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 |
|---|---|---|---|
| 4b68 | FAD | L-ornithine N(5)-monooxygenase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4b68 | FAD | L-ornithine N(5)-monooxygenase | / | 1.204 | |
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 1.117 | |
| 4b63 | FAD | L-ornithine N(5)-monooxygenase | / | 1.085 | |
| 4b64 | FAD | L-ornithine N(5)-monooxygenase | / | 1.054 | |
| 5cku | FAD | L-ornithine N(5)-monooxygenase | / | 1.048 | |
| 3s5w | FAD | L-ornithine N(5)-monooxygenase | / | 0.991 | |
| 4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.984 | |
| 4b66 | FAD | L-ornithine N(5)-monooxygenase | / | 0.977 | |
| 4b69 | FAD | L-ornithine N(5)-monooxygenase | / | 0.972 | |
| 4b67 | FAD | L-ornithine N(5)-monooxygenase | / | 0.971 | |
| 4tlx | FDA | KtzI | / | 0.902 | |
| 4tm1 | FDA | KtzI | / | 0.854 | |
| 2xvi | FAD | Putative flavin-containing monooxygenase | / | 0.803 | |
| 4tm0 | FAD | KtzI | / | 0.799 | |
| 2gvc | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.798 | |
| 4tm4 | FDA | KtzI | / | 0.795 | |
| 4tm3 | FAD | KtzI | / | 0.786 | |
| 4eqw | FAD | Coenzyme A disulfide reductase | / | 0.783 | |
| 4eqx | FAD | Coenzyme A disulfide reductase | / | 0.778 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.776 | |
| 3bg7 | FAD | Pyranose 2-oxidase | / | 0.773 | |
| 4x4j | FAD | Putative oxygenase | / | 0.772 | |
| 3ntd | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.771 | |
| 4eqr | FAD | Coenzyme A disulfide reductase | / | 0.771 | |
| 4tlz | FAD | KtzI | / | 0.771 | |
| 3ict | FAD | Coenzyme A disulfide reductase | / | 0.768 | |
| 1yqz | FAD | Coenzyme A disulfide reductase | / | 0.767 | |
| 3nt6 | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.767 | |
| 2xve | FAD | Putative flavin-containing monooxygenase | / | 0.762 | |
| 2xvh | FAD | Putative flavin-containing monooxygenase | / | 0.759 | |
| 2q7v | FAD | Thioredoxin reductase | / | 0.755 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.755 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.753 | |
| 3k7m | FAD | 6-hydroxy-L-nicotine oxidase | / | 0.750 | |
| 1e6e | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.744 | |
| 5eow | FAD | 6-hydroxynicotinate 3-monooxygenase | 1.14.13.114 | 0.743 | |
| 3icr | FAD | Coenzyme A disulfide reductase | / | 0.740 | |
| 1grg | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.739 | |
| 2yg7 | FAD | Putrescine oxidase | / | 0.739 | |
| 1geu | FAD | Glutathione reductase | 1.8.1.7 | 0.738 | |
| 4mok | FAD | Pyranose 2-oxidase | / | 0.738 | |
| 2gv8 | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.737 | |
| 2vq7 | FAD | Putative flavin-containing monooxygenase | / | 0.737 | |
| 2xlp | FAD | Putative flavin-containing monooxygenase | / | 0.737 | |
| 2xls | FAD | Putative flavin-containing monooxygenase | / | 0.737 | |
| 1gre | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.736 | |
| 5fs6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.734 | |
| 5fs9 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.734 | |
| 3f8d | FAD | NADH oxidase/thioredoxin reductase | / | 0.731 | |
| 5fs8 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.729 | |
| 3rha | FDA | Putrescine oxidase | / | 0.727 | |
| 3lzw | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.726 | |
| 4lii | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.726 | |
| 2c7g | FAD | NADPH-ferredoxin reductase FprA | 1.18.1.2 | 0.724 | |
| 2yg4 | FAD | Putrescine oxidase | / | 0.722 | |
