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 |
|---|---|---|---|
| 3mzi | FMN | Activator of photopigment and puc expression |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3mzi | FMN | Activator of photopigment and puc expression | / | 1.039 | |
| 1x0p | FAD | Tll0078 protein | / | 0.747 | |
| 3t50 | FMN | Blue-light-activated histidine kinase | 2.7.13.3 | 0.735 | |
| 3d72 | FAD | Vivid PAS protein VVD | / | 0.726 | |
| 2iyi | FMN | AppA, antirepressor of ppsR, sensor of blue light | / | 0.723 | |
| 2z6c | FMN | Phototropin-1 | 2.7.11.1 | 0.717 | |
| 4kuk | RBF | Putative blue-light photoreceptor | / | 0.710 | |
| 1yrx | FMN | AppA protein | / | 0.705 | |
| 4hh0 | FMN | AppA protein | / | 0.702 | |
| 4hia | FMN | LOV protein | / | 0.697 | |
| 5cho | FAD | Flavin reductase | / | 0.695 | |
| 2z6d | FMN | Phototropin-2 | 2.7.11.1 | 0.694 | |
| 2pr5 | FMN | Blue-light photoreceptor | / | 0.690 | |
| 5ez7 | FAD | Probable FAD-dependent oxidoreductase PA4991 | / | 0.687 | |
| 1gvh | FAD | Flavohemoprotein | / | 0.681 | |
| 3gfz | FMN | Uncharacterized protein | / | 0.680 | |
| 3gfx | FMN | Uncharacterized protein | / | 0.679 | |
| 3lov | FAD | Protoporphyrinogen oxidase | / | 0.679 | |
| 4f07 | FAD | Styrene monooxygenase component 2 | / | 0.678 | |
| 5c2t | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.678 | |
| 1jqi | FAD | Short-chain specific acyl-CoA dehydrogenase, mitochondrial | / | 0.676 | |
| 2pan | FAD | Glyoxylate carboligase | 4.1.1.47 | 0.676 | |
| 3sm8 | FNK | FAD-dependent catabolic D-arginine dehydrogenase DauA | / | 0.676 | |
| 2j08 | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.673 | |
| 3gfy | FMN | Uncharacterized protein | / | 0.673 | |
| 4kuo | RBF | Putative blue-light photoreceptor | / | 0.673 | |
| 1iqr | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.671 | |
| 3gdp | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.669 | |
| 3gg1 | FMN | Uncharacterized protein | / | 0.669 | |
| 2bn4 | FAD | NADPH--cytochrome P450 reductase | / | 0.668 | |
| 2iyg | FMN | AppA, antirepressor of ppsR, sensor of blue light | / | 0.668 | |
| 3pft | FMN | Flavin reductase | / | 0.668 | |
| 1rz0 | FAD | Phenol 2-hydroxylase component B | / | 0.667 | |
| 4rhe | FMN | Flavin prenyltransferase UbiX | / | 0.667 | |
| 5j3w | FMN | Sensory box protein | / | 0.666 | |
| 2dji | FAD | Pyruvate oxidase | / | 0.665 | |
| 2gqf | FAD | Uncharacterized protein HI_0933 | / | 0.665 | |
| 4hhd | FMN | Phototropin-1 | 2.7.11.1 | 0.665 | |
| 2ed4 | FAD | 4-hydroxyphenylacetate 3-monooxygenase reductase component | 1.5.1.36 | 0.664 | |
| 2r6h | FAD | Na(+)-translocating NADH-quinone reductase subunit F | / | 0.664 | |
| 4gus | FAD | Lysine-specific histone demethylase 1B | 1 | 0.664 | |
| 1pox | FAD | Pyruvate oxidase | 1.2.3.3 | 0.663 | |
| 2dw4 | FAD | Lysine-specific histone demethylase 1A | 1 | 0.663 | |
| 2j07 | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.663 | |
| 3in6 | FMN | Uncharacterized protein | / | 0.663 | |
| 2jk6 | FAD | Trypanothione reductase | / | 0.662 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.662 | |
| 3ept | FDA | Putative FAD-monooxygenase | / | 0.661 | |
| 4opd | FDA | Conserved Archaeal protein | / | 0.661 | |
| 4yxd | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.661 | |
| 1siq | FAD | Glutaryl-CoA dehydrogenase, mitochondrial | 1.3.8.6 | 0.660 | |
| 4wct | FAD | Fructosyl amine:oxygen oxidoreductase | / | 0.659 | |
| 1ryi | FAD | Glycine oxidase | 1.4.3.19 | 0.658 | |
| 3ab1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.658 | |
| 4hj4 | FMN | LOV protein | / | 0.658 | |
| 5jsc | FAD | Putative acyl-CoA dehydrogenase | / | 0.657 | |
| 1efp | FAD | Electron transfer flavoprotein subunit alpha | / | 0.656 | |
| 1v5e | FAD | Pyruvate oxidase | / | 0.656 | |
| 2wq6 | FAD | RE11660p | / | 0.655 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.654 | |
| 3fpk | FAD | Ferredoxin-NADP reductase | / | 0.654 | |
| 5djt | FMN | NPH1-2 | / | 0.654 | |
| 1h85 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.653 | |
| 1ve9 | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.653 | |
| 2pd8 | FAD | Vivid PAS protein VVD | / | 0.653 | |
| 4eer | FMN | Phototropin-2 | 2.7.11.1 | 0.653 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.653 | |
| 4i6g | FAD | Cryptochrome-2 | / | 0.653 | |
| 3aeb | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.652 | |
| 3urh | FAD | Dihydrolipoyl dehydrogenase | / | 0.652 | |
| 1q1w | FAD | Putidaredoxin reductase | 1.18.1.5 | 0.650 | |
| 1qh0 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.650 | |
| 4bk3 | FAD | Probable salicylate monooxygenase | / | 0.650 | |
| 4hsu | FAD | Lysine-specific histone demethylase 1B | 1 | 0.650 | |
| 5j60 | FAD | Thioredoxin reductase | / | 0.650 |