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-protein Interfaces02:04

Protein-protein Interfaces

12.5K
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...
12.5K
Ligand Binding Sites02:40

Ligand Binding Sites

12.8K
Proteins are dynamic macromolecules that carry out a wide variety of essential processes; however, the activities of most proteins depend on their interactions with other molecules or ions, known as ligands.
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
12.8K
Protein-Drug Binding: Determination Methods01:22

Protein-Drug Binding: Determination Methods

161
Determining protein-drug binding can be achieved through indirect and direct methods, each providing valuable insights into the interaction between proteins and drugs.
Indirect methods involve isolating the bound drug from its free form in biological samples such as blood, serum, or plasma. These techniques aim to measure the percentage of drugs bound to proteins. Equilibrium dialysis is a commonly used method where the free drug concentration at equilibrium is measured by separating the bound...
161
Conserved Binding Sites01:49

Conserved Binding Sites

4.2K
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...
4.2K
Protein Networks02:26

Protein Networks

3.9K
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,...
3.9K
The Equilibrium Binding Constant and Binding Strength02:18

The Equilibrium Binding Constant and Binding Strength

12.9K
The equilibrium binding constant (Kb) quantifies the strength of a protein-ligand interaction. Kb can be calculated as follows when the reaction is at equilibrium:
12.9K

You might also read

Related Articles

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

Sort by
Same author

Perry Disease: Current Outlook and Advances in Drug Discovery Approach to Symptomatic Treatment.

International journal of molecular sciences·2024
Same author

AR71, Histamine H<sub>3</sub> Receptor Ligand-In Vitro and In Vivo Evaluation (Anti-Inflammatory Activity, Metabolic Stability, Toxicity, and Analgesic Action).

International journal of molecular sciences·2024
Same author

Docking Foundations: From Rigid to Flexible Docking.

Methods in molecular biology (Clifton, N.J.)·2024
Same author

Anti-Inflammatory Activities of 8-Benzylaminoxanthines Showing High Adenosine A<sub>2A</sub> and Dual A<sub>1</sub>/A<sub>2A</sub> Receptor Affinity.

International journal of molecular sciences·2023
Same author

The Potent and Selective Histamine H3 Receptor Antagonist E169 Counteracts Cognitive Deficits and Mitigates Disturbances in the PI3K/AKT/GSK-3β Signaling Pathway in MK801-Induced Amnesia in Mice.

International journal of molecular sciences·2023
Same author

Metabolic and cardiovascular benefits and risks of 4-hydroxy guanabenz hydrochloride: α<sub>2</sub>-adrenoceptor and trace amine-associated receptor 1 ligand.

Pharmacological reports : PR·2023

Related Experiment Video

Updated: Jun 21, 2025

Author Spotlight: Streamlining Protein Target Prediction and Validation via Molecular Docking and CETSA
10:21

Author Spotlight: Streamlining Protein Target Prediction and Validation via Molecular Docking and CETSA

Published on: February 23, 2024

2.5K

Machine Learning Methods in Protein-Protein Docking.

Ilona Michalik1, Kamil J Kuder2

  • 1Department of Technology and Biotechnology of Drugs, Faculty of Pharmacy, Jagiellonian University Medical College, Kraków, Poland.

Methods in Molecular Biology (Clifton, N.J.)
|July 10, 2024
PubMed
Summary

Artificial intelligence (AI) is revolutionizing life sciences, particularly in studying protein-protein interactions. This chapter introduces AI methods for analyzing these interactions, despite challenges like data quality and predicting protein changes.

Keywords:
Artificial intelligenceDeep learningMachine learningProteinProtein–protein dockingProtein–protein interactionStructural biology

More Related Videos

Development of Inhibitors of Protein-protein Interactions through REPLACE: Application to the Design and Development Non-ATP Competitive CDK Inhibitors
10:33

Development of Inhibitors of Protein-protein Interactions through REPLACE: Application to the Design and Development Non-ATP Competitive CDK Inhibitors

Published on: October 26, 2015

11.3K
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

1.8K

Related Experiment Videos

Last Updated: Jun 21, 2025

Author Spotlight: Streamlining Protein Target Prediction and Validation via Molecular Docking and CETSA
10:21

Author Spotlight: Streamlining Protein Target Prediction and Validation via Molecular Docking and CETSA

Published on: February 23, 2024

2.5K
Development of Inhibitors of Protein-protein Interactions through REPLACE: Application to the Design and Development Non-ATP Competitive CDK Inhibitors
10:33

Development of Inhibitors of Protein-protein Interactions through REPLACE: Application to the Design and Development Non-ATP Competitive CDK Inhibitors

Published on: October 26, 2015

11.3K
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

1.8K

Area of Science:

  • Life Sciences
  • Computational Biology
  • Artificial Intelligence

Background:

  • Growing number of publications on artificial intelligence (AI) in life sciences.
  • AI offers vast potential for understanding cellular processes and drug discovery.
  • Protein-protein interactions are critical for biological systems but computationally challenging.

Purpose of the Study:

  • To provide an introduction to AI approaches for studying protein-protein interactions.
  • To describe current algorithms and programs used in AI-driven protein interaction analysis.
  • To highlight challenges in the field, such as data quantity and predicting conformational changes.

Main Methods:

  • Review of various artificial intelligence techniques applicable to protein-protein interaction studies.
  • Description of state-of-the-art algorithms and software tools.
  • Focus on computational approaches for analyzing biological systems.

Main Results:

  • AI methods are increasingly utilized in life sciences for complex biological questions.
  • Significant advancements in computational tools for protein interaction analysis.
  • Ongoing development of new AI algorithms is expected.

Conclusions:

  • AI is a powerful tool for advancing the study of protein-protein interactions.
  • Despite challenges, AI offers promising solutions for biological system understanding and drug discovery.
  • The field is rapidly evolving, with continuous emergence of novel AI techniques.