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 |
|---|---|---|---|
| 3f03 | FMN | Pentaerythritol tetranitrate reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 1.299 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 1.277 | |
| 3p8j | FMN | Pentaerythritol tetranitrate reductase | / | 1.277 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 1.273 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 1.256 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 1.239 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 1.238 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 1.216 | |
| 3p67 | FMN | Pentaerythritol tetranitrate reductase | / | 1.211 | |
| 3p8i | FMN | Pentaerythritol tetranitrate reductase | / | 1.206 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 1.179 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 1.161 | |
| 1vji | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.130 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.089 | |
| 1icq | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.074 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.069 | |
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 1.065 | |
| 4rnx | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.064 | |
| 4jic | FMN | GTN Reductase | / | 1.062 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.058 | |
| 4b5n | FMN | NAD(P)H:flavin oxidoreductase Sye4 | / | 1.051 | |
| 4df2 | FMN | NADPH dehydrogenase | / | 1.044 | |
| 4aws | FMN | NADH:flavin oxidoreductase Sye1 | / | 1.043 | |
| 4m5p | FMN | NADPH dehydrogenase | / | 1.038 | |
| 1bwk | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.036 | |
| 1oya | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.036 | |
| 4awt | FMN | NADH:flavin oxidoreductase Sye1 | / | 1.024 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 1.016 | |
| 3tjl | FMN | NADPH dehydrogenase | / | 1.015 | |
| 3p82 | FMN | Pentaerythritol tetranitrate reductase | / | 1.009 | |
| 1ics | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.003 | |
| 4e2d | FMN | Dehydrogenase | / | 0.993 | |
| 4e2b | FMN | Dehydrogenase | / | 0.987 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.968 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.941 | |
| 4qai | FMN | NADPH dehydrogenase | / | 0.941 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.934 | |
| 4utk | FNR | Xenobiotic reductase | / | 0.918 | |
| 4utm | FNR | Xenobiotic reductase | / | 0.918 | |
| 1gwj | FMN | Morphinone reductase | / | 0.914 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.911 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.900 | |
| 3hgr | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.895 | |
| 3l67 | FMN | Xenobiotic reductase | / | 0.890 | |
| 5cpm | FNR | NADH:flavin oxidoreductase | / | 0.888 | |
| 4uth | FMN | Xenobiotic reductase | / | 0.886 | |
| 4utl | FNR | Xenobiotic reductase | / | 0.881 | |
| 4yco | FMN | tRNA-dihydrouridine(16) synthase | / | 0.874 | |
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.872 | |
| 3hf3 | FMN | Chromate reductase | / | 0.872 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.862 | |
| 2hs8 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.860 | |
| 1z48 | FMN | NADPH dehydrogenase | / | 0.859 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.858 | |
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA | / | 0.858 | |
| 4ycp | FMN | tRNA-dihydrouridine(16) synthase | / | 0.858 | |
| 2gqa | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.857 | |
| 4rnv | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.856 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.850 | |
| 2h8x | FMN | XenA | / | 0.845 | |
| 1z41 | FMN | NADPH dehydrogenase | / | 0.842 | |
| 3l5l | FMN | Xenobiotic reductase | / | 0.842 | |
| 3n14 | FMN | Xenobiotic reductase | / | 0.842 | |
| 1q45 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.838 | |
| 2hsa | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.836 | |
| 3kru | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.824 | |
| 1z44 | FMN | NADPH dehydrogenase | / | 0.823 | |
| 4bf9 | FMN | tRNA-dihydrouridine(16) synthase | / | 0.821 | |
| 5ebu | FMN | Lactate oxidase | / | 0.809 | |
| 4yl2 | FMN | Lactate oxidase | / | 0.805 | |
| 2djx | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.803 | |
| 1vhn | FMN | tRNA-dihydrouridine synthase | / | 0.800 | |
| 2q3r | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.798 | |
| 2zfa | FMN | Lactate oxidase | / | 0.791 | |
| 1k02 | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.789 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 0.788 | |
| 3gye | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.787 | |
