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 |
|---|---|---|---|
| 4guv | FAD | TetX family tetracycline inactivation enzyme |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4guv | FAD | TetX family tetracycline inactivation enzyme | / | 1.112 | |
| 2xdo | FAD | TetX family tetracycline inactivation enzyme | / | 1.000 | |
| 3p9u | FAD | TetX family tetracycline inactivation enzyme | / | 0.977 | |
| 4a6n | FAD | TetX family tetracycline inactivation enzyme | / | 0.971 | |
| 4a99 | FAD | TetX family tetracycline inactivation enzyme | / | 0.941 | |
| 5eow | FAD | 6-hydroxynicotinate 3-monooxygenase | 1.14.13.114 | 0.826 | |
| 2vou | FAD | 2,6-dihydroxypyridine 3-monooxygenase | 1.14.13.10 | 0.814 | |
| 5buk | FAD | FADH2-dependent halogenase | / | 0.814 | |
| 2xyo | FAD | TetX family tetracycline inactivation enzyme | / | 0.802 | |
| 4k2x | FAD | Polyketide oxygenase/hydroxylase | / | 0.788 | |
| 1k0l | FAD | p-hydroxybenzoate hydroxylase | / | 0.779 | |
| 4k5r | FAD | Oxygenase | / | 0.773 | |
| 2qa2 | FAD | Polyketide oxygenase CabE | / | 0.762 | |
| 3ab1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.761 | |
| 4bk2 | FAD | Probable salicylate monooxygenase | / | 0.757 | |
| 2qa1 | FAD | PgaE | / | 0.756 | |
| 4bjz | FAD | Probable salicylate monooxygenase | / | 0.753 | |
| 3rp8 | FAD | FAD-dependent urate hydroxylase | / | 0.752 | |
| 1zx9 | FAD | Mercuric reductase | 1.16.1.1 | 0.750 | |
| 1pdh | FAS | p-hydroxybenzoate hydroxylase | / | 0.748 | |
| 1d7l | RFL | p-hydroxybenzoate hydroxylase | / | 0.746 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.743 | |
| 4bk3 | FAD | Probable salicylate monooxygenase | / | 0.743 | |
| 2b9y | FAD | Putative aminooxidase | / | 0.740 | |
| 2f5z | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.740 | |
| 3nix | FAD | Flavoprotein/dehydrogenase | / | 0.738 | |
| 3oz2 | FAD | Digeranylgeranylglycerophospholipid reductase | / | 0.738 | |
| 3oc4 | FAD | Oxidoreductase, pyridine nucleotide-disulfide family | / | 0.737 | |
| 2c4c | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.734 | |
| 3cge | FAD | Coenzyme A disulfide reductase | / | 0.732 | |
| 1h7w | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.725 | |
| 4j31 | FAD | Kynurenine 3-monooxygenase | / | 0.723 | |
| 4j36 | FAD | Kynurenine 3-monooxygenase | / | 0.723 | |
| 5dbj | FAD | FADH2-dependent halogenase PltA | / | 0.721 | |
| 3lzx | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.720 | |
| 4j2w | FAD | Kynurenine 3-monooxygenase | / | 0.718 | |
| 4emw | FAD | Coenzyme A disulfide reductase | / | 0.717 | |
| 2dki | FAD | 3-hydroxybenzoate 4-monooxygenase | 1.14.13.23 | 0.713 | |
| 4b64 | FAD | L-ornithine N(5)-monooxygenase | / | 0.713 | |
| 2eq6 | FAD | Dihydrolipoyl dehydrogenase | / | 0.712 | |
| 3sqp | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.712 | |
| 1zk7 | FAD | Mercuric reductase | 1.16.1.1 | 0.710 | |
| 3cgb | FAD | Coenzyme A disulfide reductase | / | 0.710 | |
| 2v6o | FAD | Thioredoxin glutathione reductase | / | 0.709 | |
| 3lzw | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.709 | |
| 4tlx | FDA | KtzI | / | 0.709 | |
| 1gte | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.708 | |
| 3all | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.708 | |
| 4jq9 | FAD | Dihydrolipoyl dehydrogenase | / | 0.707 | |
| 1rp0 | AHZ | Thiamine thiazole synthase, chloroplastic | / | 0.705 | |
| 2rgj | FAD | Flavin-containing monooxygenase | / | 0.705 | |
| 4x4j | FAD | Putative oxygenase | / | 0.705 | |
| 5cku | FAD | L-ornithine N(5)-monooxygenase | / | 0.705 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.704 | |
| 3atq | FDA | Conserved Archaeal protein | / | 0.703 | |
| 4b69 | FAD | L-ornithine N(5)-monooxygenase | / | 0.703 | |
| 4icy | FAD | PgaE | / | 0.703 | |
| 4jy2 | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.702 | |
| 4opg | FDA | Conserved Archaeal protein | / | 0.702 | |
| 1v59 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.701 | |
| 4tm3 | FAD | KtzI | / | 0.701 | |
| 2b9w | FAD | Putative aminooxidase | / | 0.700 | |
| 3lxd | FAD | FAD-dependent pyridine nucleotide-disulfide oxidoreductase | / | 0.699 | |
| 5fs8 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.698 | |
| 3ean | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.697 | |
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 0.697 | |
| 4tm1 | FDA | KtzI | / | 0.697 | |
| 3atr | FDA | Conserved Archaeal protein | / | 0.695 | |
| 2yg7 | FAD | Putrescine oxidase | / | 0.694 | |
| 4b63 | FAD | L-ornithine N(5)-monooxygenase | / | 0.694 | |
