I just realized that you could do it even without using truncate_to_polyala:

phenix.pdbtools model.pdb keep="backbone"

or, equivalently:

phenix.pdbtools model.pdb remove="sidechain"

and it works for both: proteins and RNA/DNA.

Pavel.


On 5/13/09 12:43 PM, Francis E Reyes wrote: 
Though the original question was for protein, is there a mutate to  
poly C for RNA as well? :)

It just came to mind right now.

FR



On May 13, 2009, at 1:42 PM, Pavel Afonine wrote:

  
Hi,

the next nightly build of PHENIX will have this option available from
phenix.pdbtools.

Example:

phenix.pdbtools model.pdb truncate_to_polyala=true

As always, any feedback will be very appreciated.

Pavel.


On 5/7/09 7:01 AM, Francis E Reyes wrote:
    
Is there an option or a phenix.* utility to mutate a MR model to poly
ALA before the MR is done?

      
_______________________________________________
phenixbb mailing list
phenixbb@phenix-online.org
http://www.phenix-online.org/mailman/listinfo/phenixbb
    

---------------------------------------------
Francis Reyes M.Sc.
215 UCB
University of Colorado at Boulder

gpg --keyserver pgp.mit.edu --recv-keys 67BA8D5D

8AE2 F2F4 90F7 9640 28BC  686F 78FD 6669 67BA 8D5D

_______________________________________________
phenixbb mailing list
phenixbb@phenix-online.org
http://www.phenix-online.org/mailman/listinfo/phenixbb