[chimerax-users] syntax on marker and marker link placement

Joel Meyerson jrm2008 at med.cornell.edu
Sat Apr 11 13:12:21 PDT 2020


Hi,
I have a question about marker and marker link syntax. Suppose model #1 has chains A and B, and that chains A and B form a homodimer where each subunit has the same residue numbering. I would like to place a marker at the midpoint between alpha-carbons of position 10 on A and 10 on B. In turn, I'd like another marker at the midpoint between position 20 on each of the two subunits. I would then like to draw a linker between the two markers. I would expect the following syntax to work, but I get an error.

marker #2 #1/a,b:10 at CA color yellow radius 1
marker #2 #1/a,b:20 at CA color yellow radius 1
marker link #2:1,2 color yellow radius 0.5

Gives the error:
Missing or invalid "position" argument: Expected 3 floats or object specifier

Any suggestions on how to fix the syntax, or is there an alternative approach?

Thanks,
Joel
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