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Using genbox to insert multiple molecules into the box, I have found that
it tends to place a couple such that they are very close together, if not
intertwined. Will increasing the -vdwd value help to avoid this
problem?<br><br>
Additionally, I have found that using genion it is far better to use the
-random switch in the placement of larger concentration of back ground
salt, rather than placement based on potential. Otherwise it
performs some rather unusual placement of the ions, i.e., in a grind
along one face of the box after it has placed some throughout the
box.<br><br>
Catch ya,<br>
<x-sigsep><p></x-sigsep>
<b>Dr. Dallas Warren<br>
</b><i>Research Fellow<br>
</i>Department of Pharmaceutical Biology and Pharmacology<br>
Victorian College of Pharmacy<br>
Monash University<br>
<font color="#0000FF"><u>dallas.warren@vcp.monash.edu.au<br>
</u></font>+61 3 9903 9076</html>