scholarly journals 2′-Alkynyl spin-labelling is a minimally perturbing tool for DNA structural analysis

2020 ◽  
Vol 48 (6) ◽  
pp. 2830-2840 ◽  
Author(s):  
Jack S Hardwick ◽  
Marius M Haugland ◽  
Afaf H El-Sagheer ◽  
Denis Ptchelkine ◽  
Frank R Beierlein ◽  
...  
Keyword(s):  
Epr Spectroscopy ◽  
Spin Labels ◽  
Resonance Spectroscopy ◽  
Conformational Ensemble ◽  
Dna Duplexes ◽  
Paramagnetic Resonance ◽  
Dynamics Simulations ◽  
Electron Paramagnetic ◽  
Spin Labelling

Abstract The determination of distances between specific points in nucleic acids is essential to understanding their behaviour at the molecular level. The ability to measure distances of 2–10 nm is particularly important: deformations arising from protein binding commonly fall within this range, but the reliable measurement of such distances for a conformational ensemble remains a significant challenge. Using several techniques, we show that electron paramagnetic resonance (EPR) spectroscopy of oligonucleotides spin-labelled with triazole-appended nitroxides at the 2′ position offers a robust and minimally perturbing tool for obtaining such measurements. For two nitroxides, we present results from EPR spectroscopy, X-ray crystal structures of B-form spin-labelled DNA duplexes, molecular dynamics simulations and nuclear magnetic resonance spectroscopy. These four methods are mutually supportive, and pinpoint the locations of the spin labels on the duplexes. In doing so, this work establishes 2′-alkynyl nitroxide spin-labelling as a minimally perturbing method for probing DNA conformation.

Ion exchange in alginate gels – dynamic behaviour revealed by electron paramagnetic resonance

Soft Matter ◽  
2015 ◽  
Vol 11 (46) ◽  
pp. 8968-8974 ◽  
Author(s):  
Gabriela Ionita ◽  
Ana Maria Ariciu ◽  
David K. Smith ◽  
Victor Chechik
Keyword(s):  
Electron Paramagnetic Resonance ◽  
Ion Exchange ◽  
Epr Spectroscopy ◽  
Dynamic Behaviour ◽  
Paramagnetic Resonance ◽  
Alginate Gels ◽  
Electron Paramagnetic ◽  
Spin Labelling

Cation and polyanion exchange in alginate gels were monitored by spin labelling and EPR spectroscopy.

scholarly journals Triarylmethyl Radicals: An EPR Study of 13C Hyperfine Coupling Constants

2017 ◽  
Vol 231 (4) ◽  
Author(s):  
Andrey A. Kuzhelev ◽  
Victor M. Tormyshev ◽  
Olga Yu. Rogozhnikova ◽  
Dmitry V. Trukhin ◽  
Tatiana I. Troitskaya ◽  
...  
Keyword(s):  
Electron Paramagnetic Resonance ◽  
Epr Spectroscopy ◽  
Hyperfine Coupling ◽  
Coupling Constants ◽  
Spin Labels ◽  
Spin Probes ◽  
Paramagnetic Resonance ◽  
Hyperfine Coupling Constants ◽  
Electron Paramagnetic ◽  
Triarylmethyl Radicals

AbstractTriarylmethyl (TAM) radicals are widely used in electron paramagnetic resonance (EPR) spectroscopy as spin labels and in EPR imaging as spin probes for

scholarly journals Exploring template-bound dinuclear copper porphyrin nanorings by EPR spectroscopy

2016 ◽  
Vol 7 (12) ◽  
pp. 6952-6960 ◽  
Author(s):  
Sabine Richert ◽  
Jonathan Cremers ◽  
Harry L. Anderson ◽  
Christiane R. Timmel
Keyword(s):  
Electron Paramagnetic Resonance ◽  
Epr Spectroscopy ◽  
Electron Paramagnetic Resonance Spectroscopy ◽  
Molecular Geometry ◽  
Resonance Spectroscopy ◽  
Paramagnetic Resonance ◽  
Copper Porphyrin ◽  
Ligand Interactions ◽  
Electron Paramagnetic ◽  
Metal Ligand

Electron paramagnetic resonance spectroscopy reveals the molecular geometry and metal–ligand interactions in template-bound ten-membered bis-copper porphyrin nanorings.

Nitroxides and nucleic acids: Chemistry and electron paramagnetic resonance (EPR) spectroscopy

2011 ◽  
Vol 83 (3) ◽  
pp. 677-686 ◽  
Author(s):  
Snorri Th. Sigurdsson
Keyword(s):  
Electron Paramagnetic Resonance ◽  
Nucleic Acids ◽  
Epr Spectroscopy ◽  
Noncovalent Interactions ◽  
Spin Labeling ◽  
Structural Features ◽  
Spin Labels ◽  
Abasic Site ◽  
Paramagnetic Resonance ◽  
Electron Paramagnetic

Electron paramagnetic resonance (EPR) spectroscopy has increasingly been applied for the study of nucleic acid structure and dynamics. Such studies require incorporation of free radicals (spin labels) into the biopolymer. The labels can be incorporated during chemical synthesis of the oligomer (phosphoramidite approach) or postsynthetically, by reaction of a spin-labeling reagent with a reactive functional group on the oligonucleotide. Incorporation of the rigid nitroxide spin label Ç is an example of the phosphoramidite method, and reaction of a spin-labeled azide with an alkyne-modified oligomer to yield a triazole-derived, spin-labeled nucleotide illustrates the postsynthetic spin-labeling strategy. Characterization and application of these labels to study structural features of DNA by EPR spectroscopy is discussed. Finally, a new spin-labeling strategy is described for nucleic acids that relies on noncovalent interactions between a spin-labeled nucleobase and an abasic site in duplex DNA.

Delocalized triplet state in porphyrin J-aggregates revealed by EPR spectroscopy

2017 ◽  
Vol 19 (40) ◽  
pp. 27173-27177 ◽  
Author(s):  
Luca Bolzonello ◽  
Marco Albertini ◽  
Elisabetta Collini ◽  
Marilena Di Valentin
Keyword(s):  
Electron Paramagnetic Resonance ◽  
Electronic Structure ◽  
Triplet State ◽  
Epr Spectroscopy ◽  
Electron Paramagnetic Resonance Spectroscopy ◽  
Resonance Spectroscopy ◽  
Paramagnetic Resonance ◽  
Time Resolved ◽  
J Aggregates ◽  
Electron Paramagnetic

In this work, the electronic structure of the triplet state of self-assembled J-aggregates of tetrakis(4-sulfonatophenyl)porphyrin (TPPS) has been characterized by means of time-resolved electron paramagnetic resonance spectroscopy.

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