[gmx-users] g_sdf again

[syma]

Hi,

I am using g_sdf to calculating the spatial distribution of lipid headgroups
around other species in my system.

The thing is when I get the gro file (produced by using the -r flag in
g_sdf) and then look at this in vmd or chimera with my spatial density file
(plt), the reference gro file is not positioned 'in' the box of density
produced by g_sdf.

Is this as it should be and I am interpreting my results incorrectly, or
have I set up my coordinate system incorrectly?

Many thanks in advance for help with this.

-Syma

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Dr Syma Khalid                                  
Department of Biochemistry,       
University of Oxford                       
South Parks Road,
Oxford
OX1 3QU
U.K.



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