AMBER Archive (2009)

Subject: Re: [AMBER] Time scale of the Protein domain motion ?

From: Chih-Ying Lin (chihying_at_usc.edu)
Date: Sat Oct 17 2009 - 14:46:37 CDT

Hi
what is the definition of the domain motion using MD?
how to simulate or describe the protein domain motion by MD?

Thank you
Lin
 

----- Original Message -----
From: Carlos Simmerling <carlos.simmerling_at_gmail.com>
Date: Saturday, October 17, 2009 12:43 pm
Subject: Re: [AMBER] Time scale of the Protein domain motion ?
To: AMBER Mailing List <amber_at_ambermd.org>

> yes, and even for different kinds of domain motion in the same
> protein.
>
> On Sat, Oct 17, 2009 at 3:36 PM, Chih-Ying Lin <chihying_at_usc.edu>
> wrote:>
> >
> > Hi
> > Can be the time scale of the protein domain motion different for
> different protein?
> >
> > Thank you
> > Lin
> >
> >
> >
> >
> >
> >
> > ----- Original Message -----
> > From: Carlos Simmerling <carlos.simmerling_at_gmail.com>
> > Date: Saturday, October 17, 2009 12:24 pm
> > Subject: Re: [AMBER] Time scale of the Protein domain motion ?
> > To: AMBER Mailing List <amber_at_ambermd.org>
> >
> >> probably not- it's likely to me microseconds at least.
> >>
> >> a nice article to look at might be
> >> Katherine Henzler-Wildman & Dorothee Kern. Dynamic personalities of
> >> proteins. Nature, December 2007
> >>
> >> On Sat, Oct 17, 2009 at 3:18 PM, Chih-Ying Lin <chihying_at_usc.edu>
> >> wrote:>
> >> >
> >> > Hi
> >> > Is the time scale of the protein domain motion within nano-
> second?>> >
> >> > Thank you
> >> > Lin
> >> >
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