[Chimera-users] areaSAS_areaSES

[Elaine Meng]

Hi Gian,
To use "Area/Volume from Web" you need to get a newer version of  
Chimera.  That Web server changed and we had to change Chimera  
accordingly.

However, you do not need to use this tool to calculate areaSAS and  
areaSES.  You only need to display molecular surface in Chimera and  
these are automatically computed, as described here:
http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/ 
representation.html#surfaces
Totals are reported in the Reply Log, and values per atom and per  
residue are assigned as the attributes areaSAS and areaSES.

This feature is also newer than the production release from last  
fall, so I recommend you get a daily build:
http://www.cgl.ucsf.edu/chimera/alpha-downloads.html

It sounds like you were looking at documentation newer than the  
version you had installed.  If you use the documentation from the  
Help menu, it should match what you have installed.  However, in this  
case it is good that you found out about the newer features... now  
you just need the version that includes them!

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                      http://www.cgl.ucsf.edu/home/meng/index.html

On May 1, 2008, at 5:25 PM, De Nicola, Gian wrote:

> To whom it may concern
> I would like to calculate the areaSAS and areasSES using  
> Chimera.This is
> what I do
> Load the structure
> tools
> Surface Binding Analysis
> area/volume from web
> I choose the type of surface I want.
> Click apply then Ok
>  As an output  I get " unexpected output from struc tools server" .
> What am I doing wrong?
> Regards
> Gian