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CBMAR: a comprehensive β-lactamase molecular annotation resource.

Abhishikha Srivastava1, Neelja Singhal1, Manisha Goel1

  • 1Department of Biophysics and Department of Microbiology, University of Delhi South Campus, Benito Juarez Road, New Delhi 110021, India.

Database : the Journal of Biological Databases and Curation
|December 6, 2014
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Summary

Bacterial β-lactamase enzymes threaten antibiotic effectiveness. The new CBMAR database aids in characterizing these β-lactamases, facilitating the discovery of novel enzymes and understanding antibiotic resistance mechanisms.

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Area of Science:

  • Microbiology
  • Biochemistry
  • Bioinformatics

Background:

  • β-Lactam antibiotics are crucial for treating bacterial infections.
  • Bacterial β-lactamases are a primary mechanism of resistance, hydrolyzing these antibiotics.
  • Evolution of β-lactamases, driven by new antibiotic generations, necessitates advanced characterization tools.

Purpose of the Study:

  • To introduce CBMAR, a comprehensive database for molecular annotation and discovery of β-lactamases.
  • To provide detailed molecular and biochemical characterization data for each β-lactamase family.
  • To support research on antibiotic resistance and the evolution of β-lactamase enzymes.

Main Methods:

  • Database architecture based on Ambler classification (serine and metallo-β-lactamases).
  • Annotation of each family with sequence variability, resistance profiles, inhibitor susceptibility, active sites, fingerprints, mutational profiles, variants, gene location, and phylogenetic trees.
  • Integration of external links to sequence and structure databases, and implementation of BLAST for sequence similarity searches.

Main Results:

  • CBMAR offers a broader scope than existing databases for β-lactamase characterization.
  • The database facilitates the assignment of novel β-lactamase proteins to their respective families using specific fingerprints.
  • Comprehensive annotations enable detailed molecular and biochemical analysis of β-lactamase families.

Conclusions:

  • CBMAR is a valuable resource for researchers studying β-lactamase evolution and antibiotic resistance.
  • The database aids in the discovery and characterization of novel β-lactamases.
  • CBMAR supports the development of strategies to combat bacterial resistance to β-lactam antibiotics.