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Related Experiment Videos

Volume changes in protein evolution

M Gerstein1, E L Sonnhammer, C Chothia

  • 1MRC Laboratory of Molecular Biology, Cambridge, U.K.

Journal of Molecular Biology
|March 4, 1994
PubMed
Summary
This summary is machine-generated.

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Protein core evolution shows minimal volume variation, suggesting statistical effects rather than global constraints. Individual core sites exhibit less variation than random sequences, impacting protein sequence-structure relationships.

Area of Science:

  • Biophysics
  • Computational Biology
  • Protein Science

Background:

  • Understanding protein evolution requires analyzing structural changes.
  • Protein core sites are crucial for structural stability and function.
  • Previous studies have not fully elucidated volume variations within protein cores during evolution.

Purpose of the Study:

  • To quantify volume variations in the buried core of proteins during evolution.
  • To compare these variations with those at surface sites and with random sequences.
  • To investigate the implications of these variations for protein sequence-structure relationships.

Main Methods:

  • Analysis of volume variations in the buried core of three protein families.
  • Comparison of observed variations with expected variations from random sequences.

Related Experiment Videos

  • Development of a novel weighting method for protein sequences to account for unequal representation.

    • Main Results:

    • Overall protein core volume variation is small (approx. 2.5%), but individual site variation is higher (approx. 13%).
    • Individual core sites show about half the volume variation of random sequences (13% vs. 30%).
    • Surface sites exhibit volume variation similar to random sequences (24% vs. 28%).

    Conclusions:

    • Observed small core volume variation may be due to the law of large numbers, not global constraints.
    • Core sites display significant conservation, with half strongly conserving volume.
    • Results provide insights into the sequence-structure relationship in proteins.