[gmx-users] membrane-protein tutorial

[mohsen ramezanpour]

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
system!!
Besides I get 32 A area per lipid for this step!!!

Please let me know what is the reason.
Thanks in advance
Mohsen
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20110307/8ab2c56f/attachment.html>