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 |
|---|---|---|---|
| 3cea | NAD | Myo-inositol 2-dehydrogenase-like (Promiscuous) |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3cea | NAD | Myo-inositol 2-dehydrogenase-like (Promiscuous) | / | 1.097 | |
| 2i9p | NAD | 3-hydroxyisobutyrate dehydrogenase, mitochondrial | 1.1.1.31 | 0.764 | |
| 3q2k | NAI | Probable oxidoreductase | / | 0.755 | |
| 3ras | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.728 | |
| 1h6d | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.723 | |
| 4ebf | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.720 | |
| 5a02 | NAP | Glucose-fructose oxidoreductase | / | 0.719 | |
| 5a03 | NDP | Glucose-fructose oxidoreductase | / | 0.715 | |
| 3ing | NDP | Homoserine dehydrogenase related protein | / | 0.712 | |
| 5bqf | NAP | Probable hydroxyacid dehydrogenase protein | / | 0.711 | |
| 4xcv | NDP | Probable hydroxyacid dehydrogenase protein | / | 0.708 | |
| 2jcv | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.707 | |
| 1h6c | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.705 | |
| 5ein | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.705 | |
| 1llq | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.700 | |
| 1wp4 | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.700 | |
| 3nt2 | NAD | Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase | 1.1.1.18 | 0.699 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.698 | |
| 1h6a | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.695 | |
| 2ixb | NAD | Alpha-N-acetylgalactosaminidase | 3.2.1.49 | 0.695 | |
| 4weq | NAP | NAD-dependent dehydrogenase | / | 0.695 | |
| 3ec7 | NAD | Inositol 2-dehydrogenase | / | 0.694 | |
| 3q3c | NAD | NAD-dependent L-serine dehydrogenase | / | 0.694 | |
| 1o0s | NAI | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.691 | |
| 1ryd | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.691 | |
| 5a06 | NDP | Glucose-fructose oxidoreductase | / | 0.690 | |
| 2ixa | NAD | Alpha-N-acetylgalactosaminidase | 3.2.1.49 | 0.689 | |
| 1ofg | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.688 | |
| 3oa2 | NAD | UDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase | / | 0.685 | |
| 4z0p | NDP | NAD-dependent dehydrogenase | / | 0.683 | |
| 3a14 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.681 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.680 | |
| 4xgi | NAD | Glutamate dehydrogenase | / | 0.679 | |
| 2ph5 | NAD | Homospermidine synthase | / | 0.678 | |
| 2dt5 | NAD | Redox-sensing transcriptional repressor Rex | / | 0.677 | |
| 3oet | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.674 | |
| 4nu6 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.674 | |
| 5a04 | NDP | Glucose-fructose oxidoreductase | / | 0.674 | |
| 5a05 | NDP | Glucose-fructose oxidoreductase | / | 0.674 | |
| 3o9z | NAD | Lipopolysaccaride biosynthesis protein wbpB | / | 0.673 | |
| 2vhx | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.672 | |
| 3anl | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.672 | |
| 5eio | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.672 | |
| 3adp | NAI | Lambda-crystallin | 1.1.1.45 | 0.668 | |
| 3qvw | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.668 | |
| 1evj | NAD | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.666 | |
| 1pj3 | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.665 | |
| 1zh8 | NAP | Uncharacterized protein | / | 0.664 | |
| 2q3e | NAI | UDP-glucose 6-dehydrogenase | 1.1.1.22 | 0.664 | |
| 4eue | NAI | Trans-2-enoyl-CoA reductase [NADH] | / | 0.664 | |
| 1i36 | NAP | Conserved protein | / | 0.663 | |
| 1vi2 | NAD | Quinate/shikimate dehydrogenase | / | 0.663 | |
| 3ikt | NAD | Redox-sensing transcriptional repressor Rex | / | 0.663 | |
| 2ahr | NAP | Pyrroline-5-carboxylate reductase | / | 0.662 | |
| 3pdu | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.661 | |
| 1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.659 | |
| 1pj4 | ATP | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.658 | |
| 1cf2 | NAP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.657 | |
| 1efl | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.657 | |
| 1n1e | NDE | Glycerol-3-phosphate dehydrogenase [NAD(+)], glycosomal | 1.1.1.8 | 0.657 | |
| 3w6u | NAP | 6-phosphogluconate dehydrogenase, NAD-binding protein | / | 0.657 | |
| 3had | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.656 | |
| 4aic | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.655 | |
| 4xb1 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.655 | |
| 3h3j | NAD | L-lactate dehydrogenase 1 | 1.1.1.27 | 0.654 | |
| 3zhb | NAP | Putative dehydrogenase | / | 0.653 | |
| 4xb2 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.653 | |
| 1qr6 | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.652 | |
| 1gz4 | ATP | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.651 | |
| 3m2t | NAD | Probable dehydrogenase | / | 0.650 | |
| 4k9d | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.650 |