sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 1kv9 | PQQ | Quinohemoprotein alcohol dehydrogenase ADH IIB |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1kv9 | PQQ | Quinohemoprotein alcohol dehydrogenase ADH IIB | / | 1.000 | |
| 1nm6 | L86 | Prothrombin | 3.4.21.5 | 0.464 | |
| 1d6w | 00R | Prothrombin | 3.4.21.5 | 0.461 | |
| 1ypl | RA8 | Prothrombin | 3.4.21.5 | 0.460 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.460 | |
| 4lxb | 7R9 | Prothrombin | 3.4.21.5 | 0.460 | |
| 5eb5 | FAD | (R)-mandelonitrile lyase 1 | 4.1.2.10 | 0.458 | |
| 1mue | CDD | Prothrombin | 3.4.21.5 | 0.455 | |
| 1zrb | 062 | Prothrombin | 3.4.21.5 | 0.454 | |
| 2r2m | I50 | Prothrombin | 3.4.21.5 | 0.453 | |
| 2ej2 | PPE | Branched-chain amino acid aminotransferase (IlvE) | / | 0.452 | |
| 3fql | 79Z | Genome polyprotein | 2.7.7.48 | 0.452 | |
| 1sb1 | 165 | Prothrombin | 3.4.21.5 | 0.451 | |
| 2xvf | FAD | Putative flavin-containing monooxygenase | / | 0.451 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.450 | |
| 3zbs | OVE | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.450 | |
| 2zhw | 12U | Prothrombin | 3.4.21.5 | 0.449 | |
| 3eq0 | 2TS | Prothrombin | 3.4.21.5 | 0.449 | |
| 2jh0 | 701 | Prothrombin | 3.4.21.5 | 0.447 | |
| 2rlc | CHD | Choloylglycine hydrolase | 3.5.1.24 | 0.447 | |
| 2zf0 | 51U | Prothrombin | 3.4.21.5 | 0.447 | |
| 4wec | NAD | Short chain dehydrogenase | / | 0.446 | |
| 4xr9 | NAD | CalS8 | / | 0.445 | |
| 1cf3 | FAD | Glucose oxidase | 1.1.3.4 | 0.444 | |
| 1k21 | IGN | Prothrombin | 3.4.21.5 | 0.444 | |
| 1oyt | FSN | Prothrombin | 3.4.21.5 | 0.444 | |
| 2cf8 | ESH | Prothrombin | 3.4.21.5 | 0.444 | |
| 3fp0 | FP0 | 15-O-acetyltransferase | / | 0.444 | |
| 4du8 | 2P0 | Mevalonate diphosphate decarboxylase | / | 0.444 | |
| 1zgi | 382 | Prothrombin | 3.4.21.5 | 0.443 | |
| 2qtc | TDK | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.443 | |
| 2vpr | TDC | Tetracycline repressor protein class H | / | 0.443 | |
| 4n3l | 2FN | Prothrombin | 3.4.21.5 | 0.443 | |
| 2bxt | C2D | Prothrombin | 3.4.21.5 | 0.442 | |
| 3mtw | M3R | Xaa-Pro dipeptidase, putative | / | 0.442 | |
| 4bam | MM9 | Prothrombin | 3.4.21.5 | 0.442 | |
| 4tqo | PQQ | Methanol dehydrogenase protein, large subunit | / | 0.442 | |
| 2il2 | LIX | Renin | 3.4.23.15 | 0.441 | |
| 2xb9 | XNW | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.441 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 4cdm | FO1 | Deoxyribodipyrimidine photolyase | / | 0.441 | |
| 1c4u | IH1 | Prothrombin | 3.4.21.5 | 0.440 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.440 | |
| 1ypm | RA4 | Prothrombin | 3.4.21.5 | 0.440 | |
| 1z71 | L17 | Prothrombin | 3.4.21.5 | 0.440 | |
| 3e5h | GNP | Ras-related protein Rab-28 | / | 0.440 | |
| 3k3e | PDB | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.440 | |
| 4hxy | NDP | Plm1 | / | 0.440 |