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 |
|---|---|---|---|
| 5hhf | FDA | UDP-galactopyranose mutase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 5hhf | FDA | UDP-galactopyranose mutase | / | 1.283 | |
| 3ukk | FAD | UDP-galactopyranose mutase | / | 0.986 | |
| 3uka | FAD | UDP-galactopyranose mutase | / | 0.982 | |
| 4gdc | FAD | UDP-galactopyranose mutase | / | 0.940 | |
| 4gdd | FAD | UDP-galactopyranose mutase | / | 0.934 | |
| 4gde | FDA | UDP-galactopyranose mutase | / | 0.931 | |
| 4u8k | FDA | UDP-galactopyranose mutase | / | 0.911 | |
| 3ute | FAD | UDP-galactopyranose mutase | / | 0.896 | |
| 3utf | FDA | UDP-galactopyranose mutase | / | 0.891 | |
| 4wx1 | FDA | UDP-galactopyranose mutase | / | 0.866 | |
| 3ukk | FDA | UDP-galactopyranose mutase | / | 0.854 | |
| 3ukl | FAD | UDP-galactopyranose mutase | / | 0.853 | |
| 3uth | FDA | UDP-galactopyranose mutase | / | 0.853 | |
| 4u8m | FDA | UDP-galactopyranose mutase | / | 0.847 | |
| 3utg | FDA | UDP-galactopyranose mutase | / | 0.841 | |
| 4u8n | FDA | UDP-galactopyranose mutase | / | 0.831 | |
| 4u8o | FDA | UDP-galactopyranose mutase | / | 0.827 | |
| 4u8l | FDA | UDP-galactopyranose mutase | / | 0.820 | |
| 2jae | FAD | L-amino acid oxidase | / | 0.818 | |
| 4u8p | FDA | UDP-galactopyranose mutase | / | 0.800 | |
| 2jb1 | FAD | L-amino acid oxidase | / | 0.795 | |
| 4u8i | FDA | UDP-galactopyranose mutase | / | 0.791 | |
| 2jb2 | FAD | L-amino acid oxidase | / | 0.785 | |
| 4u8j | FDA | UDP-galactopyranose mutase | / | 0.783 | |
| 3ukf | FDA | UDP-galactopyranose mutase | / | 0.777 | |
| 4dsg | FAD | Uncharacterized protein | / | 0.767 | |
| 2yg4 | FAD | Putrescine oxidase | / | 0.763 | |
| 1e6e | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.757 | |
| 4tm4 | FDA | KtzI | / | 0.754 | |
| 2yg5 | FAD | Putrescine oxidase | / | 0.745 | |
| 4b63 | FAD | L-ornithine N(5)-monooxygenase | / | 0.745 | |
| 4fwf | FAD | Lysine-specific histone demethylase 1B | 1 | 0.743 | |
| 2iw5 | FAD | Lysine-specific histone demethylase 1A | 1 | 0.742 | |
| 4dsh | FDA | Uncharacterized protein | / | 0.741 | |
| 3zdn | FAD | Monoamine oxidase N | 1.4.3.4 | 0.740 | |
| 2ylw | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.737 | |
| 5l3d | FAD | Lysine-specific histone demethylase 1A | 1 | 0.736 | |
| 3k7m | FAD | 6-hydroxy-L-nicotine oxidase | / | 0.735 | |
| 4b64 | FAD | L-ornithine N(5)-monooxygenase | / | 0.733 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.729 | |
| 4fwe | FAD | Lysine-specific histone demethylase 1B | 1 | 0.729 | |
| 4xbf | FAD | Lysine-specific histone demethylase 1A | 1 | 0.727 | |
| 4fwj | FAD | Lysine-specific histone demethylase 1B | 1 | 0.726 | |
| 1z6l | FAD | Polyamine oxidase FMS1 | / | 0.724 | |
| 2xvi | FAD | Putative flavin-containing monooxygenase | / | 0.724 | |
| 1zmc | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.723 | |
| 4gut | FAD | Lysine-specific histone demethylase 1B | 1 | 0.722 | |
| 4mo2 | FDA | UDP-galactopyranose mutase | / | 0.722 | |
| 5g3s | FDA | Flavin-dependent L-tryptophan oxidase VioA | / | 0.722 | |
| 1v0j | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.720 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.719 | |
| 2eq6 | FAD | Dihydrolipoyl dehydrogenase | / | 0.719 | |
| 2dw4 | FAD | Lysine-specific histone demethylase 1A | 1 | 0.718 | |
| 2ylz | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.718 | |
| 3ict | FAD | Coenzyme A disulfide reductase | / | 0.718 | |
| 5cku | FAD | L-ornithine N(5)-monooxygenase | / | 0.718 | |
| 3nn6 | FB0 | 6-hydroxy-L-nicotine oxidase | / | 0.717 | |
| 1e1l | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.716 | |
| 1cjc | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.713 | |
| 4b68 | FAD | L-ornithine N(5)-monooxygenase | / | 0.713 | |
| 4fx9 | FAD | Coenzyme A disulfide reductase | 1.8.1.14 | 0.713 | |
| 4opd | FDA | Conserved Archaeal protein | / | 0.713 | |
| 2qa1 | FAD | PgaE | / | 0.710 | |
| 1e1m | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.709 | |
| 2q7v | FAD | Thioredoxin reductase | / | 0.709 | |
| 2hko | FAD | Lysine-specific histone demethylase 1A | 1 | 0.707 | |
| 3s5w | FAD | L-ornithine N(5)-monooxygenase | / | 0.707 | |
