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 |
|---|---|---|---|
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.317 | |
| 2hs8 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.270 | |
| 2hsa | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.233 | |
| 1q45 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.148 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.128 | |
| 3hgr | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.067 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 1.057 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 1.013 | |
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA | / | 1.013 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.983 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.959 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 0.955 | |
| 4df2 | FMN | NADPH dehydrogenase | / | 0.953 | |
| 1icq | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.952 | |
| 2h8x | FMN | XenA | / | 0.951 | |
| 1ics | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.948 | |
| 3tjl | FMN | NADPH dehydrogenase | / | 0.944 | |
| 2gqa | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.937 | |
| 1z48 | FMN | NADPH dehydrogenase | / | 0.936 | |
| 3n14 | FMN | Xenobiotic reductase | / | 0.935 | |
| 4rnv | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.921 | |
| 4awt | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.907 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.897 | |
| 3l5l | FMN | Xenobiotic reductase | / | 0.893 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.890 | |
| 4m5p | FMN | NADPH dehydrogenase | / | 0.886 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 0.881 | |
| 4qai | FMN | NADPH dehydrogenase | / | 0.879 | |
| 5cpm | FNR | NADH:flavin oxidoreductase | / | 0.879 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 0.875 | |
| 4utl | FNR | Xenobiotic reductase | / | 0.874 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 0.872 | |
| 3l67 | FMN | Xenobiotic reductase | / | 0.872 | |
| 1z44 | FMN | NADPH dehydrogenase | / | 0.870 | |
| 1z41 | FMN | NADPH dehydrogenase | / | 0.868 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 0.865 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.865 | |
| 3hf3 | FMN | Chromate reductase | / | 0.865 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.865 | |
| 4utm | FNR | Xenobiotic reductase | / | 0.864 | |
| 4b5n | FMN | NAD(P)H:flavin oxidoreductase Sye4 | / | 0.863 | |
| 4uth | FMN | Xenobiotic reductase | / | 0.856 | |
| 3p67 | FMN | Pentaerythritol tetranitrate reductase | / | 0.855 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 0.855 | |
| 3p8i | FMN | Pentaerythritol tetranitrate reductase | / | 0.852 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 0.850 | |
| 4e2d | FMN | Dehydrogenase | / | 0.848 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.846 | |
| 1vhn | FMN | tRNA-dihydrouridine synthase | / | 0.845 | |
| 3kru | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.844 | |
| 4ycp | FMN | tRNA-dihydrouridine(16) synthase | / | 0.844 | |
| 1oya | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.842 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.839 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 0.832 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.832 | |
| 4aws | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.827 | |
| 1kbj | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.824 | |
| 1vji | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.822 | |
| 1djq | FMN | Trimethylamine dehydrogenase | 1.5.8.2 | 0.817 | |
| 2nli | FMN | Lactate oxidase | / | 0.816 | |
| 4jic | FMN | GTN Reductase | / | 0.816 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 0.815 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.815 | |
| 1gwj | FMN | Morphinone reductase | / | 0.814 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.813 | |
| 1bwk | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.811 | |
| 1jub | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.811 | |
| 3p8j | FMN | Pentaerythritol tetranitrate reductase | / | 0.809 | |
| 1kbi | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.805 | |
| 3gr8 | FMN | NADPH dehydrogenase | / | 0.805 | |
| 2zfa | FMN | Lactate oxidase | / | 0.797 | |
| 4e2b | FMN | Dehydrogenase | / | 0.797 | |
| 1k02 | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.796 | |
| 2djx | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.795 | |
| 3giy | FMN | (S)-mandelate dehydrogenase | 1.1.99.31 | 0.790 | |
| 4rnx | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.789 | |
