[gmx-users] membrane-protein tutorial

mohsen ramezanpour ramezanpour.mohsen at gmail.com
Mon Mar 7 14:54:43 CET 2011

Dear all

I am doing Membrane -protein tutorial.
Actually I did each step carefully,I could score down my lipids 26 times.
But there were two problems:
1-I get ~77 A for area per lipid in 26th step not 71 as Dr.Justin has said
2-I tried to do more iteration to make closer my area per lipid to 71,But I
get the following error:
Program grompp, VERSION 4.0.7
Source code file: ../../../../src/kernel/grompp.c, line: 362

Fatal error:
number of coordinates in coordinate file (system_shrink26.gro, 12876)
             does not match topology (topol.top, 6438)

I checked and I found program has added some additional DPPC molecules to my
Besides I get 32 A area per lipid for this step!!!

Please let me know what is the reason.
Thanks in advance
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