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

Conserved Binding Sites01:49

Conserved Binding Sites

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 analyses the...
Conserved Binding Sites01:49

Conserved Binding Sites

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 analyses the...
Cooperative Binding of Transcription Regulators02:13

Cooperative Binding of Transcription Regulators

Transcriptional regulators bind to specific cis-regulatory sequences in the DNA to regulate gene transcription. These cis-regulatory sequences are very short, usually less than ten nucleotide pairs in length. The short length means that there is a high probability of the exact same sequence randomly occurring throughout the genome.  Since regulators can also bind to groups of similar sequences, this further increases the chances of random binding. Transcriptional regulators form dimers that...
Cooperative Binding of Transcription Regulators02:13

Cooperative Binding of Transcription Regulators

Transcriptional regulators bind to specific cis-regulatory sequences in the DNA to regulate gene transcription. These cis-regulatory sequences are very short, usually less than ten nucleotide pairs in length. The short length means that there is a high probability of the exact same sequence randomly occurring throughout the genome.  Since regulators can also bind to groups of similar sequences, this further increases the chances of random binding. Transcriptional regulators form dimers that...
Ligand Binding and Linkage00:49

Ligand Binding and Linkage

Allosteric proteins have more than one ligand binding site; the binding of a ligand to any of these sites influences the binding of ligands to the other sites. When a protein is allosteric, its binding sites are called coupled or linked.  In the case of enzymes, the site that binds to the substrate is known as the active site and the other site is known as the regulatory site. When a ligand binds to the regulatory site, this leads to conformational changes in the protein that can influence the...
Ligand Binding and Linkage00:49

Ligand Binding and Linkage

Allosteric proteins have more than one ligand binding site; the binding of a ligand to any of these sites influences the binding of ligands to the other sites. When a protein is allosteric, its binding sites are called coupled or linked.  In the case of enzymes, the site that binds to the substrate is known as the active site and the other site is known as the regulatory site. When a ligand binds to the regulatory site, this leads to conformational changes in the protein that can influence the...

You might also read

Related Articles

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

Sort by
Same author

A Clinically Interpretable AI System for Real-Time Quality Control of Transthoracic Echocardiography: Development, Validation, and Deployment.

Journal of the American Society of Echocardiography : official publication of the American Society of Echocardiography·2026
Same author

Effectiveness of lay workers delivering behavioural activation for people with depression: systematic review and meta-analysis.

BJPsych open·2026
Same author

CHP/MMP2 dual-targeting soft mesoporous organosilica nanoparticles loaded with losartan for modulating cardiac fibrosis.

Nanomedicine : nanotechnology, biology, and medicine·2026
Same author

Cannabis use increases surgical, medical, and psychosocial complications after lower extremity fracture fixation and shows compounded risk with concurrent nicotine use.

Scientific reports·2026
Same author

Multimodality Imaging in Myocarditis: Integrating Etiology, Diagnosis, and Risk Stratification.

Current cardiology reports·2026
Same author

Symptom trajectories and self-care patterns in chronic obstructive pulmonary disease and heart failure.

Heart & lung : the journal of critical care·2026
Same journal

TDP-43 proteinopathy as a biomarker and therapeutic target in amyotrophic lateral sclerosis.

Biochemical Society transactions·2026
Same journal

Advancing the monitoring of organelle contact sites in vitro and in vivo.

Biochemical Society transactions·2026
Same journal

Mechanisms influencing transient cytoplasmic protein targeting to intracellular lipid droplets.

Biochemical Society transactions·2026
Same journal

Replication associated nuclear DNA mismatch repair across kingdoms.

Biochemical Society transactions·2026
Same journal

Phosphatases of regenerating liver downregulate PTEN to promote tumorigenesis.

Biochemical Society transactions·2026
Same journal

Implications of Rho GTPase signaling in cancer immunotherapy.

Biochemical Society transactions·2026
See all related articles

Related Experiment Video

Updated: Jun 27, 2026

Characterization at the Molecular Level using Robust Biochemical Approaches of a New Kinase Protein
11:23

Characterization at the Molecular Level using Robust Biochemical Approaches of a New Kinase Protein

Published on: June 30, 2019

Competition between LIM-binding domains.

Jacqueline M Matthews1, Mugdha Bhati, Vanessa J Craig

  • 1School of Molecular and Microbial Biosciences, The University of Sydney, NSW, Australia. j.matthews@usyd.edu.au

Biochemical Society Transactions
|November 22, 2008
PubMed
Summary
This summary is machine-generated.

LIM-only (LMO) and LIM-homeodomain (LIM-HD) proteins use LIM domains to bind the Ldb1 co-factor, influencing development and disease. Competitive binding interactions reveal mechanisms of the

More Related Videos

Comparing the Affinity of GTPase-binding Proteins using Competition Assays
10:37

Comparing the Affinity of GTPase-binding Proteins using Competition Assays

Published on: October 8, 2015

The Development and Application of Biophysical Assays for Evaluating Ternary Complex Formation Induced by Proteolysis Targeting Chimeras (PROTACS)
07:22

The Development and Application of Biophysical Assays for Evaluating Ternary Complex Formation Induced by Proteolysis Targeting Chimeras (PROTACS)

Published on: January 12, 2024

Related Experiment Videos

Last Updated: Jun 27, 2026

Characterization at the Molecular Level using Robust Biochemical Approaches of a New Kinase Protein
11:23

Characterization at the Molecular Level using Robust Biochemical Approaches of a New Kinase Protein

Published on: June 30, 2019

Comparing the Affinity of GTPase-binding Proteins using Competition Assays
10:37

Comparing the Affinity of GTPase-binding Proteins using Competition Assays

Published on: October 8, 2015

The Development and Application of Biophysical Assays for Evaluating Ternary Complex Formation Induced by Proteolysis Targeting Chimeras (PROTACS)
07:22

The Development and Application of Biophysical Assays for Evaluating Ternary Complex Formation Induced by Proteolysis Targeting Chimeras (PROTACS)

Published on: January 12, 2024

Area of Science:

  • Molecular biology
  • Developmental biology
  • Protein-protein interactions

Background:

  • LIM-only (LMO) and LIM-homeodomain (LIM-HD) proteins are crucial for development and implicated in cancers.
  • These proteins form a combinatorial 'LIM code' through interactions with co-factors like Ldb1.
  • LMO and LIM-HD proteins share N-terminal LIM domains that mediate binding to the LIM interaction domain (LID) of Ldb1.

Purpose of the Study:

  • To elucidate the molecular basis of LMO and LIM-HD protein binding to Ldb1(LID).
  • To understand the specificity of Ldb1 binding to the LIM/LIM-HD protein family.
  • To investigate the role of competitive binding in developmental processes.

Main Methods:

  • Structural studies (e.g., X-ray crystallography)
  • Mutagenesis studies to identify key binding residues
  • Biophysical techniques to quantify binding affinities

Main Results:

  • Determined the molecular basis for Ldb1 binding to LMO/LIM-HD LIM domains, explaining binding specificity.
  • Showcased varying affinities of LMO/LIM-HD proteins for Ldb1, impacting functional complex formation.
  • Identified a novel LIM interaction domain in Isl1 that binds Lhx3 similarly to Ldb1(LID).

Conclusions:

  • Competitive binding among LMO, LIM-HD proteins, and partners is a significant mechanism in cell fate specification.
  • Understanding these interactions provides insights into developmental processes and associated diseases.
  • The 'LIM code' is regulated by intricate protein-protein binding dynamics.