krithika krishnaswamy wrote:
hello,

Am a new user to gromacs.how to add water to a bilayer.i tried adding water to entire system and then removed water from sides using tcl script.But its not working. Is there anyway to build lipid layer by layer and add water or something can be done with genconf,genbox command so that water will not enter middle region of bilayer.Please provide me with a detailed procedure.

I gave this link to someone several days ago - http://wiki.gromacs.org/index.php/Membrane_Simulations

Mark
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