| 4b69 | FAD | L-ornithine N(5)-monooxygenase | / | 0.706 | |
| 4guu | FA9 | Lysine-specific histone demethylase 1B | 1 | 0.706 | |
| 3k4c | FAD | Pyranose 2-oxidase | / | 0.705 | |
| 4tm3 | FAD | KtzI | / | 0.705 | |
| 1h81 | FAD | Polyamine oxidase | 1.5.3.14 | 0.704 | |
| 2xvf | FAD | Putative flavin-containing monooxygenase | / | 0.702 | |
| 1e1n | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.701 | |
| 2ylr | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.701 | |
| 3r9u | FAD | Thioredoxin reductase | / | 0.701 | |
| 2yr5 | FAD | Phenylalanine 2-monooxygenase precursor | 1.13.12.9 | 0.700 | |
| 3sz0 | FAD | Sulfide-quinone reductase | / | 0.700 | |
| 4mo2 | FAD | UDP-galactopyranose mutase | / | 0.700 | |
| 1xpq | FAD | Polyamine oxidase FMS1 | / | 0.699 | |
| 3k7t | FAD | 6-hydroxy-L-nicotine oxidase | / | 0.699 | |
| 2fje | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.697 | |
| 3awi | FAD | tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC | 1.5 | 0.697 | |
| 3cnt | FAD | Polyamine oxidase FMS1 | / | 0.696 | |
| 2y48 | FAD | Lysine-specific histone demethylase 1A | 1 | 0.695 | |
| 3vqr | FAD | Putative oxidoreductase | / | 0.695 | |
| 2fjd | SFD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.694 | |
| 2xve | FAD | Putative flavin-containing monooxygenase | / | 0.694 | |
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 0.694 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.692 | |
| 4yac | NAI | C alpha-dehydrogenase | / | 0.692 | |
| 1ps9 | FAD | 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.690 | |
| 4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.690 | |
| 5br7 | FAD | UDP-galactopyranose mutase | / | 0.690 | |
| 2c3c | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.689 | |
| 2ym1 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.689 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.688 | |
| 2yqu | FAD | Dihydrolipoyl dehydrogenase | / | 0.688 | |
| 3ics | FAD | Coenzyme A disulfide reductase | / | 0.688 | |
| 5g3t | FDA | Flavin-dependent L-tryptophan oxidase VioA | / | 0.688 | |
| 3lov | FAD | Protoporphyrinogen oxidase | / | 0.687 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.686 | |
| 2yg6 | FAD | Putrescine oxidase | / | 0.686 | |
| 3uov | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.686 | |
| 1w4x | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.685 | |
| 4gur | FAD | Lysine-specific histone demethylase 1B | 1 | 0.685 | |
| 1h83 | FAD | Polyamine oxidase | 1.5.3.14 | 0.684 | |
| 3kve | FAD | L-amino-acid oxidase | / | 0.683 | |
| 1f8s | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.682 | |
| 3cty | FAD | Probable thioredoxin reductase | / | 0.682 | |
| 3lsi | FAD | Pyranose 2-oxidase | / | 0.681 | |
| 3ntd | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.681 | |
| 1f8r | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.680 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.680 | |
| 3pl8 | FAD | Pyranose 2-oxidase | / | 0.680 | |
| 4rpg | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.680 | |
| 2i0z | FAD | NAD(FAD)-utilizing dehydrogenases | / | 0.679 | |
| 2h94 | FAD | Lysine-specific histone demethylase 1A | 1 | 0.677 | |
| 4d04 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.677 | |
| 3uoy | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.676 | |
| 2ign | FAD | Pyranose 2-oxidase | / | 0.675 | |
| 2yls | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.675 | |
| 2e1m | FAD | L-glutamate oxidase | / | 0.674 | |
| 2yg7 | FAD | Putrescine oxidase | / | 0.674 | |
| 3cge | FAD | Coenzyme A disulfide reductase | / | 0.674 | |
| 3mj4 | FAD | UDP-galactopyranose mutase | / | 0.674 | |
| 3t2y | FAD | Sulfide-quinone reductase | / | 0.674 | |
| 4c5o | FAD | Putative monooxygenase | / | 0.674 | |
| 4tm1 | FDA | KtzI | / | 0.674 | |
| 1gal | FAD | Glucose oxidase | 1.1.3.4 | 0.673 | |
| 1nhr | FAD | NADH peroxidase | 1.11.1.1 | 0.672 | |
| 2b9x | FAD | Putative aminooxidase | / | 0.672 | |
| 4z24 | FAD | Putative GMC-type oxidoreductase R135 | 1 | 0.672 | |
| 4gus | FAD | Lysine-specific histone demethylase 1B | 1 | 0.671 | |
| 1lqu | FAD | NADPH-ferredoxin reductase FprA | 1.18.1.2 | 0.670 | |
