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 |
|---|---|---|---|
| 4b65 | FAD | L-ornithine N(5)-monooxygenase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 1.253 | |
| 5cku | FAD | L-ornithine N(5)-monooxygenase | / | 1.156 | |
| 4b63 | FAD | L-ornithine N(5)-monooxygenase | / | 1.152 | |
| 4b68 | FAD | L-ornithine N(5)-monooxygenase | / | 1.117 | |
| 4b64 | FAD | L-ornithine N(5)-monooxygenase | / | 1.078 | |
| 4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.987 | |
| 4b67 | FAD | L-ornithine N(5)-monooxygenase | / | 0.957 | |
| 4tlx | FDA | KtzI | / | 0.925 | |
| 4b66 | FAD | L-ornithine N(5)-monooxygenase | / | 0.924 | |
| 4tm1 | FDA | KtzI | / | 0.913 | |
| 3s5w | FAD | L-ornithine N(5)-monooxygenase | / | 0.892 | |
| 4b69 | FAD | L-ornithine N(5)-monooxygenase | / | 0.879 | |
| 4tm3 | FAD | KtzI | / | 0.846 | |
| 4tm4 | FDA | KtzI | / | 0.840 | |
| 4tlz | FAD | KtzI | / | 0.832 | |
| 4tm0 | FAD | KtzI | / | 0.812 | |
| 2xvf | FAD | Putative flavin-containing monooxygenase | / | 0.791 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.785 | |
| 2xve | FAD | Putative flavin-containing monooxygenase | / | 0.777 | |
| 2gvc | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.764 | |
| 1e6e | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.755 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.753 | |
| 1e1m | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.749 | |
| 2xls | FAD | Putative flavin-containing monooxygenase | / | 0.749 | |
| 1e1n | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.748 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.748 | |
| 1cc2 | FAD | Cholesterol oxidase | 1.1.3.6 | 0.746 | |
| 2gv8 | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.745 | |
| 2q7v | FAD | Thioredoxin reductase | / | 0.743 | |
| 3rha | FDA | Putrescine oxidase | / | 0.743 | |
| 4gcm | FAD | Thioredoxin reductase | 1.8.1.9 | 0.741 | |
| 3b6d | FAE | Cholesterol oxidase | 1.1.3.6 | 0.740 | |
| 2xvi | FAD | Putative flavin-containing monooxygenase | / | 0.735 | |
| 4d03 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.729 | |
| 4fwj | FAD | Lysine-specific histone demethylase 1B | 1 | 0.727 | |
| 3cgb | FAD | Coenzyme A disulfide reductase | / | 0.724 | |
| 1cbo | FAD | Cholesterol oxidase | 1.1.3.6 | 0.723 | |
| 1ges | FAD | Glutathione reductase | 1.8.1.7 | 0.723 | |
| 1cjc | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.722 | |
| 3klj | FAD | NADH-rubredoxin oxidoreductase | 1.18.1.1 | 0.721 | |
| 4aos | FAD | Steroid monooxygenase | / | 0.721 | |
| 4nte | FAD | DepH | / | 0.720 | |
| 3ka7 | FAD | Putative oxidoreductase | / | 0.717 | |
| 3syi | FAD | Sulfide-quinone reductase | / | 0.716 | |
| 4x4j | FAD | Putative oxygenase | / | 0.714 | |
| 2xlr | FAD | Putative flavin-containing monooxygenase | / | 0.713 | |
| 3uoy | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.712 | |
| 2vqb | FAD | Putative flavin-containing monooxygenase | / | 0.711 | |
| 2xvh | FAD | Putative flavin-containing monooxygenase | / | 0.709 | |
| 3rnm | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.709 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.708 | |
| 4k5r | FAD | Oxygenase | / | 0.707 | |
| 3cty | FAD | Probable thioredoxin reductase | / | 0.705 | |
| 3up4 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.705 | |
| 4txi | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.705 | |
| 5g3t | FDA | Flavin-dependent L-tryptophan oxidase VioA | / | 0.702 | |
| 1ger | FAD | Glutathione reductase | 1.8.1.7 | 0.699 | |
| 1get | FAD | Glutathione reductase | 1.8.1.7 | 0.698 | |
| 1rp0 | AHZ | Thiamine thiazole synthase, chloroplastic | / | 0.698 | |
| 3cn8 | FAD | Polyamine oxidase FMS1 | / | 0.698 | |
| 3uov | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.698 | |
