[chimerax-users] inquiry about label the residues of pseudo bonds

Jiaqiao Zhou zhou-jiaqiao1998 at g.ecc.u-tokyo.ac.jp
Mon Sep 12 07:50:57 PDT 2022


Dear Chimerax users,

I am trying to analyze the results of AF2 predictions.
I used the "alphafold contacts" command to the interfacing residues,
then several pseudobonds are displayed.

"label sel pseudobonds" shows the length of the bonds,
but I want to show the residue name the number that makes the pseudobonds.

Actually, I found that in the label mode of right mouse,
it shows the residue name and the number.
However, I have to do it one by one.
So I am wondering if there are any easier ways.

Another question is about the  "alphafold contacts" command itself,
I want to know the definition of "distance of residues".
Is it the distance of the centroid, the average distance of heavy
atoms of the residues.
or some other ways of determining the distance between two residues?

Thanks in advance.


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