<div>Hi</div>
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<div>I am using editconf to try to add water layers on either side of my bilayer. I use the following command:</div>
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<div>genbox -cp popc.gro -box 12.47820 12.35940 10.0 -o solvated.gro -cs spc216.gro -p topology.top</div>
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<div>However, because the center of the bilayer region is less dense, a lot of water molecules are created inside the bilayer.</div>
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<div>- How does one usually edit pdb files in gromacs, in terms of, for example, removing water molecules from the center of a bilayer ?</div>
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<div>Thank you</div>
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<div>-Maria</div>
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<div><br>-- <br>Maria G.<br>Technical University of Denmark<br>Copenhagen </div>