| 2yg6 | FAD | Putrescine oxidase | / | 0.717 | |
| 1get | FAD | Glutathione reductase | 1.8.1.7 | 0.716 | |
| 4fx9 | FAD | Coenzyme A disulfide reductase | 1.8.1.14 | 0.716 | |
| 4k2x | FAD | Polyketide oxygenase/hydroxylase | / | 0.716 | |
| 2gew | FAD | Cholesterol oxidase | 1.1.3.6 | 0.715 | |
| 2qa1 | FAD | PgaE | / | 0.714 | |
| 3t14 | FAD | Sulfide-quinone reductase | / | 0.713 | |
| 5hhf | FDA | UDP-galactopyranose mutase | / | 0.713 | |
| 1b8s | FAD | Cholesterol oxidase | 1.1.3.6 | 0.711 | |
| 3cox | FAD | Cholesterol oxidase | 1.1.3.6 | 0.711 | |
| 3gyi | FAD | Cholesterol oxidase | 1.1.3.6 | 0.711 | |
| 3fbs | FAD | Oxidoreductase | / | 0.710 | |
| 1gsn | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.709 | |
| 2xlr | FAD | Putative flavin-containing monooxygenase | / | 0.709 | |
| 3ics | FAD | Coenzyme A disulfide reductase | / | 0.709 | |
| 1grb | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.708 | |
| 1cbo | FAD | Cholesterol oxidase | 1.1.3.6 | 0.707 | |
| 1dnc | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.707 | |
| 2c4c | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.707 | |
| 4nte | FAD | DepH | / | 0.707 | |
| 4aos | FAD | Steroid monooxygenase | / | 0.706 | |
| 3cty | FAD | Probable thioredoxin reductase | / | 0.704 | |
| 3b6d | FAE | Cholesterol oxidase | 1.1.3.6 | 0.703 | |
| 3syi | FAD | Sulfide-quinone reductase | / | 0.703 | |
| 4txi | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.703 | |
| 3t2z | FAD | Sulfide-quinone reductase | / | 0.701 | |
| 4bv6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.700 | |
| 1e1n | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.699 | |
| 2qae | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.698 | |
| 2vqb | FAD | Putative flavin-containing monooxygenase | / | 0.698 | |
| 3t2y | FAD | Sulfide-quinone reductase | / | 0.697 | |
| 1e1m | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.696 | |
| 2ylw | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.696 | |
| 3cnj | FAD | Cholesterol oxidase | 1.1.3.6 | 0.696 | |
| 3klj | FAD | NADH-rubredoxin oxidoreductase | 1.18.1.1 | 0.696 | |
| 1fec | FAD | Trypanothione reductase | 1.8.1.12 | 0.695 | |
| 1n4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.695 | |
| 4u2t | FAD | Cholesterol oxidase | 1.1.3.6 | 0.694 | |
| 1zk7 | FAD | Mercuric reductase | 1.16.1.1 | 0.693 | |
| 3nta | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.693 | |
| 4j57 | FAD | Thioredoxin reductase 2 | 1.8.1.9 | 0.693 | |
| 4ntd | FAD | Thioredoxin reductase | / | 0.693 | |
| 3lzx | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.692 | |
| 4aox | FAD | Steroid monooxygenase | / | 0.692 | |
| 4icy | FAD | PgaE | / | 0.692 | |
| 4udr | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.691 | |
| 5hsa | FAS | Alcohol oxidase 1 | 1.1.3.13 | 0.691 | |
| 2yg5 | FAD | Putrescine oxidase | / | 0.690 | |
| 2zz0 | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.690 | |
| 2r0c | FAD | Putative FAD-monooxygenase | / | 0.689 | |
| 4ap3 | FAD | Steroid monooxygenase | / | 0.689 | |
| 4emw | FAD | Coenzyme A disulfide reductase | / | 0.689 | |
| 2rab | FAD | Glutathione amide reductase | / | 0.688 | |
| 3pl8 | FAD | Pyranose 2-oxidase | / | 0.687 | |
| 5fs7 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.687 | |
| 1ijh | FAD | Cholesterol oxidase | 1.1.3.6 | 0.686 | |
| 2yqu | FAD | Dihydrolipoyl dehydrogenase | / | 0.686 | |
| 4usr | FAD | Monooxygenase | / | 0.686 | |
