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 |
|---|---|---|---|
| 3up4 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3up4 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 1.352 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 1.231 | |
| 3up5 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 1.141 | |
| 3uov | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 1.067 | |
| 3uoy | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 1.045 | |
| 4d03 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 1.027 | |
| 3uox | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.988 | |
| 4d04 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.978 | |
| 3gwd | FAD | Cyclohexanone monooxygenase | / | 0.950 | |
| 2ylw | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.934 | |
| 2yls | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.915 | |
| 2ym1 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.903 | |
| 2ylx | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.900 | |
| 2ylr | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.894 | |
| 2ym2 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.864 | |
| 2ylt | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.852 | |
| 3lzw | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.802 | |
| 2vqb | FAD | Putative flavin-containing monooxygenase | / | 0.792 | |
| 2ylz | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.784 | |
| 2vq7 | FAD | Putative flavin-containing monooxygenase | / | 0.782 | |
| 3gwf | FAD | Cyclohexanone monooxygenase | / | 0.760 | |
| 4b67 | FAD | L-ornithine N(5)-monooxygenase | / | 0.756 | |
| 1dnc | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.746 | |
| 2xlp | FAD | Putative flavin-containing monooxygenase | / | 0.745 | |
| 2xls | FAD | Putative flavin-containing monooxygenase | / | 0.744 | |
| 3s5w | FAD | L-ornithine N(5)-monooxygenase | / | 0.742 | |
| 1lqu | FAD | NADPH-ferredoxin reductase FprA | 1.18.1.2 | 0.737 | |
| 2c7g | FAD | NADPH-ferredoxin reductase FprA | 1.18.1.2 | 0.731 | |
| 3ic9 | FAD | Putative dihydrolipoamide dehydrogenase | / | 0.730 | |
| 5buk | FAD | FADH2-dependent halogenase | / | 0.730 | |
| 2xlr | FAD | Putative flavin-containing monooxygenase | / | 0.728 | |
| 1gsn | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.721 | |
| 2xve | FAD | Putative flavin-containing monooxygenase | / | 0.720 | |
| 3qj4 | FAD | Renalase | / | 0.720 | |
| 1y56 | ATP | Uncharacterized protein | / | 0.718 | |
| 3bg7 | FAD | Pyranose 2-oxidase | / | 0.718 | |
| 2xvi | FAD | Putative flavin-containing monooxygenase | / | 0.715 | |
| 1rp0 | AHZ | Thiamine thiazole synthase, chloroplastic | / | 0.714 | |
| 1cbo | FAD | Cholesterol oxidase | 1.1.3.6 | 0.712 | |
| 2gh5 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.712 | |
| 3nlc | FAD | Uncharacterized protein | / | 0.709 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.707 | |
| 2c3c | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.706 | |
| 3cox | FAD | Cholesterol oxidase | 1.1.3.6 | 0.705 | |
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 0.705 | |
| 1rsg | FAD | Polyamine oxidase FMS1 | / | 0.704 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.704 | |
| 4qi5 | FAD | Cellobiose dehydrogenase | / | 0.704 | |
| 4ap1 | FAD | Steroid monooxygenase | / | 0.703 | |
| 1gre | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.702 | |
| 2eq7 | NAD | Dihydrolipoyl dehydrogenase | / | 0.702 | |
| 3djg | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.701 | |
| 1grb | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.700 | |
| 4qi7 | FAD | Cellobiose dehydrogenase | / | 0.700 | |
