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 Modes are compared using Grim.
For more information, please see the following publication:
Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 1.448 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 1.110 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 1.099 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 1.087 | |
| 3p67 | FMN | Pentaerythritol tetranitrate reductase | / | 1.080 | |
| 4jic | FMN | GTN Reductase | / | 1.078 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 1.068 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 1.065 | |
| 3p8i | FMN | Pentaerythritol tetranitrate reductase | / | 1.062 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 1.054 | |
| 3p8j | FMN | Pentaerythritol tetranitrate reductase | / | 1.050 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 1.047 | |
| 4b5n | FMN | NAD(P)H:flavin oxidoreductase Sye4 | / | 1.030 | |
| 4e2d | FMN | Dehydrogenase | / | 1.007 | |
| 4e2b | FMN | Dehydrogenase | / | 0.996 | |
| 4awt | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.978 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.976 | |
| 4aws | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.972 | |
| 1gwj | FMN | Morphinone reductase | / | 0.948 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 0.923 | |
| 1icq | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.913 | |
| 1ics | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.908 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.902 | |
| 1vji | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.899 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.896 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.888 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 0.885 | |
| 4yco | FMN | tRNA-dihydrouridine(16) synthase | / | 0.876 | |
| 3tjl | FMN | NADPH dehydrogenase | / | 0.869 | |
| 3hgr | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.866 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.854 | |
| 5cpm | FNR | NADH:flavin oxidoreductase | / | 0.853 | |
| 2h8x | FMN | XenA | / | 0.852 | |
| 4rnx | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.850 | |
| 1z41 | FMN | NADPH dehydrogenase | / | 0.848 | |
| 4qai | FMN | NADPH dehydrogenase | / | 0.846 | |
| 4utk | FNR | Xenobiotic reductase | / | 0.845 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.843 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 0.840 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.840 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.839 | |
| 4utl | FNR | Xenobiotic reductase | / | 0.834 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.830 | |
| 3n19 | FNR | Xenobiotic reductase | / | 0.830 | |
| 1z44 | FMN | NADPH dehydrogenase | / | 0.819 | |
| 2q3r | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.815 | |
| 3p82 | FMN | Pentaerythritol tetranitrate reductase | / | 0.815 | |
| 3kru | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.809 | |
| 4utm | FNR | Xenobiotic reductase | / | 0.806 | |
| 3hf3 | FMN | Chromate reductase | / | 0.804 | |
| 1oya | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.803 | |
| 2hsa | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.803 | |
| 3n14 | FMN | Xenobiotic reductase | / | 0.802 | |
| 1bwk | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.801 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.793 | |
| 4uth | FMN | Xenobiotic reductase | / | 0.792 | |
| 3l5l | FMN | Xenobiotic reductase | / | 0.787 | |
| 4rnv | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.785 | |
| 4df2 | FMN | NADPH dehydrogenase | / | 0.783 | |
| 2djl | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.781 | |
| 1djq | FMN | Trimethylamine dehydrogenase | 1.5.8.2 | 0.778 | |
| 1k02 | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.776 | |
| 1q45 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.775 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.772 | |
| 2hs8 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.769 | |
| 3l67 | FMN | Xenobiotic reductase | / | 0.767 | |
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA | / | 0.767 | |
| 1ep1 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 0.764 | |
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.757 | |
| 2e77 | FMN | Lactate oxidase | / | 0.756 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.750 | |
| 4rje | FNR | Lactate oxidase | / | 0.750 | |
| 1kbj | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.749 | |
| 3b04 | OOP | Isopentenyl-diphosphate delta-isomerase | / | 0.749 | |
| 1z48 | FMN | NADPH dehydrogenase | / | 0.746 | |
| 4xq6 | FMN | Dihydroorotate dehydrogenase (quinone) | / | 0.746 | |
| 2gqa | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.745 | |
| 4rnu | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.742 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.735 | |
| 4ef8 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.734 | |
| 4ef9 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.731 | |
| 1uum | FMN | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.728 | |
| 1ep3 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 0.723 | |
| 1ofd | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.723 | |
| 2j6x | FMN | Lactate oxidase | / | 0.719 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.718 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.712 | |
| 4z9r | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.712 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.711 | |
| 1fcb | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.710 | |
| 3gye | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.708 | |
| 2pg0 | FAD | Acyl-CoA dehydrogenase | / | 0.703 | |
| 1nqx | RLP | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.702 | |
| 1szf | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.699 | |
| 4yx6 | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.696 | |
| 3c3n | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.695 | |
| 2ohh | FMN | Type A flavoprotein FprA | 1 | 0.692 | |
| 2vyx | FMN | Dodecin | / | 0.690 | |
| 4qly | FMN | Enone reductase CLA-ER | / | 0.684 | |
| 2isk | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.683 | |
| 1dor | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.681 | |
| 3owa | FAD | Acyl-CoA dehydrogenase | / | 0.681 | |
| 4kuk | RBF | Putative blue-light photoreceptor | / | 0.680 | |
| 2du2 | FMN | Lactate oxidase | / | 0.679 | |
| 1h7w | FMN | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.677 | |
| 2d29 | FAD | Acyl-CoA dehydrogenase | / | 0.677 | |
| 2v18 | FMN | Dodecin | / | 0.676 | |
| 3gag | FMN | Putative NADH dehydrogenase NAD(P)H nitroreductase | / | 0.675 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.673 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.672 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.672 | |
| 4cw5 | FMN | DfnA | / | 0.672 | |
| 4brd | ANP | Ectonucleoside triphosphate diphosphohydrolase I | / | 0.670 | |
| 4z38 | FMN | MlnA | / | 0.669 | |
| 2zfa | FMN | Lactate oxidase | / | 0.668 | |
| 4bf9 | FMN | tRNA-dihydrouridine(16) synthase | / | 0.668 | |
| 2oz0 | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.666 | |
| 4dpd | UMP | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.665 | |
| 4c3y | FAD | 3-ketosteroid dehydrogenase | / | 0.663 | |
| 2isj | FMN | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.662 | |
| 2bo8 | GDX | Mannosylglycerate synthase | / | 0.661 | |
| 2z6i | FMN | 2-nitropropane dioxygenase | / | 0.661 | |
| 4h4u | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.660 | |
| 3gfd | FMN | Iodotyrosine deiodinase 1 | 1.21.1.1 | 0.659 | |
| 3b05 | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.658 | |
| 1llw | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.657 | |
| 2wzw | FMN | Nitroreductase NfnB | / | 0.656 | |
| 2a58 | RBF | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.655 | |
| 2wzv | FMN | Nitroreductase NfnB | / | 0.655 | |
| 2zrx | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.655 | |
| 4yl2 | FMN | Lactate oxidase | / | 0.654 | |
| 3pft | FMN | Flavin reductase | / | 0.652 | |
| 4h6p | FMN | Chromate reductase | / | 0.652 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.651 | |
| 3w77 | FMN | FMN-dependent NADH-azoreductase | / | 0.651 | |
| 1o29 | FAD | Flavin-dependent thymidylate synthase | 2.1.1.148 | 0.650 | |
| 3bem | FMN | Putative NAD(P)H nitroreductase MhqN | 1 | 0.650 | |
| 3vkj | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.650 |