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 |
|---|---|---|---|
| 4ylf | FAD | Dihydroorotate dehydrogenase B (NAD(+)), electron transfer subunit homolog |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4ylf | FAD | Dihydroorotate dehydrogenase B (NAD(+)), electron transfer subunit homolog | / | 1.229 | |
| 1ep3 | FAD | Dihydroorotate dehydrogenase B (NAD(+)), electron transfer subunit | / | 0.791 | |
| 2bn4 | FAD | NADPH--cytochrome P450 reductase | / | 0.747 | |
| 2i02 | FMN | Pyridoxamine 5'-phosphate oxidase-related, FMN-binding | / | 0.746 | |
| 2ok7 | FAD | Ferredoxin--NADP reductase, apicoplast | / | 0.737 | |
| 2bgj | FAD | NADPH:ferredoxin reductase | / | 0.728 | |
| 2jk6 | FAD | Trypanothione reductase | / | 0.723 | |
| 4j57 | FAD | Thioredoxin reductase 2 | 1.8.1.9 | 0.721 | |
| 3ept | FDA | Putative FAD-monooxygenase | / | 0.716 | |
| 3crz | FAD | Ferredoxin--NADP+ reductase | / | 0.715 | |
| 3jqr | FAD | Ferredoxin--NADP reductase, apicoplast | / | 0.714 | |
| 2bf4 | FAD | NADPH--cytochrome P450 reductase | / | 0.713 | |
| 1qg0 | FAD | Ferredoxin--NADP reductase, leaf isozyme, chloroplastic | 1.18.1.2 | 0.712 | |
| 2ok8 | FAD | Ferredoxin--NADP reductase, apicoplast | / | 0.712 | |
| 2qdx | FAD | Ferredoxin--NADP+ reductase | / | 0.712 | |
| 2pia | FMN | Phthalate dioxygenase reductase | / | 0.708 | |
| 1i0s | FMN | Ferric-chelate reductase (NAD(P)H) | / | 0.707 | |
| 3ka7 | FAD | Putative oxidoreductase | / | 0.707 | |
| 4af6 | FAD | Ferredoxin--NADP reductase, leaf isozyme, chloroplastic | 1.18.1.2 | 0.707 | |
| 3ean | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.706 | |
| 1gaw | FAD | Ferredoxin | / | 0.705 | |
| 2zzc | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.704 | |
| 2a8x | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.703 | |
| 4ybn | FAD | Flavin-nucleotide-binding protein | / | 0.703 | |
| 1b4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.702 | |
| 2ptf | FMN | Uncharacterized protein MTH_863 | / | 0.701 | |
| 1amo | FAD | NADPH--cytochrome P450 reductase | / | 0.699 | |
| 1jeh | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.696 | |
| 2qa1 | FAD | PgaE | / | 0.696 | |
| 4j56 | FAD | Thioredoxin reductase 2 | 1.8.1.9 | 0.696 | |
| 4k1x | FAD | NADPH:ferredoxin reductase | / | 0.696 | |
| 1umk | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.695 | |
| 3w5h | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.695 | |
| 1ger | FAD | Glutathione reductase | 1.8.1.7 | 0.694 | |
| 3w2f | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.693 | |
| 4wqm | FAD | Toluene-4-monooxygenase electron transfer component | 1.18.1.3 | 0.693 | |
| 2gmh | FAD | Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial | 1.5.5.1 | 0.692 | |
| 3w5u | FAD | Ferredoxin | / | 0.692 | |
| 1mok | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.691 | |
| 1ib0 | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.690 | |
| 2zbw | FAD | Ferredoxin--NADP reductase | / | 0.690 | |
| 4u2t | FAD | Cholesterol oxidase | 1.1.3.6 | 0.690 | |
| 3a3b | RBF | Lumazine protein | / | 0.689 | |
| 3e4v | FMN | Uncharacterized protein | / | 0.689 | |
| 3w2e | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.689 | |
| 2gpj | FAD | Siderophore-interacting protein | / | 0.688 | |
| 2hq9 | FAD | Mll6688 protein | / | 0.688 | |
| 2hqm | FAD | Glutathione reductase | 1.8.1.7 | 0.688 | |
| 2yqu | FAD | Dihydrolipoyl dehydrogenase | / | 0.688 | |
| 3qfa | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.688 | |
| 2eix | FAD | NADH-cytochrome b5 reductase | / | 0.687 | |
| 1b8s | FAD | Cholesterol oxidase | 1.1.3.6 | 0.686 | |
| 1geu | FAD | Glutathione reductase | 1.8.1.7 | 0.686 | |
| 4hb9 | FAD | Uncharacterized protein | / | 0.686 | |
| 4kpr | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.685 | |
| 5cho | FAD | Flavin reductase | / | 0.685 | |
| 2c3d | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.684 | |
| 3cox | FAD | Cholesterol oxidase | 1.1.3.6 | 0.684 | |
| 1eje | FMN | Protein MTH_152 | / | 0.683 | |
| 1gaq | FAD | Ferredoxin | / | 0.682 | |
