[gmx-users] popc

[Itamar Kass]

Shalom,


Try "make_hole.pl -f "input".pdb -o "output".pdb -r 1.2 -lipat P -lipid POP"


Itamar


P.S. look at the pdb file for the atom name of the phosphate atom. I use 
DMPC so it is P, but it is also might be P8 or such.





MGiò wrote:

> Ooops!
> I mean, I'm using popc.itp, of course!
> bye,
> MG
>
> On 5/2/06, *MGiò* <magiofer at gmail.com <mailto:magiofer at gmail.com>> wrote:
>
>     Hi!
>     I'm using the popc.top which I have downloaded from this website
>     http://moose.bio.ucalgary.ca/index.php?page=Downloads
>     and the forcefield I'm using is ffgmx, gromacs forcefield.
>
>     Cheers,
>     MG
>
>
>     On 5/2/06, *mahbubeh zarrabi* < zarrab_m at yahoo.com
>     <mailto:zarrab_m at yahoo.com>> wrote:
>
>         hi
>         I try to use make_hole program to make a hole in POPC.
>         how can i make popc.top?what is forcefield for popc in
>         gromacs?
>         thanks
>         zarrabi
>
>
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