Katarina M wrote:
> > Hi all,
> > I am running coot version 0.6 pre on Mac OS X 10.5.8. Everything was working fine upon
> > installation for couple of months and all of the sudden after trying to real space refine a
> > residue funny looking dots would appear around it (as is shown in the attached photo). It
> > appears that these dots are somehow showing the interaction with the neighboring residue
> > or water molecules.
> > Could anybody help me with turning off this feature?
> >
>
They are probe dots. Presumably you installed it or molprobity and coot
started using it.
Somewhere you have set:
(set-do-probe-dots-post-refine 1)
so you could try finding that and commenting it out or simply add
(set-do-probe-dots-post-refine 0)
to the end of your ~/.coot file.
Re: the image, I would be tempted to move the CG and NZ to the left
somewhat, and the CD, CE to the right.
Paul
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