[gmx-users] PBC and large hydrogen-bonded molecules

[Dallas B. Warren]

Are you using VMD to view the trajectory?

If so, in the Graphical Representations window, select the Periodic tab.
Then get it to draw the periodic image to the right hand side of your
"central / orginal" image.

That will help with visualisation of what a PBC means and how it works.

Catch ya,

Dr. Dallas Warren
Lecturer
Department of Pharmaceutical Biology and Pharmacology
Victorian College of Pharmacy, Monash University
381 Royal Parade, Parkville VIC 3010
dallas.warren at vcp.monash.edu.au
+61 3 9903 9524
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When the only tool you own is a hammer, every problem begins to resemble
a nail.