AMBER Archive (2005)

Subject: Re: AMBER: residence time of electrons/holes in DNA

From: David LeBard (david.lebard_at_asu.edu)
Date: Wed Aug 17 2005 - 18:43:47 CDT

Hi Ioana,

If you have not already, you may want to take a look at the paper listed
below. In this article one can find calculations of the sequence
dependence of the relative rates of charge transfer in DNA strands.
>From this paper alone, I believe you can make at least a rough estimate
of the sequence dependent residence time of the charge (or hole) in your
DNA. Subsequent articles from both the Berlin and Ratner groups may
also be useful.

Yu. A. Berlin, A. L. Burin, and M. A. Ratner, "On the long-range
transfer in DNA." J. Phys. Chem. A, vol. 104, p. 443 (2000).

Hope this helps,

David LeBard
Dept of Chemistry and Biochemistry
Arizona State University

On Wed, 2005-08-17 at 14:48, ioana_at_pegasus.arc.nasa.gov wrote:
> Hi amber users,
>
> Are there any estimates for residence time of electrons/holes in DNA
> strands, which will be sequence dependent?
> Background: We are interested in knowing if there have been any studies of
> change in DNA topology as a result of charge being localized on base
> pairs. We would like to know if trapped charge on base pairs can change
> DNA topology. Charge can be trapped on bases due to charge tranport,
> induced by space radiation or otherwise. To get a first order inkling of
> if trapped charge will change the conformation, we would like to compare
> the
> (1) residence time of electrons/holes in DNA strands which will be
> sequence dependent
> and
> (2) time required for change in topology/conformation.
>
> Related to (2) we would like to know if some changes in topology have a
> much smaller time scale compared to others
>
> Thank you,
> Ioana
>
> ******************
> Ioana Cozmuta, PhD
> Research Scientist
> Eloret Corporation
> Mail Stop 230-3
> NASA AMES Research Center
> Moffet Field, CA 94035-1000
> Phone: (650) 604-0993
> http://ipt.arc.nasa.gov/cozmuta.html
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