Hi,<br><br>RMSD is given at a specific time, so you can ran g_rms for each residue (create index file witha specific residue in) and then take the RMSD of each residue at time T and plot it.<br><br>But I think you should look into g_rmsf, this might fit you better, although it calculate the fluctuations rather that the distance.<br>
<br>Best,<br>Itamar<br><br><div class="gmail_quote">On Mon, Nov 30, 2009 at 1:37 AM, rituraj purohit <span dir="ltr"><<a href="mailto:riturajpurohit@gmail.com">riturajpurohit@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
Dear friends,<br>I am able to plot, RMSD between Time (ps) by following command by using GRACE..<br><br>g_rms -s md.tpr -f md.xtc <br>xmgrace rmsd.xvg<br><br>How we can I plot a graph betwwen RMSD and residue no ..?? <br>
My aim is to find RMSD at each residues. How i can do that?<br><br>looking forward for u r important suggestions.<br><br>Thanking you<br><br>Regards<br><font color="#888888">Rituraj <br>
</font><br>--<br>
gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>
<a href="http://lists.gromacs.org/mailman/listinfo/gmx-users" target="_blank">http://lists.gromacs.org/mailman/listinfo/gmx-users</a><br>
Please search the archive at <a href="http://www.gromacs.org/search" target="_blank">http://www.gromacs.org/search</a> before posting!<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" target="_blank">http://www.gromacs.org/mailing_lists/users.php</a><br></blockquote></div><br>