AMBER Archive (2006)

Subject: Re: AMBER: How could I simulate lipid membrane with AMBER9.0?

From: Fenghui Fan (fenghui_fan_at_yahoo.com)
Date: Wed Dec 06 2006 - 20:49:09 CST

One simple queastions, if the membrane protein
contains both the hydrophobic part and the hydropholic
part, shoud we make a box containg both water and the
lipid bilayer?

Best regards.

Fenghui Fan

--- ²άΘ½ <tomcao_at_mail.bnu.edu.cn> wrote:

> Hi all
>
> I want to perform MD simulation on membrane protein
> in lipid bilayer
> environment,but how could I set the force field
> parameters for lipid such as DPPC
> membrane?I've found several papers related to
> simulation of lipid membrane using
> AMBER4.0(with OPLS as force field parameter for
> lipid membrane),but I've no idea
> about how to set this in my current issue:AMBER9.0.
>
> Thanks a lot!
> Ran Cao
>
>
>
-----------------------------------------------------------------------
> The AMBER Mail Reflector
> To post, send mail to amber_at_scripps.edu
> To unsubscribe, send "unsubscribe amber" to
> majordomo_at_scripps.edu
>

 
____________________________________________________________________________________
Do you Yahoo!?
Everyone is raving about the all-new Yahoo! Mail beta.
http://new.mail.yahoo.com
-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber_at_scripps.edu
To unsubscribe, send "unsubscribe amber" to majordomo_at_scripps.edu