thanx @justin..I have seen gromacs web site before posting..the solution of my problem was written in gromacs website was "<span style="color: rgb(204, 0, 0);"> the atom names are expected to match those found in the </span><a style="color: rgb(204, 0, 0);" title="Documentation/File Formats/.rtp File" rel="internal" href="http://www.gromacs.org/Documentation/File_Formats/.rtp_File">.rtp file</a><span style="color: rgb(204, 0, 0);"> that define the building block(s) in your structure"</span>. Now my question is that how can i see or open the .rtp file of particular force field?<br style="color: rgb(204, 0, 0);">
<br><div class="gmail_quote">On Wed, Jun 29, 2011 at 5:24 PM, Justin A. Lemkul <span dir="ltr"><<a href="mailto:jalemkul@vt.edu">jalemkul@vt.edu</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;">
<div class="im"><br>
<br>
rashi parihar wrote:<br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
<br>
HI all ..while running pdb2gmx command .I am getting error "Fatal error:<br>
Atom CT in residue TYR 314 was not found in rtp entry TYR with 20 atoms<br>
while sorting atoms" .what this error mean and how can I rectify this problem?plz help me.<br>
</blockquote>
<br></div>
Please search the mailing list archive and Gromacs website before posting. Nearly all common errors are explained on the website or within a few seconds of searching. For instance:<br>
<br>
<a href="http://www.gromacs.org/Documentation/Errors#Atom_X_in_residue_YYY_not_found_in_rtp_entry" target="_blank">http://www.gromacs.org/<u></u>Documentation/Errors#Atom_X_<u></u>in_residue_YYY_not_found_in_<u></u>rtp_entry</a><br>
<br>
-Justin<br>
<br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
<br>
-- <br><div class="im">
images[12]<br>
“Many Smiles Begin Because Of Another Smile . . . ."<br>
Regards,<br>
Rashi<br>
<br>
</div></blockquote>
<br>
-- <br>
==============================<u></u>==========<br>
<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> | (540) 231-9080<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>
<br>
==============================<u></u>==========<br><font color="#888888">
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</font></blockquote></div><br><br clear="all"><br>-- <br><div> </div>
<div><span style="font-size: 24pt; color: rgb(255, 102, 0); font-family: Wingdings;"><img alt="images[12]" src="cid:image004.jpg@01CBC38D.4DBEB520" height="106" width="99"></span></div>
<div> </div>
<div>“Many Smiles Begin Because Of Another Smile . . . ." <br> <br>Regards,<br>Rashi</div><br>