On Wed, Nov 2, 2011 at 2:06 PM, Alex alexbioi...@yahoo.com wrote:
Dear All
I'd like to perfom a deuterium oerder parameters analysys in a system with
DPPC
+ Protein + Water
I read that I've to make an index file that contains one group each for
every
carbon atom in the acyl-chain (starting
with the carbonyl-carbon and going further down).
Where can I get carbon atoms index in the acyl-chain to group them? Have I
to
open the DPPC in pdbviewer
yes, that's a way to do it.
I need as well to make two index files: for sn1 and sn2 chains of DPPC.
yes, that is correct.
Have I to run g_order in both ndx files (sn1 and sn2)?
yes, that is also correct. make sure to write two different output files
(sn1.out and sn2.out)
Thanks
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