| 1ty9 | FMN | Phenazine biosynthesis protein PhzG | 1.4 | 0.682 | |
| 1bzl | FAD | Trypanothione reductase | 1.8.1.12 | 0.681 | |
| 1w34 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.681 | |
| 3hjk | FAD | Vivid PAS protein VVD | / | 0.681 | |
| 4b4d | FAD | Ferredoxin-NADP reductase | / | 0.681 | |
| 1xdi | FAD | NAD(P)H dehydrogenase (quinone) | / | 0.680 | |
| 2vnj | FAD | NADPH:ferredoxin reductase | / | 0.680 | |
| 3oc4 | FAD | Oxidoreductase, pyridine nucleotide-disulfide family | / | 0.680 | |
| 1fec | FAD | Trypanothione reductase | 1.8.1.12 | 0.679 | |
| 1gvh | FAD | Flavohemoprotein | / | 0.679 | |
| 2igo | FAD | Pyranose 2-oxidase | / | 0.679 | |
| 4jn9 | FAD | DepH | / | 0.679 | |
| 1krh | FAD | Benzoate 1,2-dioxygenase electron transfer component | 1.18.1.3 | 0.677 | |
| 2vnk | FAD | NADPH:ferredoxin reductase | / | 0.677 | |
| 3ab1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.677 | |
| 4j36 | FAD | Kynurenine 3-monooxygenase | / | 0.677 | |
| 1fnd | FAD | Ferredoxin--NADP reductase, chloroplastic | 1.18.1.2 | 0.676 | |
| 1w87 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.676 | |
| 2gh5 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.676 | |
| 2z6c | FMN | Phototropin-1 | 2.7.11.1 | 0.675 | |
| 3vqr | FAD | Putative oxidoreductase | / | 0.675 | |
| 1bx0 | FAD | Ferredoxin--NADP reductase, chloroplastic | 1.18.1.2 | 0.674 | |
| 1v59 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.674 | |
| 3cgc | FAD | Coenzyme A disulfide reductase | / | 0.674 | |
| 4jdr | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.674 | |
| 4m52 | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.674 | |
| 1fdr | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.673 | |
| 1zy8 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.673 | |
| 2dji | FAD | Pyruvate oxidase | / | 0.673 | |
| 2pg0 | FAD | Acyl-CoA dehydrogenase | / | 0.673 | |
| 3a6q | FMN | FMN-binding protein | / | 0.673 | |
| 3a6r | FMN | FMN-binding protein | / | 0.673 | |
| 3vy2 | FMN | FMN-binding protein | / | 0.673 | |
| 4dna | FAD | Probable glutathione reductase | / | 0.673 | |
| 4fk1 | FAD | Putative thioredoxin reductase | / | 0.673 | |
| 4hmx | FMN | Pyridoxamine 5'-phosphate oxidase | / | 0.673 | |
| 4jq9 | FAD | Dihydrolipoyl dehydrogenase | / | 0.673 | |
| 1fnc | FDA | Ferredoxin--NADP reductase, chloroplastic | 1.18.1.2 | 0.672 | |
| 3in6 | FMN | Uncharacterized protein | / | 0.672 | |
| 1h42 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.671 | |
| 4hmw | FMN | Pyridoxamine 5'-phosphate oxidase | / | 0.671 | |
| 4mok | FAD | Pyranose 2-oxidase | / | 0.671 | |
| 5ebu | FMN | Lactate oxidase | / | 0.671 | |
| 1ges | FAD | Glutathione reductase | 1.8.1.7 | 0.670 | |
| 1h6v | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.670 | |
| 2b5o | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.670 | |
| 2zz0 | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.670 | |
| 3axb | FAD | Putative oxidoreductase | / | 0.670 | |
| 3cnj | FAD | Cholesterol oxidase | 1.1.3.6 | 0.670 | |
| 4hms | FMN | Phenazine biosynthesis protein PhzG | 1.4 | 0.670 | |
| 4xwr | FAD | Cholesterol oxidase | 1.1.3.6 | 0.670 | |
| 1typ | FAD | Trypanothione reductase | 1.8.1.12 | 0.669 | |
| 2r9z | FAD | Glutathione amide reductase | / | 0.669 | |
| 1n4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.668 | |
| 2vyq | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.668 | |
| 2wow | FAD | Trypanothione reductase | / | 0.668 | |
| 4hia | FMN | LOV protein | / | 0.668 | |
| 1e63 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.667 | |
| 1i7p | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.667 | |
| 1tll | FAD | Nitric oxide synthase, brain | 1.14.13.39 | 0.667 | |
| 2bgi | FAD | NADPH:ferredoxin reductase | / | 0.667 | |
| 2qae | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.667 | |
| 1e64 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.666 | |
| 1tyt | FAD | Trypanothione reductase | 1.8.1.12 | 0.666 | |
| 1cqx | FAD | Flavohemoprotein | / | 0.665 | |