| 1n1p | FAD | Cholesterol oxidase | 1.1.3.6 | 0.697 | |
| 3lov | FAD | Protoporphyrinogen oxidase | / | 0.697 | |
| 4guv | FAD | TetX family tetracycline inactivation enzyme | / | 0.697 | |
| 4rek | FAD | Cholesterol oxidase | 1.1.3.6 | 0.697 | |
| 2c4c | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.695 | |
| 2hqm | FAD | Glutathione reductase | 1.8.1.7 | 0.695 | |
| 2ylx | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.695 | |
| 4u2t | FAD | Cholesterol oxidase | 1.1.3.6 | 0.695 | |
| 3nlc | FAD | Uncharacterized protein | / | 0.694 | |
| 5hhf | FDA | UDP-galactopyranose mutase | / | 0.694 | |
| 1n4u | FAE | Cholesterol oxidase | 1.1.3.6 | 0.692 | |
| 3p9u | FAD | TetX family tetracycline inactivation enzyme | / | 0.692 | |
| 2bac | FAD | Putative aminooxidase | / | 0.690 | |
| 2rgh | FAD | Alpha-Glycerophosphate Oxidase | / | 0.690 | |
| 4usr | FAD | Monooxygenase | / | 0.688 | |
| 3t2k | FAD | Sulfide-quinone reductase | / | 0.687 | |
| 4ap3 | FAD | Steroid monooxygenase | / | 0.686 | |
| 1d4d | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.685 | |
| 2yg4 | FAD | Putrescine oxidase | / | 0.685 | |
| 4lii | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.685 | |
| 4ntd | FAD | Thioredoxin reductase | / | 0.685 | |
| 5er0 | FAD | Uncharacterized NAD(FAD)-dependent dehydrogenase | / | 0.685 | |
| 3djg | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.684 | |
| 2q28 | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.683 | |
| 3t2y | FAD | Sulfide-quinone reductase | / | 0.683 | |
| 1b4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.681 | |
| 1n4w | FAD | Cholesterol oxidase | 1.1.3.6 | 0.681 | |
| 3oz2 | FAD | Digeranylgeranylglycerophospholipid reductase | / | 0.681 | |
| 4xwr | FAD | Cholesterol oxidase | 1.1.3.6 | 0.681 | |
| 4xxg | FAD | Cholesterol oxidase | 1.1.3.6 | 0.681 | |
| 2o06 | MTA | Spermidine synthase | 2.5.1.16 | 0.680 | |
| 3r9u | FAD | Thioredoxin reductase | / | 0.680 | |
| 3uox | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.680 | |
| 3rw9 | DSH | Spermidine synthase | 2.5.1.16 | 0.679 | |
| 3cgc | FAD | Coenzyme A disulfide reductase | / | 0.678 | |
| 4yac | NAI | C alpha-dehydrogenase | / | 0.678 | |
| 3g5s | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.677 | |
| 4fwf | FAD | Lysine-specific histone demethylase 1B | 1 | 0.677 | |
| 1b8s | FAD | Cholesterol oxidase | 1.1.3.6 | 0.676 | |
| 1tdn | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.676 | |
| 2gew | FAD | Cholesterol oxidase | 1.1.3.6 | 0.676 | |
| 3ef6 | FAD | Toluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component | 1.18.1.3 | 0.676 | |
| 1e1l | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.675 | |
| 1gal | FAD | Glucose oxidase | 1.1.3.4 | 0.675 | |
| 3lsi | FAD | Pyranose 2-oxidase | / | 0.675 | |
| 3t14 | FAD | Sulfide-quinone reductase | / | 0.674 | |
| 4c5o | FAD | Putative monooxygenase | / | 0.674 | |
| 3kpk | FAD | Sulfide-quinone reductase | / | 0.673 | |
| 4ap1 | FAD | Steroid monooxygenase | / | 0.673 | |
| 2cdu | ADP | NADH oxidase | / | 0.672 | |
| 3cox | FAD | Cholesterol oxidase | 1.1.3.6 | 0.672 | |
| 3dme | FAD | Putative conserved exported protein | / | 0.672 | |
| 3gyi | FAD | Cholesterol oxidase | 1.1.3.6 | 0.672 | |
| 4cnj | FAD | L-amino acid oxidase | / | 0.672 | |
| 5fs7 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.672 | |
| 1reo | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.671 | |
| 1gre | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.670 | |
| 2hmv | ADP | Ktr system potassium uptake protein A | / | 0.670 | |
| 3k4n | FAD | Pyranose 2-oxidase | / | 0.670 | |
| 4c3x | FAD | 3-ketosteroid dehydrogenase | / | 0.670 | |
| 2jk6 | FAD | Trypanothione reductase | / | 0.669 | |
| 2vq7 | FAD | Putative flavin-containing monooxygenase | / | 0.669 | |