| 3c3n | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.786 | |
| 4ef8 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.771 | |
| 2bsl | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.769 | |
| 2djl | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.754 | |
| 3n19 | FNR | Xenobiotic reductase | / | 0.754 | |
| 1djq | FMN | Trimethylamine dehydrogenase | 1.5.8.2 | 0.753 | |
| 3gr8 | FMN | NADPH dehydrogenase | / | 0.751 | |
| 4xq6 | FMN | Dihydroorotate dehydrogenase (quinone) | / | 0.751 | |
| 1h7w | FMN | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.745 | |
| 3b04 | OOP | Isopentenyl-diphosphate delta-isomerase | / | 0.743 | |
| 4rnu | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.740 | |
| 1jub | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.734 | |
| 1jue | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.730 | |
| 2du2 | FMN | Lactate oxidase | / | 0.730 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.729 | |
| 4ef9 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.729 | |
| 4rje | FNR | Lactate oxidase | / | 0.726 | |
| 4yx6 | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.721 | |
| 3b05 | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.720 | |
| 2j6x | FMN | Lactate oxidase | / | 0.719 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.710 | |
| 2e77 | FMN | Lactate oxidase | / | 0.704 | |
| 3oix | FMN | Dihydroorotate dehydrogenase | / | 0.699 | |
| 1kbj | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.695 | |
| 4iql | FMN | Enoyl-(Acyl-carrier-protein) reductase II | / | 0.694 | |
| 2z6i | FMN | 2-nitropropane dioxygenase | / | 0.691 | |
| 1uum | FMN | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.689 | |
| 4wzh | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.688 | |
| 1dxq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.686 | |
| 1ofd | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.683 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.682 | |
| 1ep3 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 0.680 | |
| 1qr2 | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.680 | |
| 2qmy | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.678 | |
| 4qoe | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.678 | |
| 4zvn | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.678 | |
| 1ofe | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.677 | |
| 2nli | FMN | Lactate oxidase | / | 0.677 | |
| 1n9n | FMN | Putative blue light receptor | / | 0.676 | |
| 1qcw | FNS | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.672 | |
| 3n3b | FMN | Protein NrdI | / | 0.670 | |
| 4zvl | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.670 | |
| 4bca | FAD | Alkyldihydroxyacetonephosphate synthase, peroxisomal | 2.5.1.26 | 0.669 | |
| 1n9l | FMN | Putative blue light receptor | / | 0.668 | |
| 2isk | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.668 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.667 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.667 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.667 | |
| 3w77 | FMN | FMN-dependent NADH-azoreductase | / | 0.667 | |
| 4qof | FMN | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.667 | |
| 4z9r | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.667 | |
| 1zpt | FAD | 5,10-methylenetetrahydrofolate reductase | 1.5.1.20 | 0.666 | |
| 2isj | FMN | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.666 | |
| 2zrv | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.662 | |
| 3p7n | FMN | Light-activated DNA-binding protein EL222 | / | 0.660 | |
| 4yus | FMN | Family 3 adenylate cyclase | / | 0.660 | |
| 2hfo | FMN | Activator of photopigment and puc expression | / | 0.658 | |
| 2pr5 | FMN | Blue-light photoreceptor | / | 0.658 | |
| 5cho | FAD | Flavin reductase | / | 0.657 | |
| 4hj3 | FMN | LOV protein | / | 0.656 | |
| 1g3l | TRH | Glucose-1-phosphate thymidylyltransferase | / | 0.655 | |
| 1iqr | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.655 | |
| 2isl | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.655 | |
| 2zry | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.654 | |
| 4wqm | FAD | Toluene-4-monooxygenase electron transfer component | 1.18.1.3 | 0.652 | |
| 4yau | 2AM | NADPH--cytochrome P450 reductase | / | 0.652 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.652 | |
| 1dor | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.651 | |
| 4gi5 | FAD | Putative NAD(P)H dehydrogenase (Quinone) | / | 0.651 | |
| 4z38 | FMN | MlnA | / | 0.651 | |
| 1llw | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.650 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.650 |