<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class=""><br class=""></div><div class=""><br class=""></div><div class="">Dear Chimera,</div><div class=""><br class=""></div><div class="">Three basic questions:</div><div class=""><br class=""></div><div class="">I’m using Avogadro to construct my models and import as mol2 or pdb types. I often obtain messages as</div><div class=""><br class=""></div><div class=""><img apple-inline="yes" id="692DC698-D01A-4609-978C-7384EEC57C08" src="cid:8F3FA20F-DA7C-4F2C-A9C1-4612845068AB@Home" class=""></div><div class=""><br class=""></div><div class="">or that the atom is not “listed” . </div><div class=""><br class=""></div><div class="">Is there a preparation I can use for transfer of models ? Alternatively do you suggest any other program to construct models ?</div><div class=""><br class=""></div><div class="">2) If I use Tools to solvate a model, should I use the “Start solvate tool” under MD and/or check “Periodic Boundary Conditions.</div><div class=""><br class=""></div><div class=""><br class=""></div><div class="">3) Im considering building a multicore system ( two 16 core Xeon’s) as a 64 bit system would Chimera take advantage of the multi-core system ?</div><div class="">Would the upgrade funds be better spent on memory ?</div><div class=""><br class=""></div><div class="">Regards,</div><div class=""><br class=""></div><div class="">Paul Buscemi,</div><div class="">UMN BICB</div></body></html>