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 |
|---|---|---|---|
| 5bqf | NAP | Probable hydroxyacid dehydrogenase protein |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 5bqf | NAP | Probable hydroxyacid dehydrogenase protein | / | 1.160 | |
| 4xcv | NDP | Probable hydroxyacid dehydrogenase protein | / | 1.005 | |
| 4weq | NAP | NAD-dependent dehydrogenase | / | 0.945 | |
| 4z0p | NDP | NAD-dependent dehydrogenase | / | 0.920 | |
| 3kbo | NDP | Glyoxylate/hydroxypyruvate reductase A | / | 0.807 | |
| 3baz | NAP | Hydroxyphenylpyruvate reductase | 1.1.1.237 | 0.793 | |
| 3n7u | NAD | Formate dehydrogenase, chloroplastic/mitochondrial | / | 0.791 | |
| 4xyb | NDP | Formate dehydrogenase | / | 0.764 | |
| 4xye | NAD | Formate dehydrogenase | / | 0.753 | |
| 3kb6 | NAD | D-lactate dehydrogenase | / | 0.748 | |
| 4nu6 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.734 | |
| 4ebf | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.732 | |
| 4nu5 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.727 | |
| 2g76 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.721 | |
| 4e5p | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.714 | |
| 3cea | NAD | Myo-inositol 2-dehydrogenase-like (Promiscuous) | / | 0.711 | |
| 4j43 | NAD | Uncharacterized protein | / | 0.710 | |
| 4j49 | NAD | Uncharacterized protein | / | 0.704 | |
| 2nad | NAD | Formate dehydrogenase | / | 0.703 | |
| 2vhx | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.701 | |
| 2ph5 | NAD | Homospermidine synthase | / | 0.700 | |
| 1ib6 | NAD | Malate dehydrogenase | / | 0.697 | |
| 1j49 | NAD | D-lactate dehydrogenase | 1.1.1.28 | 0.695 | |
| 1pl6 | NAD | Sorbitol dehydrogenase | 1.1.1.14 | 0.692 | |
| 4wlv | NAD | Malate dehydrogenase, mitochondrial | 1.1.1.37 | 0.691 | |
| 2dfd | NAD | Malate dehydrogenase, mitochondrial | 1.1.1.37 | 0.690 | |
| 2gsd | NAD | Formate dehydrogenase | / | 0.689 | |
| 4e5m | NAP | Phosphonate dehydrogenase | 1.20.1.1 | 0.688 | |
| 2jcx | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.687 | |
| 1efl | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.686 | |
| 1psd | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.685 | |
| 1pjc | NAD | Alanine dehydrogenase | / | 0.683 | |
| 1wwk | NAD | 307aa long hypothetical phosphoglycerate dehydrogenase | / | 0.683 | |
| 4dlb | NAD | S-(hydroxymethyl)glutathione dehydrogenase | / | 0.683 | |
| 1r37 | NAD | NAD-dependent alcohol dehydrogenase | 1.1.1.1 | 0.682 | |
| 4wji | NAP | Putative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase | / | 0.682 | |
| 1sow | NAD | L-lactate dehydrogenase | 1.1.1.27 | 0.681 | |
| 1dxy | NAD | D-2-hydroxyisocaproate dehydrogenase | 1.1.1 | 0.680 | |
| 4xb1 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.680 | |
| 1pl8 | NAD | Sorbitol dehydrogenase | 1.1.1.14 | 0.678 | |
| 2w2l | NAD | D-mandelate dehydrogenase | / | 0.678 | |
| 3pdu | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.678 | |
| 2vhz | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.675 | |
| 3ing | NDP | Homoserine dehydrogenase related protein | / | 0.675 | |
| 1bmd | NAD | Malate dehydrogenase | / | 0.674 | |
| 4dl9 | NAD | S-(hydroxymethyl)glutathione dehydrogenase | / | 0.673 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.672 | |
| 4xgi | NAD | Glutamate dehydrogenase | / | 0.671 | |
| 2dc1 | NAD | Probable L-aspartate dehydrogenase | / | 0.670 | |
| 3p2o | NAD | Bifunctional protein FolD | / | 0.670 | |
| 1i36 | NAP | Conserved protein | / | 0.667 | |
| 1pj3 | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.667 | |
| 3wsw | NAD | L-lactate dehydrogenase | / | 0.665 | |
| 5ein | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.665 | |
| 3oet | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.664 | |
| 4jk3 | NAD | Uncharacterized protein | / | 0.664 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.663 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.663 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.662 | |
| 3wbf | NAP | Meso-diaminopimelate D-dehydrogenase | / | 0.662 | |
| 1kol | NAD | Glutathione-independent formaldehyde dehydrogenase | / | 0.660 | |
| 2dbr | NAP | Glyoxylate reductase | 1.1.1.26 | 0.659 | |
| 2p9c | NAI | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.659 | |
| 3sju | NDP | Keto reductase | / | 0.659 | |
| 4lcj | NAD | C-terminal-binding protein 2 | / | 0.659 | |
| 1a71 | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.657 | |
| 1pzh | NAD | Lactate dehydrogenase | / | 0.657 | |
| 3phi | NDP | Shikimate dehydrogenase (NADP(+)) | / | 0.657 | |
| 3ras | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.657 | |
| 4aic | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.657 | |
| 2cda | NAP | Glucose 1-dehydrogenase | / | 0.656 | |
| 3au8 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic | 1.1.1.267 | 0.656 | |
| 4c4o | NAD | SADH | / | 0.656 | |
| 3pef | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.655 | |
| 2dbz | NAP | Glyoxylate reductase | 1.1.1.26 | 0.653 | |
| 2jcv | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.653 | |
| 3a14 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.653 | |
| 1lld | NAD | L-lactate dehydrogenase 2 | 1.1.1.27 | 0.652 | |
| 1cdo | NAD | Alcohol dehydrogenase 1 | 1.1.1.1 | 0.651 | |
| 1f8f | NAD | Benzyl alcohol dehydrogenase | / | 0.651 | |
| 2jd0 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.651 |