Published September 5, 2024 | Version v1
Journal article Open

Unveiling the solution structure of a DNA duplex with continuous silver-modified Watson-Crick base pairs

  • 1. National Institute of Chemistry
  • 2. Universidad de Granada
  • 3. Oregon State University
  • 4. Universitat Autònoma de Barcelona
  • 5. University of Chicago

Description

The challenge of transforming organized DNA structures into their metallized counterparts persists in the scientific field. In this context, utilizing DNA molecules modified with 7-deazapurine, provides a transformative solution. In this study, we present the solution structure of a DNA duplex that can be transformed into its metallized equivalent while retaining the natural base pairing arrangement through the creation of silver-modified Watson-Crick base pairs. Unlike previously documented X-ray structures, our research demonstrates the feasibility of preserving the intrinsic DNA self-assembly while incorporating AgI into the double helix, illustrating that the binding of silver does not disrupt the canonical base-pairing organization. Moreover, in our case, the uninterrupted AgI chain deviates from forming conventional straight linear chains; instead, it adheres to a helical arrangement dictated by the underlying DNA structure. This research challenges conventional assumptions and opens the door to precisely design structures based on the organization of highly stable Ag-DNA assemblies.

Data availability

Structure coordinates are deposited at the Protein Data Bank under accession code 9GDM (https://www.wwpdb.org/), and data derived from NMR spectroscopy at the BioMagResBankn under accession code 34942 (https://bmrb.io/). The coordinates of the DFT-optimized structure generated in this study are provided in the Source Data file with this paper. All data were available from the corresponding authors upon request. Source data are provided with this paper.

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Additional details

Identifiers

DOI
10.1038/s41467-024-51876-8
Other
oai:uchicago.tind.io:13553

Funding

Spanish MINECO
PID2020-120186RB-I00
Spanish MICIU
Salvador Madariaga Program
Junta de Andalucia
P20_00702
Slovenian Research Agency
P1-0242
Slovenian Research Agency
J1-1704
Spanish Ministerio de Ciencia e Innovación
PID2022-138479NB-I00
CERIC-ERIC Consortium
20172040
CERIC-ERIC Consortium
20222132

UChicago Information

Division(s)
Pritzker School of Molecular Engineering
Center(s) or Institute(s)
Center for Advanced Radiation Sources