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 |
|---|---|---|---|
| 3ing | NDP | Homoserine dehydrogenase related protein |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3ing | NDP | Homoserine dehydrogenase related protein | / | 1.195 | |
| 3pef | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.765 | |
| 4xcv | NDP | Probable hydroxyacid dehydrogenase protein | / | 0.750 | |
| 2o4c | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.746 | |
| 4ebf | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.742 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.730 | |
| 4oqy | NDP | (S)-imine reductase | / | 0.730 | |
| 4xb1 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.725 | |
| 1wp4 | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.719 | |
| 4xgi | NAD | Glutamate dehydrogenase | / | 0.719 | |
| 2dt5 | NAD | Redox-sensing transcriptional repressor Rex | / | 0.718 | |
| 3anm | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.714 | |
| 1c1d | NAI | Phenylalanine dehydrogenase | / | 0.713 | |
| 3cea | NAD | Myo-inositol 2-dehydrogenase-like (Promiscuous) | / | 0.712 | |
| 1gq2 | NAP | NADP-dependent malic enzyme | 1.1.1.40 | 0.708 | |
| 1nvm | NAD | Acetaldehyde dehydrogenase | 1.2.1.10 | 0.702 | |
| 4nu5 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.702 | |
| 3oet | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.701 | |
| 2ph5 | NAD | Homospermidine synthase | / | 0.698 | |
| 1pj3 | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.696 | |
| 3abi | NAD | Uncharacterized protein | / | 0.696 | |
| 3h3j | NAD | L-lactate dehydrogenase 1 | 1.1.1.27 | 0.695 | |
| 1cf2 | NAP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.692 | |
| 3w6u | NAP | 6-phosphogluconate dehydrogenase, NAD-binding protein | / | 0.691 | |
| 2iyp | NAP | 6-phosphogluconate dehydrogenase, decarboxylating | 1.1.1.44 | 0.690 | |
| 3pdu | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.689 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.688 | |
| 1q0q | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.687 | |
| 3anl | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.685 | |
| 2i9p | NAD | 3-hydroxyisobutyrate dehydrogenase, mitochondrial | 1.1.1.31 | 0.681 | |
| 3ggp | NAD | Prephenate dehydrogenase | / | 0.681 | |
| 3cin | NAD | Myo-inositol-1-phosphate synthase-related protein | / | 0.680 | |
| 4z0p | NDP | NAD-dependent dehydrogenase | / | 0.679 | |
| 3ras | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.678 | |
| 4weq | NAP | NAD-dependent dehydrogenase | / | 0.675 | |
| 4wji | NAP | Putative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase | / | 0.675 | |
| 5bqf | NAP | Probable hydroxyacid dehydrogenase protein | / | 0.675 | |
| 3kbo | NDP | Glyoxylate/hydroxypyruvate reductase A | / | 0.674 | |
| 3etg | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.671 | |
| 5aq1 | NDP | Glucose-6-phosphate 1-dehydrogenase | / | 0.669 | |
| 5eio | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.669 | |
| 2jcv | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.667 | |
| 1n7h | NDP | GDP-mannose 4,6 dehydratase 2 | 4.2.1.47 | 0.666 | |
| 3a14 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.666 | |
| 3mvq | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.666 | |
| 3zhb | NAP | Putative dehydrogenase | / | 0.666 | |
| 5lc1 | NAD | L-threonine 3-dehydrogenase | / | 0.666 | |
| 1vsv | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.665 | |
| 5a9s | NAP | Putative dehydrogenase | / | 0.665 | |
| 2g76 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.664 | |
| 2zb3 | NDP | Prostaglandin reductase 2 | 1.3.1.48 | 0.664 | |
| 3hwr | NDP | 2-dehydropantoate 2-reductase | / | 0.664 | |
| 3ikt | NAD | Redox-sensing transcriptional repressor Rex | / | 0.663 | |
| 3m2t | NAD | Probable dehydrogenase | / | 0.663 | |
| 1f0y | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.662 | |
| 1llq | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.660 | |
| 3keq | NAD | Redox-sensing transcriptional repressor Rex | / | 0.660 | |
| 3nt2 | NAD | Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase | 1.1.1.18 | 0.660 | |
| 3zdf | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.660 | |
| 1i36 | NAP | Conserved protein | / | 0.659 | |
| 3adp | NAI | Lambda-crystallin | 1.1.1.45 | 0.659 | |
| 4e5p | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.658 | |
| 3b1j | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.657 | |
| 3ru9 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.657 | |
| 2b4r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.656 | |
| 3qvs | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.656 | |
| 3qvw | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.656 | |
| 3ruc | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.656 | |
| 3ruf | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.656 | |
| 4jbi | NDP | Alcohol dehydrogenase (Zinc) | / | 0.654 | |
| 4nu6 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.654 | |
| 2vhx | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.653 | |
| 3qv1 | NAD | Glyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic | 1.2.1.13 | 0.651 | |
| 4xq9 | NAD | Homospermidine synthase | 2.5.1.44 | 0.650 | |
| 4xyb | NDP | Formate dehydrogenase | / | 0.650 | |
| 5a04 | NDP | Glucose-fructose oxidoreductase | / | 0.650 |