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

Single-Strand DNA Binding Proteins01:03

Single-Strand DNA Binding Proteins

14.1K
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...
14.1K

You might also read

Related Articles

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

Sort by
Same author

Photo-Induced Ultra-Fast Duplex Invasion Targeting Long-Range Double-Stranded DNA Using Artificial Nucleotide.

Chembiochem : a European journal of chemical biology·2025
Same author

Correlating Mechanical Properties and Sequence Motifs in Artificial Spider Silk by Targeted Motif Substitution.

ACS biomaterials science & engineering·2024
Same author

Complete genome sequence of <i>Actinoplanes sichuanensis</i> strain 03-723<sup>T</sup>.

Microbiology resource announcements·2023
Same author

Molecular mechanisms of the high performance of spider silks revealed through multi-omics analysis.

Biophysics and physicobiology·2023
Same author

Acceleration of the Deamination of Cytosine through Photo-Crosslinking.

Current issues in molecular biology·2023
Same author

The Role of the Exonic lncRNA PRKDC-210 in Transcription Regulation.

International journal of molecular sciences·2022

Related Experiment Video

Updated: Jul 6, 2025

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes
05:37

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Published on: April 4, 2025

665

UltraFast PhotoInduced double duplex DNA invasion into a 400-mer dsDNA target.

Siddhant Sethi1, Hailili Zumila1, Yasuha Watanabe1

  • 1Biofunctional Medical Engineering Research Area, Japan Advanced Institute of Science and Technology, 1-1 Asahidai, Nomi, Ishikawa, Japan.

Bioorganic & Medicinal Chemistry Letters
|December 28, 2023
PubMed
Summary
This summary is machine-generated.

New photo-induced double-duplex invasion (pDDI) probes significantly enhance DNA cleavage efficiency. Optimized probe design minimizes cross-linking, enabling rapid and effective double-stranded DNA modification.

Keywords:
3-cyanovinylcarbazoleArtificial restriction enzymeDouble-duplex invasionPhoto-cross-linking

More Related Videos

Investigation of Protein Recruitment to DNA Lesions Using 405 Nm Laser Micro-irradiation
12:29

Investigation of Protein Recruitment to DNA Lesions Using 405 Nm Laser Micro-irradiation

Published on: March 20, 2018

9.5K
Advanced Confocal Microscopy Techniques to Study Protein-protein Interactions and Kinetics at DNA Lesions
12:43

Advanced Confocal Microscopy Techniques to Study Protein-protein Interactions and Kinetics at DNA Lesions

Published on: November 12, 2017

11.0K

Related Experiment Videos

Last Updated: Jul 6, 2025

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes
05:37

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Published on: April 4, 2025

665
Investigation of Protein Recruitment to DNA Lesions Using 405 Nm Laser Micro-irradiation
12:29

Investigation of Protein Recruitment to DNA Lesions Using 405 Nm Laser Micro-irradiation

Published on: March 20, 2018

9.5K
Advanced Confocal Microscopy Techniques to Study Protein-protein Interactions and Kinetics at DNA Lesions
12:43

Advanced Confocal Microscopy Techniques to Study Protein-protein Interactions and Kinetics at DNA Lesions

Published on: November 12, 2017

11.0K

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Chemical Biology

Background:

  • Efficient cleavage of double-stranded DNA by artificial restriction moieties is challenging due to difficulties in double-strand invasion.
  • Previous photo-induced double-duplex invasion (pDDI) methods using 3-cyanovinylcarbazole (K)-containing probes showed promise but suffered from low efficiency.
  • Inter-probe cross-linking and limitations in probe design contributed to the reduced efficiency of earlier pDDI techniques.

Purpose of the Study:

  • To address the low efficiency of photo-induced double-duplex invasion (pDDI).
  • To investigate and mitigate the impact of inter-probe and intra-probe cross-linking on pDDI efficiency.
  • To develop an optimized pDDI probe design for enhanced double-stranded DNA cleavage.

Main Methods:

  • Design of novel pDDI probes incorporating 5-cyano uridine to inhibit cross-linking.
  • Systematic evaluation of probe designs to prevent both inter-probe and intra-probe cross-linking.
  • Testing the efficiency of the new pDDI probes on a 400-mer double-stranded DNA target.

Main Results:

  • Identified both inter-probe and intra-probe cross-linking as significant factors reducing pDDI efficiency.
  • Developed pDDI probes specifically designed to inhibit both types of cross-linking.
  • Achieved a drastic increase in pDDI efficiency on double-stranded DNA using the newly designed probes.

Conclusions:

  • Optimized pDDI probe design effectively suppresses cross-linking, leading to significantly improved efficiency.
  • The enhanced pDDI system enables rapid and efficient cleavage of double-stranded DNA.
  • The new probe design represents a breakthrough in artificial DNA restriction technology.