how to add ions to a system

From: uma mageshwari (
Date: Wed Jan 28 2009 - 01:57:09 CST

hello sir,
          I am running molecular dynamics for protein-dna
complex(nucleosome). In the log file it is mentioned that the total
charge=-150e. I think that i have to add some sodium ions to make my system

1.will the addition of sodium ions cause any structural/functional
2.Can u tell me how to add ions to system?
3.Is there any need to include periodic boundary conditions while studying
dynamics in vacuum.

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