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 |
|---|---|---|---|
| 5ijz | NAP | NADP-specific glutamate dehydrogenase | 1.4.1.4 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 5ijz | NAP | NADP-specific glutamate dehydrogenase | 1.4.1.4 | 1.033 | |
| 1i36 | NAP | Conserved protein | / | 0.718 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.712 | |
| 3mvq | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.711 | |
| 1r37 | NAD | NAD-dependent alcohol dehydrogenase | 1.1.1.1 | 0.699 | |
| 3hwr | NDP | 2-dehydropantoate 2-reductase | / | 0.698 | |
| 3ggp | NAD | Prephenate dehydrogenase | / | 0.693 | |
| 1yjq | NAP | 2-dehydropantoate 2-reductase | 1.1.1.169 | 0.692 | |
| 2q3e | NAI | UDP-glucose 6-dehydrogenase | 1.1.1.22 | 0.690 | |
| 4gae | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic | 1.1.1.267 | 0.689 | |
| 4xgi | NAD | Glutamate dehydrogenase | / | 0.686 | |
| 3pef | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.682 | |
| 4xqc | NAD | Homospermidine synthase | 2.5.1.44 | 0.679 | |
| 3zhb | NAP | Putative dehydrogenase | / | 0.678 | |
| 4xr9 | NAD | CalS8 | / | 0.678 | |
| 1f0y | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.677 | |
| 1pjc | NAD | Alanine dehydrogenase | / | 0.676 | |
| 3tnl | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.676 | |
| 1m75 | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.675 | |
| 1m76 | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.674 | |
| 1vi2 | NAD | Quinate/shikimate dehydrogenase | / | 0.672 | |
| 3wfj | NAD | 2-dehydropantoate 2-reductase | / | 0.672 | |
| 4xrg | NAD | Homospermidine synthase | 2.5.1.44 | 0.672 | |
| 4dwv | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.669 | |
| 4nfh | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.669 | |
| 5kj6 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.669 | |
| 1pzh | NAD | Lactate dehydrogenase | / | 0.668 | |
| 3b1j | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.668 | |
| 1o9b | NAI | Quinate/shikimate dehydrogenase | / | 0.666 | |
| 3t4e | NAD | Quinate/shikimate dehydrogenase | / | 0.666 | |
| 4tvb | NAD | Homospermidine synthase | 2.5.1.44 | 0.666 | |
| 2ohx | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.665 | |
| 5kcz | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.665 | |
| 5kje | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.665 | |
| 1axe | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.664 | |
| 1nyt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.664 | |
| 4pvd | NDP | NADPH-dependent methylglyoxal reductase GRE2 | / | 0.664 | |
| 1hld | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.663 | |
| 2b4r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.663 | |
| 3a14 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.663 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.661 | |
| 4kug | NAD | 3-hydroxybutyryl-CoA dehydrogenase | / | 0.661 | |
| 4okn | NAI | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.661 | |
| 1c1d | NAI | Phenylalanine dehydrogenase | / | 0.659 | |
| 2ph5 | NAD | Homospermidine synthase | / | 0.659 | |
| 1wp4 | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.658 | |
| 3toz | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.658 | |
| 1lc3 | NAD | Biliverdin reductase A | 1.3.1.24 | 0.657 | |
| 3zcx | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.656 | |
| 4ng5 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.656 | |
| 5a1t | NAI | L-lactate dehydrogenase | / | 0.656 | |
| 1hdg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.655 | |
| 1q0q | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.655 | |
| 2vq3 | NAP | Metalloreductase STEAP3 | / | 0.655 | |
| 3oq6 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.655 | |
| 4o0l | NDP | NADPH-dependent 3-quinuclidinone reductase | / | 0.655 | |
| 5jy1 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.655 | |
| 4bv9 | NDP | Ketimine reductase mu-crystallin | 1.5.1.25 | 0.654 | |
| 4nd4 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.654 | |
| 1t2d | NAD | L-lactate dehydrogenase | 1.1.1.27 | 0.652 | |
| 2fn7 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.652 | |
| 2jhf | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.652 | |
| 3etg | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.652 | |
| 4dxh | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.652 | |
| 5cds | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.652 | |
| 5kj1 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.652 | |
| 5kjc | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.652 | |
| 5kjf | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.652 | |
| 1u3v | NAD | Alcohol dehydrogenase 1B | 1.1.1.1 | 0.651 | |
| 4nfs | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.651 | |
| 5cdg | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.651 | |
| 1n5d | NDP | Carbonyl reductase [NADPH] 1 | / | 0.650 | |
| 5cdt | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.650 | |
| 5kcp | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.650 |