Dear Pavel, Thanks for the info. One more question: In half of the DNA the base pairing is between symmetry related bases as the DNA structure (Holliday junction) lies on a two-fold axis. Could it be a problem? Thanks, Imre Pavel Afonine wrote:
Hi Imre,
you need to define custom bonds between these pairs:
http://phenix-online.org/documentation/refinement.htm
see section "Definition of custom bonds and angles".
phenix.refine does not do it automatically.
Pavel.
On 4/6/09 4:42 AM, Imre Toeroe wrote:
Hi,
Does anybody know an easy way to restrain nucleic acid base pairs (base stacking+Watson-Crick base pairing) in phenix.refine? I am refining against a 3.3 A dataset.
Thanks,
Imre
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