Hi<br>I think it is a typical ligand in your pdb file.what do you think?<br>if it be a ligand you can use PRODRG server to make topology file for your ligand and you must edit other files.<br>please read this article: "GROMACS Tutorial for Drug – Enzyme Complex"<br>
best<br>mohsen<br><br><div class="gmail_quote">On Sat, Oct 16, 2010 at 11:32 AM, mohsen ramezanpour <span dir="ltr"><<a href="mailto:ramezanpour.mohsen@gmail.com">ramezanpour.mohsen@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;">Hi<br>I think it is a typical ligand in your pdb file.what do you think?<br>if it be a ligand you can use PRODRG server to make topology file for your ligand and you must edit other files.<br>
please read the attached article.<br>
best<br>mohsen<br><br><div class="gmail_quote"><div><div></div><div class="h5">On Sat, Oct 16, 2010 at 11:04 AM, leila karami <span dir="ltr"><<a href="mailto:karami.leila1@gmail.com" target="_blank">karami.leila1@gmail.com</a>></span> wrote:<br>
</div></div><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"><div><div></div><div class="h5">
Hi gromacs users<br><br>I want to study simulation of a protein including calcium ion. Can I use gromacs force fields?<br><br>any help will highly appreciated.<br>
<br></div></div>--<br>
gmx-users mailing list <a href="mailto:gmx-users@gromacs.org" target="_blank">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/Support/Mailing_Lists/Search" target="_blank">http://www.gromacs.org/Support/Mailing_Lists/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" target="_blank">gmx-users-request@gromacs.org</a>.<br>
Can't post? Read <a href="http://www.gromacs.org/Support/Mailing_Lists" target="_blank">http://www.gromacs.org/Support/Mailing_Lists</a><br></blockquote></div><br>
</blockquote></div><br>