<div class="gmail_quote"><span>Hello, </span><br><br><span>I am very new to GROMACS and needed some help with simple MD simulations. I have amyloid beta peptide (pdb code 1IYT) monomer that I need to place side by side in a water box, energy minimize and run the simulation. I have problems putting them together and creating the new necessary files for the simulation. I can work it out for a single peptide in a solvated system but can't figure out how to run the simulations for both together to see any â-sheet/dimer formation.</span><br>
<span>Please help and be as detailed as possible as I am very new to GROMACS. </span><div>I found an exact similar situation as mine on a thread which is listed below, but even following the thread did not provide the needed help:</div>
<div><a href="http://lists.gromacs.org/pipermail/gmx-users/2007-September/029541.html" target="_blank">http://lists.gromacs.org/pipermail/gmx-users/2007-September/029541.html</a> <br><br><span>Thanks, Prakash.</span></div>
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