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The Halophile protein database.

Naveen Sharma1, Mohammad Samir Farooqi2, Krishna Kumar Chaturvedi1

  • 1Center for Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, Pusa Campus, New Delhi 110012, India.

Database : the Journal of Biological Databases and Curation
|December 4, 2014
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Summary
This summary is machine-generated.

Halophilic archaea and bacteria adapt to saline conditions through protein modifications. The Halophile Protein Database (HProtDB) catalogs these proteins and their properties, aiding in understanding adaptation mechanisms.

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Area of Science:

  • Microbiology
  • Biochemistry
  • Bioinformatics

Background:

  • Halophilic archaea and bacteria inhabit environments with varying salt concentrations.
  • Protein structure and function are crucial for cellular adaptation to salinity.
  • Understanding these adaptations requires systematic documentation of relevant proteins.

Purpose of the Study:

  • To create a comprehensive database of proteins from halophilic organisms.
  • To document the biochemical and biophysical properties of these proteins.
  • To facilitate research into the adaptation mechanisms of halophiles.

Main Methods:

  • Systematic curation of protein data from halophilic archaea/bacteria.
  • Inclusion of physicochemical properties like molecular weight, pI, amino acid composition, and hydrophilicity.
  • Manual curation to ensure a non-redundant and accurate protein catalog.

Main Results:

  • The Halophile Protein Database (HProtDB) was established.
  • HProtDB contains properties for 59,897 proteins from 21 halophilic strains.
  • Key physicochemical properties relevant to protein structure and function are documented.

Conclusions:

  • HProtDB serves as a valuable resource for studying halophile adaptation.
  • The documented protein properties are essential for understanding adaptation to saline conditions.
  • The database supports research in microbiology, biochemistry, and bioinformatics.