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A Comparative Approach to Characterize the Landscape of Host-Pathogen Protein-Protein Interactions
Published on: July 18, 2013
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From workstations to workbenches: Towards predicting physicochemically viable protein-protein interactions across a
Gayatri Ramakrishnan1, Nagasuma R Chandra, Narayanaswamy Srinivasan
1Indian Institute of Science Mathematics Initiative, Indian Institute of Science, Bangalore, Karnataka, India; Molecular Biophysics Unit, Indian Institute of Science, Bangalore, Karnataka, India.
IUBMB Life
|December 17, 2014
Summary
This study enhances in silico protein-protein interaction prediction by integrating structural and expression data, improving reliability for drug discovery, particularly for Mycobacterium tuberculosis.
Area of Science:
- Computational Biology
- Structural Biology
- Molecular Biology
Background:
- Protein-protein interactions (PPIs) are crucial for cellular processes.
- High-throughput experimental methods identify PPIs but yield false positives.
- Computational PPI prediction often lacks mechanistic detail and reliability.
Purpose of the Study:
- To review computational PPI prediction methods.
- To propose an integrated approach for reliable PPI prediction.
- To assess the credibility of predicted PPIs in a biological context.
Main Methods:
- Review of existing computational PPI prediction approaches.
- Integration of structural information (shape complementarity, interaction energies) at PPI interfaces.
- Incorporation of protein expression and localization data for homologous proteins.
- Application to Mycobacterium tuberculosis H37Rv.
Main Results:
- Demonstrated that structural and expression data improve PPI prediction credibility.
- Identified physicochemically viable PPIs between host and pathogen proteins.
- Highlighted the potential for understanding pathogenesis mechanisms.
Conclusions:
- An integrated approach using structural and expression data enhances PPI prediction reliability.
- This method can reveal molecular mechanisms of pathogenesis.
- Predicted PPIs offer potential targets for drug discovery against Mycobacterium tuberculosis.
Keywords:
Mycobacterium tuberculosishomology-based approacheshost-pathogen interactionsprotein-protein interactionsMore Related Videos
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