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 |
|---|---|---|---|
| 2e77 | FMN | Lactate oxidase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2e77 | FMN | Lactate oxidase | / | 1.000 | |
| 4yl2 | FMN | Lactate oxidase | / | 0.614 | |
| 4rje | FNR | Lactate oxidase | / | 0.606 | |
| 5ebu | FMN | Lactate oxidase | / | 0.598 | |
| 2j6x | FMN | Lactate oxidase | / | 0.573 | |
| 1kbi | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.567 | |
| 1kbj | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.560 | |
| 2du2 | FMN | Lactate oxidase | / | 0.560 | |
| 2nli | FMN | Lactate oxidase | / | 0.559 | |
| 1gox | FMN | Peroxisomal (S)-2-hydroxy-acid oxidase | 1.1.3.15 | 0.557 | |
| 1fcb | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.554 | |
| 3giy | FMN | (S)-mandelate dehydrogenase | 1.1.99.31 | 0.544 | |
| 1szg | FNS | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.531 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 0.519 | |
| 2zfa | FMN | Lactate oxidase | / | 0.508 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 0.502 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 0.501 | |
| 1szf | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.497 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.497 | |
| 1icq | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.495 | |
| 2oz0 | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.494 | |
| 3p8j | FMN | Pentaerythritol tetranitrate reductase | / | 0.488 | |
| 3hgr | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.481 | |
| 4rnx | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.480 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.478 | |
| 1bwk | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.477 | |
| 1vji | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.476 | |
| 3n19 | FNR | Xenobiotic reductase | / | 0.476 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.473 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.472 | |
| 1ics | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.471 | |
| 1oya | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.471 | |
| 3p8i | FMN | Pentaerythritol tetranitrate reductase | / | 0.471 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.470 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 0.470 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 0.466 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.466 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.462 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 0.462 | |
| 3p82 | FMN | Pentaerythritol tetranitrate reductase | / | 0.462 | |
| 3nl6 | TPS | Uncharacterized protein | / | 0.461 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 0.461 | |
| 4m5p | FMN | NADPH dehydrogenase | / | 0.461 | |
| 1z44 | FMN | NADPH dehydrogenase | / | 0.460 | |
| 3l5l | FMN | Xenobiotic reductase | / | 0.459 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.458 | |
| 4rnv | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.458 | |
| 3p67 | FMN | Pentaerythritol tetranitrate reductase | / | 0.456 | |
| 2q3r | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.454 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.453 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.452 | |
| 2yww | ATP | Aspartate carbamoyltransferase regulatory chain | / | 0.452 | |
| 3hf3 | FMN | Chromate reductase | / | 0.452 | |
| 1ydt | IQB | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.451 | |
| 2rgh | FAD | Alpha-Glycerophosphate Oxidase | / | 0.451 | |
| 3inm | NDP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.451 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.451 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 0.450 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 2geu | COK | Pantothenate kinase | 2.7.1.33 | 0.450 | |
| 4e2b | FMN | Dehydrogenase | / | 0.450 | |
| 4utk | FNR | Xenobiotic reductase | / | 0.450 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.449 | |
| 4wh3 | ATP | N-acetylhexosamine 1-kinase | 2.7.1.162 | 0.449 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.449 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.448 | |
| 2cy0 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.448 | |
| 4e2d | FMN | Dehydrogenase | / | 0.448 | |
| 4mo2 | FAD | UDP-galactopyranose mutase | / | 0.448 | |
| 4qai | FMN | NADPH dehydrogenase | / | 0.448 | |
| 1adf | TAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.447 | |
| 3sdk | P3N | Proteasome subunit beta type-5 | 3.4.25.1 | 0.447 | |
| 3sdk | P3N | Proteasome subunit beta type-6 | 3.4.25.1 | 0.447 | |
| 4mlp | 2CX | Cryptochrome-2 | / | 0.447 | |
| 1qcw | FNS | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.446 | |
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.446 | |
| 2hs8 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.446 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 0.446 | |
| 1p0h | ACO | Mycothiol acetyltransferase | 2.3.1.189 | 0.445 | |
| 2q3o | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.445 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 0.445 | |
| 3jzi | JZL | Biotin carboxylase | 6.3.4.14 | 0.445 | |
| 3sdi | 3SD | Proteasome subunit beta type-5 | 3.4.25.1 | 0.445 | |
| 3sdi | 3SD | Proteasome subunit beta type-6 | 3.4.25.1 | 0.445 | |
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.445 | |
| 4ocp | ADP | N-acetylhexosamine 1-kinase | 2.7.1.162 | 0.445 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.444 | |
| 4jic | FMN | GTN Reductase | / | 0.444 | |
| 3zhs | TD6 | Multifunctional 2-oxoglutarate metabolism enzyme | 1.2.4.2 | 0.443 | |
| 4e5j | 581 | Polymerase acidic protein | / | 0.443 | |
| 1llz | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.442 | |
| 1lm1 | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.442 | |
| 2gqa | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.442 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 4nxw | ADP | Mitochondrial dynamics protein MID51 | / | 0.442 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.442 | |
| 4yaw | 2AM | NADPH--cytochrome P450 reductase | / | 0.442 | |
| 1z48 | FMN | NADPH dehydrogenase | / | 0.440 | |
| 2g22 | 6IG | Renin | 3.4.23.15 | 0.440 | |
| 4nxx | GDP | Mitochondrial dynamics protein MID51 | / | 0.440 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.440 |