Re: distribution of Na+ around DNA

From: Bill Ross <>
Date: Wed 17 Oct 2001 07:32:02 -0700 (PDT)

        I have run MD of poly AT 40 bases with explicit WAT and 38 Na+, ...
        When I had a look trajectory file of 1500-2500 ps, I found
        that Na+ ions are far from phosphate group. Is it normal result of MD?

Yes. Ions will often form pairs with pairs of waters, in fact.
I don't know if this is physical behavior or not.

(mdin not inspected because not in clear text)

Bill Ross
Received on Wed Oct 17 2001 - 07:32:02 PDT
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