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* <[EMAIL PROTECTED] <mailto:[EMAIL PROTECTED]>> 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* < [EMAIL PROTECTED]
<mailto:[EMAIL PROTECTED]>> 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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