Hello everyone,
I am working on protein RNA complex and would like to verify the
oligomeric state from the crystal structure by analytical
ultracentrifugation (AUC). To fit data from AUC we need a good estimate of
the partial specific volume of the complex, therefore I wanted to retrieve
this value from my pdb coordinates, in either of the oligomeric states.
My idea was to calculate the volume of the complex:
- I had a look at rwcontents but this gave me only the volume of the cell
and not of the protein itself
- AreaImol does not report the volume (?)
- I also had a look at SURFACE/VOLUME but found it quiet cryptic.
Are there other ways to calculate the volume of a protein/complex from
pdb-coordinates, maybe an alternative to SURFACE/VOLUME? Or is there some
software that directly reports the partial specific volume?
Many thanks in advance
Eike
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