This is kind of interesting, upon my internet travels I recently came across BioBlender, a 3D Biological Visualization application built upon Blender 3D Open Source. BioBlender will allow you to import and interactively view and manipulate proteins and protein sequences. I don’t know a lot about all that stuff, however, it is a great way to play with and create 3D biological structures really quickly! Check out more information and download BioBlender here.
“BioBlender also includes a dedicated visual code to represent important features of their surface (Electric and lipophilic potential) on the protein itself, using photo realistic rendering and special effects.”