10 Questions
What is a Ramachandran plot used for in biochemistry?
It is used to visualize energetically allowed regions for backbone dihedral angles ψ against φ of amino acid residues in protein structure.
Who developed the Ramachandran plot?
G. N. Ramachandran, C. Ramakrishnan, and V. Sasisekharan
What does the ω angle at the peptide bond indicate?
It indicates the partial-double-bond character that keeps the peptide bond planar.
How do the edges of the Ramachandran plot 'wrap'?
The edges of the Ramachandran plot 'wrap' right-to-left and bottom-to-top because dihedral angle values are circular.
What are the different types of backbone conformational regions shown in the Ramachandran plot?
The different types of backbone conformational regions shown in the Ramachandran plot are full radius (solid outline), reduced radius (dashed), and relaxed tau (N-Cα-C) angle (dotted lines).
What is a Ramachandran plot?
A way to visualize energetically allowed regions for backbone dihedral angles ψ against φ of amino acid residues in protein structure.
Who developed the Ramachandran plot?
G. N. Ramachandran, C. Ramakrishnan, and V. Sasisekharan.
What does the ω angle at the peptide bond indicate?
The ω angle at the peptide bond is normally 180°, indicating the planar nature of the peptide bond.
How do the edges of the Ramachandran plot 'wrap'?
The edges of the Ramachandran plot 'wrap' right-to-left and bottom-to-top, as dihedral angle values are circular.
What are the different types of backbone conformational regions shown in the Ramachandran plot?
The Ramachandran plot shows full radius regions in solid outline, reduced radius regions in dashed outline, and relaxed tau (N-Cα-C) angle regions in dotted lines.
Study Notes
Ramachandran Plot
- A Ramachandran plot is a graphical representation of the dihedral angles of a polypeptide chain in a protein, used to visualize and analyze protein structure and conformation.
Development of the Ramachandran Plot
- The Ramachandran plot was developed by G.N. Ramachandran and his colleagues in 1963.
Peptide Bond and ω Angle
- The ω angle at the peptide bond indicates the planarity of the peptide bond, which is typically around 0° or 180°, indicating a planar or nearly planar arrangement.
Plot Edges and Wrapping
- The edges of the Ramachandran plot 'wrap' because the ϕ (phi) and ψ (psi) angles, which represent the dihedral angles of the polypeptide chain, are periodic, with values repeating every 360°.
Backbone Conformational Regions
- The Ramachandran plot shows different types of backbone conformational regions, including:
- α-helix region
- β-sheet region
- Coil region
- Disallowed regions
Test your knowledge of protein structure with this quiz on Ramachandran plots. Learn about the energetically allowed regions for backbone dihedral angles ψ and φ in amino acid residues.
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