Preparing .PDB Files for 3D Printing

I would like to print some files from the swiss protein databank into nice 3D surface models. This can be done on linux with standard open software packages.

• assume platform is Ubutntu
• assume that you have Replicatorg set up with Skeinforge and some sort of RepRap style 3D printer.
• install meshlab
• install blender
• download .pdb
• open .pdb in meshlab. Use the metaballs setting with resolution = 0.5 and blobbiness = 0.5
• optionally clean up mesh
• center and scale in blender
• orient model in a way that looks mostly printable
• export model as .STL
• open model in replicatorg-skeinforge

Follow-up : Although this will create manifold meshes that skeinforge can process, it doesn't create support structures and other niceties requires for Makerbot / RepRap printing. Ideas ?

• try out the skeinforge support settings
• manually add support columns in Blender
• write a script to automatically create supports (hard, don't know what algorithm to use)