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 |
|---|---|---|---|
| 2hdh | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2hdh | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.991 | |
| 3had | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.906 | |
| 1f17 | NAI | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.788 | |
| 3hdh | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.741 | |
| 1f0y | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.732 | |
| 2g5c | NAD | Prephenate dehydrogenase | / | 0.732 | |
| 1il0 | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.717 | |
| 4dyd | NAD | Diketoreductase | / | 0.714 | |
| 2g82 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.711 | |
| 4kug | NAD | 3-hydroxybutyryl-CoA dehydrogenase | / | 0.711 | |
| 1lsj | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.703 | |
| 2q3e | NAI | UDP-glucose 6-dehydrogenase | 1.1.1.22 | 0.702 | |
| 4o59 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.702 | |
| 1dss | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.698 | |
| 4om8 | NAD | 3-hydroxybutyryl-coA dehydrogenase | / | 0.698 | |
| 3ggg | NAD | Prephenate dehydrogenase | / | 0.690 | |
| 1dxy | NAD | D-2-hydroxyisocaproate dehydrogenase | 1.1.1 | 0.685 | |
| 1ywg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.685 | |
| 3adp | NAI | Lambda-crystallin | 1.1.1.45 | 0.685 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.684 | |
| 1lso | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.681 | |
| 3wsw | NAD | L-lactate dehydrogenase | / | 0.681 | |
| 3ggp | NAD | Prephenate dehydrogenase | / | 0.680 | |
| 3ggo | NAI | Prephenate dehydrogenase | / | 0.678 | |
| 2g76 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.677 | |
| 3m2t | NAD | Probable dehydrogenase | / | 0.677 | |
| 3d4p | NAD | L-lactate dehydrogenase 1 | 1.1.1.27 | 0.676 | |
| 4o63 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.674 | |
| 1m75 | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.673 | |
| 4wji | NAP | Putative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase | / | 0.670 | |
| 1sc6 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.668 | |
| 1psd | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.667 | |
| 2npx | NAD | NADH peroxidase | 1.11.1.1 | 0.667 | |
| 1rp0 | AHZ | Thiamine thiazole synthase, chloroplastic | / | 0.666 | |
| 3nt2 | NAD | Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase | 1.1.1.18 | 0.666 | |
| 5a06 | NDP | Glucose-fructose oxidoreductase | / | 0.666 | |
| 2f1k | NAP | Prephenate dehydrogenase | / | 0.665 | |
| 3q3c | NAD | NAD-dependent L-serine dehydrogenase | / | 0.665 | |
| 1nvm | NAD | Acetaldehyde dehydrogenase | 1.2.1.10 | 0.664 | |
| 3lvf | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1 | / | 0.664 | |
| 3zdf | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.664 | |
| 1hdg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.663 | |
| 4k9d | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.663 | |
| 3ikt | NAD | Redox-sensing transcriptional repressor Rex | / | 0.662 | |
| 2i9p | NAD | 3-hydroxyisobutyrate dehydrogenase, mitochondrial | 1.1.1.31 | 0.661 | |
| 4p8r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.659 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.659 | |
| 1evj | NAD | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.658 | |
| 5a02 | NAP | Glucose-fructose oxidoreductase | / | 0.658 | |
| 1jnz | FAD | Adenylylsulfate reductase, subunit A (AprA) | / | 0.657 | |
| 2vhw | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.657 | |
| 4xr9 | NAD | CalS8 | / | 0.657 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.656 | |
| 3tri | NAP | Pyrroline-5-carboxylate reductase | / | 0.656 | |
| 4nd2 | A3D | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.656 | |
| 1wp4 | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.655 | |
| 4nd3 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.655 | |
| 5c7o | NAD | Glyceraldehyde-3-phosphate dehydrogenase, testis-specific | 1.2.1.12 | 0.654 | |
| 1axe | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.653 | |
| 1zh8 | NAP | Uncharacterized protein | / | 0.653 | |
| 2ahr | NAP | Pyrroline-5-carboxylate reductase | / | 0.653 | |
| 1a7k | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.651 | |
| 1gae | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.650 | |
| 2oor | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.650 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.650 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.650 | |
| 5a04 | NDP | Glucose-fructose oxidoreductase | / | 0.650 |