[Chimera-users] structural alignment

[Bala subramanian]

Friends,

I have 10 conformations of the same RNA molecule obtained from 5 separate MD
simulations. Now to compare the conformations, I want to make a structural
alignment of these conformations and make an alignment map ( something like
multiple seq. alignment for protein ) so as to show residues (or residue
positions) that higher flexibility among these ten conformations. What is
the best way to do it in Chimera.

Thanks,
Bala
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