Hi Elaine, I am able to use hkcage and build a spherical sphere with pentagons and hexagons. Is there a way to color those pentagons differently? Thank you, Wei On Fri, Apr 10, 2020 at 10:41 AM Wei Zhang <zhangwei@umn.edu> wrote:
Hi Elaine,
Thank you for the quick reply and the instructions. I will use the other email address next time.
Best regards,
Wei
On Fri, Apr 10, 2020 at 10:12 AM Elaine Meng <meng@cgl.ucsf.edu> wrote:
Hi Wei,
Take a look at the "hkcage" command if you want hexagons and pentagons instead of triangles. You give it the h and k values which are related to T number by the equation shown in that page: <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/hkcage.html>
For this kind of question (next time) you probably want the chimera-users@cgl.ucsf.edu mailing list, not chimera-dev which is more for programming questions.
Thank you for the good wishes -- you stay safe too!
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 9, 2020, at 4:21 PM, Wei Zhang <zhangwei@umn.edu> wrote:
Hello,
I have been playing with the icosahedron utility in Chimera. I really like this feature, especially with the sphere factor.
The current routine uses a subdivision factor to represent the number of triangles on an icosahedral surface. However this lattice is not the same as we see in icosahedral viruses, which use a T number to designate symmetry. With a subdivision number, there are always hexamers on any edge of the icosahedron, whereas in the virus structure this is not the case.
I am wondering if Chimera has an utility that can use the T number as the basis for building an icosahedron surface.
Thank you.
Hope everything is going well and stay safe!
Wei