[chimerax-users] specify pseudobonds

[Ruchika Bajaj]

Hi Elaine
On Thu, Apr 15, 2021 at 8:57 PM Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Ruchika,
> If you want to hide only some specific contacts pseudobonds, there are
> several ways.
>
> (A) One way is to select them (Ctrl-click, Shift-Ctrl-click on them in the
> graphics window so that they have a green outline) and then use command
>
> hide sel pseudobonds
>

I tried to use this option, however, it works sometimes, but not other
times. Can you please explain to me a bit more ?


>
> (B) Another way is to hide the atom on at least one end of the pseudobond,
> which will also automatically hide the pseudobond.
>

 It didn't work with me either.

>
> (C) Another approach is to use the Contacts options to limit the
> calculation to only selected atoms so you don't get the extra ones you
> didn't want in the first place.  See the "Limit by selection" options:
> <https://rbvi.ucsf.edu/chimerax/docs/user/tools/clashes.html>
>

I tried this one, but it didn't help completely.

>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Apr 15, 2021, at 4:10 AM, Ruchika Bajaj <phd.ruchika at gmail.com>
> wrote:
> >
> > Hi Elaine
> >
> > I am using the contact tool from the structure analysis tool. It is
> giving me a few pseudobonds and I want to delete a few of them for the
> picture I am working on. I also tried checking the pseudobond command. So,
> could you please help me in specifying pseudo bonds and how to delete or
> hide specified pseudobonds in the figure, instead of all of them.
> >
> > Thanks a lot !!
> > Regards
> > Ruchika
>
>
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