To make changes to an image in the PyMOL viewing window, a set of syntactical commands must be issued to achieve the desired result. The buttons and menus found within the EZ-Viz interface take away most of the need to issue commands, however some more advanced users may still want to have the option of issuing their own commands available to them. To accommodate more advanced users, we have added an entry field to the Commands tab in which both PyMOL and Chime commands can be entered and executed. The effects of an executed Chime command will appear on the molecule currently in the PyMOL viewing window just as they would had the command been executed through PyMOL’s own command line. For more information on the syntax of PyMOL commands see the PyMOL reference pages at http://pymol.sourceforge.net/newman/ref/toc.html .