Tutorial-l Mailing List

From: wahn_at_uiuc.edu
Date: Mon Jan 29 2007 - 13:42:54 CST

Dear NAMD users,

I ran a molecular dynamic simulation in a NVT ensemble with NAMD.

When I tried to examine the trajectory with VMD, I noticed that some water molecules are located outside of the periodic box. Is that possible? If it is possible, how can I wrap all water molecules in a periodic box.

Thanks,

Won-Young

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