<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">You sent your question to the ChimeraX mailing list. Our answers are for ChimeraX and commands in the older Chimera program are sometimes different. ChimeraX and Chimera are different programs. I suggest you use ChimeraX. There is a separate Chimera mailing list <a href="mailto:chimera-users@cgl.ucsf.edu" class="">chimera-users@cgl.ucsf.edu</a>.<div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>Tom</div><div class=""><br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On May 25, 2022, at 2:24 PM, C.J. via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Thank you both Tom and Elaine.<div class="">I just test the command but it doesn't work. See attached picture.</div></div><br class=""><div class="gmail_quote"><div dir="ltr" class="gmail_attr">Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>> 于2022年5月25日周三 11:45写道：<br class=""></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">Hi Jianhao,<br class="">
It depends what you mean by relative position. If you mean distance, one way would be to place a marker at the map center and then measure distance between it and the marker you already have.<br class="">
<br class="">
You can place a marker at map center with "measure center" and the "mark true" option:<br class="">
<<a href="https://rbvi.ucsf.edu/chimerax/docs/user/commands/measure.html#center" rel="noreferrer" target="_blank" class="">https://rbvi.ucsf.edu/chimerax/docs/user/commands/measure.html#center</a>> <br class="">
<br class="">
....or at specific coordinates such as 0,0,0 with "marker" and the "position" keyword to specify a point:<br class="">
<<a href="https://rbvi.ucsf.edu/chimerax/docs/user/commands/marker.html#create" rel="noreferrer" target="_blank" class="">https://rbvi.ucsf.edu/chimerax/docs/user/commands/marker.html#create</a>><br class="">
<br class="">
Then you can select the two markers (same as atoms) with Ctrl-click, Shift-Ctrl-click and then use command "distance sel":<br class="">
<<a href="https://rbvi.ucsf.edu/chimerax/docs/user/commands/distance.html" rel="noreferrer" target="_blank" class="">https://rbvi.ucsf.edu/chimerax/docs/user/commands/distance.html</a>><br class="">
<br class="">
Or regardless of whether you wanted to measure any distances, you can save the marker(s) to file and just look at the file with a text-editor to see what its coordinates are:<br class="">
<<a href="https://rbvi.ucsf.edu/chimerax/docs/user/markers.html" rel="noreferrer" target="_blank" class="">https://rbvi.ucsf.edu/chimerax/docs/user/markers.html</a>><br class="">
<br class="">
I hope this helps,<br class="">
Elaine<br class="">
-----<br class="">
Elaine C. Meng, Ph.D. <br class="">
UCSF Chimera(X) team<br class="">
Department of Pharmaceutical Chemistry<br class="">
University of California, San Francisco<br class="">
<br class="">
> On May 25, 2022, at 7:54 AM, C.J. via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" target="_blank" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:<br class="">
> <br class="">
> Hi,<br class="">
> I place a marker in a cryoEM map with "Volume Tracer" tool. How can I know the relative position of the marker to the origin or center of the map? Thank you!<br class="">
> Best,<br class="">
> Jianhao<br class="">
<br class="">
</blockquote></div>
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