stripping off water from DCD file except structural water

From: Dhiraj Srivastava (
Date: Sun Oct 02 2016 - 22:57:24 CDT

   I want to remove all water but one within the protein from dcd file.
whats the best way to do that. "within x of selection" will also select all
the water on the surface of protein which will be within x Angstrom of
protein which I don't want.

Thank you

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