Hello, After hiding the ribbons, I am able to view the backbone atom structure. Thanks everyone for the assistance. Saurabh 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