The molecules will not be broken, it is a visualisation artifact.
http://manual.gromacs.org/documentation/2018.5/user-guide/terminology.html#periodic-boundary-conditions
Catch ya,
Dr. Dallas Warren
Drug Delivery, Disposition and Dynamics
Monash Institute of Pharmaceutical Sciences, Monash Univer
Hello everyone,
Before equillibriation I was trying to minimize my protein membrane system.
energyminimized.gro file when vizualized in vmd showed few lipid molecules
broken. Is it safe to use trjconv to make whole molecule after em or i can
proceed with breakage? This is the minimization.mdp file
