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 |
|---|---|---|---|
| 2oa1 | FAD | Flavin-dependent tryptophan halogenase RebH | 1.14.19.9 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2oa1 | FAD | Flavin-dependent tryptophan halogenase RebH | 1.14.19.9 | 1.243 | |
| 2oal | FAD | Flavin-dependent tryptophan halogenase RebH | 1.14.19.9 | 1.027 | |
| 4z44 | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.864 | |
| 2apg | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.809 | |
| 2ard | FDA | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.796 | |
| 2ar8 | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.792 | |
| 2jkc | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.762 | |
| 2aqj | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.760 | |
| 4z43 | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.753 | |
| 2wes | FAD | Tryptophan 5-halogenase | / | 0.727 | |
| 3m0o | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.723 | |
| 3m12 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.714 | |
| 2wet | FAD | Tryptophan 5-halogenase | / | 0.703 | |
| 1i8t | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.699 | |
| 3qvr | FAD | Glucose oxidase | 1.1.3.4 | 0.697 | |
| 3m13 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.694 | |
| 3k7m | FAD | 6-hydroxy-L-nicotine oxidase | / | 0.692 | |
| 3kyb | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.688 | |
| 3mj4 | FAD | UDP-galactopyranose mutase | / | 0.685 | |
| 3dme | FAD | Putative conserved exported protein | / | 0.684 | |
| 1gpe | FAD | Glucose oxidase | 1.1.3.4 | 0.681 | |
| 3qvp | FAD | Glucose oxidase | 1.1.3.4 | 0.681 | |
| 5buk | FAD | FADH2-dependent halogenase | / | 0.681 | |
| 1gal | FAD | Glucose oxidase | 1.1.3.4 | 0.678 | |
| 1i0s | FMN | Ferric-chelate reductase (NAD(P)H) | / | 0.677 | |
| 1tdo | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.676 | |
| 4bk2 | FAD | Probable salicylate monooxygenase | / | 0.675 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.674 | |
| 4k5r | FAD | Oxygenase | / | 0.674 | |
| 2gr3 | FAD | Ferredoxin reductase | / | 0.671 | |
| 3gsi | FAD | Dimethylglycine oxidase | 1.5.3.10 | 0.671 | |
| 5ez7 | FAD | Probable FAD-dependent oxidoreductase PA4991 | / | 0.671 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.670 | |
| 1kf6 | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.670 | |
| 3cnt | FAD | Polyamine oxidase FMS1 | / | 0.669 | |
| 3ukk | FDA | UDP-galactopyranose mutase | / | 0.669 | |
| 3hji | FAD | Vivid PAS protein VVD | / | 0.668 | |
| 3nix | FAD | Flavoprotein/dehydrogenase | / | 0.668 | |
| 4mo2 | FAD | UDP-galactopyranose mutase | / | 0.668 | |
| 1cf3 | FAD | Glucose oxidase | 1.1.3.4 | 0.667 | |
| 3cnd | FAD | Polyamine oxidase FMS1 | / | 0.667 | |
| 3cuk | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.667 | |
| 4dja | DLZ | (6-4) photolyase | / | 0.667 | |
| 4kx6 | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.667 | |
| 5l3d | FAD | Lysine-specific histone demethylase 1A | 1 | 0.667 | |
| 2du8 | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.665 | |
| 3gdp | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.665 | |
| 4mo2 | FDA | UDP-galactopyranose mutase | / | 0.665 | |
| 1usc | FMN | Monooxygenase | / | 0.664 | |
| 4opl | FDA | Conserved Archaeal protein | / | 0.664 | |
| 3k4n | FAD | Pyranose 2-oxidase | / | 0.663 | |
| 3t37 | FAD | Pyridoxine 4-oxidase | / | 0.663 | |
| 4gde | FDA | UDP-galactopyranose mutase | / | 0.663 | |
| 3znp | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.662 | |
| 2pdt | FAD | Vivid PAS protein VVD | / | 0.661 | |
| 3ukf | FDA | UDP-galactopyranose mutase | / | 0.661 | |
| 4eqw | FAD | Coenzyme A disulfide reductase | / | 0.661 | |
| 1gte | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.660 | |
| 2v0u | FMN | NPH1-1 | / | 0.660 | |
| 4dsh | FDA | Uncharacterized protein | / | 0.660 | |
| 4fwf | FAD | Lysine-specific histone demethylase 1B | 1 | 0.659 | |
| 4gut | FAD | Lysine-specific histone demethylase 1B | 1 | 0.659 | |
| 4wuj | FMN | Glycoside hydrolase family 15, cellulose signaling associated protein envoy | / | 0.659 | |
| 4wx1 | FDA | UDP-galactopyranose mutase | / | 0.659 | |
| 2pd7 | FAD | Vivid PAS protein VVD | / | 0.658 | |
| 2qcu | FAD | Aerobic glycerol-3-phosphate dehydrogenase | 1.1.5.3 | 0.658 | |
| 4hj6 | FMN | LOV protein | / | 0.658 | |
| 4j34 | FAD | Kynurenine 3-monooxygenase | / | 0.658 | |
| 4j36 | FAD | Kynurenine 3-monooxygenase | / | 0.658 | |
| 2yg5 | FAD | Putrescine oxidase | / | 0.657 | |
| 3da1 | FAD | Glycerol-3-phosphate dehydrogenase | / | 0.657 | |
| 3ukl | FAD | UDP-galactopyranose mutase | / | 0.657 | |
| 3zdn | FAD | Monoamine oxidase N | 1.4.3.4 | 0.657 | |
| 1xpq | FAD | Polyamine oxidase FMS1 | / | 0.656 | |
| 5hsa | FAS | Alcohol oxidase 1 | 1.1.3.13 | 0.656 | |
| 3lb8 | FAD | Putidaredoxin reductase | 1.18.1.5 | 0.655 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.654 | |
| 2bi8 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.653 | |
| 2yg6 | FAD | Putrescine oxidase | / | 0.653 | |
| 4hsu | FAD | Lysine-specific histone demethylase 1B | 1 | 0.653 | |
| 2e48 | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.652 | |
| 2jb1 | FAD | L-amino acid oxidase | / | 0.650 | |
| 2jb2 | FAD | L-amino acid oxidase | / | 0.650 | |
| 4x9m | FAD | Uncharacterized protein MG039 homolog | / | 0.650 |