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 |
|---|---|---|---|
| 1ylu | FMN | Oxygen-insensitive NAD(P)H nitroreductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 1ylu | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.157 | |
| 1kqb | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.121 | |
| 1icu | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.120 | |
| 1kqc | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.120 | |
| 1nec | FMN | Oxygen-insensitive NAD(P)H nitroreductase | 1 | 1.100 | |
| 1kqd | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.099 | |
| 1ylr | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.095 | |
| 1yki | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.089 | |
| 1oo5 | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.080 | |
| 3x22 | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.056 | |
| 1icv | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.037 | |
| 1oon | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.035 | |
| 1vfr | FMN | Major NAD(P)H-flavin oxidoreductase | 1.6.99 | 1.031 | |
| 1ooq | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 1.019 | |
| 1ds7 | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 0.981 | |
| 2wzv | FMN | Nitroreductase NfnB | / | 0.935 | |
| 2wzw | FMN | Nitroreductase NfnB | / | 0.935 | |
| 3x21 | FMN | Oxygen-insensitive NAD(P)H nitroreductase | / | 0.935 | |
| 2hay | FMN | Putative NAD(P)H-flavin oxidoreductase | / | 0.894 | |
| 3ge6 | FMN | Nitroreductase | / | 0.888 | |
| 3of4 | FMN | Nitroreductase | / | 0.887 | |
| 3koq | FMN | Putative nitroreductase | / | 0.879 | |
| 3pxv | FMN | Nitroreductase | / | 0.866 | |
| 3qdl | FMN | Oxygen-insensitive NADPH nitroreductase | / | 0.866 | |
| 3gag | FMN | Putative NADH dehydrogenase NAD(P)H nitroreductase | / | 0.862 | |
| 4qly | FMN | Enone reductase CLA-ER | / | 0.845 | |
| 3bem | FMN | Putative NAD(P)H nitroreductase MhqN | 1 | 0.795 | |
| 3e39 | FMN | Nitroreductase | / | 0.770 | |
| 2fre | FMN | NAD(P)H-flavin oxidoreductase | / | 0.761 | |
| 4eo3 | FMN | Bacterioferritin comigratory protein/NADH dehydrogenase | / | 0.761 | |
| 2isl | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.750 | |
| 3e4v | FMN | Uncharacterized protein | / | 0.742 | |
| 4ttb | FMN | Iodotyrosine deiodinase 1 | / | 0.732 | |
| 3gh8 | FMN | Iodotyrosine deiodinase 1 | 1.21.1.1 | 0.723 | |
| 3hj9 | FMN | Uncharacterized protein | / | 0.713 | |
| 3oib | FDA | Putative acyl-CoA dehydrogenase | / | 0.711 | |
| 3eo8 | FMN | Putative nitroreductase | / | 0.707 | |
| 4hnb | FMN | LOV protein | / | 0.706 | |
| 4ttc | FMN | Iodotyrosine deiodinase 1 | / | 0.704 | |
| 4eer | FMN | Phototropin-2 | 2.7.11.1 | 0.702 | |
| 3gfd | FMN | Iodotyrosine deiodinase 1 | 1.21.1.1 | 0.701 | |
| 4hia | FMN | LOV protein | / | 0.701 | |
| 4xoo | FMN | Coenzyme F420:L-glutamate ligase | / | 0.698 | |
| 2isj | FMN | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.697 | |
| 5cho | FAD | Flavin reductase | / | 0.694 | |
| 1usc | FMN | Monooxygenase | / | 0.692 | |
| 2bkj | FMN | NADPH-flavin oxidoreductase | / | 0.692 | |
| 2d29 | FAD | Acyl-CoA dehydrogenase | / | 0.689 | |
| 1pkv | RBF | Riboflavin synthase | 2.5.1.9 | 0.686 | |
| 3bnk | FMN | Flavoredoxin | / | 0.685 | |
| 2i02 | FMN | Pyridoxamine 5'-phosphate oxidase-related, FMN-binding | / | 0.680 | |
| 3p4t | FAO | Putative acyl-CoA dehydrogenase | / | 0.677 | |
| 2yqu | FAD | Dihydrolipoyl dehydrogenase | / | 0.675 | |
| 2isk | FNR | 5,6-dimethylbenzimidazole synthase | 1.13.11.79 | 0.674 | |
| 2z1q | FAD | Acyl-CoA dehydrogenase | / | 0.674 | |
| 3to0 | FMN | Iodotyrosine deiodinase 1 | 1.21.1.1 | 0.670 | |
| 3b05 | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.668 | |
| 2z6c | FMN | Phototropin-1 | 2.7.11.1 | 0.667 | |
| 3d72 | FAD | Vivid PAS protein VVD | / | 0.666 | |
| 3mpj | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.665 | |
| 1fec | FAD | Trypanothione reductase | 1.8.1.12 | 0.663 | |
| 1udy | FAD | Medium-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.7 | 0.663 | |
| 2pg0 | FAD | Acyl-CoA dehydrogenase | / | 0.660 | |
| 2zry | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.660 | |
| 3lad | FAD | Dihydrolipoyl dehydrogenase | / | 0.659 | |
| 3ue6 | FMN | Aureochrome1 | / | 0.658 | |
| 3pft | FMN | Flavin reductase | / | 0.656 | |
| 2bi8 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.655 | |
| 4m52 | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.655 | |
| 1cbo | FAD | Cholesterol oxidase | 1.1.3.6 | 0.654 | |
| 1t9g | FAD | Medium-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.7 | 0.652 | |
| 2e1m | FAD | L-glutamate oxidase | / | 0.652 | |
| 3a3b | RBF | Lumazine protein | / | 0.652 | |
| 1bjk | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.651 | |
| 4jy2 | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.651 | |
| 3cge | FAD | Coenzyme A disulfide reductase | / | 0.650 | |
| 4iv6 | FDA | Isovaleryl-CoA dehydrogenase | / | 0.650 | |
| 5j3w | FMN | Sensory box protein | / | 0.650 | |
| 5j4e | FMN | Sensory box protein | / | 0.650 |