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 |
|---|---|---|---|
| 3kpk | FAD | Sulfide-quinone reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3kpk | FAD | Sulfide-quinone reductase | / | 1.227 | |
| 3t14 | FAD | Sulfide-quinone reductase | / | 1.111 | |
| 3sz0 | FAD | Sulfide-quinone reductase | / | 1.058 | |
| 3t2z | FAD | Sulfide-quinone reductase | / | 0.995 | |
| 3t2y | FAD | Sulfide-quinone reductase | / | 0.959 | |
| 3syi | FAD | Sulfide-quinone reductase | / | 0.949 | |
| 3t2k | FAD | Sulfide-quinone reductase | / | 0.911 | |
| 4hb9 | FAD | Uncharacterized protein | / | 0.775 | |
| 4udr | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.759 | |
| 3t37 | FAD | Pyridoxine 4-oxidase | / | 0.746 | |
| 4qi7 | FAD | Cellobiose dehydrogenase | / | 0.742 | |
| 5fs8 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.740 | |
| 1jnz | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.737 | |
| 4x4j | FAD | Putative oxygenase | / | 0.733 | |
| 2hqm | FAD | Glutathione reductase | 1.8.1.7 | 0.732 | |
| 2v3a | FAD | Rubredoxin-NAD(+) reductase | 1.18.1.1 | 0.732 | |
| 3ics | FAD | Coenzyme A disulfide reductase | / | 0.732 | |
| 2qa1 | FAD | PgaE | / | 0.731 | |
| 3ish | FAD | Thioredoxin reductase | 1.8.1.9 | 0.725 | |
| 4cy8 | FDA | 2-hydroxybiphenyl-3-monooxygenase | / | 0.721 | |
| 4udq | FAD | 5-(hydroxymethyl)furfural oxidase | / | 0.719 | |
| 3icr | FAD | Coenzyme A disulfide reductase | / | 0.718 | |
| 5fs7 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.717 | |
| 3f8d | FAD | NADH oxidase/thioredoxin reductase | / | 0.710 | |
| 2vou | FAD | 2,6-dihydroxypyridine 3-monooxygenase | 1.14.13.10 | 0.709 | |
| 1tdf | FAD | Thioredoxin reductase | 1.8.1.9 | 0.708 | |
| 3cgd | FAD | Coenzyme A disulfide reductase | / | 0.708 | |
| 4b69 | FAD | L-ornithine N(5)-monooxygenase | / | 0.707 | |
| 4bur | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.706 | |
| 1ijh | FAD | Cholesterol oxidase | 1.1.3.6 | 0.704 | |
| 2xve | FAD | Putative flavin-containing monooxygenase | / | 0.704 | |
| 3cgc | FAD | Coenzyme A disulfide reductase | / | 0.702 | |
| 3ukl | FAD | UDP-galactopyranose mutase | / | 0.702 | |
| 2q0k | FAD | Thioredoxin reductase | 1.8.1.9 | 0.701 | |
| 4xwr | FAD | Cholesterol oxidase | 1.1.3.6 | 0.699 | |
| 1e1l | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.698 | |
| 3cnj | FAD | Cholesterol oxidase | 1.1.3.6 | 0.698 | |
| 4u2s | FDA | Cholesterol oxidase | 1.1.3.6 | 0.698 | |
| 1d4c | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.697 | |
| 3dgz | FAD | Thioredoxin reductase 2, mitochondrial | 1.8.1.9 | 0.695 | |
| 4b64 | FAD | L-ornithine N(5)-monooxygenase | / | 0.695 | |
| 2nvk | FAD | Thioredoxin reductase 1, mitochondrial | 1.8.1.9 | 0.694 | |
| 4aox | FAD | Steroid monooxygenase | / | 0.694 | |
| 4k2x | FAD | Polyketide oxygenase/hydroxylase | / | 0.693 | |
| 1trb | FAD | Thioredoxin reductase | 1.8.1.9 | 0.692 | |
| 4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.692 | |
| 1mok | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.691 | |
| 3rp8 | FAD | FAD-dependent urate hydroxylase | / | 0.691 | |
| 1n1p | FAD | Cholesterol oxidase | 1.1.3.6 | 0.690 | |
| 1n4w | FAD | Cholesterol oxidase | 1.1.3.6 | 0.690 | |
| 1mxt | FAE | Cholesterol oxidase | 1.1.3.6 | 0.689 | |
| 3aeb | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.689 | |
| 4c5o | FAD | Putative monooxygenase | / | 0.689 | |
| 4b63 | FAD | L-ornithine N(5)-monooxygenase | / | 0.688 | |
| 1h7w | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.687 | |
| 4dsh | FDA | Uncharacterized protein | / | 0.687 | |
