VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed May 22 2013 - 11:08:40 CDT

Hi,
  The SASA algorithm implemented via the "measure sasa" command in
the current production version of VMD is a simple point-based random
sampling approach on the union of sphere padded by probe radius etc.
Let me know if you have specific questions.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Apr 17, 2013 at 09:04:24AM -0700, Esra Bozkurt wrote:
> Dear All,
> Can anyone tell me which algorithm VMD uses to calculate SASA?
> I went through the source code, nevertheless I have difficulties to
> understand it, since I am very novice on that.
> Thank you,
> Esra 

-- 
NIH Center for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
http://www.ks.uiuc.edu/~johns/           Phone: 217-244-3349
http://www.ks.uiuc.edu/Research/vmd/