Ramachandran Analysis of Protein Backbone Dihedral Angles

This Demonstration shows the distribution of backbone dihedral angles for each amino acid in a representative set of human proteins tabulated in Mathematica via the ProteinData command. Available conformations are restricted due to steric clashes of the side chains; Ramachandran analysis reveals that certain conformations are preferentially accessible to amino acids.

SNAPSHOTS

  • [Snapshot]
  • [Snapshot]
  • [Snapshot]

DETAILS

Ramachandran analysis demonstrates that only a subset of the possible values for the backbone dihedral angle in a protein are actually observed in protein structure due to steric repulsions between amino acid side chains. The and angles measure rotations around the N-C and C-C bonds, respectively, and are by convention plotted over a range from to (corresponding to to ).
Most amino acids fall into well-defined regions of the Ramachandran plot (see, e.g. "Ramachandran Plot"). Due to their unique side chains, glycine and proline show significant population of conformations in the traditionally forbidden regions of the Ramachandran plot.
    • Share:

Embed Interactive Demonstration New!

Just copy and paste this snippet of JavaScript code into your website or blog to put the live Demonstration on your site. More details »

Files require Wolfram CDF Player or Mathematica.