How can I make a video using vmd from my protein ligand md simulation in gromacs, which files should I select for that?

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Jobin Thomas

Hello,

U need to centre the protein first with gmx trajconv command.

This might do the job.

Also, select the ligand in the VMD so as to show the complex in the video..

Regards

Patrícia Pereira Duzi Carvalho

Your box size was insufficient. Increase the size of your box.

Ankit Bhagat

Patrícia Pereira Duzi Carvalho Thank you for the response.

In the terminal, enter the production outputs directory and type:

vmd file.gro file.xtc