But it is not showing any interactions yet. After that, you will see the ligand somewhere within the protein. Go to the receptor tab, here, “ pdb” -> right-click on the blank space -> click “ Paste”.Select one of these poses, say, “ model_4”, -> right-click on the blank space -> click “ Copy”. In the “ pdbqt” tab, you will see a dropdown in a new left panel showing different poses of the ligand named as model_0, model_1, and so on.Ĭlick on one of these poses and the ligand will switch its position on the screen.Open “ 2bxa.pdb” and “ SO.pdbqt” files. pdb format (here, 2bxa.pdb) and vina output file (here, SO.pdbqt). To visualize Autodock Vina results in DS visualizer, you need the same files as used for the Pymol viewer: protein in. In this article, the Autodock Vina result is being analyzed in the DS visualizer. In previous articles (“ Tutorial: Vina Output Analysis Using PyMol” and “ Video Tutorial: Autodock Vina Result Analysis with PyMol“), the analysis of Autodock Vina result using the Pymol viewer was explained. The discovery studio (DS) visualizer offers several features for analyzing docking results.
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