory protein | / | 0.452 | |
| 2yir | YIR | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.451 | |
| 3umv | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.451 | |
| 4pd6 | URI | Nucleoside permease | / | 0.451 | |
| 4jx1 | CAH | Camphor 5-monooxygenase | 1.14.15.1 | 0.449 | |
| 2pwu | GUN | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.447 | |
| 3g5s | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.447 | |
| 3nxx | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.447 | |
| 1v59 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.446 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.445 | |
| 1hk5 | T44 | Serum albumin | / | 0.444 | |
| 1p0h | ACO | Mycothiol acetyltransferase | 2.3.1.189 | 0.444 | |
| 3r83 | Z14 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.444 | |
| 4kl9 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 4gt3 | ATP | Mitogen-activated protein kinase 1 | 2.7.11.24 | 0.443 | |
| 1hvy | D16 | Thymidylate synthase | 2.1.1.45 | 0.442 | |
| 1pq9 | 44B | Oxysterols receptor LXR-beta | / | 0.442 | |
| 1ydr | IQP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.442 | |
| 3d84 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 3f63 | GTX | Glutathione transferase GST1-4 | / | 0.442 | |
| 4z63 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.442 | |
| 1lb9 | DNQ | Glutamate receptor 2 | / | 0.441 | |
| 1nzf | UPG | DNA beta-glucosyltransferase | / | 0.441 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.441 | |
| 4k28 | NAD | Shikimate dehydrogenase family protein | / | 0.441 | |
| 4ms1 | 381 | Gamma-aminobutyric acid type B receptor subunit 1 | / | 0.441 | |
| 1pd9 | CO4 | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 3juh | ANP | Casein kinase II subunit alpha | 2.7.11.1 | 0.440 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.440 |