| 4j33 | FAD | Kynurenine 3-monooxygenase | / | 0.694 | |
| 1f8s | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.693 | |
| 1f8w | FAD | NADH peroxidase | 1.11.1.1 | 0.693 | |
| 4gcm | FAD | Thioredoxin reductase | 1.8.1.9 | 0.693 | |
| 1bzl | FAD | Trypanothione reductase | 1.8.1.12 | 0.692 | |
| 2rab | FAD | Glutathione amide reductase | / | 0.692 | |
| 4opd | FDA | Conserved Archaeal protein | / | 0.692 | |
| 5fs9 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.692 | |
| 2ba9 | FAD | Putative aminooxidase | / | 0.691 | |
| 4cy8 | FDA | 2-hydroxybiphenyl-3-monooxygenase | / | 0.691 | |
| 4dna | FAD | Probable glutathione reductase | / | 0.691 | |
| 4gr1 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.691 | |
| 4lii | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.691 | |
| 2gh5 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.690 | |
| 1geu | FAD | Glutathione reductase | 1.8.1.7 | 0.689 | |
| 1gra | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.689 | |
| 3jsk | AHZ | Thiamine thiazole synthase | / | 0.689 | |
| 4opl | FDA | Conserved Archaeal protein | / | 0.689 | |
| 2wba | FAD | Trypanothione reductase | 1.8.1.12 | 0.688 | |
| 3cty | FAD | Probable thioredoxin reductase | / | 0.688 | |
| 4h2n | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.688 | |
| 3alj | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.687 | |
| 3c4a | FAD | Protodeoxyviolaceinate monooxygenase | 1 | 0.687 | |
| 3ept | FDA | Putative FAD-monooxygenase | / | 0.687 | |
| 4opt | FDA | Conserved Archaeal protein | / | 0.687 | |
| 5fs7 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.687 | |
| 2c3c | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.686 | |
| 2q7v | FAD | Thioredoxin reductase | / | 0.686 | |
| 4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.686 | |
| 1bwc | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.685 | |
| 1gsn | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.684 | |
| 3icr | FAD | Coenzyme A disulfide reductase | / | 0.683 | |
| 4tm4 | FDA | KtzI | / | 0.683 | |
| 5fs6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.682 | |
| 1d4d | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.681 | |
| 2i0z | FAD | NAD(FAD)-utilizing dehydrogenases | / | 0.681 | |
| 2yqu | FAD | Dihydrolipoyl dehydrogenase | / | 0.680 | |
| 3duw | SAH | O-methyltransferase, putative | / | 0.680 | |
| 3ef6 | FAD | Toluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component | 1.18.1.3 | 0.680 | |
| 3dk8 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.678 | |
| 4opu | FDA | Conserved Archaeal protein | / | 0.678 | |
| 5ccb | SAH | tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A | 2.1.1.220 | 0.677 | |
| 5ccx | SAH | tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A | 2.1.1.220 | 0.677 | |
| 1gth | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.676 | |
| 1jeh | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.676 | |
| 1z6l | FAD | Polyamine oxidase FMS1 | / | 0.676 | |
| 2wow | FAD | Trypanothione reductase | / | 0.676 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.676 | |
| 3k30 | ADP | Histamine dehydrogenase | / | 0.676 | |
| 4j34 | FAD | Kynurenine 3-monooxygenase | / | 0.676 | |
| 4jdr | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.676 | |
| 3grs | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.675 | |
| 4pyo | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.675 | |
| 1gre | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.674 | |
| 3gmb | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.674 | |
| 3lsi | FAD | Pyranose 2-oxidase | / | 0.673 | |
| 3orh | SAH | Guanidinoacetate N-methyltransferase | 2.1.1.2 | 0.673 | |
| 4m52 | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.673 | |
| 2bab | FAD | Putative aminooxidase | / | 0.672 | |
| 4mo2 | FAD | UDP-galactopyranose mutase | / | 0.672 | |
| 2q28 | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.671 | |
| 3dh9 | FAD | Thioredoxin reductase 1, mitochondrial | 1.8.1.9 | 0.671 | |
| 3dk9 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.671 | |
| 3qvp | FAD | Glucose oxidase | 1.1.3.4 | 0.671 | |
| 4o5q | FAD | Alkyl hydroperoxide reductase subunit F | 1.8.1 | 0.671 | |
| 4oa5 | SAH | O-methyltransferase family protein | / | 0.671 | |
| 2b9x | FAD | Putative aminooxidase | / | 0.670 | |
| 2x8h | FAD | Thioredoxin glutathione reductase | / | 0.670 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.670 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.670 | |
| 4bv6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.670 | |
| 4usr | FAD | Monooxygenase | / | 0.670 | |
