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Measuring Biomolecular DSC Profiles with Thermolabile Ligands to Rapidly Characterize Folding and Binding Interactions
Published on: November 21, 2017
Multifactorial modulation of binding and dissociation kinetics on two-dimensional DNA nanostructures
Alexander Johnson-Buck1, Jeanette Nangreave, Shuoxing Jiang
1Department of Chemistry, Single Molecule Analysis Group, 930 N. University Avenue, University of Michigan, Ann Arbor, Michigan 48109-1055, USA.
Nano Letters
|May 25, 2013
Summary
Organizing DNA probes on nanopegboards using fluorescence resonance energy transfer (FRET) significantly slows target dissociation. This DNA nanotechnology advance impacts hybridization kinetics and DNA nanodevice performance.
Area of Science:
- Biophysics
- Nanotechnology
- Molecular Biology
Background:
- Oligonucleotide probe arrangement influences hybridization kinetics.
- DNA origami offers a platform for precise nanoscale patterning.
Purpose of the Study:
- To investigate how 2D probe arrays on DNA origami affect target hybridization kinetics and thermodynamics.
- To elucidate the mechanisms behind altered hybridization dynamics in patterned arrays.
Main Methods:
- Single-particle fluorescence resonance energy transfer (FRET) microscopy.
- Systematic variation of probe spacing on DNA origami nanopegboards.
- Analysis of target binding and dissociation rates under varying conditions.
Main Results:
- Dense 2D probe arrays reduced target dissociation rates by an order of magnitude.
- Target binding rates were also reduced, exceeding previous 1D array findings.
- Evidence found for target hopping and electrostatic interactions influencing dissociation.
Conclusions:
- Nanoscale probe patterning on DNA origami dramatically alters hybridization thermodynamics and kinetics.
- Identified mechanisms include target hopping and electrostatic interactions.
- Findings have implications for DNA nanodevices, microarrays, and biosensing applications.
