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Related Concept Videos

Protein Networks02:26

Protein Networks

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,...
Protein Networks02:26

Protein Networks

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,...
Protein-protein Interfaces02:04

Protein-protein Interfaces

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 polypeptide...
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to form...

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Related Experiment Video

Updated: Jun 25, 2026

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
06:50

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

Published on: January 26, 2024

Protein function prediction--the power of multiplicity.

Robert Rentzsch1, Christine A Orengo

  • 1Institute of Structural and Molecular Biology, University College London, London, WC1E 6BT, UK. rentzsch@biochem.ucl.ac.uk

Trends in Biotechnology
|March 3, 2009
PubMed
Summary

The

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Molecular Biology

Background:

  • Modern biology demands comprehensive protein function understanding.
  • The 'age of multiplicity' emphasizes using diverse tools and data for accurate annotation.
  • Existing methods may introduce or fail to correct database errors.

Purpose of the Study:

  • To systematically review automated protein function prediction methods and resources.
  • To address the complexities and potential confusion arising from the 'age of multiplicity'.
  • To differentiate between individual biochemical and contextual network functions.

Main Methods:

  • Systematic literature review of computational and experimental methods.
  • Categorization of protein function prediction approaches.

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Last Updated: Jun 25, 2026

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
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Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

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A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

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Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances
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Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances

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  • Analysis of resources for automated function annotation.

    • Main Results:

    • Identified a wide array of tools and evidence types for protein function prediction.
    • Highlighted the challenges in integrating multiple data sources and functional aspects.
    • Distinguished between methods focusing on biochemical versus network-level functions.

    Conclusions:

    • A multi-faceted approach is essential for robust protein function annotation in 21st-century biology.
    • Systematic review aids in navigating the complexity of modern prediction tools.
    • Future efforts should focus on integrating diverse functional information to improve accuracy and reduce errors.