[phenixbb] generate_cif_for_NT_MPD

Kelly Daughtry kddaught at bu.edu
Mon Mar 5 11:52:45 PST 2012

Maybe I'm missing something here, but don't you just import both cif files
(for nucleic acid, and MPD individually) into phenix.refine? Did you try
Kelly Daughtry

Kelly Daughtry, Ph.D.
Post-Doctoral Fellow, Raetz Lab
Biochemistry Department
Duke University
Alex H. Sands, Jr. Building
303 Research Drive
RM 250
Durham, NC 27710
P: 919-684-5178

On Mon, Mar 5, 2012 at 12:29 PM, Xue-Yuan Pei <xyp20 at mole.bio.cam.ac.uk>wrote:

> Dear All:
> I am using phenix-1.7.2 to refine my structure. Now i am facing a problem
> with .cif file. I could not generate  cif files for a modified nucleic acid
> and MPD at same time with phenix.elbow or phenix.ready_set. If I use
> phenix.elbow to generate cif file for modefied nucleic acid only, phenix
> .refine complains about MPD cif not found, same for MPD. If I combine two
> cif files together, phenix.refine also complains. Is there better to
> generate cif file containing both modified nucleic acid and MPD?
> Many thanks for your help,
> Xue
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