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 |
|---|---|---|---|
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA | / | 1.202 | |
| 2hsa | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.023 | |
| 2hs8 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.015 | |
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.013 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.999 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.998 | |
| 3hgr | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.989 | |
| 1icq | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.983 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.967 | |
| 4utl | FNR | Xenobiotic reductase | / | 0.960 | |
| 2gqa | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.953 | |
| 1q45 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.952 | |
| 3l5l | FMN | Xenobiotic reductase | / | 0.938 | |
| 2h8x | FMN | XenA | / | 0.927 | |
| 3l67 | FMN | Xenobiotic reductase | / | 0.927 | |
| 1z48 | FMN | NADPH dehydrogenase | / | 0.921 | |
| 4uth | FMN | Xenobiotic reductase | / | 0.919 | |
| 4utm | FNR | Xenobiotic reductase | / | 0.919 | |
| 5cpm | FNR | NADH:flavin oxidoreductase | / | 0.913 | |
| 3n14 | FMN | Xenobiotic reductase | / | 0.912 | |
| 4df2 | FMN | NADPH dehydrogenase | / | 0.909 | |
| 1z41 | FMN | NADPH dehydrogenase | / | 0.907 | |
| 4utk | FNR | Xenobiotic reductase | / | 0.902 | |
| 1ics | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.894 | |
| 3tjl | FMN | NADPH dehydrogenase | / | 0.894 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.889 | |
| 3kru | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.880 | |
| 3hf3 | FMN | Chromate reductase | / | 0.877 | |
| 1oya | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.875 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 0.875 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.873 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 0.872 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 0.872 | |
| 3p8j | FMN | Pentaerythritol tetranitrate reductase | / | 0.872 | |
| 1z44 | FMN | NADPH dehydrogenase | / | 0.869 | |
| 4aws | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.868 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.867 | |
| 3gr8 | FMN | NADPH dehydrogenase | / | 0.865 | |
| 1vhn | FMN | tRNA-dihydrouridine synthase | / | 0.862 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 0.861 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 0.859 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 0.858 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 0.848 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.847 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 0.843 | |
| 3p8i | FMN | Pentaerythritol tetranitrate reductase | / | 0.843 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.842 | |
| 4ycp | FMN | tRNA-dihydrouridine(16) synthase | / | 0.840 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 0.838 | |
| 4rnx | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.835 | |
| 4e2d | FMN | Dehydrogenase | / | 0.834 | |
| 1djq | FMN | Trimethylamine dehydrogenase | 1.5.8.2 | 0.831 | |
| 1gwj | FMN | Morphinone reductase | / | 0.831 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.827 | |
| 4b5n | FMN | NAD(P)H:flavin oxidoreductase Sye4 | / | 0.827 | |
| 4yco | FMN | tRNA-dihydrouridine(16) synthase | / | 0.827 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.823 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.822 | |
| 3p67 | FMN | Pentaerythritol tetranitrate reductase | / | 0.821 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.818 | |
| 1bwk | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.817 | |
| 2nli | FMN | Lactate oxidase | / | 0.816 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.815 | |
| 4e2b | FMN | Dehydrogenase | / | 0.811 | |
| 4bf9 | FMN | tRNA-dihydrouridine(16) synthase | / | 0.808 | |
| 3giy | FMN | (S)-mandelate dehydrogenase | 1.1.99.31 | 0.807 | |
| 4awt | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.807 | |
| 4rnv | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.802 | |
| 3b03 | VNR | Isopentenyl-diphosphate delta-isomerase | / | 0.801 | |
| 4jic | FMN | GTN Reductase | / | 0.800 | |
| 4qai | FMN | NADPH dehydrogenase | / | 0.799 | |
| 3vkj | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.797 | |
| 1kbj | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.790 | |
| 2zrv | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.790 | |
| 1vji | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.783 | |
| 2q3r | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.777 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 0.777 | |
| 4m5p | FMN | NADPH dehydrogenase | / | 0.768 | |
| 1jue | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.767 | |
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.767 | |
| 2djx | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.758 | |
| 1ofd | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.754 | |
| 2bsl | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.753 | |
| 1h7w | FMN | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.751 | |
| 2zry | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.749 | |
| 4iql | FMN | Enoyl-(Acyl-carrier-protein) reductase II | / | 0.749 | |
| 1jub | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.747 | |
| 2z6i | FMN | 2-nitropropane dioxygenase | / | 0.743 | |
| 3p82 | FMN | Pentaerythritol tetranitrate reductase | / | 0.743 | |
| 2djl | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.741 | |
| 1vcf | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.739 | |
| 4yx6 | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.739 | |
| 1fcb | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.737 | |
| 1lm1 | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.730 | |
| 3b05 | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.730 | |
| 1llw | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.729 | |
| 1szf | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.725 | |
| 4z9r | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.720 | |
| 1ofe | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.719 | |
| 2zrx | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.719 | |
| 2zrz | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.719 | |
| 2q3o | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.713 | |
| 1qcw | FNS | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.710 | |
| 5ebu | FMN | Lactate oxidase | / | 0.708 | |
| 4rje | FNR | Lactate oxidase | / | 0.704 | |
| 4xq6 | FMN | Dihydroorotate dehydrogenase (quinone) | / | 0.702 | |
| 3gye | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.701 | |
| 4yl2 | FMN | Lactate oxidase | / | 0.698 | |
| 2du2 | FMN | Lactate oxidase | / | 0.696 | |
| 4ef8 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.695 | |
| 1dxq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.694 | |
| 4cw5 | FMN | DfnA | / | 0.692 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.689 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.687 | |
| 1kbi | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.685 | |
| 4qof | FMN | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.683 | |
| 4ef9 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.681 | |
| 1ea0 | FMN | Glutamate synthase [NADPH] large chain | 1.4.1.13 | 0.679 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.679 | |
| 1dxo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.677 | |
| 3rpe | FAD | Putative modulator of drug activity | / | 0.677 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.670 | |
| 1n9n | FMN | Putative blue light receptor | / | 0.669 | |
| 2gjn | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.669 | |
| 4m0c | FMN | FMN-dependent NADH-azoreductase 1 | / | 0.669 | |
| 2vxa | RBF | Dodecin | / | 0.668 | |
| 4hj6 | FMN | LOV protein | / | 0.667 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.662 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.660 | |
| 4h6r | FDA | Proline dehydrogenase | / | 0.659 | |
| 4opu | FDA | Conserved Archaeal protein | / | 0.659 | |
| 1uum | FMN | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.658 | |
| 2z9d | FMN | FMN-dependent NADH-azoreductase | / | 0.658 | |
| 3bw4 | FMN | Putative 2-nitropropane dioxygenase | / | 0.657 | |
| 3n39 | FMN | Protein NrdI | / | 0.657 | |
| 1iqr | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.655 | |
| 1drb | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.654 | |
| 4j8p | FMN | Flavodoxin | / | 0.653 | |
| 4m52 | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.652 | |
| 1dnp | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.651 | |
| 3gg0 | FMN | Uncharacterized protein | / | 0.651 | |
| 4q4k | FMN | Uncharacterized protein | / | 0.651 | |
| 1ep3 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 0.650 | |
| 1llz | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.650 | |
| 2hfo | FMN | Activator of photopigment and puc expression | / | 0.650 |