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 |
|---|---|---|---|
| 3b20 | NAD | Glyceraldehyde-3-phosphate dehydrogenase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3b20 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.877 | |
| 3ids | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.751 | |
| 3qv1 | NAD | Glyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic | 1.2.1.13 | 0.746 | |
| 1vsv | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.744 | |
| 2d2i | NAP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.733 | |
| 3b1j | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.733 | |
| 5c7o | NAD | Glyceraldehyde-3-phosphate dehydrogenase, testis-specific | 1.2.1.12 | 0.731 | |
| 1u8f | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.730 | |
| 3pym | NAD | Glyceraldehyde-3-phosphate dehydrogenase 3 | 1.2.1.12 | 0.721 | |
| 1szj | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.717 | |
| 4boy | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.716 | |
| 1cer | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.715 | |
| 1nq5 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.710 | |
| 3dmt | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.709 | |
| 4o63 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.709 | |
| 4o59 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.707 | |
| 1nbo | NAD | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.705 | |
| 4k9d | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.704 | |
| 2b4r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.700 | |
| 1znq | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.698 | |
| 1ywg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.697 | |
| 3zcx | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.695 | |
| 1j0x | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.694 | |
| 4z0h | NAD | Glyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic | 1.2.1.12 | 0.692 | |
| 2vyv | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.691 | |
| 1nvm | NAD | Acetaldehyde dehydrogenase | 1.2.1.10 | 0.690 | |
| 4dbv | NDP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.689 | |
| 4lsm | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.689 | |
| 1gd1 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.688 | |
| 3hja | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.687 | |
| 1rm3 | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.686 | |
| 2rcy | NAP | Pyrroline-5-carboxylate reductase | / | 0.684 | |
| 3cmc | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.684 | |
| 3e5r | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic | 1.2.1.12 | 0.683 | |
| 3cif | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.680 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.679 | |
| 1hdg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.678 | |
| 1a7k | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.677 | |
| 3v1y | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic | 1.2.1.12 | 0.676 | |
| 1gad | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.675 | |
| 2ep7 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.675 | |
| 1q0q | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.674 | |
| 3keo | NAD | Redox-sensing transcriptional repressor Rex | / | 0.673 | |
| 1gl3 | NDP | Aspartate-semialdehyde dehydrogenase | / | 0.672 | |
| 1jn0 | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.672 | |
| 1qxs | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.670 | |
| 1vc2 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.668 | |
| 4gae | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic | 1.1.1.267 | 0.667 | |
| 1cf2 | NAP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.665 | |
| 2g5c | NAD | Prephenate dehydrogenase | / | 0.663 | |
| 1dss | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.662 | |
| 3l4s | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1 | / | 0.661 | |
| 3tri | NAP | Pyrroline-5-carboxylate reductase | / | 0.660 | |
| 4xgi | NAD | Glutamate dehydrogenase | / | 0.658 | |
| 5ein | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.658 | |
| 1nqo | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.657 | |
| 2g82 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.657 | |
| 1llq | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.655 | |
| 3ggp | NAD | Prephenate dehydrogenase | / | 0.655 | |
| 3lvf | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1 | / | 0.655 | |
| 4p8r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.655 | |
| 2vq3 | NAP | Metalloreductase STEAP3 | / | 0.654 | |
| 3had | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.654 | |
| 1i36 | NAP | Conserved protein | / | 0.652 | |
| 3nt4 | NAI | Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase | 1.1.1.18 | 0.652 | |
| 3anl | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.651 |