From: Albert (mailmd2011_at_gmail.com)
Date: Wed Feb 29 2012 - 23:54:35 CST

Hi Andrew:
   thanks a lot for your advices. I will try that.

best

On 03/01/2012 02:24 AM, Andrew Jewett wrote:
> I have heard Axel recommend PACKMOL for preparing simulations of
> protein inclusions:
> http://www.ime.unicamp.br/~martinez/packmol/
>
> I hope this helps.
>
> Andrew
> (Packmol and similar programs generate coordinates only and don't
> depend on the force-field, phospholipid molecule, or simulation
> software you are using.)
>
> On Wed, Feb 29, 2012 at 1:33 PM, Albert<mailmd2011_at_gmail.com> wrote:
>> Hello:
>>
>> I've superimposed my homology models with related OPM protein. And now I
>> would like to embed my protein to pre-equilibrated membrane POPE from
>>
>> http://terpconnect.umd.edu/~jbklauda/research/download.html
>>
>> But I found that the position is not correct for the membrane.... Does
>> anybody have any idea how to do it? I am going to use CHARMM36 based POPE
>> for my aligned protein.
>>
>> THX