AMBER: building nucleic acids

From: mathew k varghese <mathew_kvarghese.yahoo.co.in>
Date: Fri, 8 Jul 2005 05:07:03 +0100 (BST)

Dear AMBER users,

I have some questions about building starting
structures for simulations.

How can I build nucleic acids with bulges, mismatches
etc.? Could I use NUCGEN for this?
How can I change the conformation of a particular base
say, a bulge in a crystal structure (looped out
conformation to stacked in) without altering the
otherbases? Is there any software available for this.
How can I build complexes of nucleic acids with small
molecules?

Thanks in advance
Mathew



===========================================================================

/\/\athew

Mathew K Varghese
Research Scholar
School of Pure and Applied Physics
M.G.University
Kottayam, Kerala
India

email mathew_kvarghese.yahoo.co.in

===========================================================================


                
__________________________________________________________
How much free photo storage do you get? Store your friends 'n family snaps for FREE with Yahoo! Photos http://in.photos.yahoo.com
-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber.scripps.edu
To unsubscribe, send "unsubscribe amber" to majordomo.scripps.edu
Received on Fri Jul 08 2005 - 05:53:00 PDT
Custom Search