[chimerax-users] MICROTUBULE AND SYM COMMAND

[Tom Goddard]

Hi Aleck,

  The video you refer to has the center of symmetry of the microtubule map at 0,0,0.  In your case 0,0,0 obviously is far from the helix axis.  The sym command has a "center" option that you could specify to give a point on the helix axis.  

	https://www.cgl.ucsf.edu/chimerax/docs/user/commands/sym.html

But a better approach is to adjust the origin of your helical map so the axis passes through 0,0,0.  The volume command has origin and originIndex options that allow you to set the origin for the map.  Also ChimeraX menu entry Tools / Volume Data / Map Coordinates provides a pane for setting the origin.

    https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html

  Tom



> On Mar 28, 2023, at 10:24 AM, Aleck Dwyer via ChimeraX-users <chimerax-users at cgl.ucsf.edu> wrote:
> 
> Hi,
> I am trying to model a microtubule Cryo-EM map (my first time).in Chimera   I was following the example 
> https://www.cgl.ucsf.edu/chimera/videodoc/MicrotubuleSym/index.html
> 
> I was able to do the example but when using my data I see issues.
> 
> The spacing is way off.  If anyone has modeled a microtubule in Chimera and/or ChimeraX please let me know..
> 
> Thanks,
> Aleck
> 
> 
> 
> 
> 
> <image.png>
> 
>  <http://www.avg.com/email-signature?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail>	Virus-free.www.avg.com <http://www.avg.com/email-signature?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> <x-msg://10/#DAB4FAD8-2DD7-40BB-A1B8-4E2AA1F9FDF2>_______________________________________________
> ChimeraX-users mailing list
> ChimeraX-users at cgl.ucsf.edu
> Manage subscription:
> https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://www.rbvi.ucsf.edu/pipermail/chimerax-users/attachments/20230329/898fc048/attachment.html>