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Structural insights into DNA-stabilized silver clusters.

Danielle Schultz1, Robert G Brinson, Nese Sari

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Silver-DNA nanoclusters show distinct structures and dynamics, with silver ions binding preferentially to nucleobases, influencing DNA strand stability and optical properties for sensor development.

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Area of Science:

  • Biophysical Chemistry
  • Nanotechnology
  • Molecular Biology

Background:

  • Silver nanoclusters with single-stranded DNA (ssDNA) show promise as fluorescent probes and sensors.
  • Understanding the structure and dynamics of these complexes is crucial for their application.

Purpose of the Study:

  • To investigate the structure and dynamics of fluorescent silver-nanoparticle-ssDNA (AgNssDNA) nanoclusters.
  • To elucidate the interaction mechanisms between silver ions and ssDNA.

Main Methods:

  • Analytical ultracentrifugation (AUC)
  • Nuclear magnetic resonance (NMR) spectroscopy
  • Infrared spectroscopy
  • Molecular dynamics (MD) simulations

Main Results:

  • The (AgNssDNA)8+ nanocluster exists as a mixture of Ag15 and Ag16 species.
  • Two main conformational states were observed: extended and spherical, with mobile ssDNA strands.
  • Silver ions (Ag(i)) preferentially bind to nucleobases (cytosine and guanine) over the phosphate backbone, altering DNA structure.
  • Ag(i) exhibits higher affinity for cytosine than guanine, minimal interaction with adenine, and negligible interaction with thymine.

Conclusions:

  • The study provides insights into the structural basis of AgNssDNA nanocluster stability and optical properties.
  • Understanding Ag(i)-nucleobase interactions is key for designing novel ssDNA-based nanocluster sensors.
  • Further characterization of these systems is essential for rational sensor design.