| 1cc2 | FAD | Cholesterol oxidase | 1.1.3.6 | 0.685 | |
| 4qi7 | FAD | Cellobiose dehydrogenase | / | 0.684 | |
| 5er0 | FAD | Uncharacterized NAD(FAD)-dependent dehydrogenase | / | 0.684 | |
| 4d7e | FAD | Putative lysine-N-oxygenase | / | 0.683 | |
| 1h83 | FAD | Polyamine oxidase | 1.5.3.14 | 0.682 | |
| 2e1m | FAD | L-glutamate oxidase | / | 0.682 | |
| 3t2k | FAD | Sulfide-quinone reductase | / | 0.682 | |
| 4gcm | FAD | Thioredoxin reductase | 1.8.1.9 | 0.682 | |
| 3int | FDA | UDP-galactopyranose mutase | 5.4.99.9 | 0.681 | |
| 4k5r | FAD | Oxygenase | / | 0.681 | |
| 2r9z | FAD | Glutathione amide reductase | / | 0.680 | |
| 3nlc | FAD | Uncharacterized protein | / | 0.680 | |
| 3p9u | FAD | TetX family tetracycline inactivation enzyme | / | 0.680 | |
| 3qfa | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.679 | |
| 3up4 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.679 | |
| 4cnk | FAD | L-amino acid oxidase | / | 0.679 | |
| 5g3t | FDA | Flavin-dependent L-tryptophan oxidase VioA | / | 0.679 | |
| 5i39 | FAD | L-amino acid deaminase | / | 0.679 | |
| 1zx9 | FAD | Mercuric reductase | 1.16.1.1 | 0.678 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.678 | |
| 4gdd | FAD | UDP-galactopyranose mutase | / | 0.678 | |
| 1bwc | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.677 | |
| 1bzl | FAD | Trypanothione reductase | 1.8.1.12 | 0.677 | |
| 4guu | FA9 | Lysine-specific histone demethylase 1B | 1 | 0.677 | |
| 4h4v | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.677 | |
| 4udq | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.677 | |
| 1h81 | FAD | Polyamine oxidase | 1.5.3.14 | 0.676 | |
| 2bi8 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.676 | |
| 3kpk | FAD | Sulfide-quinone reductase | / | 0.675 | |
| 3oc4 | FAD | Oxidoreductase, pyridine nucleotide-disulfide family | / | 0.675 | |
| 3atq | FDA | Conserved Archaeal protein | / | 0.674 | |
| 2q0l | FAD | Thioredoxin reductase | 1.8.1.9 | 0.673 | |
| 3kpf | FAD | Polyamine oxidase | 1.5.3.14 | 0.673 | |
| 3m12 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.672 | |
| 3g5q | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.671 | |
| 3lsm | SFD | Pyranose 2-oxidase | / | 0.670 | |
| 3rp8 | FAD | FAD-dependent urate hydroxylase | / | 0.670 | |
| 1gv4 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.669 | |
| 2jk6 | FAD | Trypanothione reductase | / | 0.669 | |
| 2x3n | FAD | Probable FAD-dependent monooxygenase | / | 0.669 | |
| 3g5s | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.669 | |
| 3k30 | ADP | Histamine dehydrogenase | / | 0.669 | |
| 2fje | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.668 | |
| 2gh5 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.668 | |
| 3dk9 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.667 | |
| 2dki | FAD | 3-hydroxybenzoate 4-monooxygenase | 1.14.13.23 | 0.666 | |
| 2jb2 | FAD | L-amino acid oxidase | / | 0.666 | |
| 2v6o | FAD | Thioredoxin glutathione reductase | / | 0.666 | |
| 1ger | FAD | Glutathione reductase | 1.8.1.7 | 0.665 | |
| 1k4q | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.665 | |
| 1rsg | FAD | Polyamine oxidase FMS1 | / | 0.665 | |
| 3djg | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.665 | |
| 4guv | FAD | TetX family tetracycline inactivation enzyme | / | 0.665 | |
| 1zmd | NAI | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.664 | |
| 3uov | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.664 | |