| 1k4q | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.669 | |
| 3lov | FAD | Protoporphyrinogen oxidase | / | 0.669 | |
| 1e1n | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.668 | |
| 5er0 | FAD | Uncharacterized NAD(FAD)-dependent dehydrogenase | / | 0.668 | |
| 2o06 | MTA | Spermidine synthase | 2.5.1.16 | 0.667 | |
| 3dgz | FAD | Thioredoxin reductase 2, mitochondrial | 1.8.1.9 | 0.667 | |
| 3u81 | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.667 | |
| 1n1p | FAD | Cholesterol oxidase | 1.1.3.6 | 0.666 | |
| 1n4w | FAD | Cholesterol oxidase | 1.1.3.6 | 0.666 | |
| 2bac | FAD | Putative aminooxidase | / | 0.666 | |
| 4u8o | FDA | UDP-galactopyranose mutase | / | 0.666 | |
| 4xxg | FAD | Cholesterol oxidase | 1.1.3.6 | 0.666 | |
| 1n4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.665 | |
| 3a26 | MTA | tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase | / | 0.665 | |
| 3m13 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.665 | |
| 3rha | FDA | Putrescine oxidase | / | 0.665 | |
| 3rnm | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.665 | |
| 4b68 | FAD | L-ornithine N(5)-monooxygenase | / | 0.665 | |
| 1cf3 | FAD | Glucose oxidase | 1.1.3.4 | 0.664 | |
| 1ebd | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.664 | |
| 1zmd | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.664 | |
| 3gd3 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.664 | |
| 4b66 | FAD | L-ornithine N(5)-monooxygenase | / | 0.664 | |
| 4pyn | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.664 | |
| 1f8r | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.663 | |
| 1ger | FAD | Glutathione reductase | 1.8.1.7 | 0.663 | |
| 1tdk | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.663 | |
| 3fmw | FAD | Oxygenase | / | 0.663 | |
| 2iid | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.662 | |
| 2yg4 | FAD | Putrescine oxidase | / | 0.662 | |
| 4h2p | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.662 | |
| 1tyt | FAD | Trypanothione reductase | 1.8.1.12 | 0.661 | |
| 3dk4 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.661 | |
| 4opc | FDA | Conserved Archaeal protein | / | 0.661 | |
| 4u8n | FDA | UDP-galactopyranose mutase | / | 0.661 | |
| 1ijh | FAD | Cholesterol oxidase | 1.1.3.6 | 0.660 | |
| 1tde | FAD | Thioredoxin reductase | 1.8.1.9 | 0.660 | |
| 1zy8 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.659 | |
| 2vqb | FAD | Putative flavin-containing monooxygenase | / | 0.659 | |
| 3fg2 | FAD | Putative rubredoxin reductase | / | 0.659 | |
| 4j56 | FAD | Thioredoxin reductase 2 | 1.8.1.9 | 0.659 | |
| 1tdf | FAD | Thioredoxin reductase | 1.8.1.9 | 0.658 | |
| 3alm | FAD | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase | / | 0.658 | |
| 2bry | FAD | [F-actin]-methionine sulfoxide oxidase MICAL1 | 1.14.13 | 0.656 | |
| 3djj | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.656 | |
| 1m6i | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.655 | |
| 3f8d | FAD | NADH oxidase/thioredoxin reductase | / | 0.655 | |
| 4xwz | FAD | Fructosyl amine:oxygen oxidoreductase | / | 0.655 | |
| 1cl0 | FAD | Thioredoxin reductase | 1.8.1.9 | 0.654 | |
| 3ihg | FAD | Aklavinone 12-hydroxylase RdmE | / | 0.654 | |
| 4cnk | FAD | L-amino acid oxidase | / | 0.654 | |
| 4gap | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.654 | |
| 4mih | FAD | Pyranose 2-oxidase | 1.1.3.10 | 0.654 | |
| 3c96 | FAD | Flavin-containing monooxygenase | / | 0.653 | |
| 4ymg | SAM | Putative SAM-dependent O-methyltranferase | / | 0.653 | |
| 1gxf | FAD | Trypanothione reductase | 1.8.1.12 | 0.652 | |
| 3ntd | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.652 | |
| 4u8k | FDA | UDP-galactopyranose mutase | / | 0.652 | |
| 4u8l | FDA | UDP-galactopyranose mutase | / | 0.652 | |
| 1gv4 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.651 | |
| 1tdn | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.651 | |
| 2fje | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.651 | |
| 2ji9 | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.651 | |
| 2np6 | NEA | Modification methylase TaqI | 2.1.1.72 | 0.651 | |
| 4gde | FDA | UDP-galactopyranose mutase | / | 0.651 | |
| 1feb | FAD | Trypanothione reductase | 1.8.1.12 | 0.650 | |
| 1xpq | FAD | Polyamine oxidase FMS1 | / | 0.650 | |
| 2gvc | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.650 | |
| 2j3n | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.650 | |
| 2z6u | SAH | Modification methylase HhaI | 2.1.1.37 | 0.650 | |
| 4g9k | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.650 |