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 |
|---|---|---|---|
| 2zrz | FNR | Isopentenyl-diphosphate delta-isomerase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2zrz | FNR | Isopentenyl-diphosphate delta-isomerase | / | 1.339 | |
| 3b05 | FNR | Isopentenyl-diphosphate delta-isomerase | / | 1.325 | |
| 2zry | FNR | Isopentenyl-diphosphate delta-isomerase | / | 1.299 | |
| 2zrv | FNR | Isopentenyl-diphosphate delta-isomerase | / | 1.282 | |
| 3vkj | FNR | Isopentenyl-diphosphate delta-isomerase | / | 1.275 | |
| 3b03 | VNR | Isopentenyl-diphosphate delta-isomerase | / | 1.264 | |
| 3b04 | OOP | Isopentenyl-diphosphate delta-isomerase | / | 1.224 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 1.208 | |
| 2zrx | FMN | Isopentenyl-diphosphate delta-isomerase | / | 1.194 | |
| 1vcf | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.780 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.772 | |
| 3hgs | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.768 | |
| 4yco | FMN | tRNA-dihydrouridine(16) synthase | / | 0.762 | |
| 1ep3 | FMN | Dihydroorotate dehydrogenase B (NAD(+)), catalytic subunit | 1.3.1.14 | 0.761 | |
| 2gqa | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.761 | |
| 2hs6 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.757 | |
| 1djq | FMN | Trimethylamine dehydrogenase | 1.5.8.2 | 0.755 | |
| 2hs8 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.755 | |
| 1vhn | FMN | tRNA-dihydrouridine synthase | / | 0.754 | |
| 4ycp | FMN | tRNA-dihydrouridine(16) synthase | / | 0.751 | |
| 3l5l | FMN | Xenobiotic reductase | / | 0.749 | |
| 4uth | FMN | Xenobiotic reductase | / | 0.746 | |
| 4utm | FNR | Xenobiotic reductase | / | 0.741 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.739 | |
| 1ofe | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.736 | |
| 4k7y | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.734 | |
| 3p8j | FMN | Pentaerythritol tetranitrate reductase | / | 0.728 | |
| 4aws | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.727 | |
| 3oix | FMN | Dihydroorotate dehydrogenase | / | 0.720 | |
| 4h6k | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.720 | |
| 3p84 | FMN | Pentaerythritol tetranitrate reductase | / | 0.719 | |
| 4qnw | FMN | Chanoclavine-I aldehyde reductase easA | / | 0.719 | |
| 1q45 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.718 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.716 | |
| 1kbj | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.714 | |
| 1ofd | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.714 | |
| 1z48 | FMN | NADPH dehydrogenase | / | 0.713 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.711 | |
| 2h8x | FMN | XenA | / | 0.710 | |
| 1uum | FMN | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.709 | |
| 3l67 | FMN | Xenobiotic reductase | / | 0.709 | |
| 4awt | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.707 | |
| 1z41 | FMN | NADPH dehydrogenase | / | 0.702 | |
| 1gwj | FMN | Morphinone reductase | / | 0.701 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.699 | |
| 4b5n | FMN | NAD(P)H:flavin oxidoreductase Sye4 | / | 0.699 | |
| 1kbi | FMN | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.698 | |
| 3giy | FMN | (S)-mandelate dehydrogenase | 1.1.99.31 | 0.696 | |
| 3gye | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.696 | |
| 5cpm | FNR | NADH:flavin oxidoreductase | / | 0.695 | |
| 1z44 | FMN | NADPH dehydrogenase | / | 0.693 | |
| 4rnv | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.693 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.690 | |
| 3n19 | FNR | Xenobiotic reductase | / | 0.684 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.682 | |
| 2djx | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.682 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.679 | |
| 3kru | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.677 | |
| 4e2b | FMN | Dehydrogenase | / | 0.677 | |
| 1jub | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.674 | |
| 4jic | FMN | GTN Reductase | / | 0.673 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 0.672 | |
| 4rnw | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.670 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 0.665 | |
| 1h7w | FMN | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.664 | |
| 4utk | FNR | Xenobiotic reductase | / | 0.664 | |
| 1yki | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 0.663 | |
| 1llw | FMN | Ferredoxin-dependent glutamate synthase 2 | 1.4.7.1 | 0.661 | |
| 1oyc | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.658 | |
| 4bqs | K2Q | Shikimate kinase | 2.7.1.71 | 0.658 | |
| 3dh7 | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.657 | |
| 3l0n | S5P | Uridine 5'-monophosphate synthase | 4.1.1.23 | 0.657 | |
| 1k02 | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.656 | |
| 3tjl | FMN | NADPH dehydrogenase | / | 0.656 | |
| 4m5p | FMN | NADPH dehydrogenase | / | 0.656 | |
| 1nec | FMN | Oxygen-insensitive NAD(P)H nitroreductase | 1 | 0.655 | |
| 3bw2 | FMN | Putative 2-nitropropane dioxygenase | / | 0.655 | |
| 3x22 | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 0.654 | |
| 4bmo | FMN | Protein NrdI | / | 0.653 | |
| 4utl | FNR | Xenobiotic reductase | / | 0.652 | |
| 2c3c | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.651 | |
| 3gfz | FMN | Uncharacterized protein | / | 0.651 |