You need to set the occupancy to 0.5 though..
Eleanor

On Mon, 11 Mar 2019 at 16:17, Phil Jeffrey <pjeff...@princeton.edu> wrote:

> Hello Firdous
>
> You are seeing two because you are displaying crystallographic symmetry
> and you are seeing its symmetry mate.  Coot only places one (check the
> PDB file) but displays the second generated by symmetry.  It pays to
> place that water molecule as precisely as possible on the symmetry axis
> so that refinement programs will treat this as a special position water
> and eliminate the extra one - i.e. make it as close as possible to its
> symmetry mate.
>
> Phil Jeffrey
> Princeton
>
> On 3/11/19 12:09 PM, Firdous Tarique wrote:
> > Hello everyone
> >
> > I am having a difficult time fitting a water molecule which is right at
> > the centre of symmetry. Every time I am trying to fit one water molecule
> > it fits two because of the symmetry atom is at the same place. What is
> > the best way to solve this problem? I am talking about the water
> > molecule where two molecules are paced at one place (4th position in the
> > semicircle having both pink and purple).
> >
> > Thanks
> >
> > Firdous
> > Screen Shot 2019-03-11 at 12.00.21 PM.png
>
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