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

2.9K
2.9K
Protein-protein Interfaces02:04

Protein-protein Interfaces

15.0K
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...
15.0K
Protein-Protein Interfaces02:04

Protein-Protein Interfaces

4.6K
4.6K
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

2.2K
2.2K
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

3.1K
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...
3.1K

You might also read

Related Articles

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

Sort by
Same author

Scalar Fields around Black Hole Binaries in LIGO-Virgo-KAGRA.

Physical review letters·2026
Same author

Developmental toxicity of two organophosphate pesticides in Zebrafish embryo: Comparative and combinatorial assessment of neuro- and cardio-toxicity of sub-lethal concentrations of chlorpyrifos and malathion.

Aquatic toxicology (Amsterdam, Netherlands)·2026
Same author

Morphological organisation of the digestive tract in the stream catfish Pseudecheneis sulcatus (McClelland).

Micron (Oxford, England : 1993)·2024
Same author

First Constraints on Compact Binary Environments from LIGO-Virgo Data.

Physical review letters·2024
Same author

Vitamin E alleviates chlorpyrifos induced glutathione depletion, lipid peroxidation and iron accumulation to inhibit ferroptosis in hepatocytes and mitigate toxicity in zebrafish.

Chemosphere·2024
Same author

Low-latency gravitational wave alert products and their performance at the time of the fourth LIGO-Virgo-KAGRA observing run.

Proceedings of the National Academy of Sciences of the United States of America·2024
Same journal

Corrigendum to: Reviewing the Context of Molecular Modeling to Enhance the Application of Machine Learning Technologies for Safer Bioinformatics.

Protein and peptide letters·2026
Same journal

Corrigendum to: A Preliminary Study on the Antibacterial Activity of the Secretion of the Levantine Water Frog, <i>Pelophylax bedriagae</i> (Camerano, 1882) (Anura:Ranidae).

Protein and peptide letters·2026
Same journal

Potent Antioxidant and Antibacterial Activities of ≤3 kDa Hydrolyzed Sarcoplasmic Proteins from IPB-D1 Chicken.

Protein and peptide letters·2026
Same journal

Hybrid 3D Bioprinted Scaffolds for the Delivery of Peptide Therapeutics.

Protein and peptide letters·2026
Same journal

Targeting α-Synuclein: Current Strategies and Emerging Therapies for Synucleinopathies.

Protein and peptide letters·2026
Same journal

Biocompatible Excipients from Microalgae: Advancing Protein and Peptide Therapeutics through Sustainable Formulation Strategies.

Protein and peptide letters·2026
See all related articles

Related Experiment Video

Updated: Apr 6, 2026

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

7.8K

Modeling proteins as residue interaction networks.

Rajdeep K Grewal, Soumen Roy1

  • 1Bose Institute, 93/1 APC Roy Road, Kolkata 700 009 India. soumen@jcbose.ac.in.

Protein and Peptide Letters
|July 29, 2015
PubMed
Summary
This summary is machine-generated.

This review explores graph theory applications in protein residue interaction networks (RINs). Network analysis reveals insights into protein structure, dynamics, and function, highlighting the importance of amino acid interactions.

More Related Videos

Analyzing Protein Architectures and Protein-Ligand Complexes by Integrative Structural Mass Spectrometry
07:33

Analyzing Protein Architectures and Protein-Ligand Complexes by Integrative Structural Mass Spectrometry

Published on: October 15, 2018

15.2K
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

Related Experiment Videos

Last Updated: Apr 6, 2026

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

7.8K
Analyzing Protein Architectures and Protein-Ligand Complexes by Integrative Structural Mass Spectrometry
07:33

Analyzing Protein Architectures and Protein-Ligand Complexes by Integrative Structural Mass Spectrometry

Published on: October 15, 2018

15.2K
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

Area of Science:

  • Structural Biology
  • Bioinformatics
  • Computational Biology

Background:

  • Proteins, encoded by genes, execute diverse functions with high specificity.
  • Protein specificity is intrinsically linked to their structural conformations.
  • Amino acid residue interactions dictate protein structure and dynamics.

Purpose of the Study:

  • To review recent graph theoretical approaches for analyzing amino acid residue interaction networks (RINs).
  • To elucidate the utility of network formalism in understanding protein properties.
  • To connect network properties to protein structure and function.

Main Methods:

  • Application of graph theory to model protein residue interaction networks (RINs).
  • Analysis of network properties derived from amino acid residue interactions.
  • Comparison of outcomes from various graph theoretical approaches.

Main Results:

  • Graph theoretical methods provide a powerful framework for analyzing protein residue interaction networks (RINs).
  • Network analysis effectively reveals insights into protein dynamical and structural properties.
  • The study highlights the collective behavior of amino acid interactions in determining protein characteristics.

Conclusions:

  • Network formalism is an effective strategy for dissecting complex protein behaviors.
  • Understanding residue interaction networks is crucial for comprehending protein structure-function relationships.
  • Graph theory offers valuable tools for advancing protein science research.