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Selectivity in organic chemistry is generally presumed to arise from energy differences between competing selectivity-determining transition states. However, in cases where static density functional theory (DFT) fails to reproduce experimental product distributions, dynamic effects can be examined to understand the behavior of more complex reaction systems. Previously, we reported a method for nitrogen deletion of secondary amines which relies on the formation of isodiazene intermediates that subsequently extrude dinitrogen with concomitant C-C bond formation via a caged diradical. Herein, a detailed mechanistic analysis of the nitrogen deletion of 1-aryl-tetrahydroisoquinolines is presented, suggesting that in this system the previously determined diradical mechanism undergoes dynamically controlled partitioning to both the normal 1,5-coupling product and an unexpected spirocyclic dearomatized intermediate, which converges to the expected indane by an unusually facile 1,3-sigmatropic rearrangement. This mechanism is not reproduced by static DFT but is supported by quasi-classical molecular dynamics calculations and unifies several unusual observations in this system, including partial chirality transfer, nonstatistical isotopic scrambling at the ethylene bridge, the isolation of spirocyclic dearomatized species in a related heterocyclic series, and the observation that introduction of an 8-substituent dramatically improves enantiospecificity.
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http://dx.doi.org/10.1021/jacs.4c02491 | DOI Listing |
Autophagy
September 2025
Department of Biochemistry and Molecular Biology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Macroautophagy/autophagy is an evolutionarily conserved process through which cells degrade cytoplasmic substances via autophagosomes. During the initiation of autophagosome formation, the ULK/Atg1 complex serves as a scaffold that recruits and regulates downstream ATG/Atg proteins and ATG9/Atg9-containing vesicles. Despite the essential role of the ULK/Atg1 complex, its components have changed during evolution; the ULK complex in mammals consists of ULK1 (or ULK2), RB1CC1, ATG13, and ATG101, whereas the Atg1 complex in the yeast lacks Atg101 but instead has Atg29 and Atg31 along with Atg17.
View Article and Find Full Text PDFArch Microbiol
September 2025
College of Biological Sciences, China Agricultural University, Beijing, 100193, China.
Klebsiella oxytoca is a N-fixing bacterium whose nif (nitrogen fixation) gene expression is controlled by the two antagonistic regulatory proteins NifA and NifL encoded by the nifLA operon. NifA is a transcriptional activator, while NifL inhibits the transcriptional activity of NifA. In order to develop an improved K.
View Article and Find Full Text PDFFungal Biol
October 2025
Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, 255000, Shandong, China; School of Basic Medicine, Qilu Medical University, Zibo, 255300, Shandong, China. Electronic address:
Oleaginous filamentous fungus Mucor circinelloides harbors a GATA transcription activator AreA, which regulates nitrogen metabolism. In our previous study, deletion of AreA resulted in increased lipid production, while its overexpression reduced lipid synthesis. Although it is not a direct lipogenesis regulator, AreA influences metabolic flux by modulating nitrogen utilization pathways, which in turn affects carbon distribution.
View Article and Find Full Text PDFBiochem Biophys Res Commun
August 2025
Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, 730000, China; Key Laboratory of Gene Editing for Breeding, School of Life Sciences, Lanzhou University, Lanzhou, Gansu, 730000, China. Electronic address: xiaochb@lz
Ammonium (NH) toxicity significantly limits nitrogen use efficiency (NUE) in agriculture. Nitrate (NO) supplementation mitigates this toxicity, with the anion channel SLAH3 playing a central role by mediating NO efflux to counteract NH-induced rhizosphere acidification. SLAH3, a plasma membrane protein with ten transmembrane domains and cytosolic N- and C-termini, is intrinsically silent.
View Article and Find Full Text PDFNat Chem
September 2025
Laboratorium für Organische Chemie, ETH Zürich, Zurich, Switzerland.
The ability to selectively edit organic molecules at the atomic level has the potential to streamline lead discovery and optimization in the pharmaceutical and agrochemical industry. While numerous atom insertion and deletion reactions have recently been reported, examples of single atom swaps remain scarce due to the challenge of orchestrating the selective cleavage and formation of multiple chemical bonds around the same atom. Here we report a method for the carbon-to-nitrogen atom swap in N-alkyl indoles, allowing the direct conversion of indoles to the corresponding benzimidazoles.
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