Triplet Fullerenes as Prospective Spin Labels for Nanoscale Distance Measurements by Pulsed Dipolar EPR Spectroscopy

2019 ◽  
Vol 58 (38) ◽  
pp. 13271-13275 ◽  
Author(s):  
Olesya A. Krumkacheva ◽  
Ivan O. Timofeev ◽  
Larisa V. Politanskaya ◽  
Yuliya F. Polienko ◽  
Evgeny V. Tretyakov ◽  
...  
Keyword(s):  
Epr Spectroscopy ◽  
Spin Labels ◽  
Distance Measurements

Triplet Fullerenes as Prospective Spin Labels for Nanoscale Distance Measurements by Pulsed Dipolar EPR Spectroscopy

2019 ◽  
Vol 131 (38) ◽  
pp. 13405-13409 ◽  
Author(s):  
Olesya A. Krumkacheva ◽  
Ivan O. Timofeev ◽  
Larisa V. Politanskaya ◽  
Yuliya F. Polienko ◽  
Evgeny V. Tretyakov ◽  
...  
Keyword(s):  
Epr Spectroscopy ◽  
Spin Labels ◽  
Distance Measurements

Characterization of Bifunctional Spin Labels for Investigating the Structural and Dynamic Properties of Membrane Proteins Using EPR Spectroscopy

2017 ◽  
Vol 121 (39) ◽  
pp. 9185-9195 ◽  
Author(s):  
Indra D. Sahu ◽  
Andrew F. Craig ◽  
Megan M. Dunagum ◽  
Robert M. McCarrick ◽  
Gary A. Lorigan
Keyword(s):  
Membrane Proteins ◽  
Epr Spectroscopy ◽  
Dynamic Properties ◽  
Spin Labels

Versatile Trityl Spin Labels for Nanometer Distance Measurements on Biomolecules In Vitro and within Cells

2016 ◽  
Vol 56 (1) ◽  
pp. 177-181 ◽  
Author(s):  
J. Jacques Jassoy ◽  
Andreas Berndhäuser ◽  
Fraser Duthie ◽  
Sebastian P. Kühn ◽  
Gregor Hagelueken ◽  
...  
Keyword(s):  
Spin Labels ◽  
Distance Measurements

scholarly journals Probing the solution structure of the E. coli multidrug transporter MdfA using DEER distance measurements with nitroxide and Gd(III) spin labels

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Eliane H. Yardeni ◽  
Thorsten Bahrenberg ◽  
Richard A. Stein ◽  
Smriti Mishra ◽  
Elia Zomot ◽  
...  
Keyword(s):  
Solution Structure ◽  
Spin Labels ◽  
Multidrug Transporter ◽  
Distance Measurements ◽  
E Coli

A new approach to distance measurements between two spin labels in the >10 nm range

2017 ◽  
Vol 19 (7) ◽  
pp. 5222-5229 ◽  
Author(s):  
A. Blank
Keyword(s):  
Esr Spectroscopy ◽  
Dipolar Interaction ◽  
Spin Labels ◽  
Interaction Frequency ◽  
Distance Measurements ◽  
New Approach ◽  
Nm Range

ESR spectroscopy can be efficiently used to acquire the distance between two spin labels placed on a macromolecule by measuring their mutual dipolar interaction frequency, as long as the distance is not greater than ∼10 nm.

scholarly journals High-resolution measurement of long-range distances in RNA: pulse EPR spectroscopy with TEMPO-labeled nucleotides

2016 ◽  
Vol 7 (5) ◽  
pp. 3172-3180 ◽  
Author(s):  
Karin Halbmair ◽  
Jan Seikowski ◽  
Igor Tkach ◽  
Claudia Höbartner ◽  
Deniz Sezer ◽  
...  
Keyword(s):  
High Resolution ◽  
Long Range ◽  
Epr Spectroscopy ◽  
Base Pair ◽  
Distance Measurements ◽  
Model Free ◽  
High Resolution Measurement ◽  
Resolution Measurement ◽  
Pair Separation ◽  
Pulse Epr

Distance measurements in RNAs by pulse EPR with TEMPO-labeled nucleotides allow for model free conversion of distances into base-pair separation.

Pulsed electron–electron double resonance: beyond nanometre distance measurements on biomacromolecules

2011 ◽  
Vol 434 (3) ◽  
pp. 353-363 ◽  
Author(s):  
Gunnar W. Reginsson ◽  
Olav Schiemann
Keyword(s):  
Protein Complexes ◽  
Double Resonance ◽  
Resonance Method ◽  
Spin Labels ◽  
Coupling Mechanism ◽  
Distance Measurements ◽  
Paramagnetic Resonance ◽  
Distance Distributions ◽  
Nitroxide Spin Labels ◽  
Amino Acid Radicals

PELDOR (or DEER; pulsed electron–electron double resonance) is an EPR (electron paramagnetic resonance) method that measures via the dipolar electron–electron coupling distances in the nanometre range, currently 1.5–8 nm, with high precision and reliability. Depending on the quality of the data, the error can be as small as 0.1 nm. Beyond mere mean distances, PELDOR yields distance distributions, which provide access to conformational distributions and dynamics. It can also be used to count the number of monomers in a complex and allows determination of the orientations of spin centres with respect to each other. If, in addition to the dipolar through-space coupling, a through-bond exchange coupling mechanism contributes to the overall coupling both mechanisms can be separated and quantified. Over the last 10 years PELDOR has emerged as a powerful new biophysical method without size restriction to the biomolecule to be studied, and has been applied to a large variety of nucleic acids as well as proteins and protein complexes in solution or within membranes. Small nitroxide spin labels, paramagnetic metal ions, amino acid radicals or intrinsic clusters and cofactor radicals have been used as spin centres.

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.

scholarly journals Protein conformation by EPR spectroscopy using gadolinium tags clicked to genetically encoded p-azido-l-phenylalanine

2015 ◽  
Vol 51 (88) ◽  
pp. 15898-15901 ◽  
Author(s):  
E. H. Abdelkader ◽  
A. Feintuch ◽  
X. Yao ◽  
L. A. Adams ◽  
L. Aurelio ◽  
...  
Keyword(s):  
Amino Acids ◽  
Epr Spectroscopy ◽  
Protein Conformation ◽  
Unnatural Amino Acids ◽  
Distance Measurements ◽  
Electron Resonance ◽  
Double Electron ◽  
Double Electron Electron Resonance

First example of gadolinium tags attached to a pair of unnatural amino acids for distance measurements by double electron–electron resonance.

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