Hi everybody,
I want to place my counterions close to the charged amino
acids. I am aware of
the fact that even if the counterions are randomly added yet they will
eventually settle during
equlibration. But still I will like to start with a structure that has
counterions close to charged
residues.
I have been going through the archive and the manual but I could not figure out
how to
disable the default option of "-random" while using the "genion" command.
Can anyone guide me through the command that is required to add counterions
based on
potential so that the counterions are closed to the charged residues?
Thanks in advance
Sarbani
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