GROMACS version: 2023
GROMACS modification: No
Here post your question
I’m not sure if this has more to do with VMD or GROMACS or I messed up on both, but here we go.
So I was following the Protein-Ligand tutorial for gromacs, and got all the way to the Production of MD stage and got my
md_0_10.xtc files then I thought to visualize them in VMD. And this is were my question comes from. So when I first loaded up the files and got a visual repsentation at first it seem normal:
But then as more and more frames pasted it start to look like it’s glitching:
I thought this may be a problem with the ribbon drawing method but I get the same porblem with the lines drawing method and it seems more appearent
And my question is did I do something wrong?
If so what? Is it a problem with the ‘topol.top’ file? If not what?
If not, then what I’m I looking at? Or why does it do this? Do protein under a mircoscope glitch out like this too? What exactly is this image/video suppose to model?
And just too add on, you prbably noticed I turned off the water representation, but when I turn it back on it has the exact same line stuff going on: