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 |
|---|---|---|---|
| 3p9u | FAD | TetX family tetracycline inactivation enzyme |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3p9u | FAD | TetX family tetracycline inactivation enzyme | / | 1.163 | |
| 4guv | FAD | TetX family tetracycline inactivation enzyme | / | 0.977 | |
| 2xdo | FAD | TetX family tetracycline inactivation enzyme | / | 0.949 | |
| 4a6n | FAD | TetX family tetracycline inactivation enzyme | / | 0.914 | |
| 2xyo | FAD | TetX family tetracycline inactivation enzyme | / | 0.877 | |
| 4a99 | FAD | TetX family tetracycline inactivation enzyme | / | 0.848 | |
| 2vou | FAD | 2,6-dihydroxypyridine 3-monooxygenase | 1.14.13.10 | 0.816 | |
| 5eow | FAD | 6-hydroxynicotinate 3-monooxygenase | 1.14.13.114 | 0.811 | |
| 1k0l | FAD | p-hydroxybenzoate hydroxylase | / | 0.784 | |
| 4bk2 | FAD | Probable salicylate monooxygenase | / | 0.776 | |
| 2qa2 | FAD | Polyketide oxygenase CabE | / | 0.775 | |
| 4k2x | FAD | Polyketide oxygenase/hydroxylase | / | 0.766 | |
| 4k5r | FAD | Oxygenase | / | 0.765 | |
| 3ab1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.760 | |
| 4j31 | FAD | Kynurenine 3-monooxygenase | / | 0.760 | |
| 2qa1 | FAD | PgaE | / | 0.757 | |
| 4hb9 | FAD | Uncharacterized protein | / | 0.756 | |
| 3nix | FAD | Flavoprotein/dehydrogenase | / | 0.755 | |
| 1d7l | RFL | p-hydroxybenzoate hydroxylase | / | 0.754 | |
| 5buk | FAD | FADH2-dependent halogenase | / | 0.753 | |
| 1pdh | FAS | p-hydroxybenzoate hydroxylase | / | 0.752 | |
| 4bk3 | FAD | Probable salicylate monooxygenase | / | 0.751 | |
| 4bjz | FAD | Probable salicylate monooxygenase | / | 0.750 | |
| 1xdi | FAD | NAD(P)H dehydrogenase (quinone) | / | 0.748 | |
| 2fje | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.746 | |
| 1tdf | FAD | Thioredoxin reductase | 1.8.1.9 | 0.743 | |
| 4j34 | FAD | Kynurenine 3-monooxygenase | / | 0.742 | |
| 3fmw | FAD | Oxygenase | / | 0.740 | |
| 4x4j | FAD | Putative oxygenase | / | 0.739 | |
| 1zx9 | FAD | Mercuric reductase | 1.16.1.1 | 0.738 | |
| 4b69 | FAD | L-ornithine N(5)-monooxygenase | / | 0.738 | |
| 4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.737 | |
| 4j2w | FAD | Kynurenine 3-monooxygenase | / | 0.736 | |
| 3ept | FDA | Putative FAD-monooxygenase | / | 0.733 | |
| 3lzx | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.733 | |
| 3rp8 | FAD | FAD-dependent urate hydroxylase | / | 0.728 | |
| 4j33 | FAD | Kynurenine 3-monooxygenase | / | 0.726 | |
| 4cy8 | FDA | 2-hydroxybiphenyl-3-monooxygenase | / | 0.723 | |
| 5fs9 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.719 | |
| 3cgd | FAD | Coenzyme A disulfide reductase | / | 0.717 | |
| 5fs8 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.717 | |
| 1zk7 | FAD | Mercuric reductase | 1.16.1.1 | 0.715 | |
| 3lzw | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.713 | |
| 4bv6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.713 | |
| 2c4c | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.710 | |
| 3ef6 | FAD | Toluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component | 1.18.1.3 | 0.710 | |
| 5dbj | FAD | FADH2-dependent halogenase PltA | / | 0.709 | |
| 1rp0 | AHZ | Thiamine thiazole synthase, chloroplastic | / | 0.707 | |
| 3c4a | FAD | Protodeoxyviolaceinate monooxygenase | 1 | 0.707 | |
| 3oz2 | FAD | Digeranylgeranylglycerophospholipid reductase | / | 0.707 | |
| 4j36 | FAD | Kynurenine 3-monooxygenase | / | 0.707 | |
| 4tlx | FDA | KtzI | / | 0.706 | |
| 1d4d | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.705 | |
| 4o5q | FAD | Alkyl hydroperoxide reductase subunit F | 1.8.1 | 0.705 | |
| 3cty | FAD | Probable thioredoxin reductase | / | 0.704 | |
| 3alj | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.700 | |
| 1tde | FAD | Thioredoxin reductase | 1.8.1.9 | 0.697 | |
| 4icy | FAD | PgaE | / | 0.697 | |
| 1cl0 | FAD | Thioredoxin reductase | 1.8.1.9 | 0.696 | |
| 3atr | FDA | Conserved Archaeal protein | / | 0.696 | |
