[phenixbb] Clashes problem

Peter Zwart PHZwart at lbl.gov
Mon Feb 11 06:51:53 PST 2008

> I am slightly concerned that a refinement program seems happy to allow
> such clashes. Is this a problem with the version of phenix.refine I am
> running, or is there a more obvious explanation that I have missed?

Clash scores are not really used directly in refinement, so the
refinement program doesn't really care about this. Adding hydrogens
could improve the situation a bit, as would some model building do.

How does your starting model look?



> Thanks,
> Simon
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