I am running a VMD renderer to view my GROMACS molecular dynamics output.
At one frame, the geometry looks fairly normal like this:
At another frame, it displays a distorted geometry, with the receptor stretched out like this:
Is this common? Is it a biophysical effect of the MD system? Or is it a bug during my MD simulation steps?
If this is a problem in my processing, how can I resolve that? Or is there any setting in VMD where I can fix that?