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 |
|---|---|---|---|
| 2jkc | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2jkc | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 1.372 | |
| 4z43 | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 1.212 | |
| 2wet | FAD | Tryptophan 5-halogenase | / | 1.112 | |
| 2aqj | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 1.085 | |
| 2ard | FDA | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 1.074 | |
| 2ar8 | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.996 | |
| 2apg | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.947 | |
| 4z44 | FAD | Flavin-dependent tryptophan halogenase PrnA | 1.14.19.9 | 0.932 | |
| 2wes | FAD | Tryptophan 5-halogenase | / | 0.915 | |
| 5hy5 | FAD | Tryptophan 6-halogenase | / | 0.893 | |
| 2oal | FAD | Flavin-dependent tryptophan halogenase RebH | 1.14.19.9 | 0.854 | |
| 2oa1 | FAD | Flavin-dependent tryptophan halogenase RebH | 1.14.19.9 | 0.762 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.727 | |
| 2rgo | FAD | Alpha-Glycerophosphate Oxidase | / | 0.727 | |
| 1kif | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.713 | |
| 3gdp | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.712 | |
| 4cy8 | FDA | 2-hydroxybiphenyl-3-monooxygenase | / | 0.710 | |
| 3gsi | FAD | Dimethylglycine oxidase | 1.5.3.10 | 0.706 | |
| 2qcu | FAD | Aerobic glycerol-3-phosphate dehydrogenase | 1.1.5.3 | 0.704 | |
| 5eb5 | FAD | (R)-mandelonitrile lyase 1 | 4.1.2.10 | 0.702 | |
| 2i0z | FAD | NAD(FAD)-utilizing dehydrogenases | / | 0.701 | |
| 4x9n | FAD | Uncharacterized protein MG039 homolog | / | 0.694 | |
| 1gal | FAD | Glucose oxidase | 1.1.3.4 | 0.691 | |
| 4gut | FAD | Lysine-specific histone demethylase 1B | 1 | 0.690 | |
| 3dme | FAD | Putative conserved exported protein | / | 0.687 | |
| 5j60 | FAD | Thioredoxin reductase | / | 0.687 | |
| 4x9m | FAD | Uncharacterized protein MG039 homolog | / | 0.685 | |
| 3f8p | NAD | NADH oxidase/thioredoxin reductase | / | 0.679 | |
| 3f8r | NAP | NADH oxidase/thioredoxin reductase | / | 0.677 | |
| 2gqf | FAD | Uncharacterized protein HI_0933 | / | 0.676 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.674 | |
| 3cuk | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.672 | |
| 2rgh | FAD | Alpha-Glycerophosphate Oxidase | / | 0.670 | |
| 3vqr | FAD | Putative oxidoreductase | / | 0.670 | |
| 4eqx | FAD | Coenzyme A disulfide reductase | / | 0.670 | |
| 1y56 | FAD | 382aa long hypothetical sarcosine oxidase | / | 0.669 | |
| 3ukk | FAD | UDP-galactopyranose mutase | / | 0.668 | |
| 4opc | FDA | Conserved Archaeal protein | / | 0.668 | |
| 4wx1 | FDA | UDP-galactopyranose mutase | / | 0.668 | |
| 4yjd | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.668 | |
| 1cbo | FAD | Cholesterol oxidase | 1.1.3.6 | 0.667 | |
| 3uth | FDA | UDP-galactopyranose mutase | / | 0.667 | |
| 4u2l | SFD | Cholesterol oxidase | 1.1.3.6 | 0.667 | |
| 4u8m | FDA | UDP-galactopyranose mutase | / | 0.665 | |
| 4ynt | FDA | Glucose oxidase, putative | / | 0.665 | |
| 1ve9 | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.664 | |
| 4opd | FDA | Conserved Archaeal protein | / | 0.663 | |
| 1c0k | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.662 | |
| 1y56 | ATP | Uncharacterized protein | / | 0.662 | |
| 4rsl | FAD | Fructosyl peptide oxidase | / | 0.662 | |
| 3rha | FDA | Putrescine oxidase | / | 0.661 | |
| 4z24 | FAD | Putative GMC-type oxidoreductase R135 | 1 | 0.660 | |
| 4u8o | FDA | UDP-galactopyranose mutase | / | 0.659 | |
| 4u8p | FDA | UDP-galactopyranose mutase | / | 0.659 | |
| 2yg6 | FAD | Putrescine oxidase | / | 0.658 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.658 | |
| 3qfc | FAD | NADPH--cytochrome P450 reductase | / | 0.658 | |
| 2du8 | FAD | D-amino-acid oxidase | 1.4.3.3 | 0.657 | |
| 3axb | FAD | Putative oxidoreductase | / | 0.656 | |
| 3ukl | FAD | UDP-galactopyranose mutase | / | 0.656 | |
| 2bab | FAD | Putative aminooxidase | / | 0.655 | |
| 2rc5 | FAD | Ferredoxin--NADP reductase | / | 0.655 | |
| 3mhp | FAD | Ferredoxin--NADP reductase, leaf isozyme, chloroplastic | 1.18.1.2 | 0.654 | |
| 1npx | FAD | NADH peroxidase | 1.11.1.1 | 0.653 | |
| 3w5u | FAD | Ferredoxin | / | 0.653 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.653 | |
| 5c3j | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.653 | |
| 4r3a | RBF | Blue-light-activated histidine kinase 2 | 2.7.13.3 | 0.652 | |
| 1qxo | FMN | Chorismate synthase | / | 0.651 | |
| 3all | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.651 | |
| 3utg | FDA | UDP-galactopyranose mutase | / | 0.651 | |
| 3sqp | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.650 | |
| 4dsh | FDA | Uncharacterized protein | / | 0.650 |