| 4u2l | SFD | Cholesterol oxidase | 1.1.3.6 | 0.700 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.699 | |
| 1b8s | FAD | Cholesterol oxidase | 1.1.3.6 | 0.698 | |
| 3ab1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.698 | |
| 4mih | FAD | Pyranose 2-oxidase | 1.1.3.10 | 0.698 | |
| 2iw5 | FAD | Lysine-specific histone demethylase 1A | 1 | 0.696 | |
| 5c2t | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.696 | |
| 1pdh | FAS | p-hydroxybenzoate hydroxylase | / | 0.694 | |
| 3b6d | FAE | Cholesterol oxidase | 1.1.3.6 | 0.694 | |
| 4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.694 | |
| 4tm1 | FDA | KtzI | / | 0.694 | |
| 5fs8 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.694 | |
| 4u2t | FAD | Cholesterol oxidase | 1.1.3.6 | 0.693 | |
| 2ign | FAD | Pyranose 2-oxidase | / | 0.692 | |
| 4b63 | FAD | L-ornithine N(5)-monooxygenase | / | 0.692 | |
| 5cku | FAD | L-ornithine N(5)-monooxygenase | / | 0.692 | |
| 5eb5 | FAD | (R)-mandelonitrile lyase 1 | 4.1.2.10 | 0.691 | |
| 5fs9 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.691 | |
| 2gew | FAD | Cholesterol oxidase | 1.1.3.6 | 0.690 | |
| 3gyj | FAD | Cholesterol oxidase | 1.1.3.6 | 0.690 | |
| 4xwr | FAD | Cholesterol oxidase | 1.1.3.6 | 0.690 | |
| 2gvc | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.689 | |
| 3k30 | ADP | Histamine dehydrogenase | / | 0.688 | |
| 1nhr | FAD | NADH peroxidase | 1.11.1.1 | 0.687 | |
| 4udr | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.687 | |
| 1jnr | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.686 | |
| 4rek | FAD | Cholesterol oxidase | 1.1.3.6 | 0.685 | |
| 1e1m | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.684 | |
| 2xvh | FAD | Putative flavin-containing monooxygenase | / | 0.684 | |
| 4b64 | FAD | L-ornithine N(5)-monooxygenase | / | 0.682 | |
| 1ijh | FAD | Cholesterol oxidase | 1.1.3.6 | 0.681 | |
| 3rha | FDA | Putrescine oxidase | / | 0.679 | |
| 4b68 | FAD | L-ornithine N(5)-monooxygenase | / | 0.679 | |
| 3cnj | FAD | Cholesterol oxidase | 1.1.3.6 | 0.678 | |
| 3fpz | AHZ | Thiamine thiazole synthase | / | 0.678 | |
| 3icr | FAD | Coenzyme A disulfide reductase | / | 0.678 | |
| 4b69 | FAD | L-ornithine N(5)-monooxygenase | / | 0.678 | |
| 4mok | FAD | Pyranose 2-oxidase | / | 0.677 | |
| 2gv8 | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.676 | |
| 1n4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.675 | |
| 1tdf | FAD | Thioredoxin reductase | 1.8.1.9 | 0.675 | |
| 3kkj | FAD | Renalase | / | 0.675 | |
| 4mo2 | FAD | UDP-galactopyranose mutase | / | 0.675 | |
| 1d7l | RFL | p-hydroxybenzoate hydroxylase | / | 0.674 | |
| 1tde | FAD | Thioredoxin reductase | 1.8.1.9 | 0.674 | |
| 3djj | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.674 | |
| 4gdd | FAD | UDP-galactopyranose mutase | / | 0.674 | |
| 2eq7 | FAD | Dihydrolipoyl dehydrogenase | / | 0.673 | |
| 3vqr | FAD | Putative oxidoreductase | / | 0.673 | |
| 2yg4 | FAD | Putrescine oxidase | / | 0.672 | |
| 2yg7 | FAD | Putrescine oxidase | / | 0.672 | |
| 3cgb | FAD | Coenzyme A disulfide reductase | / | 0.672 | |
| 3djl | FAD | Putative acyl-CoA dehydrogenase AidB | 1.3.99 | 0.672 | |
| 4gut | FAD | Lysine-specific histone demethylase 1B | 1 | 0.672 | |
| 1djq | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.671 | |
| 1e1l | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.671 | |
| 1lvl | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.671 | |
| 1w4x | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.671 | |
| 2bi8 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.671 | |
