[phenixbb] nucleic acid nomencalture

Ralf W. Grosse-Kunstleve rwgk at cci.lbl.gov
Fri Apr 30 08:52:32 PDT 2010

> 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?

phenix.refine should automatically recognize all commonly used
DNA and RNA residue names. 
Do you have modified bases in your model?

> Can I access phenix.elbow from the GUI ?

ReadySet under "Model tools" will run elbow if required.


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