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 |
|---|---|---|---|
| 4kuo | RBF | Putative blue-light photoreceptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4kuo | RBF | Putative blue-light photoreceptor | / | 1.202 | |
| 4kuk | RBF | Putative blue-light photoreceptor | / | 1.120 | |
| 4r38 | RBF | Blue-light-activated histidine kinase 2 | 2.7.13.3 | 0.998 | |
| 2pr5 | FMN | Blue-light photoreceptor | / | 0.925 | |
| 4eer | FMN | Phototropin-2 | 2.7.11.1 | 0.924 | |
| 2z6d | FMN | Phototropin-2 | 2.7.11.1 | 0.923 | |
| 4eep | FMN | Phototropin-2 | 2.7.11.1 | 0.921 | |
| 2z6c | FMN | Phototropin-1 | 2.7.11.1 | 0.896 | |
| 3d72 | FAD | Vivid PAS protein VVD | / | 0.887 | |
| 3is2 | FAD | Vivid PAS protein VVD | / | 0.883 | |
| 1n9l | FMN | Putative blue light receptor | / | 0.880 | |
| 1n9n | FMN | Putative blue light receptor | / | 0.869 | |
| 4eeu | FMN | Phototropin-2 | 2.7.11.1 | 0.867 | |
| 4hhd | FMN | Phototropin-1 | 2.7.11.1 | 0.866 | |
| 4wf0 | FMN | NPH1-1 | / | 0.865 | |
| 5j3w | FMN | Sensory box protein | / | 0.859 | |
| 4hj6 | FMN | LOV protein | / | 0.857 | |
| 2pd7 | FAD | Vivid PAS protein VVD | / | 0.851 | |
| 3hjk | FAD | Vivid PAS protein VVD | / | 0.851 | |
| 3hji | FAD | Vivid PAS protein VVD | / | 0.848 | |
| 3t50 | FMN | Blue-light-activated histidine kinase | 2.7.13.3 | 0.844 | |
| 2pdt | FAD | Vivid PAS protein VVD | / | 0.841 | |
| 1g28 | FMN | PHY3 | / | 0.811 | |
| 4hj3 | FMN | LOV protein | / | 0.810 | |
| 4wuj | FMN | Glycoside hydrolase family 15, cellulose signaling associated protein envoy | / | 0.804 | |
| 3sw1 | FMN | Sensory box protein | / | 0.799 | |
| 5efw | FMN | NPH1-1 | / | 0.779 | |
| 4r3a | RBF | Blue-light-activated histidine kinase 2 | 2.7.13.3 | 0.774 | |
| 5djt | FMN | NPH1-2 | / | 0.766 | |
| 4eet | FMN | Phototropin-2 | 2.7.11.1 | 0.762 | |
| 5j4e | FMN | Sensory box protein | / | 0.762 | |
| 3p7n | FMN | Light-activated DNA-binding protein EL222 | / | 0.755 | |
| 2v1a | FMN | NPH1-1 | / | 0.750 | |
| 2v0u | FMN | NPH1-1 | / | 0.745 | |
| 5dju | FMN | NPH1-2 | / | 0.740 | |
| 2pd8 | FAD | Vivid PAS protein VVD | / | 0.728 | |
| 2a1u | FAD | Electron transfer flavoprotein subunit alpha, mitochondrial | / | 0.714 | |
| 1efv | FAD | Electron transfer flavoprotein subunit alpha, mitochondrial | / | 0.699 | |
| 3clt | FAD | Electron transfer flavoprotein subunit alpha | / | 0.699 | |
| 1efp | FAD | Electron transfer flavoprotein subunit alpha | / | 0.694 | |
| 4hia | FMN | LOV protein | / | 0.692 | |
| 4yus | FMN | Family 3 adenylate cyclase | / | 0.692 | |
| 2byc | FMN | Blue-light receptor of the BLUF-family | / | 0.687 | |
| 3ue6 | FMN | Aureochrome1 | / | 0.685 | |
| 4opl | FDA | Conserved Archaeal protein | / | 0.685 | |
| 2hfn | FMN | Activator of photopigment and puc expression | / | 0.684 | |
| 2bn4 | FAD | NADPH--cytochrome P450 reductase | / | 0.680 | |
| 3a3b | RBF | Lumazine protein | / | 0.679 | |
| 4hmw | FMN | Pyridoxamine 5'-phosphate oxidase | / | 0.679 | |
| 2vxa | RBF | Dodecin | / | 0.678 | |
| 4d5g | FAD | Cyclohexane-1,2-dione hydrolase | 3.7.1.11 | 0.678 | |
| 4hj4 | FMN | LOV protein | / | 0.678 | |
| 3djl | FAD | Putative acyl-CoA dehydrogenase AidB | 1.3.99 | 0.675 | |
| 3mzi | FMN | Activator of photopigment and puc expression | / | 0.673 | |
| 1o97 | FAD | Electron transfer flavoprotein subunit alpha | / | 0.671 | |
| 4hnb | FMN | LOV protein | / | 0.671 | |
| 1rp4 | FAD | Endoplasmic oxidoreductin-1 | 1.8.4 | 0.670 | |
| 1gaq | FAD | Ferredoxin | / | 0.669 | |
| 4irn | FAD | AnaB | / | 0.668 | |
| 1g63 | FMN | Epidermin decarboxylase | 4.1.1 | 0.667 | |
| 1cc2 | FAD | Cholesterol oxidase | 1.1.3.6 | 0.665 | |
| 3m31 | FAD | Endoplasmic oxidoreductin-1 | 1.8.4 | 0.663 | |
| 3u33 | FAD | Putative acyl-CoA dehydrogenase AidB | 1.3.99 | 0.661 | |
| 2r9z | FAD | Glutathione amide reductase | / | 0.660 | |
| 1rz1 | FAD | Phenol 2-hydroxylase component B | / | 0.658 | |
| 2v18 | FMN | Dodecin | / | 0.658 | |
| 3aty | FMN | Prostaglandin F2a synthase | / | 0.658 | |
| 5c3j | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.658 | |
| 3qe2 | FAD | NADPH--cytochrome P450 reductase | / | 0.657 | |
| 5ez7 | FAD | Probable FAD-dependent oxidoreductase PA4991 | / | 0.657 | |
| 4y9r | FAD | NADPH--cytochrome P450 reductase | / | 0.656 | |
| 1n4u | FAE | Cholesterol oxidase | 1.1.3.6 | 0.655 | |
| 2gew | FAD | Cholesterol oxidase | 1.1.3.6 | 0.655 | |
| 4xwr | FAD | Cholesterol oxidase | 1.1.3.6 | 0.655 | |
| 2dvl | FAD | Acyl-CoA dehydrogenase | / | 0.652 | |
| 4opt | FDA | Conserved Archaeal protein | / | 0.652 | |
| 1x0p | FAD | Tll0078 protein | / | 0.651 | |
| 2bgj | FAD | NADPH:ferredoxin reductase | / | 0.650 | |
| 3qzy | FAD | FAD-linked sulfhydryl oxidase | / | 0.650 |