I think, after creating an index file, you can edit it manually clubbing both Phosphorius and Oxygen atoms together ( considering as a single group). Then specify this group while doing analysis.
On Wed, 16 Jul 2008 minnale wrote : > Thanks for the reply, may be this is trivial question to you >That I know that how to select phosrous atom alone of POPC. >Normally people are using only phosphrous atom or PO4 group ? for density >calculation ,etc analysis. In one article I found that they have done density >analysis for PO4 group. >Could you please tell me which one use it for analysis if PO4 how select by >using make_ndx? >Thanks alot in advance. >
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