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 |
|---|---|---|---|
| 1yrx | FMN | AppA protein |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 1yrx | FMN | AppA protein | / | 0.953 | |
| 4hh0 | FMN | AppA protein | / | 0.832 | |
| 2iyi | FMN | AppA, antirepressor of ppsR, sensor of blue light | / | 0.801 | |
| 1x0p | FAD | Tll0078 protein | / | 0.791 | |
| 2iyg | FMN | AppA, antirepressor of ppsR, sensor of blue light | / | 0.789 | |
| 3gg1 | FMN | Uncharacterized protein | / | 0.764 | |
| 2byc | FMN | Blue-light receptor of the BLUF-family | / | 0.750 | |
| 2hfo | FMN | Activator of photopigment and puc expression | / | 0.748 | |
| 2pr5 | FMN | Blue-light photoreceptor | / | 0.721 | |
| 4hhd | FMN | Phototropin-1 | 2.7.11.1 | 0.711 | |
| 4kuk | RBF | Putative blue-light photoreceptor | / | 0.710 | |
| 3gg0 | FMN | Uncharacterized protein | / | 0.708 | |
| 2hfn | FMN | Activator of photopigment and puc expression | / | 0.706 | |
| 3mzi | FMN | Activator of photopigment and puc expression | / | 0.705 | |
| 3cls | FAD | Electron transfer flavoprotein subunit alpha | / | 0.701 | |
| 1ryi | FAD | Glycine oxidase | 1.4.3.19 | 0.700 | |
| 3if9 | FAD | Glycine oxidase | 1.4.3.19 | 0.698 | |
| 2z6d | FMN | Phototropin-2 | 2.7.11.1 | 0.689 | |
| 3clr | FAD | Electron transfer flavoprotein subunit alpha | / | 0.689 | |
| 1ng4 | FAD | Glycine oxidase | 1.4.3.19 | 0.688 | |
| 1ps9 | FAD | 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.685 | |
| 1nb9 | RBF | Riboflavin kinase | 2.7.1.26 | 0.684 | |
| 4mih | FAD | Pyranose 2-oxidase | 1.1.3.10 | 0.682 | |
| 4yus | FMN | Family 3 adenylate cyclase | / | 0.681 | |
| 2du8 | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.680 | |
| 1jeh | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.679 | |
| 2hsa | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.676 | |
| 1ebd | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.675 | |
| 4opd | FDA | Conserved Archaeal protein | / | 0.675 | |
| 4wuj | FMN | Glycoside hydrolase family 15, cellulose signaling associated protein envoy | / | 0.674 | |
| 1tez | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.672 | |
| 3ae4 | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.672 | |
| 3eo8 | FMN | Putative nitroreductase | / | 0.671 | |
| 4c3x | FAD | 3-ketosteroid dehydrogenase | / | 0.671 | |
| 3cuk | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.669 | |
| 3hji | FAD | Vivid PAS protein VVD | / | 0.669 | |
| 5djt | FMN | NPH1-2 | / | 0.669 | |
| 3cty | FAD | Probable thioredoxin reductase | / | 0.668 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.668 | |
| 3aeb | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.667 | |
| 1owp | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.666 | |
| 2pdt | FAD | Vivid PAS protein VVD | / | 0.666 | |
| 4bk3 | FAD | Probable salicylate monooxygenase | / | 0.666 | |
| 1gth | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.665 | |
| 3clu | FAD | Electron transfer flavoprotein subunit alpha | / | 0.664 | |
| 3t50 | FMN | Blue-light-activated histidine kinase | 2.7.13.3 | 0.664 | |
| 3pl8 | FAD | Pyranose 2-oxidase | / | 0.663 | |
| 3p7n | FMN | Light-activated DNA-binding protein EL222 | / | 0.662 | |
| 5i39 | FAD | L-amino acid deaminase | / | 0.662 | |
| 3k4n | FAD | Pyranose 2-oxidase | / | 0.661 | |
| 4bc7 | FAD | Alkyldihydroxyacetonephosphate synthase, peroxisomal | 2.5.1.26 | 0.661 | |
| 3znp | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.660 | |
| 4opl | FDA | Conserved Archaeal protein | / | 0.660 | |
| 4ttc | FMN | Iodotyrosine deiodinase 1 | / | 0.660 | |
| 4z9r | FMN | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.660 | |
| 1gpe | FAD | Glucose oxidase | 1.1.3.4 | 0.659 | |
| 2pia | FMN | Phthalate dioxygenase reductase | / | 0.659 | |
| 3sfe | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.659 | |
| 5ez7 | FAD | Probable FAD-dependent oxidoreductase PA4991 | / | 0.659 | |
| 1n9n | FMN | Putative blue light receptor | / | 0.658 | |
| 3axb | FAD | Putative oxidoreductase | / | 0.658 | |
| 3vqr | FAD | Putative oxidoreductase | / | 0.658 | |
| 3rnm | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.657 | |
| 4hj3 | FMN | LOV protein | / | 0.657 | |
| 2ed4 | FAD | 4-hydroxyphenylacetate 3-monooxygenase reductase component | 1.5.1.36 | 0.656 | |
| 3lov | FAD | Protoporphyrinogen oxidase | / | 0.656 | |
| 4e2d | FMN | Dehydrogenase | / | 0.656 | |
| 4hia | FMN | LOV protein | / | 0.656 | |
| 5hxw | FAD | L-amino acid deaminase | / | 0.655 | |
| 5j4e | FMN | Sensory box protein | / | 0.655 | |
| 1icp | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.654 | |
| 1knr | FAD | L-aspartate oxidase | 1.4.3.16 | 0.654 | |
| 1q45 | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.654 | |
| 4eeu | FMN | Phototropin-2 | 2.7.11.1 | 0.654 | |
| 4f07 | FAD | Styrene monooxygenase component 2 | / | 0.654 | |
| 2zru | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.653 | |
| 3ea4 | FAB | Acetolactate synthase, chloroplastic | 2.2.1.6 | 0.653 | |
| 3gfx | FMN | Uncharacterized protein | / | 0.653 | |
| 3ojx | FAD | NADPH--cytochrome P450 reductase | / | 0.653 | |
| 2gou | FMN | NADH:flavin oxidoreductase Sye1 | / | 0.651 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 0.651 | |
| 3in6 | FMN | Uncharacterized protein | / | 0.651 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.651 | |
| 3hgo | FMN | 12-oxophytodienoate reductase 3 | 1.3.1.42 | 0.650 |