[gmx-users] Order parameters of lipid
minnale_gnos at rediffmail.com
Thu Jul 31 11:59:00 CEST 2008
I want to calculate order parameters of palmitoyl and oleyl chains of POPC which ran it for 5ns, so I have done below mentioned steps.
1. First I tried for Palmitoyl, so I made .ndx file by using make_ndx command and selected a C34|a 035|a C36.....a C50.
In index file the palmitoyl chain selected like this C34_O35_C36......C50
2. This index file feed to g_order command
g_order -f .xtc -s .tpr -n palmit_ord.ndx -o order -od scd.xvg -unsat
This programming is running very slowly
Have I done any mistake here?
I would be thankful for your help
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