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The unnatural nucleic acid base (uNAB), 6-amino-3-methyl-5-nitropyridin-2(1H)one, often referred to as can form a base pair with the uNAB 2-aminoimidazo[1,2-]-1,3,5-triazin-4(8H)-one (referred to as P) and is analogous to a guanine-cytosine (G-C) pair. However, it is well-known that the nonradiative decay pathway of the P-Z pair is significantly different from that of the G-C pair (Cui et al., , , 605117-605125). In this work, we study the excited state processes in using state-of-the-art multireference methods and dynamical techniques to ascertain the predominant nonradiative channels. We find that unlike in the natural NABs, the excited state processes in are driven primarily by the -NO group rotation. The electron-withdrawing effect of the -NO substituent plays a crucial role. We further ascertained that ultrafast deactivation channels are possible in and identified the stationary point geometries that are responsible for these channels.
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http://dx.doi.org/10.1021/acs.jpca.4c03948 | DOI Listing |
Int J Biol Macromol
August 2025
Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 32 Vavilov St., 119991 Moscow, Russian Federation. Electronic address:
DNA and RNA G-quadruplexes (GQ) are non-canonical G-rich four-stranded structures with proven important roles in major cellular events. DNA GQs are highly polymorphic. Their topology and G-tetrad architecture are strongly influenced by numerous factors.
View Article and Find Full Text PDFChem Pharm Bull (Tokyo)
July 2025
Graduate School of Medical Science, Kyoto Prefectural University of Medicine.
Cell-penetrating peptides (CPPs) hold great potential as tools for drug delivery systems (DDSs). Numerous research groups have developed novel CPPs with enhanced functionality and safety. This review highlights recent advancements in CPP research by my research group and our collaborators.
View Article and Find Full Text PDFSci Rep
July 2025
Cell Biology and Epigenetics, Department of Biology, Technical University of Darmstadt, Schnittspahnstr. 10, Darmstadt, 64287, Germany.
Ultraviolet A and B (UVA 320-400 nm and UVB 280-320 nm) induced cyclobutane-pyrimidine dimers (CPDs) are the most critical lesions caused by environmental sun exposure. Here we show that CPD removal is accelerated when, in addition to UV, cells are simultaneously exposed to water-filtered near-infrared (nIR, 750-1600 nm). The described effect is dose-dependent on the nIR-dose and is found in skin keratinocytes and fibroblasts.
View Article and Find Full Text PDFPhys Chem Chem Phys
June 2025
School of Chemical Sciences, Indian Association for the Cultivation of Science, Kolkata 700032, India.
5-aza-7-deazaguanine (5N7C-G), also known as P, is an unnatural nucleic acid base (NAB) closely related in structure to the natural NAB guanine. It forms a Watson-Crick base pair with the unnatural NAB Z synthesized by Benner and co-workers. We study the ultrafast decay pathways for this modified NAB with high-level multireference methods.
View Article and Find Full Text PDFCurr Protoc
May 2025
Department of Biomolecular Engineering, Graduate School of Engineering, Nagoya University, Nagoya, Japan.
Chemical ligation of nucleic acids is a significant strategy for the establishment of a variety of functional biological tools and other applications. However, the conventional methodology has been suffering from low reaction efficiency or generation of unnatural structures at the ligation site. This article describes an effective chemical ligation method that connects the hydroxyl group and the monophosphate group at the nick site on the template, generating a natural phosphodiester bond.
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