On 4/3/10 9:19 PM, Justin A. Lemkul wrote:
Chih-Ying Lin wrote:
HI After running DSSP, .eps files are created.
No they aren't; you create .eps files from the .xpm output that do_dssp
generates.
We can see the second structures of the all residues.
I only want to see the change of the second structures of some
specific residues.
How can i do it?
As with most (all) Gromacs analysis tools, create an index group for the
residues you want to analyze. That will require you to re-run your
analysis or otherwise hack your .xpm file (probably not a good idea).
Also, how can I change the thickness of the color band for each residue?
Use an appropriate .m2p file to alter the attributes of the data. An
example is given in the online manual.
The logo indicates the color of different second structure is shown
not clear for me, how can i make the change on it?
Do you want to change the colors assigned, or some other aspect of the
legend? You could, in theory, edit the color assignments in the .xpm file.
With the option
-sss string HE
you can also choose to show only helix and sheet
-Justin
Thank you
Lin
--
David.
________________________________________________________________________
David van der Spoel, PhD, Professor of Biology
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596, 75124 Uppsala, Sweden
phone: 46 18 471 4205 fax: 46 18 511 755
sp...@xray.bmc.uu.se sp...@gromacs.org http://folding.bmc.uu.se
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