| 4ntd | FAD | Thioredoxin reductase | / | 0.671 | |
| 2xvf | FAD | Putative flavin-containing monooxygenase | / | 0.670 | |
| 4uir | FAD | Oleate hydratase | 4.2.1.53 | 0.670 | |
| 3gyi | FAD | Cholesterol oxidase | 1.1.3.6 | 0.669 | |
| 4jq9 | FAD | Dihydrolipoyl dehydrogenase | / | 0.669 | |
| 4u2s | FDA | Cholesterol oxidase | 1.1.3.6 | 0.669 | |
| 1b4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.668 | |
| 2c3d | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.668 | |
| 4b66 | FAD | L-ornithine N(5)-monooxygenase | / | 0.668 | |
| 2yr4 | FAD | Phenylalanine 2-monooxygenase precursor | 1.13.12.9 | 0.667 | |
| 1h83 | FAD | Polyamine oxidase | 1.5.3.14 | 0.665 | |
| 2bn4 | FAD | NADPH--cytochrome P450 reductase | / | 0.665 | |
| 3m13 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.665 | |
| 4x4j | FAD | Putative oxygenase | / | 0.665 | |
| 2e1m | FAD | L-glutamate oxidase | / | 0.664 | |
| 2igo | FAD | Pyranose 2-oxidase | / | 0.664 | |
| 3jsk | AHZ | Thiamine thiazole synthase | / | 0.664 | |
| 3ukk | FAD | UDP-galactopyranose mutase | / | 0.664 | |
| 4ap3 | FAD | Steroid monooxygenase | / | 0.664 | |
| 4dsg | FAD | Uncharacterized protein | / | 0.664 | |
| 1mxt | FAE | Cholesterol oxidase | 1.1.3.6 | 0.663 | |
| 1n1p | FAD | Cholesterol oxidase | 1.1.3.6 | 0.663 | |
| 1n4w | FAD | Cholesterol oxidase | 1.1.3.6 | 0.663 | |
| 4h4t | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.663 | |
| 4tlx | FDA | KtzI | / | 0.663 | |
| 4xxg | FAD | Cholesterol oxidase | 1.1.3.6 | 0.663 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.661 | |
| 3nt6 | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.661 | |
| 3qvp | FAD | Glucose oxidase | 1.1.3.4 | 0.661 | |
| 1o94 | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.660 | |
| 3cgc | FAD | Coenzyme A disulfide reductase | / | 0.660 | |
| 2cdu | ADP | NADH oxidase | / | 0.659 | |
| 1ger | FAD | Glutathione reductase | 1.8.1.7 | 0.658 | |
| 2yr5 | FAD | Phenylalanine 2-monooxygenase precursor | 1.13.12.9 | 0.658 | |
| 1cf3 | FAD | Glucose oxidase | 1.1.3.4 | 0.657 | |
| 3utf | FDA | UDP-galactopyranose mutase | / | 0.657 | |
| 3w5u | FAD | Ferredoxin | / | 0.657 | |
| 4jn9 | FAD | DepH | / | 0.657 | |
| 1get | FAD | Glutathione reductase | 1.8.1.7 | 0.656 | |
| 2qa1 | FAD | PgaE | / | 0.656 | |
| 4udq | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.656 | |
| 1cjc | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.655 | |
| 2tmd | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.655 | |
| 2vvl | FAD | Monoamine oxidase N | 1.4.3.4 | 0.655 | |
| 2yg6 | FAD | Putrescine oxidase | / | 0.655 | |
| 3t2y | FAD | Sulfide-quinone reductase | / | 0.655 | |
| 5g3s | FDA | Flavin-dependent L-tryptophan oxidase VioA | / | 0.655 | |
| 3t14 | FAD | Sulfide-quinone reductase | / | 0.654 | |
| 4yry | FAD | Glutamate synthase, beta subunit | / | 0.654 | |
| 4tm3 | FAD | KtzI | / | 0.653 | |
| 1zx9 | FAD | Mercuric reductase | 1.16.1.1 | 0.652 | |
| 2gqw | FAD | Ferredoxin reductase | / | 0.652 | |
| 3dk4 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.651 | |
| 3nix | FAD | Flavoprotein/dehydrogenase | / | 0.651 | |
| 4fx9 | FAD | Coenzyme A disulfide reductase | 1.8.1.14 | 0.651 | |
| 4gus | FAD | Lysine-specific histone demethylase 1B | 1 | 0.651 | |
| 4h4r | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.651 | |
| 4mo2 | FDA | UDP-galactopyranose mutase | / | 0.651 | |
| 4yac | NAI | C alpha-dehydrogenase | / | 0.651 | |
| 1v0j | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.650 | |
| 4h4v | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.650 | |
| 4i58 | FAD | Cyclohexylamine Oxidase | / | 0.650 |