AMBER Archive (2006)

Subject: AMBER: Re: Unit of force

From: Kakali Sen (kakali_at_physics.iisc.ernet.in)
Date: Wed Nov 08 2006 - 00:41:30 CST

Dear all,

We have modified amber code to apply constatnt stretching on DNA by applying
an external force.
When we apply force in units of kcal/mol/ang we get a force extension curve
which looks very similar to the experiment one but the force scale is in
between 100-2000 pN rather than between 10-100 pN as in experiment. It is
an order higher.

On the other hand if we say that force is in pN in amber force array then we
have the correct force extension plot (that is between 10 to 100 pN) but then
we have problem in getting the correct stretch modulus.It of one order lesser
than that obtained experimentally.

Thanks for your patience and looking forward for suggestions.
Kakali. 

-- 
This message has been scanned for viruses and
dangerous content by MailScanner, and is
believed to be clean.

-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber_at_scripps.edu
To unsubscribe, send "unsubscribe amber" to majordomo_at_scripps.edu