[Chimera-users] Amber trajectory rmsd
pett at cgl.ucsf.edu
Wed Jan 5 17:09:48 PST 2011
VMD may provide more analysis capabilities in this regard. The RMSD
plot you referenced provides a frame-vs.-frame 2D plot of RMSD
variance for a selected set of atoms. So if you select the backbone
atoms (e.g. "sel backbone.full" or Select->Structure->backbone->full)
and ensure that "Restrict map to current selection, if any" in the
RMSD dialog is set to true then the resulting plot will be just for
the backbone atoms.
UCSF Computer Graphics Lab
On Jan 5, 2011, at 9:34 AM, George Tzotzos wrote:
> I'd be grateful if you informed if there's a way one can plot
> protein backbone rmsd fluctuations of trajectories. I checked
> I may have missed the salient points.
> Many thanks in advance
> Chimera-users mailing list
> Chimera-users at cgl.ucsf.edu
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