It is difficult at the end of refinement - the small corrections hardly affect the R values, but should make the maps look cleaner. And R values are very correlated with the tightness of your geometric restraints - maybe you are changing these slightly too?

I presume you are describing small shifts - if R values increase by 1% there probably is something wrong.
Eleanor




U Sam wrote:
Hi Everybody,
I have small query. I am feeding ions and correcting few residues into my final structure.
If R increases and Rfree decreases or vice versa in the subsequent refinement, 
which one I should accept and go forward.
Thanks.
Sam
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