[gmx-users] How to proceed with energy minimization for Normal Mode Analysis

Anirban Ghosh anirbanz83 at yahoo.co.in
Sat Jun 30 11:54:56 CEST 2007

I am new to GROMACS. I want to perform Normal Mode Analysis of a protein. For that I require a well minimized structure. I have minimized my structure using steepest descent and conjugate gradient. But the structure seems to have got struct in a local energy minima. How should I proceed to get a well minimized structure in order to go for Normal mode Analysis? 
Please suggest any protocol.


  Anirban Ghosh
  M.Tech Bioinformatics
  University of Hyderabad
  Hyderabad - 500 046
  Andhra Pradesh

 Here’s a new way to find what you're looking for - Yahoo! Answers 
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20070630/d756f3f3/attachment.html>

More information about the gromacs.org_gmx-users mailing list