Project: Blender Extensions
Tracker: Py Scripts Release
Script name: Atomic Blender
Wiki page: http://wiki.blender.org/index.php/Extensions:2.6/Py/Scripts/Import-Export/PDB
Author(s): Clemens Barth
Category: Import Export
SVN Download: https://svn.blender.org/svnroot/bf-extensions/trunk/py/scripts/addons/io_mesh_pdb/
The Phyton script Atomic Blender can be used to load PDB (Protein Data Base) files into Blender. It reads the coordinates of all atoms in the PDB file (<file name.pdb>) and represents the atoms as balls in the Blender scene. Also the sticks, which connect atoms, are shown if this option is chosen and if the sticks are listed in the PDB file.
Only atoms as balls and corresponding sticks are shown in the Blender scene but no complex structures.
Atomic Blender opens a panel in Blender, which can be found in the tab physics (see image on the right). Many options can be chosen, which help to well-represent the atoms and sticks. For instance, after loading a PDB file the radius of one type of atom can be explicitly changed after. All other options are described further below. Note that the utilities of Blender allow additional changes of the objects.
Atomic Blender is interesting for scientists, who want to visualize their molecules, crystal structures, surfaces, etc. with Blender. The PDB format is widely distributed and can be produced by many programs including programs like CrystalMaker or Vesta.
Thanks to Blender, fancy graphics of molecules, crystal structures, surfaces and complex atomic arrangements can be obtained. Such graphics meet the standards of top-level journals, which have an high impact factor.
Installation, quick manual
- Uncompress the file.
- Open the file Atomic_Blender_v1.1.blend
- On the left, the Python script can be seen. At the beginning of the script, you find the absolute paths for the PDB and data file. Modify the path of the data file.
Run the script: push the right mouse button in the script window and choose 'Run Script'. The key combination 'Alt-P' is doing basically the same. In the panel 'physics' (right), the sub-panel 'PDB Blender' can be seen.
- Open the first file dialog for loading the PDB file. Search your PDB file.
- Push the button 'DRAW THE OBJECT …'. Your molecules or whatever should appear after some time in the Blender scene. You can now model you object.
More details can be found here: http://development.root-1.de/Atomic_Blender.php