AMBER Archive (2009)

Subject: Re: [AMBER] What is the Optimum Ph for solvating a protein

From: case (case_at_biomaps.rutgers.edu)
Date: Sun Sep 13 2009 - 16:19:24 CDT

On Sun, Sep 13, 2009, Ashish Runthala wrote:

> So now explain me, if we consider the system neutralized, why the
> charged side chains of amino acids exist in nature.

Don't confuse overall charge neutrality (which is always present, at any pH or
other conditions) with local neutrality at a given site (which will depend on
pH, for example.)

> If i need to change pH of the protein system. What should i do to
> attain it. I need to equilibrate my protein at pH 8.25

This has been discussed many time on the list; a couple of ideas were just
posted a few days ago:

   http://structbio.vanderbilt.edu/archives/amber-archive/2009/4474.php

...dac

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