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Physicochemical classification of organisms.

Eloy Vallina Estrada1, Mikael Oliveberg1

  • 1Department of Biochemistry and Biophysics, Arrhenius Laboratories of Natural Sciences, Stockholm University, S-106 91 Stockholm, Sweden.

Proceedings of the National Academy of Sciences of the United States of America
|May 2, 2022
PubMed
Summary
This summary is machine-generated.

Protein surface charge density, often overlooked, orchestrates cellular interactions. Global proteome properties reveal evolutionary adaptations and taxonomic relationships, even at the species level.

Keywords:
functional evolutionintracellular diffusionprotein electrostaticsproteome propertiestaxonomy

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Area of Science:

  • Biophysics
  • Evolutionary Biology
  • Proteomics

Background:

  • Hypervariable protein residues on surfaces are crucial for cellular interactions.
  • Intracellular electrostatics, particularly surface-charge density, guide protein diffusion and partner search.
  • Optimal surface-charge density varies across organisms due to differing intracellular conditions.

Purpose of the Study:

  • To investigate the utility of net-charge density and other proteome-wide physicochemical properties in distinguishing between organisms.
  • To explore the link between proteome properties and functional adaptation.
  • To assess the potential of these properties for taxonomic and evolutionary assignments.

Main Methods:

  • Analysis of global proteome properties, including net-charge density and other physicochemical characteristics.
  • Comparison of proteome properties across different organisms.
  • Correlation of proteome properties with established taxonomic hierarchies and functional adaptations.

Main Results:

  • Global proteome properties successfully distinguish organisms and align with the established taxonomic hierarchy.
  • Proteome-property divergence provides insights into functional adaptations.
  • Significant divergence in proteome properties is often observable at the species level.

Conclusions:

  • Variable gene regions are not entirely free from evolutionary constraints and offer valuable data for functional, taxonomic, and evolutionary analyses.
  • Proteome-wide physicochemical properties serve as a complementary tool for understanding organismal diversity and evolution.
  • The study highlights the significant role of intracellular electrostatics in shaping protein interactions and evolutionary trajectories.