Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Protein Networks02:26

Protein Networks

4.7K
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,...
4.7K
Protein Networks02:26

Protein Networks

3.0K
3.0K
Protein-protein Interfaces02:04

Protein-protein Interfaces

15.1K
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...
15.1K
Protein-Protein Interfaces02:04

Protein-Protein Interfaces

4.6K
4.6K
Conserved Binding Sites01:49

Conserved Binding Sites

5.3K
Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
5.3K
Protein Organization01:24

Protein Organization

10.2K
Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence....
10.2K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Barrierless proton and hydrogen atom migrations in photoionized benzaldehyde clusters result in benzyl alcohol formation: an ion-molecule perspective.

Physical chemistry chemical physics : PCCP·2026
Same author

Clinical failure of an extended-pulsed fidaxomicin regimen associated with emergence of a <i>Clostridioides difficile</i> isolate with reduced fidaxomicin susceptibility in an elderly man.

Antimicrobial agents and chemotherapy·2026
Same author

Coupling of lipid phase behavior and protein oligomerization in a lattice model of raft membranes.

Soft matter·2026
Same author

A comparative review of three cloud-based platforms for microbial whole genome sequencing analysis.

Antimicrobial stewardship & healthcare epidemiology : ASHE·2026
Same author

Copper (Cu) for Reducing Environmental Healthcare Associated Infections (CuRE HAI): A 10-year pragmatic copper surface implementation study.

American journal of infection control·2026
Same author

Scale-adjusted distance transform and its applications to segmentation of multimodal images.

Methods (San Diego, Calif.)·2025

Related Experiment Video

Updated: Apr 20, 2026

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells
08:38

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells

Published on: March 3, 2015

14.1K

FunPred-1: protein function prediction from a protein interaction network using neighborhood analysis.

Sovan Saha1, Piyali Chatterjee, Subhadip Basu

  • 1Department of Computer Science and Engineering, Dr. Sudhir Chandra Sur Degree Engineering College, Dumdum, Kolkata, 700074, India.

Cellular & Molecular Biology Letters
|November 27, 2014
PubMed
Summary
This summary is machine-generated.

Predicting protein functions is crucial for understanding biological activities. New methods, FunPred 1.1 and FunPred 1.2, leverage protein interaction networks to infer functions of unannotated proteins, with FunPred 1.2 achieving 87% accuracy.

More Related Videos

Author Spotlight: A Computational Approach to Decipher Amino Acid Preferences in Multispecific Protein-Protein Interactions
06:50

Author Spotlight: A Computational Approach to Decipher Amino Acid Preferences in Multispecific Protein-Protein Interactions

Published on: January 26, 2024

2.7K
A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

70.2K

Related Experiment Videos

Last Updated: Apr 20, 2026

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells
08:38

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells

Published on: March 3, 2015

14.1K
Author Spotlight: A Computational Approach to Decipher Amino Acid Preferences in Multispecific Protein-Protein Interactions
06:50

Author Spotlight: A Computational Approach to Decipher Amino Acid Preferences in Multispecific Protein-Protein Interactions

Published on: January 26, 2024

2.7K
A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

70.2K

Area of Science:

  • Computational Biology
  • Bioinformatics
  • Systems Biology

Background:

  • Proteins drive all biological activities, but many lack annotated functions despite extensive genomic data.
  • Protein interaction networks offer a valuable resource for inferring the functions of unannotated proteins.

Purpose of the Study:

  • To develop novel computational methods for predicting protein functions using network neighborhood properties.
  • To enhance the accuracy of protein function prediction compared to existing state-of-the-art approaches.

Main Methods:

  • Proposed FunPred 1.1, combining neighborhood ratio, protein path connectivity, and relative functional similarity.
  • Developed FunPred 1.2, employing an edge clustering coefficient for heuristic search space reduction.
  • Evaluated methods on yeast protein interaction networks, focusing on hetero-interactions across 8 functional groups.

Main Results:

  • FunPred 1.2 achieved approximately 87% accuracy in predicting protein functions.
  • FunPred 1.2 demonstrated superior performance compared to FunPred 1.1.
  • The developed methods outperformed many existing state-of-the-art protein function prediction techniques.

Conclusions:

  • Network neighborhood properties are effective for predicting protein functions.
  • FunPred 1.2 offers a highly accurate and efficient approach for functional annotation of proteins.
  • Source code and datasets are available for reproducibility and further research.