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 |
|---|---|---|---|
| 1ep1 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 1ep1 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 1.190 | |
| 1ep3 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 1.044 | |
| 1dor | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.850 | |
| 1uum | FMN | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.843 | |
| 4xq6 | FMN | Dihydroorotate dehydrogenase (quinone) | / | 0.842 | |
| 4utl | FNR | Xenobiotic reductase | / | 0.840 | |
| 1jub | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.818 | |
| 1jue | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.815 | |
| 3kru | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.790 | |
| 2djx | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.787 | |
| 2djl | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.769 | |
| 3l5l | FMN | Xenobiotic reductase | / | 0.767 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.765 | |
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.764 | |
| 3b05 | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.754 | |
| 4wzh | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.750 | |
| 1gox | FMN | Peroxisomal (S)-2-hydroxy-acid oxidase | 1.1.3.15 | 0.743 | |
| 4b5n | FMN | NAD(P)H:flavin oxidoreductase Sye4 | / | 0.733 | |
| 2bsl | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.729 | |
| 3l67 | FMN | Xenobiotic reductase | / | 0.729 | |
| 3p82 | FMN | Pentaerythritol tetranitrate reductase | / | 0.728 | |
| 4ef9 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.728 | |
| 4yx6 | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.723 | |
| 4aws | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.722 | |
| 3c3n | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.719 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 0.716 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.715 | |
| 3n14 | FMN | Xenobiotic reductase | / | 0.705 | |
| 1vhn | FMN | tRNA-dihydrouridine synthase | / | 0.704 | |
| 2zry | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.704 | |
| 1ofe | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.703 | |
| 2z6i | FMN | 2-nitropropane dioxygenase | / | 0.702 | |
| 3vkj | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.700 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 0.697 | |
| 4jic | FMN | GTN Reductase | / | 0.696 | |
| 5ebu | FMN | Lactate oxidase | / | 0.695 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.691 | |
| 2isj | FMN | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.690 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.688 | |
| 3oix | FMN | Dihydroorotate dehydrogenase | / | 0.685 | |
| 3b04 | OOP | Isopentenyl-diphosphate delta-isomerase | / | 0.684 | |
| 3hgr | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.681 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.681 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.680 | |
| 4rnx | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.679 | |
| 1h7w | FMN | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.678 | |
| 3bw3 | FMN | Putative 2-nitropropane dioxygenase | / | 0.678 | |
| 2dvl | FAD | Acyl-CoA dehydrogenase | / | 0.676 | |
| 4rje | FNR | Lactate oxidase | / | 0.675 | |
| 2c12 | FAD | Nitroalkane oxidase | 1.7.3.1 | 0.674 | |
| 1cl0 | FAD | Thioredoxin reductase | 1.8.1.9 | 0.673 | |
| 4q4k | FMN | Uncharacterized protein | / | 0.671 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 0.670 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 0.670 | |
| 4z38 | FMN | MlnA | / | 0.669 | |
| 3eo8 | FMN | Putative nitroreductase | / | 0.668 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.665 | |
| 2zrx | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.662 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.662 | |
| 1vdc | FAD | Thioredoxin reductase 1, mitochondrial | 1.8.1.9 | 0.661 | |
| 2zrv | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.660 | |
| 4ef8 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.660 | |
| 5af7 | FAD | Acyl-CoA dehydrogenase | / | 0.660 | |
| 4uth | FMN | Xenobiotic reductase | / | 0.659 | |
| 4ycp | FMN | tRNA-dihydrouridine(16) synthase | / | 0.658 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 0.657 | |
| 2bn4 | FMN | NADPH--cytochrome P450 reductase | / | 0.657 | |
| 2h8x | FMN | XenA | / | 0.655 | |
| 1oya | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.654 | |
| 2isk | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.654 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 0.653 | |
| 4utm | FNR | Xenobiotic reductase | / | 0.653 | |
| 1z41 | FMN | NADPH dehydrogenase | / | 0.652 | |
| 3n3a | FMN | Protein NrdI | / | 0.652 | |
| 5a8a | FMN | Riboflavin biosynthesis protein RibF | 2.7.1.26 | 0.652 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.651 | |
| 3mkh | FAD | Nitroalkane oxidase | / | 0.651 | |
| 3n3b | FMN | Protein NrdI | / | 0.650 |