Dear Shahab<br><br>Yes,when you compute delta Gibbs energy of binding ,You can compute binding constant(Kd or Ki)<br>by thermodynamics relations as Dr.Justin said.<br><br>I think both methods can be applied to any systems which you wish to have its binding free energy.<br>
(including protein-protein,protein-ligand ,protein-Nucleic Asids and ligand-Nucleic asids)<br><br>Best<br><br><div class="gmail_quote">On Tue, May 17, 2011 at 5:00 PM, shahab shariati <span dir="ltr"><<a href="mailto:shahab.shariati@gmail.com">shahab.shariati@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"><font style="font-family: tahoma,sans-serif;" size="2">Dear Justin<br>
<br>
thanks for your attention<br>
<br>
</font>
<pre style="font-family: tahoma,sans-serif;"><i><b><font size="2">Do you mean binding constants? </font></b></i></pre>
<font style="font-family: tahoma,sans-serif;" size="2">yes, I mean Ka or Kd.<br>
<br>
</font><font style="font-family: tahoma,sans-serif;" size="2"><br>
what about protein-dna complex? can I use PMF or TI for that to obtain binding free energy?<br>
<br>
<br>
best wishes<br>
<br>
</font><font style="font-family: tahoma,sans-serif;" size="2"><br>
</font>
<pre style="font-family: tahoma,sans-serif;"><font size="2"><br></font></pre>
<font style="font-family: tahoma,sans-serif;" size="2"><br>
</font>
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