AMBER Archive (2009)

Subject: Re: [AMBER] How to obtain amber top and crd from pdb file with POPE lipids?

• Previous message: Baifan Wang: "Re: [AMBER] problem when doing mm/pbsa: bad atom type Br"
• In reply to: decastro_at_physics.usyd.edu.au: "[AMBER] How to obtain amber top and crd from pdb file with POPE lipids?"
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On Mon, 2009-09-28 at 14:52 +1000, decastro_at_physics.usyd.edu.au wrote:
> I went through the amber .lib files in oder to have some hint
> about how to edit the .pdb file, but I can not find anything there
> about the lipids.

Your problem is, obviously, that Amber doesn't come with lipid
parameters. A few people have done membrane simulations with Amber
though. You will have to consult the literature for parameters and
discussions regarding the performance, etc.

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• Previous message: Baifan Wang: "Re: [AMBER] problem when doing mm/pbsa: bad atom type Br"
• In reply to: decastro_at_physics.usyd.edu.au: "[AMBER] How to obtain amber top and crd from pdb file with POPE lipids?"
• Messages sorted by: [ date ] [ thread ] [ subject ] [ author ]