(previously sent to just Ajith, now sharing with chimera-users) Hi Ajith, You can definitely adjust the nucleic acid ribbon size/shape with the "Ribbon Style Editor" tool (under Tools... Depiction). <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/ribbonstyle/ribbons...
The width/thickness part is easy, you could change numbers in the Scaling tab. The curvature might be harder, since the interpolation method is probably different. Nevertheless, you can change which atom positions define the ribbon path in the Residue Class tab. The Cross Section tab lets you draw the shape of a ribbon slice. In each tab, if you have a set of parameters that you like, it can be named and saved for later use. For general information on shininess/smoothness (which also affect ribbon appearance), see the tips on image saving: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/print.html#tips> Elaine On Mar 30, 2010, at 2:57 PM, Ajith Harish wrote:
Hi Elaine, I just downloaded the 1.5 daily build. I will use it.
I will be happy to send you some images that show the difference between RIBBONS and Chimera. I wouldn't know the technical terms associated though and its been a while since I used RIBBONS, its not supported anymore. From what I have seen, it seems like its difference is in the thickness and curvature of the ribbons that are rendered. The difference is seen only with nucleic acids and there does not seem to be any noticable differences for proteins. it I will send some images as soon as I can.
In case you like to check more on Ribbons, information is here http://www.cbse.uab.edu/ribbons/ . Thanks, Ajith
On Mar 30, 2010, at 4:48 PM, Elaine Meng wrote:
Hi Ajith, Can you explain a little more about what aspects or features of the RIBBONS rendering it is that you prefer? If you have any example figures or URLs that link to example figures showing what you mean, that might be helpful too. We are always interested in hearing people's opinions, although of course I can't guarantee something would be changed. Also, if there is some parameter you could change in Chimera to get an appearance similar to what is it you like, then I could let you know. Thanks, Elaine
P.S. maybe you would be interested in this list of what is new or different in Chimera 1.5 relative to 1.4/1.4.1: http://www.cgl.ucsf.edu/chimera/docs/relnotes/snapshot.html
On Mar 30, 2010, at 2:42 PM, Ajith Harish wrote:
Hi Elaine, Thank you for the explanation. I currently have version 1.4.1 build 20308. I got it just a few weeks ago and didn't expect a newer version would be available. Great!
Thanks for developing Chimera, its great and easy to use. Although this is not the right forum, if you don't mind I would like to make a suggestion. For the ribbons representation of nucleic acids, I have been using RIBBONS, its rendering is really pleasing. Chimera's rendering is close but it would be great if it possible to match that of ribbons. Thanks again. Best wishes, Ajith