| 3p82 | FMN | Pentaerythritol tetranitrate reductase | / | 0.788 | |
| 1ofd | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.787 | |
| 4yco | FMN | tRNA-dihydrouridine(16) synthase | / | 0.787 | |
| 2q3r | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.781 | |
| 1lm1 | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.778 | |
| 1jue | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.772 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 0.772 | |
| 2j6x | FMN | Lactate oxidase | / | 0.764 | |
| 1szf | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.763 | |
| 4yx6 | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.761 | |
| 2z6i | FMN | 2-nitropropane dioxygenase | / | 0.759 | |
| 2zrv | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.759 | |
| 3c3n | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.758 | |
| 2zrz | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.757 | |
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.757 | |
| 2zrx | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.756 | |
| 4iql | FMN | Enoyl-(Acyl-carrier-protein) reductase II | / | 0.756 | |
| 4bf9 | FMN | tRNA-dihydrouridine(16) synthase | / | 0.755 | |
| 1llw | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.752 | |
| 1gox | FMN | Peroxisomal (S)-2-hydroxy-acid oxidase | 1.1.3.15 | 0.751 | |
| 3n19 | FNR | Xenobiotic reductase | / | 0.751 | |
| 1fcb | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.750 | |
| 1h7w | FMN | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.749 | |
| 4z9r | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.749 | |
| 1ofe | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.743 | |
| 2zry | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.740 | |
| 4rnu | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.737 | |
| 4cw5 | FMN | DfnA | / | 0.732 | |
| 2q3o | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.726 | |
| 2bsl | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.723 | |
| 2du2 | FMN | Lactate oxidase | / | 0.718 | |
| 2e77 | FMN | Lactate oxidase | / | 0.718 | |
| 1qcw | FNS | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.717 | |
| 2gjn | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.716 | |
| 3gye | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.716 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.709 | |
| 5ebu | FMN | Lactate oxidase | / | 0.707 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.706 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.705 | |
| 4m0c | FMN | FMN-dependent NADH-azoreductase 1 | / | 0.693 | |
| 2djl | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.692 | |
| 3esz | FMN | Flavodoxin | / | 0.691 | |
| 2a1t | FAD | Medium-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.7 | 0.686 | |
| 3rpe | FAD | Putative modulator of drug activity | / | 0.683 | |
| 1szg | FNS | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.677 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.675 | |
| 1kyv | RBF | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.673 | |
| 1llz | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.673 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.672 | |
| 1own | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.672 | |
| 3w77 | FMN | FMN-dependent NADH-azoreductase | / | 0.671 | |
| 2fcr | FMN | Flavodoxin | / | 0.667 | |
| 2cdu | FAD | NADH oxidase | / | 0.666 | |
| 2zaf | FAD | Nitroalkane oxidase | 1.7.3.1 | 0.665 | |
| 2ix5 | FAD | Acyl-coenzyme A oxidase 4, peroxisomal | 1.3.3.6 | 0.664 | |
| 4l82 | FMN | Uncharacterized protein | / | 0.664 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.663 | |
| 4kuk | RBF | Putative blue-light photoreceptor | / | 0.662 | |
| 2reh | FAD | Nitroalkane oxidase | 1.7.3.1 | 0.661 | |
| 4qof | FMN | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.660 | |
| 1v93 | FAD | Methylenetetrahydrofolate reductase | / | 0.659 | |
| 4j8p | FMN | Flavodoxin | / | 0.659 | |
| 5bnt | NAP | Aspartate-semialdehyde dehydrogenase | 1.2.1.11 | 0.659 | |
| 3klb | FMN | Uncharacterized protein | / | 0.658 | |
| 1iqr | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.657 | |
| 4m52 | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.657 | |
| 3f6r | FMN | Flavodoxin | / | 0.654 | |
| 3qfr | FMN | NADPH--cytochrome P450 reductase | / | 0.654 | |
| 3mkh | FAD | Nitroalkane oxidase | / | 0.652 | |
| 1fnd | A2P | Ferredoxin--NADP reductase, chloroplastic | 1.18.1.2 | 0.650 | |
| 2ohi | FMN | Type A flavoprotein FprA | 1 | 0.650 | |
| 4z38 | FMN | MlnA | / | 0.650 | |
| 4zvn | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.650 |