| 1f8w | FAD | NADH peroxidase | 1.11.1.1 | 0.695 | |
| 4fx9 | FAD | Coenzyme A disulfide reductase | 1.8.1.14 | 0.695 | |
| 4tm1 | FDA | KtzI | / | 0.695 | |
| 2q7v | FAD | Thioredoxin reductase | / | 0.693 | |
| 2yr4 | FAD | Phenylalanine 2-monooxygenase precursor | 1.13.12.9 | 0.693 | |
| 2zbw | FAD | Ferredoxin--NADP reductase | / | 0.693 | |
| 3all | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.693 | |
| 1k0j | FAD | p-hydroxybenzoate hydroxylase | / | 0.692 | |
| 2yqu | FAD | Dihydrolipoyl dehydrogenase | / | 0.692 | |
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 0.692 | |
| 4h2n | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.692 | |
| 4mo2 | FAD | UDP-galactopyranose mutase | / | 0.692 | |
| 1mo9 | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.691 | |
| 2nvk | FAD | Thioredoxin reductase 1, mitochondrial | 1.8.1.9 | 0.691 | |
| 4opl | FDA | Conserved Archaeal protein | / | 0.690 | |
| 3gmb | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.689 | |
| 4jnq | FDA | Thioredoxin reductase | / | 0.689 | |
| 4b63 | FAD | L-ornithine N(5)-monooxygenase | / | 0.688 | |
| 4jy2 | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.688 | |
| 4opu | FDA | Conserved Archaeal protein | / | 0.688 | |
| 2c3d | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.685 | |
| 3cge | FAD | Coenzyme A disulfide reductase | / | 0.685 | |
| 4tm4 | FDA | KtzI | / | 0.684 | |
| 5fs6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.684 | |
| 2gmj | FAD | Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial | 1.5.5.1 | 0.683 | |
| 3djj | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.683 | |
| 4h2p | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.683 | |
| 4lii | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.683 | |
| 4tlz | FAD | KtzI | / | 0.683 | |
| 3cgb | FAD | Coenzyme A disulfide reductase | / | 0.682 | |
| 1gte | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.681 | |
| 1tdn | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.681 | |
| 5cku | FAD | L-ornithine N(5)-monooxygenase | / | 0.681 | |
| 2c3c | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.680 | |
| 2dki | FAD | 3-hydroxybenzoate 4-monooxygenase | 1.14.13.23 | 0.680 | |
| 3k30 | ADP | Histamine dehydrogenase | / | 0.680 | |
| 4b68 | FAD | L-ornithine N(5)-monooxygenase | / | 0.680 | |
| 4rsl | FAD | Fructosyl peptide oxidase | / | 0.680 | |
| 3dh9 | FAD | Thioredoxin reductase 1, mitochondrial | 1.8.1.9 | 0.679 | |
| 3alm | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.678 | |
| 3oc4 | FAD | Oxidoreductase, pyridine nucleotide-disulfide family | / | 0.677 | |
| 1h7w | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.676 | |
| 2b9x | FAD | Putative aminooxidase | / | 0.676 | |
| 2cdu | ADP | NADH oxidase | / | 0.676 | |
| 2v6o | FAD | Thioredoxin glutathione reductase | / | 0.675 | |
| 3bg7 | FAD | Pyranose 2-oxidase | / | 0.675 | |
| 1tdk | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.674 | |
| 1grg | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.673 | |
| 1k4q | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.673 | |
| 2yg7 | FAD | Putrescine oxidase | / | 0.673 | |
| 2zth | SAM | Catechol O-methyltransferase | 2.1.1.6 | 0.673 | |
| 3bi2 | FAD | Polyamine oxidase FMS1 | / | 0.673 | |
| 3nta | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.673 | |
| 3cox | FAD | Cholesterol oxidase | 1.1.3.6 | 0.672 | |
| 3u81 | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.672 | |
| 4tm3 | FAD | KtzI | / | 0.672 | |
| 1w4x | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.671 | |
| 2a8x | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.671 | |
| 2eq7 | NAD | Dihydrolipoyl dehydrogenase | / | 0.671 | |
| 2wp5 | FAD | Trypanothione reductase | / | 0.671 | |
| 4dsg | FAD | Uncharacterized protein | / | 0.671 | |
| 1gth | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.670 | |
| 3dk4 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.669 | |
| 4opt | FDA | Conserved Archaeal protein | / | 0.669 | |
