Effects of metal ions on thermal stabilities of DNA duplexes containing homo- and heterochiral mismatched base pairs: comparison of internal and terminal substitutions

Funai, Tatsuya; Adachi, Nahomi; Aotani, Megumi; Wada, Shun‐ichi; Urata, Hidehito

doi:10.1080/15257770.2019.1658116

Cited by 8 publications

(1 citation statement)

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“…[5] Nevertheless, single incorporations of l ‐nucleosides in a Watson–Crick d ‐DNA duplex are tolerated in such way that the overall B‐helix structure and the pairing selectivity is kept intact. [ 3b , 6 ] Also, nonamer duplexes containing silver‐mediated β‐ l /β‐ d ‐dC mismatches in terminal or central positions have been reported [7] (for structures of anomeric and enantiomeric cytidines; Figure 1 ). For anomeric DNA with one strand in β‐ d and the other in α‐ d configuration the situation is different.…”

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confidence: 99%

Anomeric and Enantiomeric 2’‐Deoxycytidines: Base Pair Stability in the Absence and Presence of Silver Ions

Zhang

Budow-Busse

Leonard

et al. 2021

Chemistry A European J

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Dodecamer duplex DNA containing anomeric (α/ β-d) and enantiomeric (β-l/β-d) 2'-deoxycytidine mismatches was studied with respect to base pair stability in the absence and presence of silver ions. Stable duplexes with silver-mediated cytosine-cytosine pairs were formed by all anomeric and enantiomeric combinations. Stability changes were observed depending on the composition of the mismatches. Most strikingly, the new silver-mediated base pair of anomeric α-d-dC with enantiomeric β-l-dC is superior to the well-noted β-d/β-d-dC pair in terms of stability. CD spectra were used to follow global helical changes of DNA structure.

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confidence: 99%

Anomeric and Enantiomeric 2’‐Deoxycytidines: Base Pair Stability in the Absence and Presence of Silver Ions

Zhang

Budow-Busse

Leonard

et al. 2021

Chemistry A European J

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Crystallographic Structure of Novel Types of Ag^I‐Mediated Base Pairs in Non‐canonical DNA Duplex Containing 2′‐O,4′‐C‐Methylene Bridged Nucleic Acids

Nakagawa

Aoyama

Fujii

et al. 2021

Chemistry A European J

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Metal‐mediated base pairs have widespread applications, such as in DNA‐metal nanodevices and sensors. Here, we focused on their sugar conformation in duplexes and observed the crystallographic structure of the non‐canonical DNA/DNA duplex containing 2′‐O,4′‐C‐methylene bridged nucleic acid in the presence of AgI ions. The X‐ray crystallographic structure was successfully obtained at a resolution of 1.5 Å. A novel type of AgI‐mediated base pair between the N1 positions of anti‐conformation of adenines in the duplex was observed. In the central non‐canonical region, a hexad nucleobase structure containing AgI‐mediated base pairs between the N7 positions of guanines was formed. A highly bent non‐canonical structure was formed at the origin of AgI‐mediated base pairs in the central region. The bent duplex structure induced by the addition of AgI ions might become a powerful tool for dynamic structural changes in DNA nanotechnology applications.

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Metal-mediated base pairs in nucleic acid duplexes

Hebenbrock¹,

Müller²

2023

Comprehensive Inorganic Chemistry III

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Effects of metal ions on thermal stabilities of DNA duplexes containing homo- and heterochiral mismatched base pairs: comparison of internal and terminal substitutions

Cited by 8 publications

References 28 publications

Anomeric and Enantiomeric 2’‐Deoxycytidines: Base Pair Stability in the Absence and Presence of Silver Ions

Anomeric and Enantiomeric 2’‐Deoxycytidines: Base Pair Stability in the Absence and Presence of Silver Ions

Crystallographic Structure of Novel Types of Ag^I‐Mediated Base Pairs in Non‐canonical DNA Duplex Containing 2′‐O,4′‐C‐Methylene Bridged Nucleic Acids

Metal-mediated base pairs in nucleic acid duplexes

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Effects of metal ions on thermal stabilities of DNA duplexes containing homo- and heterochiral mismatched base pairs: comparison of internal and terminal substitutions

Cited by 8 publications

References 28 publications

Anomeric and Enantiomeric 2’‐Deoxycytidines: Base Pair Stability in the Absence and Presence of Silver Ions

Anomeric and Enantiomeric 2’‐Deoxycytidines: Base Pair Stability in the Absence and Presence of Silver Ions

Crystallographic Structure of Novel Types of AgI‐Mediated Base Pairs in Non‐canonical DNA Duplex Containing 2′‐O,4′‐C‐Methylene Bridged Nucleic Acids

Metal-mediated base pairs in nucleic acid duplexes

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Product

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Crystallographic Structure of Novel Types of Ag^I‐Mediated Base Pairs in Non‐canonical DNA Duplex Containing 2′‐O,4′‐C‐Methylene Bridged Nucleic Acids