(1)H and (19)F NMR, and UV thermal melting studies have established that the stability of d(TCCCCC) is enhanced by the inclusion of a single 2'-fluorine-modified deoxycytidine residue; the results support the notion of the importance of sugar-sugar contacts in stabilising i-motifs in general and reveal that solvation is the cause of the instability of RNA equivalents.
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http://dx.doi.org/10.1039/b804833a | DOI Listing |
JACS Au
September 2024
State Key Laboratory of Chemical Biology, Shanghai Institute of Organic Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200032, China.
Trioxacarcin A (TXN) is a highly potent cytotoxic antibiotic with remarkable structural complexity. The crystal structure of TXN bound to double-stranded DNA (dsDNA) suggested that the TXN interaction might depend on positions of two sugar subunits on the minor and major grooves of dsDNA. LL-D49194α1 (LLD) is a TXN analogue bearing the same polycyclic polyketide scaffold with a distinct glycosylation pattern.
View Article and Find Full Text PDFOrg Biomol Chem
November 2023
State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, Fujian, China.
The present study investigates the standard model of [1,2]-fluorine migration and that triggered by the rearrangement of cyclopropyl-substituted fluoroepoxides. The [1,2]-fluorine migration reaction proceeds a synchronous concerted, tight-ion-pair mechanism. When coupled with other reaction coordinates, the whole reaction follows an asynchronous mechanism, while the [1,2]-fluorince migration unit still retains its tight-ion-pair feature and the reaction coordinates of two C-F distances vary synchronously.
View Article and Find Full Text PDFJ Biol Chem
August 2023
Division of Pathology, National Institute of Health Sciences, Kawasaki, Kanagawa, Japan.
J Biol Chem
May 2020
Department of Chemistry, and Center for Neuroscience Research, University at Albany, SUNY, Albany, New York 12222
Kainate and α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors are two major, closely related receptor subtypes in the glutamate ion channel family. Excessive activities of these receptors have been implicated in a number of central nervous system diseases. Designing potent and selective antagonists of these receptors, especially of kainate receptors, is useful for developing potential treatment strategies for these neurological diseases.
View Article and Find Full Text PDFNucleic Acids Res
August 2019
Basic Research Laboratory, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA.
The potent antiretroviral protein APOBEC3G (A3G) specifically targets and deaminates deoxycytidine nucleotides, generating deoxyuridine, in single stranded DNA (ssDNA) intermediates produced during HIV replication. A non-catalytic domain in A3G binds strongly to RNA, an interaction crucial for recruitment of A3G to the virion; yet, A3G displays no deamination activity for cytidines in viral RNA. Here, we report NMR and molecular dynamics (MD) simulation analysis for interactions between A3Gctd and multiple substrate or non-substrate DNA and RNA, in combination with deamination assays.
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