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Related Concept Videos

Protein Networks02:26

Protein Networks

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An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
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Protein-protein Interfaces02:04

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Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
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Related Experiment Video

Updated: Aug 17, 2025

A Comparative Approach to Characterize the Landscape of Host-Pathogen Protein-Protein Interactions
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HPIPred: Host-pathogen interactome prediction with phenotypic scoring.

Javier Macho Rendón1, Rocio Rebollido-Ríos1, Marc Torrent Burgas1

  • 1Systems Biology of Infection Lab, Department of Biochemistry and Molecular Biology, Universitat Autònoma de Barcelona, Spain.

Computational and Structural Biotechnology Journal
|December 14, 2022
PubMed
Summary

We developed HPIPred, a novel computational tool to predict host-pathogen protein-protein interactions (PPIs). This method prioritizes biologically relevant interactions, aiding in the discovery of new antibacterial drug targets.

Keywords:
BC, Betweenness centralityBacteriaCCC, Cross-correlation coefficientFPR, False positive rateHostPAO1PPI, Protein-protein interactionPR, Precision-recallPathogenProtein-protein interactionPseudomonas aeruginosaROC, Receiver-operating characteristicinteractome

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Area of Science:

  • Computational biology
  • Infectious disease research
  • Drug discovery

Background:

  • Protein-protein interactions (PPIs) are crucial for cellular functions, but host-pathogen PPIs remain poorly understood.
  • Experimental PPI detection is costly and complex for large-scale studies.
  • Computational methods for PPI prediction often yield high false-positive rates.

Purpose of the Study:

  • To develop an accurate computational tool for predicting host-pathogen protein-protein interactions (PPIs).
  • To integrate phenotypic data for prioritizing biologically relevant PPIs.
  • To identify potential antibacterial drug targets by analyzing host-pathogen interactomes.

Main Methods:

  • Developed HPIPred, a prediction tool utilizing numerical encoding of physicochemical properties.
  • Integrated phenotypic data into the prediction model to enhance biological relevance.
  • Screened the *Homo sapiens* and *Pseudomonas aeruginosa* PAO1 proteomes.

Main Results:

  • Generated a host-pathogen interactome comprising 763 interactions.
  • Identified a highly connected network topology within the predicted interactome.
  • Demonstrated the utility of HPIPred in prioritizing PPIs for drug development.

Conclusions:

  • HPIPred offers an effective approach for predicting host-pathogen PPIs.
  • The tool aids in identifying potential antibacterial drug targets.
  • This work contributes to understanding host-pathogen interactions and advancing drug discovery.