Hi, I obtained the electron density profile for the solvent in protein membrane simulation,
For this I used the following commands: ]$ g_density -f md.xtc -s md.tpr -d z -dens electron -o sol.xvg -ei electrons.dat -symm -n index.ndx Although in md.gro file is seen any water in middle box (hydrophobic region) simulation, Plot shows the electron density of the water is higher in the middle bilayer than the edges. Would any help me to remove this problem? are commands used correctly? Best regards, Afsaneh
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