<div dir="ltr">Hi Elaine,<div><br></div><div>I am able to use hkcage and build a spherical sphere with pentagons and hexagons. Is there a way to color those pentagons differently?</div><div><br></div><div>Thank you,</div><div><br></div><div>Wei</div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Fri, Apr 10, 2020 at 10:41 AM Wei Zhang <<a href="mailto:zhangwei@umn.edu" target="_blank">zhangwei@umn.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><div dir="ltr">Hi Elaine,<div><br>Thank you for the quick reply and the instructions. </div><div>I will use the other email address next time. </div><div><br></div><div>Best regards,</div><div><br></div><div>Wei</div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Fri, Apr 10, 2020 at 10:12 AM Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" target="_blank">meng@cgl.ucsf.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex">Hi Wei,<br>
<br>
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:<br>
<<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/hkcage.html" rel="noreferrer" target="_blank">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/hkcage.html</a>><br>
<br>
For this kind of question (next time) you probably want the <a href="mailto:chimera-users@cgl.ucsf.edu" target="_blank">chimera-users@cgl.ucsf.edu</a> mailing list, not chimera-dev which is more for programming questions.<br>
<br>
Thank you for the good wishes -- you stay safe too!<br>
<br>
I hope this helps,<br>
Elaine<br>
-----<br>
Elaine C. Meng, Ph.D. <br>
UCSF Chimera(X) team<br>
Department of Pharmaceutical Chemistry<br>
University of California, San Francisco<br>
<br>
> On Apr 9, 2020, at 4:21 PM, Wei Zhang <<a href="mailto:zhangwei@umn.edu" target="_blank">zhangwei@umn.edu</a>> wrote:<br>
> <br>
> Hello,<br>
> <br>
> I have been playing with the icosahedron utility in Chimera. I really like this feature, especially with the sphere factor.<br>
> <br>
> 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.<br>
> <br>
> I am wondering if Chimera has an utility that can use the T number as the basis for building an icosahedron surface.<br>
> <br>
> Thank you.<br>
> <br>
> Hope everything is going well and stay safe!<br>
> <br>
> Wei<br>
<br>
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