On Mon, Mar 15, 2010 at 2:17 PM, Thomas Goddard
<goddard@cgl.ucsf.edu> wrote:
Hi Saurabh,
It is a bit weird but Chimera can display both a ribbon and the backbone atoms, but the ribbon would hide the view of the backbone atoms. So "show minimal" still works to show the backbone atoms but you would also need to undisplay the ribbon (command starts with tilde)
~ribbon
to be able to see the backbone atoms. As Elaine points out you can set a preference so Chimera 1.4 won't show the ribbon by default.
Tom
Hello Saurabh,
Starting with Chimera 1.4 the default initial display of a molecule is
nicer: ribbons instead of all atoms. However, you can get all atoms
shown initially if that is what you prefer. If you want that all the
time, just change your preferences (Favorites... Preferences, go to "New
Molecules" category, set "smart initial display" to false, click Save).
If you just want it sometimes and you are using the "open" command
inside of Chimera, use "open noprefs." Or, just hide the ribbon after
you open the structure if that is what is bothering you, or use the all
atoms Preset.
This is not a bug. This change and how to circumvent it (as included
above) are described in the 1.4 release notes,
<http://www.cgl.ucsf.edu/chimera/docs/relnotes/1.4.html>
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 Mar 14, 2010, at 10:41 PM, Saurabh Gupte wrote:
Hello,
I have been using Chimera for observing the 3D model of protein
structures. For viewing the backbone structure, I used the following
commands:
show backbone or show minimal
But in the latest production version 1.4, I am not able to view the
backbone/minimal structure. The 3D structure is rendered properly but
the above command do not seem to work. Have there been any changes in
the format for above commands or have they been substituted by some
other commands?
Thanks,
Saurabh