How can one measure the size of the molecule using a CPK model? Is there any software available to measure the size of a molecules in rectangular box? Can anyone help to measure the size of Rose bengal dye in rectangular box approximation?
Gdis is a good option to do measuring tasks, also VMD gives some powerful tools. BTW, the way you visualize (CPK, wireframe, van der Waals volume, etc) doesn't have influence on the size of your system..