Everything about Ramachandran Plot totally explained
A
Ramachandran plot (also known as a
Ramachandran map or a
Ramachandran diagram), developed by
Gopalasamudram Narayana Ramachandran, is a way to visualize
dihedral angles φ against ψ of
amino acid residues in
protein structure. It shows the possible
conformations of φ and ψ angles for a
polypeptide.
Mathematically, the Ramachandran plot is the visualization of a
function . The
domain of this function is the
torus. Hence, the conventional Ramachandran plot is a projection of the torus on the plane, resulting in a distorted view and the presence of discontinuities.
One would expect that larger side chains would result in more restrictions and consequently a smaller allowable region in the Ramachandran plot. In practice this doesn't appear to be the case; only the methylene group at the β position has an influence.
Glycine has a hydrogen atom, with a smaller
van der Waals radius, instead of a methyl group at the β position. Hence it's least restricted and this is apparent in the Ramachandran plot for Glycine for which the allowable area is considerably larger.
In contrast, the Ramachandran plot for
proline shows only a very limited number of possible combinations of ψ and φ.
One can also plot the dihedral angles in
polysaccharides in this fashion.
Software
Further Information
Get more info on 'Ramachandran Plot'.
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