| 3a3g | DLZ | Lumazine protein | / | 0.665 | |
| 1bx1 | FAD | Ferredoxin--NADP reductase, chloroplastic | 1.18.1.2 | 0.663 | |
| 1usc | FMN | Monooxygenase | / | 0.663 | |
| 2rab | FAD | Glutathione amide reductase | / | 0.663 | |
| 3qft | FAD | NADPH--cytochrome P450 reductase | / | 0.663 | |
| 3vo2 | FAD | Ferredoxin--NADP reductase | / | 0.663 | |
| 1flm | FMN | FMN-binding protein | / | 0.662 | |
| 3ic9 | FAD | Putative dihydrolipoamide dehydrogenase | / | 0.662 | |
| 1j9z | FAD | NADPH--cytochrome P450 reductase | / | 0.661 | |
| 3lsh | FAD | Pyranose 2-oxidase | / | 0.661 | |
| 3r5z | F42 | Uncharacterized protein | / | 0.661 | |
| 4nev | FAD | Trypanothione reductase | / | 0.661 | |
| 1zmd | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.660 | |
| 2ign | FAD | Pyranose 2-oxidase | / | 0.660 | |
| 3lsi | FAD | Pyranose 2-oxidase | / | 0.660 | |
| 4aut | FAD | Decaprenylphosphoryl-beta-D-ribose oxidase | / | 0.660 | |
| 1gjr | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.659 | |
| 2cfy | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.659 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.659 | |
| 2rc6 | FAD | Ferredoxin--NADP reductase | / | 0.659 | |
| 3all | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.659 | |
| 4ntd | FAD | Thioredoxin reductase | / | 0.659 | |
| 3dgz | FAD | Thioredoxin reductase 2, mitochondrial | 1.8.1.9 | 0.658 | |
| 3zc3 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.658 | |
| 2e1m | FAD | L-glutamate oxidase | / | 0.657 | |
| 2j3n | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.657 | |
| 2pd7 | FAD | Vivid PAS protein VVD | / | 0.657 | |
| 3dk4 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.657 | |
| 2rc5 | FAD | Ferredoxin--NADP reductase | / | 0.656 | |
| 2wp5 | FAD | Trypanothione reductase | / | 0.656 | |
| 3gg1 | FMN | Uncharacterized protein | / | 0.656 | |
| 3qfr | FAD | NADPH--cytochrome P450 reductase | / | 0.656 | |
| 3qfs | FAD | NADPH--cytochrome P450 reductase | / | 0.656 | |
| 4rek | FAD | Cholesterol oxidase | 1.1.3.6 | 0.656 | |
| 4xwz | FAD | Fructosyl amine:oxygen oxidoreductase | / | 0.656 | |
| 4y7c | FAD | NADPH--cytochrome P450 reductase | / | 0.656 | |
| 1cbo | FAD | Cholesterol oxidase | 1.1.3.6 | 0.655 | |
| 1fnb | FAD | Ferredoxin--NADP reductase, chloroplastic | 1.18.1.2 | 0.655 | |
| 1gra | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.655 | |
| 1qgy | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.655 | |
| 2eq9 | FAD | Dihydrolipoyl dehydrogenase | / | 0.655 | |
| 3dk9 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.655 | |
| 3qfc | FAD | NADPH--cytochrome P450 reductase | / | 0.655 | |
| 1ja1 | FAD | NADPH--cytochrome P450 reductase | / | 0.654 | |
| 1k4q | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.654 | |
| 1mxt | FAE | Cholesterol oxidase | 1.1.3.6 | 0.654 | |
| 1n1p | FAD | Cholesterol oxidase | 1.1.3.6 | 0.654 | |
| 1nhp | FAD | NADH peroxidase | 1.11.1.1 | 0.654 | |
| 1pow | FAD | Pyruvate oxidase | 1.2.3.3 | 0.654 | |
| 1ryi | FAD | Glycine oxidase | 1.4.3.19 | 0.654 | |
| 2wba | FAD | Trypanothione reductase | 1.8.1.12 | 0.654 | |
| 4u2s | FDA | Cholesterol oxidase | 1.1.3.6 | 0.654 | |
| 1gr1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.653 | |
| 1qh0 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.653 | |
| 1que | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.653 | |
| 3bi5 | FAD | Polyamine oxidase FMS1 | / | 0.653 | |
| 3is2 | FAD | Vivid PAS protein VVD | / | 0.653 | |
| 5dbj | FAD | FADH2-dependent halogenase PltA | / | 0.653 | |
| 1go2 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.652 | |
| 3k4n | FAD | Pyranose 2-oxidase | / | 0.652 | |
| 4fk8 | FAD | Ferredoxin--NADP reductase | / | 0.652 | |
| 2vnh | FAD | NADPH:ferredoxin reductase | / | 0.651 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.651 | |
| 3mhp | FAD | Ferredoxin--NADP reductase, leaf isozyme, chloroplastic | 1.18.1.2 | 0.650 | |
| 3ojw | FAD | NADPH--cytochrome P450 reductase | / | 0.650 | |
| 4j33 | FAD | Kynurenine 3-monooxygenase | / | 0.650 |