I've a question about the DOPE score and the profile plot you can make
of it using GNUPLOT. I made such a plot with the files from the basic
tutorial. When i do the same for my own data, i don't get a nice plot.
I made the profiles using the script of the tutorial and the pdb files
of my model and template. The data range of the dope score for each
residue is different for my model and the template. So you see the line
of the template with the line of the model far below it in a straight
line (due to the differences in data range) The final DOPE scores are
also different. Does this mean i have a wrong model?
The model i use is the best of 20 generated models and i did check it
with procheck and errat. The last one even gives a good score (84) and
doesn't shows any black areas. So, what's wrong? Does the dope score
not work on my files?
Thanks,
Mattias
-- Student Bio-Informatics Hogeschool Leiden The Netherlands