Dear Justin,<br><br>If possible, can you some explain "net attraction"? <br><br>Best regards<br><br><div class="gmail_quote">2011/9/22 Justin A. Lemkul <span dir="ltr"><<a href="mailto:jalemkul@vt.edu">jalemkul@vt.edu</a>></span><br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;"><div class="im"><br>
<br>
ahmet yıldırım wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
Dear users,<br>
<br>
1.) During the simulation the mean potential energy is minus (-) value. What does this mean? Why minus?<br>
</blockquote>
<br></div>
Net attraction.<div class="im"><br>
<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
2.) let's say, Interface/Buried Surace Area (ISA) between protein and ligand was calculated and hydrophobic ISA obtained greater than hydrophilic ISA. What does this mean?<br>
<br>
</blockquote>
<br></div>
That, as you might expect, hydrophobic groups are shielded from the solvent to a greater extent than polar groups.<br>
<br>
-Justin<div class="im"><br>
<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
No one is my special advisor but If you help me, I will be happy.<br>
<br>
Thanks in advance<br>
<br>
-- <br>
Ahmet YILDIRIM<br>
<br>
</blockquote>
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<br>
Justin A. Lemkul<br>
Ph.D. Candidate<br>
ICTAS Doctoral Scholar<br>
MILES-IGERT Trainee<br>
Department of Biochemistry<br>
Virginia Tech<br>
Blacksburg, VA<br>
jalemkul[at]<a href="http://vt.edu" target="_blank">vt.edu</a> | <a href="tel:%28540%29%20231-9080" value="+15402319080" target="_blank">(540) 231-9080</a><br>
<a href="http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin" target="_blank">http://www.bevanlab.biochem.<u></u>vt.edu/Pages/Personal/justin</a><br>
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</font></blockquote></div><br><br clear="all"><br>-- <br>Ahmet YILDIRIM<br>