[phenixbb] how to cut off side chain from a model

Jeff Headd jjheadd at lbl.gov
Fri Feb 11 15:23:48 PST 2011

You can also use pdbtools to keep any specific selection that you
like. In your case, you can run:

phenix.pdbtools keep="backbone or name CB" model.pdb

That should do the trick.


On Fri, Feb 11, 2011 at 3:03 PM, crystallogrphy <qunwan1 at gmail.com> wrote:
> Hi,
> I am refining a low resolution data (4.7A). I want to cut off all side
> chains from my model because they cannot be seen from the density. Phenix
> pdbtools can only keep the backbone, but cannot keep the Cbeta atom. What
> program I can use to cut off all the side chain, but keep the Cbeta atoms?
> Thanks!
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