| 4pyo | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.669 | |
| 1v59 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.668 | |
| 3dgz | FAD | Thioredoxin reductase 2, mitochondrial | 1.8.1.9 | 0.668 | |
| 4g6h | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.668 | |
| 4z2t | FAD | 2-hydroxybiphenyl-3-monooxygenase | / | 0.668 | |
| 3epp | SFG | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.667 | |
| 4h4p | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.667 | |
| 4opg | FDA | Conserved Archaeal protein | / | 0.667 | |
| 2jk6 | FAD | Trypanothione reductase | / | 0.666 | |
| 2vqb | FAD | Putative flavin-containing monooxygenase | / | 0.666 | |
| 2bra | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.665 | |
| 5e9w | SAH | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.665 | |
| 3s5w | FAD | L-ornithine N(5)-monooxygenase | / | 0.664 | |
| 4gap | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.664 | |
| 1lpf | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.663 | |
| 4gbe | SAH | DNA adenine methylase | 2.1.1.72 | 0.663 | |
| 3ict | FAD | Coenzyme A disulfide reductase | / | 0.662 | |
| 1geu | FAD | Glutathione reductase | 1.8.1.7 | 0.661 | |
| 1trb | FAD | Thioredoxin reductase | 1.8.1.9 | 0.661 | |
| 2x8h | FAD | Thioredoxin glutathione reductase | / | 0.661 | |
| 4gav | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.661 | |
| 1zy8 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.660 | |
| 2hqm | FAD | Glutathione reductase | 1.8.1.7 | 0.660 | |
| 3int | FDA | UDP-galactopyranose mutase | 5.4.99.9 | 0.660 | |
| 4c5o | FAD | Putative monooxygenase | / | 0.660 | |
| 1gal | FAD | Glucose oxidase | 1.1.3.4 | 0.659 | |
| 1nhp | FAD | NADH peroxidase | 1.11.1.1 | 0.659 | |
| 1zmd | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.659 | |
| 2o06 | MTA | Spermidine synthase | 2.5.1.16 | 0.659 | |
| 3f8d | FAD | NADH oxidase/thioredoxin reductase | / | 0.659 | |
| 3ntd | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.659 | |
| 2yr5 | FAD | Phenylalanine 2-monooxygenase precursor | 1.13.12.9 | 0.658 | |
| 3dk9 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.658 | |
| 3duw | SAH | O-methyltransferase, putative | / | 0.657 | |
| 5hxw | FAD | L-amino acid deaminase | / | 0.657 | |
| 1gre | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.656 | |
| 3atq | FDA | Conserved Archaeal protein | / | 0.656 | |
| 3grs | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.656 | |
| 4pyn | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.656 | |
| 1gxf | FAD | Trypanothione reductase | 1.8.1.12 | 0.655 | |
| 1y56 | ATP | Uncharacterized protein | / | 0.655 | |
| 1zmc | NAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.655 | |
| 2tmd | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.655 | |
| 3lov | FAD | Protoporphyrinogen oxidase | / | 0.655 | |
| 4c3x | FAD | 3-ketosteroid dehydrogenase | / | 0.655 | |
| 4gcm | FAD | Thioredoxin reductase | 1.8.1.9 | 0.655 | |
| 4jdr | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.655 | |
| 4m52 | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.655 | |
| 4nte | FAD | DepH | / | 0.655 | |
| 2b9w | FAD | Putative aminooxidase | / | 0.654 | |
| 2tpr | FAD | Trypanothione reductase | 1.8.1.12 | 0.654 | |
| 3fpf | MTA | Uncharacterized protein | / | 0.654 | |
| 4nev | FAD | Trypanothione reductase | / | 0.654 | |
| 5er0 | FAD | Uncharacterized NAD(FAD)-dependent dehydrogenase | / | 0.654 | |
| 1dnc | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.653 | |
| 1jki | NAI | Inositol-3-phosphate synthase | 5.5.1.4 | 0.652 | |
| 2o07 | MTA | Spermidine synthase | 2.5.1.16 | 0.652 | |
| 1fec | FAD | Trypanothione reductase | 1.8.1.12 | 0.651 | |
| 1zmc | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.651 | |
| 2x3n | FAD | Probable FAD-dependent monooxygenase | / | 0.651 | |
| 4opi | FDA | Conserved Archaeal protein | / | 0.651 | |
| 2npx | FAD | NADH peroxidase | 1.11.1.1 | 0.650 | |
| 2yqz | SAM | Uncharacterized protein | / | 0.650 |