AutoDock Tools Tutorial: How to Use AutoDock 4 with AutoDockTools |bioinformatics|molecular docking

This tutorial will introduce you to docking using the AutoDock suite of programs. We will use a Graphical User Interface called AutoDockTools, or ADT, that helps a user easily set up the two molecules for docking, launches the external number crunching jobs in AutoDock, and when the dockings are completed also lets the user interactively visualize the docking results in 3D. Sections: 0:00-2:00 Requirements 2:01-8:45 Theory 8:46-10:40 Installation of MGLTools 10:44-19:37 Protein and Ligand download and cleanup 19:38-28:20 Protein preparation using MGLTools 28:25-34:42 Ligand preparation using MGLTools 34:43-40:23 Grid box settings 40:25- 51:03 Running Autogrid4 51:05-59:25 Docking parameters 59:29-1:08:25 Running AutoDock4 1:08:26-1:29:30 Analyze conformations 1:29:32-1:43:38 Create publication quality figures using ChimeraX 1:34:38-1:37:43 Using Discovery studio for 2D interaction plot 1:40:00-1:43-34 Evaluation and comparison with experimental PDB structur