[gmx-users] RMDS calculation

[vferrario at units.it]

Dear all,

I need to calculate the RMSD of a protein during time. So that I've  
calculated the trajectory; for the calculation which tool should I  
use? g_rms or g_rmsdist ? Which is the difference between these two  
tools? If I'm right the main difference is that with g_rms the  
structure at the time t is superimposed to the reference structure  
before calculate the RMSD, while with g_rmsdist the RMSD is calculated  
without any superimposition, am I correct?

Valerio

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