[Chimera-users] chimera and hydrophobic potentials

Miguel Ortiz Lombardía mol at ysbl.york.ac.uk
Thu Apr 8 04:11:25 PDT 2004


I would like to display the hydrophobic potential of a protein onto its
MSMS surface.

One program that calculates such potentials is GRID (from Molecular
Discovery: http://www.moldiscovery.com/ ) GRID can produce the map in
different formats. One of them is like delphi (grasp mode) map. This
has the drawback that the map has to be 65x65x65 grid points and the
grid points separation has to be an integer starting with 1 Ansgtroem.
Hence, it's not appropriate for medium-big proteins.

The GRID format hasn't  those limitations.

I can __sometimes__ read in chimera (throught the DelphiViewer) the
delphi maps produced by GRID. Sometimes they are unreadable (and this
seems to me more a problem with GRID than with chimera: something
wrong in the header) But even when they are readable I'm not sure
they are covering the region they are supposed to be covering.

Does anyone know if chimera can read any other of the GRID map formats:

GRID (this would be the optimal)

Otherwise: does anybody how to the kind of representation I'm looking
for in any other way?

Thank you for any advice!

Miguel Ortiz Lombardía
email: mol at ysbl.york.ac.uk
Our business in life is not to succeed, but
to continue to fail in good spirits.			R.L. Stevenson

More information about the Chimera-users mailing list