| 2fjd | SFD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.686 | |
| 2q0l | FAD | Thioredoxin reductase | 1.8.1.9 | 0.686 | |
| 1npx | FAD | NADH peroxidase | 1.11.1.1 | 0.685 | |
| 2npx | FAD | NADH peroxidase | 1.11.1.1 | 0.685 | |
| 5eow | FAD | 6-hydroxynicotinate 3-monooxygenase | 1.14.13.114 | 0.684 | |
| 3f8p | NAD | NADH oxidase/thioredoxin reductase | / | 0.683 | |
| 1f3p | FAD | Ferredoxin reductase | / | 0.682 | |
| 2eq6 | FAD | Dihydrolipoyl dehydrogenase | / | 0.682 | |
| 3ntd | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.681 | |
| 1nhs | FAD | NADH peroxidase | 1.11.1.1 | 0.680 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.680 | |
| 3cge | FAD | Coenzyme A disulfide reductase | / | 0.680 | |
| 3nt6 | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.680 | |
| 3f8r | NAP | NADH oxidase/thioredoxin reductase | / | 0.679 | |
| 3gwd | FAD | Cyclohexanone monooxygenase | / | 0.679 | |
| 1nhp | FAD | NADH peroxidase | 1.11.1.1 | 0.677 | |
| 3pvc | FAD | tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC | / | 0.677 | |
| 4b66 | FAD | L-ornithine N(5)-monooxygenase | / | 0.677 | |
| 2gqw | FAD | Ferredoxin reductase | / | 0.676 | |
| 4bv6 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.676 | |
| 1e6e | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.675 | |
| 1i8t | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.675 | |
| 3lzw | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.675 | |
| 4b68 | FAD | L-ornithine N(5)-monooxygenase | / | 0.675 | |
| 4xxg | FAD | Cholesterol oxidase | 1.1.3.6 | 0.675 | |
| 4nte | FAD | DepH | / | 0.674 | |
| 1gte | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.673 | |
| 2eq7 | NAD | Dihydrolipoyl dehydrogenase | / | 0.673 | |
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 0.673 | |
| 4ynt | FDA | Glucose oxidase, putative | / | 0.673 | |
| 1o94 | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.672 | |
| 2c3d | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.672 | |
| 2cul | FAD | GidA-related protein | / | 0.672 | |
| 2tmd | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.672 | |
| 3ab1 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.672 | |
| 4tm4 | FDA | KtzI | / | 0.672 | |
| 1e1n | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.671 | |
| 1nhr | FAD | NADH peroxidase | 1.11.1.1 | 0.671 | |
| 1rp0 | AHZ | Thiamine thiazole synthase, chloroplastic | / | 0.671 | |
| 1vdc | FAD | Thioredoxin reductase 1, mitochondrial | 1.8.1.9 | 0.671 | |
| 2c3c | FAD | 2-oxopropyl-CoM reductase, carboxylating | 1.8.1.5 | 0.671 | |
| 3cgb | FAD | Coenzyme A disulfide reductase | / | 0.671 | |
| 3rnm | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.671 | |
| 4h4z | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.671 | |
| 2zzc | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.670 | |
| 4mok | FAD | Pyranose 2-oxidase | / | 0.670 | |
| 1djq | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.669 | |
| 1m6i | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.669 | |
| 2eq8 | FAD | Dihydrolipoyl dehydrogenase | / | 0.669 | |
| 2yg6 | FAD | Putrescine oxidase | / | 0.667 | |
| 4h4q | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.667 | |
| 4u8k | FDA | UDP-galactopyranose mutase | / | 0.667 | |
| 1djn | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.666 | |
| 4tlx | FDA | KtzI | / | 0.666 | |
| 1d4d | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.665 | |
| 3k30 | ADP | Histamine dehydrogenase | / | 0.665 | |
| 3oc4 | FAD | Oxidoreductase, pyridine nucleotide-disulfide family | / | 0.665 | |
