Saving the molecule saves all the frames currently available, but the frames can also be exported to a QuickTime movie. However, the most fun is to use both the MM2 and the animation capabilities to generate a movie of the molecule as it vibrates or flexes in the real world. Chem3D Pro allows you to see this, and may reveal some new properties of a molecule. For example, you can see that two portions of the molecule are proximated at times, allowing for possible intramolecular bonding. As far as I know, this is the only software within a reasonable price range which makes this available.
Molecules appear in color as stick models, ball and stick, or space-filling.
Stereo display can be enabled, which places two copies side by side. It complains, and you must ask it to proceed without the needed information. However, you gain an excellent appreciation for the holes which exist in our chemical knowledge. If a user experimentally determines a new value for a variable, it may be entered in the appropriate window of values, and a reference added to the References window. In this way, the program can grow in knowledge as chemical researchers learn more.