Dear B, If it's just the visual that you want, you can use "clip" to clip a slab. Although the more common clipping is just near/far (always perpendicular to line of sight) there are also front/back planes that can be oriented in any angle. Example commands: open emdb:60539 ... you can rotate with the mouse/trackpad and see that it is a long section of fibril view orient ... to reset it so that Z is front/back, to prepare for the following clip command: clip front -20 back 20 axis z ... you can rotate again to see it is a shorter section of fibril I'm not sure what offset distance values you would need in your case, and you may need to give a fancier axis specification if the data are not already aligned on Z. See the "clip" help for the description of options: <https://rbvi.ucsf.edu/chimerax/docs/user/commands/clip.html#model> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Jul 3, 2024, at 4:24 PM, Binh Nguyen via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear all,
Is there a way to display say 10% on the Z-axis of a fibril density map? Or maybe save 1 or 2 layers of the map?
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I know 2 ways to do it but they both take a long time, and I wonder if we have an easier way to do it. • Use volume eraser with a big diameter sphere • Build a rough backbone carbon model in 1 layer, and do zone selection.
Thanks,
B
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