| 3qfa | FAD | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.665 | |
| 4a99 | FAD | TetX family tetracycline inactivation enzyme | / | 0.665 | |
| 4h4s | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.665 | |
| 4usq | FAD | Pyridine nucleotide-disulfide oxidoreductase | / | 0.665 | |
| 1e1m | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.663 | |
| 1ger | FAD | Glutathione reductase | 1.8.1.7 | 0.663 | |
| 1zmc | FAD | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.663 | |
| 4h4w | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.663 | |
| 3nta | FAD | FAD-dependent pyridine nucleotide-disulphide oxidoreductase | / | 0.662 | |
| 3up5 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.662 | |
| 4bk3 | FAD | Probable salicylate monooxygenase | / | 0.662 | |
| 5fs9 | FAD | Apoptosis-inducing factor 1, mitochondrial | 1.1.1 | 0.662 | |
| 3ict | FAD | Coenzyme A disulfide reductase | / | 0.661 | |
| 3klj | FAD | NADH-rubredoxin oxidoreductase | 1.18.1.1 | 0.661 | |
| 1cc2 | FAD | Cholesterol oxidase | 1.1.3.6 | 0.660 | |
| 3djj | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.660 | |
| 4eqx | FAD | Coenzyme A disulfide reductase | / | 0.660 | |
| 4u8m | FDA | UDP-galactopyranose mutase | / | 0.660 | |
| 4yxd | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.660 | |
| 4usr | FAD | Monooxygenase | / | 0.659 | |
| 2fja | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.658 | |
| 2x8g | FAD | Thioredoxin glutathione reductase | / | 0.658 | |
| 2xdo | FAD | TetX family tetracycline inactivation enzyme | / | 0.658 | |
| 4yry | FAD | Glutamate synthase, beta subunit | / | 0.658 | |
| 1cqx | FAD | Flavohemoprotein | / | 0.657 | |
| 4gcm | FAD | Thioredoxin reductase | 1.8.1.9 | 0.656 | |
| 2gr1 | FAD | Ferredoxin reductase | / | 0.655 | |
| 2yr4 | FAD | Phenylalanine 2-monooxygenase precursor | 1.13.12.9 | 0.655 | |
| 4ntc | FAD | Thioredoxin reductase gliT | / | 0.655 | |
| 4yac | NAI | C alpha-dehydrogenase | / | 0.655 | |
| 1gre | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.654 | |
| 1nhq | FAD | NADH peroxidase | 1.11.1.1 | 0.654 | |
| 3dk8 | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.654 | |
| 3lb8 | FAD | Putidaredoxin reductase | 1.18.1.5 | 0.654 | |
| 3uov | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.654 | |
| 4h4r | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.654 | |
| 4h4v | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.654 | |
| 4ytn | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.654 | |
| 1gth | FAD | Dihydropyrimidine dehydrogenase [NADP(+)] | 1.3.1.2 | 0.653 | |
| 1k4q | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.653 | |
| 3c96 | FAD | Flavin-containing monooxygenase | / | 0.653 | |
| 3lzx | FAD | Ferredoxin--NADP reductase 2 | 1.18.1.2 | 0.653 | |
| 4b1b | FAD | Thioredoxin reductase | 1.8.1.9 | 0.653 | |
| 4gur | FAD | Lysine-specific histone demethylase 1B | 1 | 0.653 | |
| 4h4x | FAD | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.653 | |
| 4qi5 | FAD | Cellobiose dehydrogenase | / | 0.653 | |
| 1cf3 | FAD | Glucose oxidase | 1.1.3.4 | 0.652 | |
| 2bi7 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.652 | |
| 3kpf | FAD | Polyamine oxidase | 1.5.3.14 | 0.652 | |
| 3uoy | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.652 | |
| 3uth | FDA | UDP-galactopyranose mutase | / | 0.652 | |
| 4nwz | FAD | FAD-dependent pyridine nucleotide-disulfide oxidoreductase | / | 0.652 | |
| 4u8o | FDA | UDP-galactopyranose mutase | / | 0.652 | |
| 3grs | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.651 | |
| 4mo2 | FDA | UDP-galactopyranose mutase | / | 0.650 |