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

Fixing Double-strand Breaks02:04

Fixing Double-strand Breaks

15.7K
The double-stranded structure of DNA has two major advantages. First, it serves as a safe repository of genetic information where one strand serves as the back-up in case the other strand is damaged. Second, the double-helical structure can be wrapped around proteins called histones to form nucleosomes, which can then be tightly wound to form chromosomes. This way, DNA chains up to 2 inches long can be contained within microscopic structures in a cell. A double-stranded break not only damages...
15.7K
Fixing Double-strand Breaks02:04

Fixing Double-strand Breaks

4.6K
4.6K
Homologous Recombination02:31

Homologous Recombination

64.8K
The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
64.8K
DNA Topoisomerases02:02

DNA Topoisomerases

36.8K
Topoisomerases are enzymes that relax overwound DNA molecules during various cell processes, including DNA replication and transcription. These enzymes regulate positive and negative DNA supercoiling without changing the nucleotide sequence. DNA overwinding in a clockwise direction results in positively supercoiled DNA, whereas underwinding in a counterclockwise direction produces negatively supercoiled DNA.
Types and Mechanism of action
Topoisomerases are divided into two main types. ...
36.8K
Single-Strand DNA Binding Proteins01:03

Single-Strand DNA Binding Proteins

17.0K
For successful DNA replication, the unwinding of double-stranded DNA must be accompanied by stabilization and protection of the separated single strands of the DNA. This crucial task is performed by single-strand DNA-binding (SSB) proteins. They bind to the DNA in a sequence-independent manner, which means that the nitrogenous bases of the DNA need not be present in a specific order for binding of SSB proteins to it. The binding of SSB proteins straightens single-stranded DNA (ssDNA) and makes...
17.0K
Overview of DNA Repair02:25

Overview of DNA Repair

34.5K
In order to be passed through generations, genomic DNA must be undamaged and error-free. However, every day, DNA in a cell undergoes several thousand to a million damaging events by natural causes and external factors. Ionizing radiation such as UV rays, free radicals produced during cellular respiration, and hydrolytic damage from metabolic reactions can alter the structure of DNA. Damages caused include single-base alteration, base dimerization, chain breaks, and cross-linkage.
Chemically...
34.5K

You might also read

Related Articles

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

Sort by
Same author

The non-covalent stereocontrol of disulfide bonds.

Chemical communications (Cambridge, England)·2026
Same author

A metal-DNA biohybrid as enantioselective artificial photoDNAzyme.

Nature communications·2026
Same author

InterMap: Accelerated Detection of Interaction Fingerprints on Large-Scale Molecular Ensembles.

Journal of chemical theory and computation·2026
Same author

Molecular basis of nick ligation in the nucleosome by DNA Ligase IIIα.

bioRxiv : the preprint server for biology·2026
Same author

Extending Conceptual DFT to Fourth Order: From Quartic Curvature to Third-Order Fukui Response.

Journal of chemical theory and computation·2026
Same author

Patient-Perceived Benefits of Named-Patient Product Sublingual Immunotherapy in Allergic Rhinitis and Asthma: Primary Results From the ERAPP Real-World Cohort Study.

Allergy·2026

Related Experiment Video

Updated: Mar 10, 2026

Visualization of Replisome Encounters with an Antigen Tagged Blocking Lesion
08:24

Visualization of Replisome Encounters with an Antigen Tagged Blocking Lesion

Published on: July 27, 2021

1.7K

Interstrand cross-linking implies contrasting structural consequences for DNA: insights from molecular dynamics.

Emmanuelle Bignon1,2, Tomáš Dršata3, Christophe Morell1

  • 1Univ Lyon, CNRS, Université Claude Bernard Lyon 1, Ens de Lyon, Institut des Sciences Analytiques, UMR 5280, 5 rue de la Doua, F-69100 Villeurbanne, France.

Nucleic Acids Research
|December 18, 2016
PubMed
Summary

Interstrand cross-links (ICLs) are harmful DNA lesions. Molecular dynamics simulations reveal how ICLs affect DNA structure and mechanics, impacting DNA processes and formation yields.

More Related Videos

Author Spotlight: Quantitative Detection of DNA Protein Crosslinks and Their Post-Translational Modifications
10:12

Author Spotlight: Quantitative Detection of DNA Protein Crosslinks and Their Post-Translational Modifications

Published on: April 21, 2023

3.7K
Single-Molecule Real-Time Visualization of DNA Unwinding by CMG Helicase
07:37

Single-Molecule Real-Time Visualization of DNA Unwinding by CMG Helicase

Published on: September 27, 2024

2.6K

Related Experiment Videos

Last Updated: Mar 10, 2026

Visualization of Replisome Encounters with an Antigen Tagged Blocking Lesion
08:24

Visualization of Replisome Encounters with an Antigen Tagged Blocking Lesion

Published on: July 27, 2021

1.7K
Author Spotlight: Quantitative Detection of DNA Protein Crosslinks and Their Post-Translational Modifications
10:12

Author Spotlight: Quantitative Detection of DNA Protein Crosslinks and Their Post-Translational Modifications

Published on: April 21, 2023

3.7K
Single-Molecule Real-Time Visualization of DNA Unwinding by CMG Helicase
07:37

Single-Molecule Real-Time Visualization of DNA Unwinding by CMG Helicase

Published on: September 27, 2024

2.6K

Area of Science:

  • Molecular Biology
  • Biophysics
  • Computational Chemistry

Background:

  • Oxidatively-generated interstrand cross-links (ICLs) are highly toxic DNA lesions.
  • These lesions arise from abasic sites, forming covalent adducts with purines.
  • ICLs pose significant challenges to DNA replication, transcription, and gene regulation by inhibiting strand separation.

Purpose of the Study:

  • To investigate the structural and mechanical properties of DNA sequences containing interstrand cross-links.
  • To provide insights into the DNA embedding of ICLs and their impact on DNA function.
  • To explore how ICLs influence their own formation yields.

Main Methods:

  • Explicit solvent molecular dynamics simulations were employed to study DNA structures.
  • Quantum chemical calculations were utilized to analyze reaction profiles.

Main Results:

  • Simulations elucidated the structures and mechanical properties of DNA with ICLs, addressing a lack of experimental data.
  • The study revealed how ICLs embed within the DNA duplex, hindering strand separation.
  • Quantum chemical calculations indicated that ICL embedding modulates the reaction profile, explaining variations in formation yields.

Conclusions:

  • Molecular dynamics simulations offer valuable insights into the behavior of DNA interstrand cross-links.
  • The structural and mechanical effects of ICLs have profound implications for essential DNA processes.
  • The local DNA environment significantly influences the formation efficiency of these critical lesions.