[Chimera-users] How to

M. Amin Arnaout aarnaout1 at partners.org
Mon Feb 28 12:40:35 PST 2011

Thanks, But I was able to show Calpah and ribbon WITHOUT  position shift of
the latter using Chimera. I do not remember how I did it (see attached,
focusing on the Calpha)). Hope you can help.

On 2/8/11 12:50 PM, "Elaine Meng" <meng at cgl.ucsf.edu> wrote:

> Hello,
> I believe this has been the same for many versions -- the default is to hide
> backbone atoms where ribbon is shown.
> However, you can show backbone atoms and ribbon at the same time after you use
> the command "ribbackbone."  Show the command line (under Favorites menu), then
> enter the command ribbackbone, then display whichever atoms you wish.
> <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/ribbackbone.html>
> It may not look very good when you are showing the backbone atoms and the
> ribbon for the same residue, because the atoms may be "floating" away from the
> ribbon.  The ribbon is a smoothed path and in some places it does not follow
> the atoms closely.  More discussion of this issue, in case you are interested:
> <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/ribbonstyle/ribbonst
> yle.html#offset>
> I hope this helps,
> Elaine
> ----------
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> On Feb 7, 2011, at 12:26 PM, M. Amin Arnaout wrote:
>> I am running Cimera 1.5.2 on Mac. I am now unable to show a cabonyl O, N or
>> CA  of a residue while ribbon is also displayed. Could do that in the earlier
>> version.

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