Dear Gromacs's users!
I'd like to simulate some membrane proteins in their native environment. Recently I've found a good tutotial of the same simulation of the KALP peptide in DPPC membrane ( http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/membrane_protein/index.html ). Is there someone who have also tried to make thit tutorial ? First of all its very intresting for me the positioning of the protein in the membrane via specific perl script called infrategro. What values for the cutoff radius as well as measurements of the area per lipid are most adequate for different membrane proteins? Could you also tell me some alternative ways of full algorithm of the protein insertion in the membrane? Thanks, James
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