[phenixbb] nucleic acid nomencalture

Francis E Reyes Francis.Reyes at Colorado.EDU
Fri Apr 30 08:59:29 PDT 2010

For RNA I use ' Ar', ' Gr', ' Cr', ' Ur' (for the three letter field  
allotted)  and sugar atoms have * as the last position of the three  
letter field allowed for atom defs.  If you don't put these asterisks,  
coot doesn't recognize them and blows them into space upon real space  
refine ( to put it figuratively)


On Apr 30, 2010, at 9:23 AM, riya doreen wrote:

> Hi Everyone,
> I am interested in refining a DNA structure with phenix. However, as  
> soon as I read my PDB, I get a warning for missing restraints:  
> PHENIX could not find geometry restraints in the standard monomer  
> library for one or more residues in the PDB file"
> what is the correct nomenclature for DNA and RNA for use in PHENIX?
> Can I access phenix.elbow from the GUI ?
> Thanks
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> phenixbb at phenix-online.org
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Francis Reyes M.Sc.
215 UCB
University of Colorado at Boulder

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