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 |
|---|---|---|---|
| 4ihj | GTP | Tubulin alpha-1B chain |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4ihj | GTP | Tubulin alpha-1B chain | / | 1.000 | |
| 4wbn | GTP | Tubulin alpha-1B chain | / | 0.857 | |
| 4tv9 | GTP | Tubulin alpha-1B chain | / | 0.754 | |
| 4tuy | GTP | Tubulin alpha-1B chain | / | 0.717 | |
| 5la6 | GTP | Tubulin alpha-1B chain | / | 0.704 | |
| 4iij | GTP | Tubulin alpha-1B chain | / | 0.654 | |
| 4zol | GTP | Tubulin alpha-1B chain | / | 0.635 | |
| 3ryh | GTP | Tubulin alpha chain | / | 0.620 | |
| 5jqg | GTP | Tubulin alpha-1B chain | / | 0.619 | |
| 4o4l | GTP | Tubulin alpha-1B chain | / | 0.607 | |
| 4o4i | GTP | Tubulin alpha-1B chain | / | 0.606 | |
| 4ffb | GTP | Tubulin alpha-1 chain | / | 0.587 | |
| 4yj2 | GTP | Tubulin alpha-1B chain | / | 0.509 | |
| 4u3j | GTP | Tubulin beta chain | / | 0.506 | |
| 5itz | GTP | Tubulin alpha-1B chain | / | 0.495 | |
| 1xdp | ATP | Polyphosphate kinase | / | 0.490 | |
| 2ylr | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.481 | |
| 1ib0 | NAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.480 | |
| 4f6r | GDP | Tubulin beta chain | / | 0.477 | |
| 1njf | ADP | DNA polymerase III subunit tau | 2.7.7.7 | 0.466 | |
| 2x3j | ATP | AcsD | / | 0.463 | |
| 3u9e | COA | Lmo1369 protein | / | 0.463 | |
| 4eak | ATP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.462 | |
| 2get | COK | Pantothenate kinase | 2.7.1.33 | 0.461 | |
| 4y9q | C2E | Uncharacterized protein | / | 0.460 | |
| 2eba | FAD | Putative glutaryl-CoA dehydrogenase | / | 0.458 | |
| 2o12 | FMN | Chorismate synthase | / | 0.457 | |
| 3zid | GDP | Tubulin-like protein CetZ | / | 0.457 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.454 | |
| 2ojt | UBA | Glutamate receptor ionotropic, kainate 1 | / | 0.454 | |
| 3gbu | ATP | Uncharacterized sugar kinase PH1459 | 2.7.1 | 0.454 | |
| 4eb7 | PLP | Cysteine desulfurase IscS 2 | / | 0.454 | |
| 4kgk | GTP | Uncharacterized protein | / | 0.454 | |
| 3iah | NAP | Putative oxoacyl-(Acyl carrier protein) reductase | / | 0.453 | |
| 1n95 | HFP | Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha | / | 0.451 | |
| 1n95 | HFP | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.451 | |
| 2r6g | ATP | Maltose/maltodextrin import ATP-binding protein MalK | / | 0.450 | |
| 5a88 | ADP | Riboflavin biosynthesis protein RibF | 2.7.1.26 | 0.450 | |
| 4bfs | ZVS | Pantothenate kinase | 2.7.1.33 | 0.449 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.449 | |
| 3cb2 | GDP | Tubulin gamma-1 chain | / | 0.448 | |
| 3gwd | NAP | Cyclohexanone monooxygenase | / | 0.448 | |
| 1qor | NDP | Quinone oxidoreductase 1 | / | 0.447 | |
| 2daa | DCS | D-alanine aminotransferase | 2.6.1.21 | 0.447 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.447 | |
| 3fst | FAD | 5,10-methylenetetrahydrofolate reductase | 1.5.1.20 | 0.447 | |
| 4qxa | GTP | Ras-related protein Rab-9A | / | 0.447 | |
| 3qt6 | 2P0 | Mevalonate diphosphate decarboxylase | / | 0.446 | |
| 4du8 | 2P0 | Mevalonate diphosphate decarboxylase | / | 0.446 | |
| 3jzd | NAD | Maleylacetate reductase | / | 0.445 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.445 | |
| 4hdh | ATP | Genome polyprotein | 2.7.7.48 | 0.445 | |
| 4i8x | 6P3 | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.445 | |
| 4wda | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.445 | |
| 1a5u | ATP | Pyruvate kinase PKM | 2.7.1.40 | 0.444 | |
| 4kzo | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.444 | |
| 1gzu | NMN | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1 | 2.7.7.1 | 0.443 | |
| 2xfy | ACX | Beta-amylase | 3.2.1.2 | 0.443 | |
| 3qe2 | FMN | NADPH--cytochrome P450 reductase | / | 0.443 | |
| 4eag | ATP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.443 | |
| 2ges | COK | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 2o1s | TDP | 1-deoxy-D-xylulose-5-phosphate synthase | 2.2.1.7 | 0.442 | |
| 2q1t | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.442 | |
| 2wsi | FAD | FAD synthase | 2.7.7.2 | 0.442 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.442 | |
| 4dfg | 0JV | Gag-Pol polyprotein | 3.4.23.16 | 0.442 | |
| 4j31 | FAD | Kynurenine 3-monooxygenase | / | 0.442 | |
| 5da9 | AGS | Uncharacterized protein | / | 0.442 | |
| 2y0m | ACO | Histone acetyltransferase KAT8 | / | 0.441 | |
| 4d03 | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.441 | |
| 1il0 | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.440 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.440 | |
| 2aa3 | AP0 | L-lactate dehydrogenase | / | 0.440 | |
| 2gr1 | FAD | Ferredoxin reductase | / | 0.440 | |
| 2rlc | CHD | Choloylglycine hydrolase | 3.5.1.24 | 0.440 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.440 | |
| 2zse | ACP | Pantothenate kinase | 2.7.1.33 | 0.440 | |
| 3giy | FMN | (S)-mandelate dehydrogenase | 1.1.99.31 | 0.440 | |
| 4g9k | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.440 | |
| 4gxs | 0YS | Glutamate receptor 2 | / | 0.440 |