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 |
|---|---|---|---|
| 1eu1 | MGD | Dimethyl sulfoxide/trimethylamine N-oxide reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1eu1 | MGD | Dimethyl sulfoxide/trimethylamine N-oxide reductase | / | 1.000 | |
| 4ike | ADP | Adenylate kinase | / | 0.489 | |
| 4gyz | D5M | Tyrosyl-DNA phosphodiesterase 2 | 3.1.4 | 0.483 | |
| 4amb | DUD | Putative glycosyl transferase | / | 0.481 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.475 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.468 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.466 | |
| 1fm7 | DFV | Chalcone--flavonone isomerase 1 | 5.5.1.6 | 0.465 | |
| 4jld | ADP | Adenylate kinase | / | 0.464 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.459 | |
| 4jl5 | ADP | Adenylate kinase | / | 0.459 | |
| 4j7x | NAP | Sepiapterin reductase | 1.1.1.153 | 0.457 | |
| 4jlo | ADP | Adenylate kinase | / | 0.457 | |
| 2djx | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.456 | |
| 4fj0 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.456 | |
| 4p13 | FAD | Medium-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.7 | 0.456 | |
| 1me6 | IVS | Plasmepsin-2 | 3.4.23.39 | 0.455 | |
| 5ftf | ADP | TPR domain protein | / | 0.455 | |
| 2vhz | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.454 | |
| 4qbf | AP5 | Adenylate kinase | / | 0.454 | |
| 1f17 | NAI | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.453 | |
| 1vcf | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.453 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.453 | |
| 2b9y | FAD | Putative aminooxidase | / | 0.452 | |
| 2ch6 | ADP | N-acetyl-D-glucosamine kinase | 2.7.1.59 | 0.452 | |
| 3a9w | NAD | NDP-sugar epimerase | / | 0.452 | |
| 3jzd | NAD | Maleylacetate reductase | / | 0.452 | |
| 3kji | ADP | CO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC | / | 0.452 | |
| 4ohx | ADP | Protein clpf-1 | / | 0.452 | |
| 4jl6 | ADP | Adenylate kinase | / | 0.451 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.450 | |
| 2pg0 | FAD | Acyl-CoA dehydrogenase | / | 0.450 | |
| 3hyo | ADP | Pyridoxal kinase | / | 0.450 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.450 | |
| 4jky | ADP | Adenylate kinase | / | 0.450 | |
| 2rlc | CHD | Choloylglycine hydrolase | 3.5.1.24 | 0.449 | |
| 2yxu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.449 | |
| 4qbi | AP5 | Adenylate kinase | / | 0.449 | |
| 1dg8 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 4e07 | ACP | Plasmid partitioning protein ParF | / | 0.448 | |
| 1uxy | EPU | UDP-N-acetylenolpyruvoylglucosamine reductase | 1.3.1.98 | 0.447 | |
| 3a0t | ADP | Sensor histidine kinase | / | 0.447 | |
| 3l77 | NJP | Short-chain alcohol dehydrogenase | / | 0.447 | |
| 4hwk | NAP | Sepiapterin reductase | 1.1.1.153 | 0.447 | |
| 1dor | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.446 | |
| 1x7h | NDP | Putative ketoacyl reductase | 1.3.1 | 0.446 | |
| 3hdh | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.446 | |
| 3kb1 | ADP | Iron-sulfur cluster carrier protein | / | 0.446 | |
| 2hdh | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.445 | |
| 1ju9 | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.444 | |
| 1uae | UD1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.444 | |
| 2bl4 | NAD | Lactaldehyde reductase | 1.1.1.77 | 0.444 | |
| 2cbr | A80 | Cellular retinoic acid-binding protein 1 | / | 0.444 | |
| 3dga | NDP | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.444 | |
| 4z24 | FAD | Putative GMC-type oxidoreductase R135 | 1 | 0.444 | |
| 5hg0 | SAM | Pantothenate synthetase | / | 0.444 | |
| 1icv | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 0.443 | |
| 4nie | NBH | Nuclear receptor ROR-gamma | / | 0.443 | |
| 1e5q | NDP | Saccharopine dehydrogenase [NADP(+), L-glutamate-forming] | 1.5.1.10 | 0.442 | |
| 2bjf | DXC | Choloylglycine hydrolase | 3.5.1.24 | 0.442 | |
| 2y0m | ACO | Histone acetyltransferase KAT8 | / | 0.442 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.442 | |
| 3inv | NDP | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.442 | |
| 1sny | NAP | LD36273p | / | 0.441 | |
| 1vfr | FMN | Major NAD(P)H-flavin oxidoreductase | 1.6.99 | 0.441 | |
| 2ad5 | ADP | CTP synthase | / | 0.441 | |
| 4zs2 | FLU | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.441 | |
| 5doz | NDP | JamJ | / | 0.441 | |
| 1drh | NAP | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 1k6v | XN2 | Gag-Pol polyprotein | 3.4.23.16 | 0.440 | |
| 2w3b | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.440 | |
| 3a1c | ACP | Probable copper-exporting P-type ATPase A | 3.6.3.54 | 0.440 | |
| 3hpr | AP5 | Adenylate kinase | / | 0.440 | |
| 3pxv | FMN | Nitroreductase | / | 0.440 | |
| 3qlr | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.440 |