Long-Range Distance Measurements on Nucleic Acids in Cells by Pulsed EPR Spectroscopy

2011 ◽  
Vol 123 (22) ◽  
pp. 5176-5180 ◽  
Author(s):  
Ivan Krstić ◽  
Robert Hänsel ◽  
Olga Romainczyk ◽  
Joachim W. Engels ◽  
Volker Dötsch ◽  
...  
Keyword(s):  
Nucleic Acids ◽  
Long Range ◽  
Epr Spectroscopy ◽  
Distance Measurements ◽  
Pulsed Epr ◽  
In Cells

Long-Range Distance Measurements on Nucleic Acids in Cells by Pulsed EPR Spectroscopy

2011 ◽  
Vol 50 (22) ◽  
pp. 5070-5074 ◽  
Author(s):  
Ivan Krstić ◽  
Robert Hänsel ◽  
Olga Romainczyk ◽  
Joachim W. Engels ◽  
Volker Dötsch ◽  
...  
Keyword(s):  
Nucleic Acids ◽  
Long Range ◽  
Epr Spectroscopy ◽  
Distance Measurements ◽  
Pulsed Epr ◽  
In Cells

scholarly journals Pulsed EPR spectroscopy distance measurements of DNA internally labelled with Gd3+-DOTA

2015 ◽  
Vol 51 (72) ◽  
pp. 13850-13853 ◽  
Author(s):  
Filip Wojciechowski ◽  
Andreas Groß ◽  
Isabelle T. Holder ◽  
Laura Knörr ◽  
Malte Drescher ◽  
...  
Keyword(s):  
Nucleic Acids ◽  
Epr Spectroscopy ◽  
Signal To Noise ◽  
Distance Measurements ◽  
Pulsed Epr

Gd3+ is increasingly used in intracellular EPR spectroscopy due to its increased superior stability and signal-to-noise ratios. We present a strategy for internally labeling nucleic acids with Gd3+.

scholarly journals Cu2+-based distance measurements by pulsed EPR provide distance constraints for DNA backbone conformations in solution

2020 ◽  
Vol 48 (9) ◽  
pp. e49-e49 ◽  
Author(s):  
Shreya Ghosh ◽  
Matthew J Lawless ◽  
Hanna J Brubaker ◽  
Kevin Singewald ◽  
Michael R Kurpiewski ◽  
...  
Keyword(s):  
Nucleic Acids ◽  
Conformational Changes ◽  
Continuous Wave ◽  
Md Simulations ◽  
Distance Measurements ◽  
Paramagnetic Resonance ◽  
Pulsed Epr ◽  
Distance Distributions ◽  
Dna Backbone ◽  
Double Electron Electron Resonance

Abstract Electron paramagnetic resonance (EPR) has become an important tool to probe conformational changes in nucleic acids. An array of EPR labels for nucleic acids are available, but they often come at the cost of long tethers, are dependent on the presence of a particular nucleotide or can be placed only at the termini. Site directed incorporation of Cu2+-chelated to a ligand, 2,2′dipicolylamine (DPA) is potentially an attractive strategy for site-specific, nucleotide independent Cu2+-labelling in DNA. To fully understand the potential of this label, we undertook a systematic and detailed analysis of the Cu2+-DPA motif using EPR and molecular dynamics (MD) simulations. We used continuous wave EPR experiments to characterize Cu2+ binding to DPA as well as optimize Cu2+ loading conditions. We performed double electron-electron resonance (DEER) experiments at two frequencies to elucidate orientational selectivity effects. Furthermore, comparison of DEER and MD simulated distance distributions reveal a remarkable agreement in the most probable distances. The results illustrate the efficacy of the Cu2+-DPA in reporting on DNA backbone conformations for sufficiently long base pair separations. This labelling strategy can serve as an important tool for probing conformational changes in DNA upon interaction with other macromolecules.

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.

Structural Analysis of Metal Ion Ligation to Nucleotides and Nucleic Acids Using Pulsed EPR Spectroscopy

2002 ◽  
Vol 124 (5) ◽  
pp. 834-842 ◽  
Author(s):  
Charles G. Hoogstraten ◽  
Christopher V. Grant ◽  
Thomas E. Horton ◽  
Victoria J. DeRose ◽  
R. David Britt
Keyword(s):  
Structural Analysis ◽  
Nucleic Acids ◽  
Epr Spectroscopy ◽  
Metal Ion ◽  
Pulsed Epr

scholarly journals A Spirocyclohexyl Nitroxide Amino Acid Spin Label for Pulsed EPR Spectroscopy Distance Measurements

2010 ◽  
Vol 16 (19) ◽  
pp. 5778-5782 ◽  
Author(s):  
Andrzej Rajca ◽  
Velavan Kathirvelu ◽  
Sandip K. Roy ◽  
Maren Pink ◽  
Suchada Rajca ◽  
...  
Keyword(s):  
Amino Acid ◽  
Epr Spectroscopy ◽  
Spin Label ◽  
Distance Measurements ◽  
Pulsed Epr ◽  
Nitroxide Amino Acid

scholarly journals Encoded loop-lanthanide-binding tags for long-range distance measurements in proteins by NMR and EPR spectroscopy

2015 ◽  
Vol 63 (3) ◽  
pp. 275-282 ◽  
Author(s):  
Dominic Barthelmes ◽  
Markus Gränz ◽  
Katja Barthelmes ◽  
Karen N. Allen ◽  
Barbara Imperiali ◽  
...  
Keyword(s):  
Long Range ◽  
Epr Spectroscopy ◽  
Distance Measurements ◽  
Lanthanide Binding Tags
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