And the change in it's conformation may be due to interactions with other parts of the protein...<br><br><div><span class="gmail_quote">On 2/15/06, <b class="gmail_sendername">Itamar Kass</b> <<a href="mailto:ikass@cc.huji.ac.il">
ikass@cc.huji.ac.il</a>> wrote:</span><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"><br>Shalom Raja,<br><br>I would have use more residues, as the structure of 10 residues peptide is
<br>very unstable.<br><br>Itamar.<br><br>===========================================<br>| Itamar Kass<br>| The Alexander Silberman<br>| Institute of Life Sciences<br>| Department of Biological Chemistry<br>| The Hebrew University, Givat-Ram
<br>| Jerusalem, 91904, Israel<br>| Tel: +972-(0)2-6585194<br>| Fax: +972-(0)2-6584329<br>| Email: <a href="mailto:ikass@cc.huji.ac.il">ikass@cc.huji.ac.il</a><br>| Net: <a href="http://www.ls.huji.ac.il/~membranelab/itamar/itamar_homepage.html">
http://www.ls.huji.ac.il/~membranelab/itamar/itamar_homepage.html</a><br>============================================<br>----- Original Message -----<br>From: "raja" <<a href="mailto:raja_28@fastmail.us">raja_28@fastmail.us
</a>><br>To: "Discussion list for GROMACS users" <<a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a>><br>Sent: Wednesday, February 15, 2006 3:00 PM<br>Subject: [gmx-users] Simulating a peptide
<br><br><br>> Dear all,<br>> I want to simulate a peptide of 10 residues length small part of a<br>> protein of my interest), to see its secondary structure variation<br>> upon mutation. Is it enough to simulate that 10 residues alone to
<br>> see the change or is it mandatory to put entire protein and to<br>> seek for posible way to constraint other uninterested region.<br>><br>> With Thanks !<br>><br>> B.Nataraj<br>><br>> --
<br>> raja<br>> <a href="mailto:raja_28@fastmail.us">raja_28@fastmail.us</a><br>><br>> --<br>> <a href="http://www.fastmail.fm">http://www.fastmail.fm</a> - A fast, anti-spam email service.<br>><br>> _______________________________________________
<br>> gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>> <a href="http://www.gromacs.org/mailman/listinfo/gmx-users">http://www.gromacs.org/mailman/listinfo/gmx-users</a>
<br>> Please don't post (un)subscribe requests to the list. Use the<br>> www interface or send it to <a href="mailto:gmx-users-request@gromacs.org">gmx-users-request@gromacs.org</a>.<br>> Can't post? Read <a href="http://www.gromacs.org/mailing_lists/users.php">
http://www.gromacs.org/mailing_lists/users.php</a><br>><br><br>_______________________________________________<br>gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br><a href="http://www.gromacs.org/mailman/listinfo/gmx-users">
http://www.gromacs.org/mailman/listinfo/gmx-users</a><br>Please don't post (un)subscribe requests to the list. Use the<br>www interface or send it to <a href="mailto:gmx-users-request@gromacs.org">gmx-users-request@gromacs.org
</a>.<br>Can't post? Read <a href="http://www.gromacs.org/mailing_lists/users.php">http://www.gromacs.org/mailing_lists/users.php</a><br></blockquote></div><br>