| 3ukf | FDA | UDP-galactopyranose mutase | / | 0.669 | |
| 1fl2 | FAD | Alkyl hydroperoxide reductase subunit F | 1.8.1 | 0.668 | |
| 2xlp | FAD | Putative flavin-containing monooxygenase | / | 0.667 | |
| 3k30 | ADP | Histamine dehydrogenase | / | 0.667 | |
| 4hb9 | FAD | Uncharacterized protein | / | 0.667 | |
| 1mxt | FAE | Cholesterol oxidase | 1.1.3.6 | 0.666 | |
| 2q0l | FAD | Thioredoxin reductase | 1.8.1.9 | 0.666 | |
| 2ylw | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.666 | |
| 2ym2 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.666 | |
| 1n4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.665 | |
| 4jn9 | FAD | DepH | / | 0.665 | |
| 3jyo | NAD | Quinate/shikimate dehydrogenase (NAD(+)) | / | 0.664 | |
| 3sz0 | FAD | Sulfide-quinone reductase | / | 0.664 | |
| 4bv6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.664 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.664 | |
| 4jq9 | FAD | Dihydrolipoyl dehydrogenase | / | 0.664 | |
| 1xpq | FAD | Polyamine oxidase FMS1 | / | 0.663 | |
| 4j36 | FAD | Kynurenine 3-monooxygenase | / | 0.663 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.662 | |
| 2o07 | MTA | Spermidine synthase | 2.5.1.16 | 0.662 | |
| 4mo2 | FAD | UDP-galactopyranose mutase | / | 0.662 | |
| 1grb | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.661 | |
| 2gqf | FAD | Uncharacterized protein HI_0933 | / | 0.661 | |
| 4qi5 | FAD | Cellobiose dehydrogenase | / | 0.661 | |
| 2r0c | FAD | Putative FAD-monooxygenase | / | 0.660 | |
| 3grv | ADN | Probable ribosomal RNA small subunit methyltransferase A | / | 0.660 | |
| 4udr | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.660 | |
| 5jdz | SAH | Methyl transferase | / | 0.660 | |
| 2yr5 | FAD | Phenylalanine 2-monooxygenase precursor | 1.13.12.9 | 0.659 | |
| 3gwd | FAD | Cyclohexanone monooxygenase | / | 0.659 | |
| 2i0z | FAD | NAD(FAD)-utilizing dehydrogenases | / | 0.658 | |
| 3pl8 | FAD | Pyranose 2-oxidase | / | 0.658 | |
| 4cnk | FAD | L-amino acid oxidase | / | 0.658 | |
| 1bzl | FAD | Trypanothione reductase | 1.8.1.12 | 0.657 | |
| 3cnj | FAD | Cholesterol oxidase | 1.1.3.6 | 0.657 | |
| 4hsu | FAD | Lysine-specific histone demethylase 1B | 1 | 0.657 | |
| 2igo | FAD | Pyranose 2-oxidase | / | 0.656 | |
| 3gsi | FAD | Dimethylglycine oxidase | 1.5.3.10 | 0.656 | |
| 2zth | SAM | Catechol O-methyltransferase | 2.1.1.6 | 0.655 | |
| 3gyj | FAD | Cholesterol oxidase | 1.1.3.6 | 0.655 | |
| 3ihg | FAD | Aklavinone 12-hydroxylase RdmE | / | 0.655 | |
| 3mj4 | FAD | UDP-galactopyranose mutase | / | 0.655 | |
| 3oc4 | FAD | Oxidoreductase, pyridine nucleotide-disulfide family | / | 0.654 | |
| 4dna | FAD | Probable glutathione reductase | / | 0.654 | |
| 4u2s | FDA | Cholesterol oxidase | 1.1.3.6 | 0.654 | |
| 1dnc | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.653 | |
| 3hvi | 619 | Catechol O-methyltransferase | 2.1.1.6 | 0.653 | |
| 3pgx | NAD | Uncharacterized NAD-dependent oxidoreductase MAP_4146 | / | 0.653 | |
| 4udq | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.653 | |
| 1zmd | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.652 | |
| 3t2z | FAD | Sulfide-quinone reductase | / | 0.652 | |
| 1jeh | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.651 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.651 | |
| 1v59 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.651 | |
| 3gdp | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.651 | |
| 4j2w | FAD | Kynurenine 3-monooxygenase | / | 0.651 | |
| 2bi7 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.650 | |
| 3gwf | FAD | Cyclohexanone monooxygenase | / | 0.650 | |
| 4yry | FAD | Glutamate synthase, beta subunit | / | 0.650 | |
| 5br7 | FAD | UDP-galactopyranose mutase | / | 0.650 |