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 |
|---|---|---|---|
| 3p8i | FMN | Pentaerythritol tetranitrate reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3p8i | FMN | Pentaerythritol tetranitrate reductase | / | 1.267 | |
| 3p67 | FMN | Pentaerythritol tetranitrate reductase | / | 1.243 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 1.230 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 1.220 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 1.206 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 1.205 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 1.204 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 1.201 | |
| 3p8j | FMN | Pentaerythritol tetranitrate reductase | / | 1.189 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 1.133 | |
| 1gwj | FMN | Morphinone reductase | / | 1.123 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 1.103 | |
| 3p82 | FMN | Pentaerythritol tetranitrate reductase | / | 1.099 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.086 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 1.079 | |
| 4aws | FMN | NADH:flavin oxidoreductase Sye1 | / | 1.075 | |
| 4jic | FMN | GTN Reductase | / | 1.072 | |
| 4m5p | FMN | NADPH dehydrogenase | / | 1.069 | |
| 1vji | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.063 | |
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 1.062 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.057 | |
| 4b5n | FMN | NAD(P)H:flavin oxidoreductase Sye4 | / | 1.055 | |
| 4awt | FMN | NADH:flavin oxidoreductase Sye1 | / | 1.046 | |
| 1oya | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.032 | |
| 3hgr | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.028 | |
| 1bwk | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 1.025 | |
| 1icq | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.025 | |
| 1ics | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 1.015 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 1.013 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.996 | |
| 4e2b | FMN | Dehydrogenase | / | 0.987 | |
| 4e2d | FMN | Dehydrogenase | / | 0.979 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.975 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.968 | |
| 4rnx | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.962 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.961 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 0.953 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.950 | |
| 2q3r | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.903 | |
| 5cpm | FNR | NADH:flavin oxidoreductase | / | 0.902 | |
| 3l67 | FMN | Xenobiotic reductase | / | 0.898 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.894 | |
| 4utk | FNR | Xenobiotic reductase | / | 0.891 | |
| 4utm | FNR | Xenobiotic reductase | / | 0.889 | |
| 4utl | FNR | Xenobiotic reductase | / | 0.884 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.882 | |
| 4rnv | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.872 | |
| 4df2 | FMN | NADPH dehydrogenase | / | 0.870 | |
| 2h8x | FMN | XenA | / | 0.869 | |
| 2hsa | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.869 | |
| 4uth | FMN | Xenobiotic reductase | / | 0.861 | |
| 2hs8 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.858 | |
| 1z41 | FMN | NADPH dehydrogenase | / | 0.855 | |
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.852 | |
| 1z48 | FMN | NADPH dehydrogenase | / | 0.850 | |
| 1z44 | FMN | NADPH dehydrogenase | / | 0.844 | |
| 3kru | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.843 | |
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA | / | 0.843 | |
| 3tjl | FMN | NADPH dehydrogenase | / | 0.842 | |
| 4yco | FMN | tRNA-dihydrouridine(16) synthase | / | 0.842 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.838 | |
| 1q45 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.837 | |
| 1vhn | FMN | tRNA-dihydrouridine synthase | / | 0.830 | |
| 3n14 | FMN | Xenobiotic reductase | / | 0.830 | |
| 3n19 | FNR | Xenobiotic reductase | / | 0.821 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.807 | |
| 4yl2 | FMN | Lactate oxidase | / | 0.807 | |
| 2djx | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.793 | |
| 4xq6 | FMN | Dihydroorotate dehydrogenase (quinone) | / | 0.793 | |
| 4bf9 | FMN | tRNA-dihydrouridine(16) synthase | / | 0.788 | |
| 2djl | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.780 | |
| 3c3n | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.772 | |
| 5ebu | FMN | Lactate oxidase | / | 0.771 | |
| 4rnu | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.768 | |
| 2nli | FMN | Lactate oxidase | / | 0.765 | |
| 1k02 | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.764 | |
| 4rje | FNR | Lactate oxidase | / | 0.764 | |
| 4ef8 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.762 | |
| 4ef9 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.758 | |
| 3gye | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.753 | |
| 3gr8 | FMN | NADPH dehydrogenase | / | 0.752 | |
| 3hf3 | FMN | Chromate reductase | / | 0.749 | |
| 2du2 | FMN | Lactate oxidase | / | 0.736 | |
| 2j6x | FMN | Lactate oxidase | / | 0.733 | |
| 1jue | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.732 | |
| 1djq | FMN | Trimethylamine dehydrogenase | 1.5.8.2 | 0.730 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.730 | |
| 2e77 | FMN | Lactate oxidase | / | 0.724 | |
| 1uum | FMN | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.721 | |
| 4wzh | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.721 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.716 | |
| 1jub | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.713 | |
| 4cw5 | FMN | DfnA | / | 0.710 | |
| 3oix | FMN | Dihydroorotate dehydrogenase | / | 0.709 | |
| 2z6i | FMN | 2-nitropropane dioxygenase | / | 0.705 | |
| 1ofd | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.697 | |
| 1gox | FMN | Peroxisomal (S)-2-hydroxy-acid oxidase | 1.1.3.15 | 0.695 | |
| 4yx6 | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.692 | |
| 2zry | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.689 | |
| 2isk | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.685 | |
| 3n3b | FMN | Protein NrdI | / | 0.685 | |
| 4z9r | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.683 | |
| 1kbi | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.681 | |
| 1ep3 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 0.679 | |
| 2gr3 | FAD | Ferredoxin reductase | / | 0.679 | |
| 1jeh | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.678 | |
| 2zrx | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.676 | |
| 4yus | FMN | Family 3 adenylate cyclase | / | 0.674 | |
| 2q3o | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.673 | |
| 1ofe | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.672 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.672 | |
| 1dor | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.671 | |
| 2isj | FMN | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.670 | |
| 3esz | FMN | Flavodoxin | / | 0.670 | |
| 3w77 | FMN | FMN-dependent NADH-azoreductase | / | 0.670 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.669 | |
| 4bca | FAD | Alkyldihydroxyacetonephosphate synthase, peroxisomal | 2.5.1.26 | 0.669 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.668 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.666 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.666 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.665 | |
| 4jdr | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.665 | |
| 4ycp | FMN | tRNA-dihydrouridine(16) synthase | / | 0.665 | |
| 1kbj | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.664 | |
| 1zwl | FMN | NAD(P)H dehydrogenase (quinone) | 1.6.5.2 | 0.663 | |
| 3gfz | FMN | Uncharacterized protein | / | 0.663 | |
| 2isl | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.661 | |
| 3m13 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.661 | |
| 3b05 | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.660 | |
| 3m12 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.660 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.659 | |
| 3pft | FMN | Flavin reductase | / | 0.659 | |
| 4n65 | FMN | FMN-dependent NADH-azoreductase 1 | / | 0.659 | |
| 2gqa | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.658 | |
| 2hfo | FMN | Activator of photopigment and puc expression | / | 0.658 | |
| 4qof | FMN | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.658 | |
| 2yqu | FAD | Dihydrolipoyl dehydrogenase | / | 0.657 | |
| 4zoh | FAD | Putative oxidoreductase FAD-binding subunit | / | 0.657 | |
| 2wp5 | FAD | Trypanothione reductase | / | 0.656 | |
| 2qmy | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.655 | |
| 4fdn | FAD | Decaprenylphosphoryl-beta-D-ribose oxidase | / | 0.655 | |
| 3gg0 | FMN | Uncharacterized protein | / | 0.654 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.653 | |
| 4eo3 | FMN | Bacterioferritin comigratory protein/NADH dehydrogenase | / | 0.652 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.650 |