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 |
|---|---|---|---|
| 1vi2 | NAD | Quinate/shikimate dehydrogenase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 1vi2 | NAD | Quinate/shikimate dehydrogenase | / | 1.169 | |
| 3t4e | NAD | Quinate/shikimate dehydrogenase | / | 1.031 | |
| 1npd | NAD | Quinate/shikimate dehydrogenase | / | 0.974 | |
| 1o9b | NAI | Quinate/shikimate dehydrogenase | / | 0.969 | |
| 3toz | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.812 | |
| 3tnl | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.811 | |
| 3phi | NDP | Shikimate dehydrogenase (NADP(+)) | / | 0.770 | |
| 2hk9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.761 | |
| 4oqy | NDP | (S)-imine reductase | / | 0.722 | |
| 1nyt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.721 | |
| 1q0q | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.719 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.709 | |
| 2jkv | NAP | 6-phosphogluconate dehydrogenase, decarboxylating | 1.1.1.44 | 0.706 | |
| 3mvq | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.702 | |
| 4oaq | NDP | R-specific carbonyl reductase | / | 0.700 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.695 | |
| 2vq3 | NAP | Metalloreductase STEAP3 | / | 0.693 | |
| 2ixa | NAD | Alpha-N-acetylgalactosaminidase | 3.2.1.49 | 0.692 | |
| 4xb2 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.691 | |
| 5ein | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.689 | |
| 1zh8 | NAP | Uncharacterized protein | / | 0.688 | |
| 3h3j | NAD | L-lactate dehydrogenase 1 | 1.1.1.27 | 0.687 | |
| 2ixb | NAD | Alpha-N-acetylgalactosaminidase | 3.2.1.49 | 0.686 | |
| 2vhw | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.686 | |
| 2cy0 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.684 | |
| 3jyp | NAD | Quinate/shikimate dehydrogenase (NAD(+)) | / | 0.684 | |
| 2hk9 | ATR | Shikimate dehydrogenase (NADP(+)) | / | 0.683 | |
| 1gq2 | NAP | NADP-dependent malic enzyme | 1.1.1.40 | 0.679 | |
| 1lld | NAD | L-lactate dehydrogenase 2 | 1.1.1.27 | 0.675 | |
| 1yjq | NAP | 2-dehydropantoate 2-reductase | 1.1.1.169 | 0.675 | |
| 3adp | NAI | Lambda-crystallin | 1.1.1.45 | 0.675 | |
| 3ikt | NAD | Redox-sensing transcriptional repressor Rex | / | 0.675 | |
| 3b1j | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.674 | |
| 5ijz | NAP | NADP-specific glutamate dehydrogenase | 1.4.1.4 | 0.672 | |
| 3a14 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.670 | |
| 1nvm | NAD | Acetaldehyde dehydrogenase | 1.2.1.10 | 0.669 | |
| 4nu6 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.669 | |
| 1wp4 | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.667 | |
| 1n2s | NAI | dTDP-4-dehydrorhamnose reductase | 1.1.1.133 | 0.665 | |
| 4okn | NAI | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.665 | |
| 3cea | NAD | Myo-inositol 2-dehydrogenase-like (Promiscuous) | / | 0.663 | |
| 1qr6 | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.661 | |
| 1r37 | NAD | NAD-dependent alcohol dehydrogenase | 1.1.1.1 | 0.661 | |
| 4xb1 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.660 | |
| 1yqd | NAP | Sinapyl alcohol dehydrogenase | / | 0.659 | |
| 4bv9 | NDP | Ketimine reductase mu-crystallin | 1.5.1.25 | 0.658 | |
| 3anm | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.657 | |
| 3zhb | NAP | Putative dehydrogenase | / | 0.657 | |
| 1b38 | ATP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.656 | |
| 1h6d | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.656 | |
| 4qg0 | DUT | Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 | 3.1.5 | 0.656 | |
| 3pef | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.655 | |
| 3zdf | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.654 | |
| 1nvt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.653 | |
| 3anl | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.653 | |
| 3jv7 | NAD | Secondary alcohol dehydrogenase | / | 0.653 | |
| 5c7o | NAD | Glyceraldehyde-3-phosphate dehydrogenase, testis-specific | 1.2.1.12 | 0.653 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.652 | |
| 3cmc | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.652 | |
| 4xcv | NDP | Probable hydroxyacid dehydrogenase protein | / | 0.652 | |
| 1wvg | APR | CDP-glucose 4,6-dehydratase | 4.2.1.45 | 0.651 | |
| 2vhx | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.651 | |
| 4is3 | NAD | 3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 | 1.17.98.1 | 0.651 | |
| 4wji | NAP | Putative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase | / | 0.651 | |
| 4z0p | NDP | NAD-dependent dehydrogenase | / | 0.651 | |
| 5eio | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.651 | |
| 1ez4 | NAD | L-lactate dehydrogenase | 1.1.1.27 | 0.650 |