Biophysical characterization of DNA binding from single molecule force measurements
KR Chaurasiya, T Paramanathan, MJ McCauley… - Physics of life …, 2010 - Elsevier
Single molecule force spectroscopy is a powerful method that uses the mechanical
properties of DNA to explore DNA interactions. Here we describe how DNA stretching …
properties of DNA to explore DNA interactions. Here we describe how DNA stretching …
[HTML][HTML] Optical tweezers for drug discovery
Highlights•Studying biomolecular folding with optical tweezers grants high dynamic
range.•Combining optical tweezers with molecular dynamics simulation enables accurate …
range.•Combining optical tweezers with molecular dynamics simulation enables accurate …
Molecular structure, DNA binding mode, photophysical properties and recommendations for use of SYBR Gold
PJ Kolbeck, W Vanderlinden… - Nucleic acids …, 2021 - academic.oup.com
SYBR Gold is a commonly used and particularly bright fluorescent DNA stain, however, its
chemical structure is unknown and its binding mode to DNA remains controversial. Here, we …
chemical structure is unknown and its binding mode to DNA remains controversial. Here, we …
Mechanisms of small molecule–DNA interactions probed by single-molecule force spectroscopy
AA Almaqwashi, T Paramanathan… - Nucleic acids …, 2016 - academic.oup.com
There is a wide range of applications for non-covalent DNA binding ligands, and
optimization of such interactions requires detailed understanding of the binding …
optimization of such interactions requires detailed understanding of the binding …
Quantifying force-dependent and zero-force DNA intercalation by single-molecule stretching
ID Vladescu, MJ McCauley, ME Nuñez, I Rouzina… - Nature …, 2007 - nature.com
We used single DNA molecule stretching to investigate DNA intercalation by ethidium and
three ruthenium complexes. By measuring ligand-induced DNA elongation at different …
three ruthenium complexes. By measuring ligand-induced DNA elongation at different …
Torsional sensing of small-molecule binding using magnetic tweezers
J Lipfert, S Klijnhout, NH Dekker - Nucleic acids research, 2010 - academic.oup.com
DNA-binding small molecules are widespread in the cell and heavily used in biological
applications. Here, we use magnetic tweezers, which control the force and torque applied to …
applications. Here, we use magnetic tweezers, which control the force and torque applied to …
Label-Free Electrochemiluminescent Aptasensor with Attomolar Mass Detection Limits Based on a Ru(phen)32+-Double-Strand DNA Composite Film Electrode
XB Yin, YY Xin, Y Zhao - Analytical chemistry, 2009 - ACS Publications
Precisely known ligand-induced conformation change and complex chemical labeling of the
DNA sequence with probe molecules are often needed for the signal generation in most of …
DNA sequence with probe molecules are often needed for the signal generation in most of …
Extracting physical chemistry from mechanics: a new approach to investigate DNA interactions with drugs and proteins in single molecule experiments
MS Rocha - Integrative Biology, 2015 - academic.oup.com
In this review we focus on the idea of establishing connections between the mechanical
properties of DNA–ligand complexes and the physical chemistry of DNA–ligand interactions …
properties of DNA–ligand complexes and the physical chemistry of DNA–ligand interactions …
Force spectroscopy reveals the DNA structural dynamics that govern the slow binding of Actinomycin D
T Paramanathan, I Vladescu, MJ McCauley… - Nucleic acids …, 2012 - academic.oup.com
Actinomycin D (ActD) is a small molecule with strong antibiotic and anticancer activity.
However, its biologically relevant DNA-binding mechanism has never been resolved, with …
However, its biologically relevant DNA-binding mechanism has never been resolved, with …
Mechanisms of DNA binding determined in optical tweezers experiments
MJ McCauley, MC Williams - Biopolymers: Original Research …, 2007 - Wiley Online Library
The last decade has seen rapid development in single molecule manipulation of RNA and
DNA. Measuring the response force for a particular manipulation has allowed the free …
DNA. Measuring the response force for a particular manipulation has allowed the free …