Area Per Lipid

GROMACS version:5.1.4
GROMACS modification: Yes/No
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When we use GridMAT tool for area per lipid calculation. for a bilayer with protein, we obtain two values one with protein and another without protein, which of them is important for us.

I think we must consider the area per lipid with protein

Thank you very much for your help


If you have a protein, the APL with the protein considered is the only meaningful one. The other output is largely there as an FYI to quantify the amount of error you would have had if you ignored the protein.