After loading molecule in VMD, the path
Extensions > Analysis > Ramachandran plot
gives us Ramachandran plot for whole protein.
I need a plot of specific residues, how will I do that ??
There is no such thing as "a Ramachandran Plot (RP) for certain residues." A RP is always generated for the entire protein. In case you are looking for certain residues in a RP, it is just one of the dots in the plot. Refer to the text summary of the RP which accompanies the plot to find out which region in the RP your residue of interest lies. You can click on the dots to identify them.
Dear Vicente Sir,
Thank you for your response. But let me tell you that VMD allows us to do so and I have got it now.
For example, if we have to get plot for His 356 and Thr 360, we need to replace All viz. just below the Molecule Selection Panel in Rama_Plot with following
resid 356 360
and press Enter Key
Similarly we can go for other residues.
Regards,
Mubasher
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