| 1lqu | FAD | NADPH-ferredoxin reductase FprA | 1.18.1.2 | 0.663 | |
| 1tyt | FAD | Trypanothione reductase | 1.8.1.12 | 0.663 | |
| 3ab1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.663 | |
| 3dk8 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.663 | |
| 3ef6 | FAD | Toluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component | 1.18.1.3 | 0.663 | |
| 1zmc | NAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.662 | |
| 4bk2 | FAD | Probable salicylate monooxygenase | / | 0.662 | |
| 4j36 | FAD | Kynurenine 3-monooxygenase | / | 0.662 | |
| 1cjc | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.661 | |
| 1n1p | FAD | Cholesterol oxidase | 1.1.3.6 | 0.661 | |
| 1qo8 | FAD | Fumarate reductase flavoprotein subunit | / | 0.661 | |
| 3sz0 | FAD | Sulfide-quinone reductase | / | 0.661 | |
| 4j33 | FAD | Kynurenine 3-monooxygenase | / | 0.661 | |
| 4rek | FAD | Cholesterol oxidase | 1.1.3.6 | 0.661 | |
| 3m13 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.660 | |
| 4jdr | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.660 | |
| 4xwr | FAD | Cholesterol oxidase | 1.1.3.6 | 0.660 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.659 | |
| 3l8k | ADP | Dihydrolipoamide dehydrogenase (PdhD-3) | / | 0.659 | |
| 3ukf | FDA | UDP-galactopyranose mutase | / | 0.659 | |
| 4fwj | FAD | Lysine-specific histone demethylase 1B | 1 | 0.659 | |
| 4yac | NAI | C alpha-dehydrogenase | / | 0.659 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.658 | |
| 4qi4 | FAD | Cellobiose dehydrogenase | / | 0.658 | |
| 5buk | FAD | FADH2-dependent halogenase | / | 0.658 | |
| 1gte | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.657 | |
| 4rpg | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.657 | |
| 1e1l | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.655 | |
| 1gra | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.655 | |
| 2i0z | FAD | NAD(FAD)-utilizing dehydrogenases | / | 0.655 | |
| 3grs | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.655 | |
| 3he3 | FAD | UDP-galactopyranose mutase | / | 0.655 | |
| 4xbf | FAD | Lysine-specific histone demethylase 1A | 1 | 0.655 | |
| 2x8g | FAD | Thioredoxin glutathione reductase | / | 0.654 | |
| 3hdy | FDA | UDP-galactopyranose mutase | / | 0.654 | |
| 3ihg | FAD | Aklavinone 12-hydroxylase RdmE | / | 0.654 | |
| 3t37 | FAD | Pyridoxine 4-oxidase | / | 0.654 | |
| 4h4r | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.654 | |
| 4ap1 | FAD | Steroid monooxygenase | / | 0.653 | |
| 4u2l | SFD | Cholesterol oxidase | 1.1.3.6 | 0.653 | |
| 2a8x | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.652 | |
| 3jsk | AHZ | Thiamine thiazole synthase | / | 0.652 | |
| 3uoy | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.652 | |
| 4h4p | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.652 | |
| 4hb9 | FAD | Uncharacterized protein | / | 0.652 | |
| 4jn9 | FAD | DepH | / | 0.652 | |
| 1ojt | FAD | Dihydrolipoyl dehydrogenase | / | 0.651 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.651 | |
| 2ih5 | NEA | Modification methylase TaqI | 2.1.1.72 | 0.651 | |
| 3bi2 | FAD | Polyamine oxidase FMS1 | / | 0.651 | |
| 4fwf | FAD | Lysine-specific histone demethylase 1B | 1 | 0.651 | |
| 2x8h | FAD | Thioredoxin glutathione reductase | / | 0.650 | |
| 2ylt | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.650 | |
| 3cnd | FAD | Polyamine oxidase FMS1 | / | 0.650 | |
| 3wv8 | ATP | Hmd co-occurring protein HcgE | / | 0.650 |