[chimerax-users] measure volume using radii

[Noriega, Heather]

Hello Elaine,

I hope this email finds you well. I have a couple of questions for you. I
have been working on the measurement of enclosed volumes, these are the
commands I have been using:

molmap #1 12
volume level 0.07
"blob"
surface splitbycolor #2.1
view position #3 sameAs #2
measure volume #3.2

I am curious if there is a command to change the map radius to:

outer radium: 145
ave radium: 141
inner radium:84

Or if you are aware of a map that already has these coordinates?

Lastly, for the volume level is there a default level that maybe is
recommended once these radii are in place? The 0.07 level seems to render
lower inner volumes (i.e. 2.348 x 10^6) compared to the one below for
example.

I am going to attach one of my PDB files if you need it. The inner volume
calculation through the review is 2.48 x 10^6 cubic angstroms, just as a
reference for this file.  Thanks so much, and hope to hear soon.

Thank you,

Heather Noriega
PhD-Pharmaceutical Science student
Howard University
heather.noriega at bison.howard.edu
520-203-1883
 AAV_3B_VP3_only.pdb
<https://drive.google.com/file/d/12YVgV54awWkEqZe3UWIgUFMhCuWoYl4N/view?usp=drive_web>
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