I start a new thread for the new version.
The thread according pdb2blend v1.0 is here: http://blenderartists.org/forum/showthread.php?t=67279
I fixed these file convention problems of the first version.
Now you should be able to import pdb files from databases like PDB (http://www.rcsb.org) properly.
Please try it out and report bugs!
For those who didn’t read the first thread:
It’s more a wizard than a conversion tool as the pdb-files only provides atom types and positions and connectivity tables. The script builds balls of different sizes for any atom with materials linked to the atom types. When chosen the atoms are connected by sticks with rounded ends.
The tool is now working somehow. You can download it at http://www.malte-reimold.de/blender/pdb2blend.html as well as some pdb molecule files for testing purposes for those who are not familiar with molecule models.
I built this script with blender 2.41 and Python 2.4 on WinXP.
Please try the script and give me some feedback about functionality on other platforms or versions.