[Chimera-users] Chimera

[Elaine Meng]

Dear Tarit,
Chimera comes with a complete user manual in HTML format -- choose  
"Help... User's Guide" from the Chimera menu to show it in your web  
browser.  There are several tutorials (choose "Help... Tutorials" in  
the Chimera menu).  All of those things are included in your download.

You can print specific pages from your browser, but if you want a  
whole printable manual, a PDF for version 1.3 can be downloaded from  
the Chimera web site.  It is pretty big (504 pages) and not as well  
organized as the HTML version.
<http://www.cgl.ucsf.edu/chimera/pdf/UsersGuide1.3.pdf>

However, I should mention that Chimera does not do docking.  Chimera  
includes some features that help you prepare structures before  
docking (Dock Prep tool), and for looking at the results after  
docking (ViewDock tool).  For actually running the docking  
calculations, you would need to get another program such as DOCK.   
Here is the DOCK web site:
<http://dock.compbio.ucsf.edu/>

The DOCK site has tutorials, and some of them also use Chimera:
<http://dock.compbio.ucsf.edu/DOCK_6/tutorials/index.htm>

One of the tutorials in the Chimera download includes sample DOCK  
output, and uses the ViewDock tool to look through that output.

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

On Mar 17, 2009, at 8:57 AM, taritkumar MITRA wrote:

> Dear Sir,
> I have just installed windows version of Chimera. I am a retired  
> Chemist taken up Molecular Modeling as a hobby. I have some  
> experience of using Spartan and Hyperchem. I would very much like  
> to use the Chimera specially for studies Docking. Are theire any  
> publication or books which will help me in learning to use Chimera.  
> I f so I would like to buy it. Can you please help?
> With regards
>
> Tarit
> taritmitra at hotmail.com
>