Dear all
I run a MD on a GPCR (transmembrane protein)
Then I run a PCA on results and I found 3PC sufficient to explain variance.
On the same PC I get big values for samples located both at Nter
(extracellular) and Cter (intracellular) or for similar cases such as both
Nter(extracellular) and Loop5 (intracellular).According to you how could I
explain the motion of group atoms intra and extracellular on the same
components?
Does it mean the motion of some atoms at Nter (for instance) could influence
the motion at Cter ? Could it be logic?
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