<html><body><div style="color:#000; background-color:#fff; font-family:times new roman, new york, times, serif;font-size:12pt"><div><span><br></span></div><div> Dear gmx users,<br>I am doing KALP15 in DPPC following the Justin tutorial http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/membrane_protein/03_solvate.html . In the second step, the first command is grompp as follow:<font face="Arial"><font size="3"><pre>grompp -f minim.mdp -c dppc128.gro -p topol_dppc.top -o em.tpr<br><br>I want to know if the topol_dppc.top in this command is the .top file which produced by pdb2gmx at the beginning of the first step? If not, so what is that?<br><br><br></pre></font></font></div><div>Regards,<br>Shima</div></div></body></html>