Dear AMBER users,
We add ions ( either Na or Cl) to make the
system neutral; I am interested to know how we can determine the total
amount of charge of the system( say, protein). For example, in the tutorial
1, section 2 , sub-section2.3.1, 18 sodium anions are added to counteract
the -18 charge of the DNA chain. Similarly, in my system , I have added
the different number of Na-ions using addions command. What is the theory
behind it? If possible, please suggest also the relevant papers or other
materials .
Thanks,
Mahendra Thapa
Graduate Student(Physics)
University of Cincinnati
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Received on Tue Jan 22 2013 - 15:00:02 PST
