ANINDITA GAYEN wrote:
Dear all,
I have download a POPG(lip 128+Na ion 128) bilayer from
"http://www.softsimu.org/downloads.shtml";. I want to make a bilayer
containing 128 lip/leaflate i.e, with 256 lipids having suqre surface
area (X=Y). With the following commands :
1)"genconf -f popg.pdb -nbox 2 2 1 -dist 0 0 0 -o popc256.pdb"
bilayer becomes 4 times larger with 512 POPG molecules (X=Y).
2)"genconf -f popg.pdb -nbox 2 1 1 -dist 0 0 0 -o popc256.pdb"
bilayer becomes 2 times larger with 256 POPG molecules but, X=2Y.
3)"genconf -f popg.pdb -nbox 1 2 1 -dist 0 0 0 -o popc256.pdb"
bilayer becomes 2 times larger with 256 POPG molecules but, 2X=Y.
please give me any suggestion how I can make a (11*11,i.e 242 lipids )
or (12*12,i.e 288 lipids) bilayer from (8*8,i.e 128 lipids) POPG
bilayer.
Make a 16x16 bilayer, use a visualization program to identify atom
numbers with physical location and then delete a suitable subset of
molecules by hand in a text editor.
Mark
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