| 4gcm | FAD | Thioredoxin reductase | 1.8.1.9 | 0.670 | |
| 4udr | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.670 | |
| 2b9y | FAD | Putative aminooxidase | / | 0.669 | |
| 2igo | FAD | Pyranose 2-oxidase | / | 0.669 | |
| 3lsh | FAD | Pyranose 2-oxidase | / | 0.669 | |
| 3t14 | FAD | Sulfide-quinone reductase | / | 0.669 | |
| 4cnj | FAD | L-amino acid oxidase | / | 0.669 | |
| 2bab | FAD | Putative aminooxidase | / | 0.668 | |
| 2rab | FAD | Glutathione amide reductase | / | 0.668 | |
| 3bi2 | FAD | Polyamine oxidase FMS1 | / | 0.668 | |
| 2bi7 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.667 | |
| 2bac | FAD | Putative aminooxidase | / | 0.666 | |
| 2q0l | FAD | Thioredoxin reductase | 1.8.1.9 | 0.666 | |
| 3kpf | FAD | Polyamine oxidase | 1.5.3.14 | 0.666 | |
| 4b66 | FAD | L-ornithine N(5)-monooxygenase | / | 0.666 | |
| 4hsu | FAD | Lysine-specific histone demethylase 1B | 1 | 0.666 | |
| 1ng4 | FAD | Glycine oxidase | 1.4.3.19 | 0.665 | |
| 3icr | FAD | Coenzyme A disulfide reductase | / | 0.665 | |
| 4ech | FAD | Polyamine oxidase FMS1 | / | 0.665 | |
| 4tm0 | FAD | KtzI | / | 0.665 | |
| 4ynt | FDA | Glucose oxidase, putative | / | 0.665 | |
| 1grg | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.663 | |
| 1tdn | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.663 | |
| 2vou | FAD | 2,6-dihydroxypyridine 3-monooxygenase | 1.14.13.10 | 0.663 | |
| 4tlz | FAD | KtzI | / | 0.663 | |
| 2f5z | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.661 | |
| 3dk9 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.661 | |
| 3g5q | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.661 | |
| 3m12 | FAD | Monomeric sarcosine oxidase | 1.5.3.1 | 0.661 | |
| 1geu | FAD | Glutathione reductase | 1.8.1.7 | 0.660 | |
| 1i8t | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.660 | |
| 2tmd | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.660 | |
| 3urh | FAD | Dihydrolipoyl dehydrogenase | / | 0.660 | |
| 4ocg | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.660 | |
| 1rsg | FAD | Polyamine oxidase FMS1 | / | 0.659 | |
| 4mih | FAD | Pyranose 2-oxidase | 1.1.3.10 | 0.659 | |
| 2xlr | FAD | Putative flavin-containing monooxygenase | / | 0.658 | |
| 3bi5 | FAD | Polyamine oxidase FMS1 | / | 0.658 | |
| 3t2z | FAD | Sulfide-quinone reductase | / | 0.658 | |
| 1h7w | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.657 | |
| 2gvc | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.657 | |
| 2xvh | FAD | Putative flavin-containing monooxygenase | / | 0.657 | |
| 2ylt | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.657 | |
| 4gdp | FAD | Polyamine oxidase FMS1 | / | 0.657 | |
| 1orr | NAD | CDP-paratose 2-epimerase | / | 0.656 | |
| 3v76 | FDA | Uncharacterized protein | / | 0.656 | |
| 3we0 | FAD | Lysine 2-monooxygenase | / | 0.656 | |
| 4tlx | FDA | KtzI | / | 0.656 | |
| 3rha | FDA | Putrescine oxidase | / | 0.655 | |
| 1d4d | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.654 | |
| 1ebd | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.654 | |
| 1gra | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.654 | |
| 1v59 | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.654 | |
| 2ba9 | FAD | Putative aminooxidase | / | 0.654 | |
| 2iid | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.654 | |
| 3lzw | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.654 | |
| 1feb | FAD | Trypanothione reductase | 1.8.1.12 | 0.653 | |
| 2b9w | FAD | Putative aminooxidase | / | 0.653 | |
| 2vq7 | FAD | Putative flavin-containing monooxygenase | / | 0.653 | |
| 3dk8 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.653 | |
| 3k30 | ADP | Histamine dehydrogenase | / | 0.653 | |
| 4jdr | FAD | Dihydrolipoyl dehydrogenase | 1.8.1.4 | 0.653 | |
| 2gv8 | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.652 | |
| 2vqb | FAD | Putative flavin-containing monooxygenase | / | 0.652 | |
| 3dk4 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.652 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.652 | |
| 1y56 | ATP | Uncharacterized protein | / | 0.651 | |
| 1zx9 | FAD | Mercuric reductase | 1.16.1.1 | 0.651 | |
| 3sgl | FAD | tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC | / | 0.650 |