Hi, I am conducting sort of a pilot study. I have this protein that has
been shown to evade immune responses, possibly due to polymorphisms. Its
crystal structure has been solved, and I took field isolate samples and
predicted their structures by homology. I hypothesize that there may be
differences in structures and I want to report them as RMSD scores. I got
RMSD scores from pymol for *"Carbon Atoms "* and *"All atoms"*. Which of
these scores is better to report?
I am also planning to carry out functional studies depending on the success
of this pilot study, and I am I wondering if I am justified in my approach
of using RMSD to compare structures in silico before I proceed in vitro?
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