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Related Experiment Videos

Nonrandomness in protein sequences: evidence for a physically driven stage of evolution?

V S Pande1, A Y Grosberg, T Tanaka

  • 1Department of Physics, Massachusetts Institute of Technology, Cambridge 02139.

Proceedings of the National Academy of Sciences of the United States of America
|December 20, 1994
PubMed
Summary

Protein sequences are not random; they exhibit nonrandomness driven by physical forces. This suggests evolution favors structures that minimize energy, indicating a physically guided evolutionary process.

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Area of Science:

  • Biophysics
  • Evolutionary Biology
  • Computational Biology

Background:

  • Protein sequences, or primary structures, are thought to arise from evolutionary processes.
  • The statistical nature of these sequences, particularly their deviation from randomness, remains an area of investigation.

Purpose of the Study:

  • To investigate the statistical properties of protein sequences.
  • To determine if protein sequences exhibit nonrandomness and characterize its nature.
  • To explore the relationship between sequence nonrandomness and physical properties.

Main Methods:

  • Mapping protein sequences onto random walk trajectories, adapted from DNA sequence analysis.
  • Utilizing three distinct mapping methods based on fundamental amino acid interactions.

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  • Analyzing sequence data to identify deviations from pure randomness.

    • Main Results:

    • Observed significant deviations from random sequences in protein primary structures.
    • Identified that these deviations are directed towards minimizing the energy of the 3D protein structure.
    • The nonrandomness is linked to physical interactions and structural stability.

    Conclusions:

    • Protein sequence evolution is not purely random but influenced by physical constraints.
    • The observed nonrandomness provides evidence for a physically driven component in protein evolution.
    • This suggests that evolutionary pathways may favor sequences that lead to stable, low-energy structures.