AutoDockTools, or ADT, is the ultimate GUI to set up, launch and analyze AutoDockruns. With ADT, you can:

• View molecules in 3D, rotate & scale in real time.
  
• Add all hydrogens or just non-polar hydrogens.
  
• Assign partial atomic charges to the ligand and the macromolecule (Gasteiger or Kollman United Atom charges).
  
• Merge non-polar hydrogens and their charges with their parent carbon atom.
  
• Set up rotatable bonds in the ligand using a graphical version of AutoTors.
  
• Set up the AutoGrid Parameter File (GPF) using a visual representation of the grid box, and slider-based widgets.
  
• Set up the AutoDock Parameter File (DPF) using forms.
  
• Launch AutoGrid and AutoDock.
  
• Read in the results of an AutoDock job and graphically display them.
  
• View isocontoured AutoGrid affinity maps.