Distance measurements between manganese(ii) and nitroxide spin-labels by DEER determine a binding site of Mn2+ in the HP92 loop of ribosomal RNA

2015 ◽  
Vol 17 (23) ◽  
pp. 15098-15102 ◽  
Author(s):  
Ilia Kaminker ◽  
Morgan Bye ◽  
Natanel Mendelman ◽  
Kristmann Gislason ◽  
Snorri Th. Sigurdsson ◽  
...  
Keyword(s):  
Binding Site ◽  
Ribosomal Rna ◽  
Spin Labels ◽  
Distance Measurements ◽  
Electron Resonance ◽  
W Band ◽  
Double Electron ◽  
Nitroxide Spin Labels ◽  
Double Electron Electron Resonance

W-band (95 GHz) double electron–electron resonance (DEER) distance measurements between Mn2+ and nitroxide spin labels were used to determine the location of a Mn2+ binding site within an RNA molecule.

scholarly journals Interaction of triarylmethyl radicals with DNA termini revealed by orientation-selective W-band double electron–electron resonance spectroscopy

2016 ◽  
Vol 18 (42) ◽  
pp. 29549-29554 ◽  
Author(s):  
Matvey V. Fedin ◽  
Georgiy Yu. Shevelev ◽  
Dmitrii V. Pyshnyi ◽  
Victor M. Tormyshev ◽  
Gunnar Jeschke ◽  
...  
Keyword(s):  
Experimental Evidence ◽  
Spin Labels ◽  
Resonance Spectroscopy ◽  
Specific Interactions ◽  
Distance Measurements ◽  
Electron Resonance ◽  
W Band ◽  
Double Electron ◽  
Double Electron Electron Resonance ◽  
Triarylmethyl Radicals

We report the first experimental evidence of specific interactions between DNAs and triarylmethyl spin labels, crucial for EPR distance measurements.

Correction: Distance measurements between manganese(ii) and nitroxide spin-labels by DEER determine a binding site of Mn2+ in the HP92 loop of ribosomal RNA

2015 ◽  
Vol 17 (27) ◽  
pp. 18197-18197
Author(s):  
Ilia Kaminker ◽  
Morgan Bye ◽  
Natanel Mendelman ◽  
Kristmann Gislason ◽  
Snorri Th. Sigurdsson ◽  
...  
Keyword(s):  
Binding Site ◽  
Ribosomal Rna ◽  
Chem Phys ◽  
Spin Labels ◽  
Distance Measurements ◽  
Nitroxide Spin Labels ◽  
Phys Chem Chem Phys

Correction for ‘Distance measurements between manganese(ii) and nitroxide spin-labels by DEER determine a binding site of Mn2+ in the HP92 loop of ribosomal RNA’ by Ilia Kaminker et al., Phys. Chem. Chem. Phys., 2015, 17, 15098–15102.

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.

scholarly journals Strategies to identify and suppress crosstalk signals in double electron–electron resonance (DEER) experiments with gadolinium<sup>III</sup> and nitroxide spin-labeled compounds

2020 ◽  
Vol 1 (2) ◽  
pp. 285-299
Author(s):  
Markus Teucher ◽  
Mian Qi ◽  
Ninive Cati ◽  
Henrik Hintz ◽  
Adelheid Godt ◽  
...  
Keyword(s):  
Relaxation Times ◽  
Molecular Complexes ◽  
Spin Labels ◽  
Electron Resonance ◽  
Molecular Rulers ◽  
Distance Distributions ◽  
Double Electron ◽  
Biomolecular Complexes ◽  
Double Electron Electron Resonance ◽  
Intermolecular Distances

Abstract. Double electron–electron resonance (DEER) spectroscopy applied to orthogonally spin-labeled biomolecular complexes simplifies the assignment of intra- and intermolecular distances, thereby increasing the information content per sample. In fact, various spin labels can be addressed independently in DEER experiments due to spectroscopically nonoverlapping central transitions, distinct relaxation times, and/or transition moments; hence, they are referred to as spectroscopically orthogonal. Molecular complexes which are, for example, orthogonally spin-labeled with nitroxide (NO) and gadolinium (Gd) labels give access to three distinct DEER channels that are optimized to selectively probe NO–NO, NO–Gd, and Gd–Gd distances. Nevertheless, it has been previously recognized that crosstalk signals between individual DEER channels can occur, for example, when a Gd–Gd distance appears in a DEER channel optimized to detect NO–Gd distances. This is caused by residual spectral overlap between NO and Gd spins which, therefore, cannot be considered as perfectly orthogonal. Here, we present a systematic study on how to identify and suppress crosstalk signals that can appear in DEER experiments using mixtures of NO–NO, NO–Gd, and Gd–Gd molecular rulers characterized by distinct, nonoverlapping distance distributions. This study will help to correctly assign the distance peaks in homo- and heterocomplexes of biomolecules carrying not perfectly orthogonal spin labels.

scholarly journals A Gadolinium Spin Label with Both a Narrow Central Transition and Short Tether for Use in Double Electron Electron Resonance Distance Measurements

2019 ◽  
Vol 58 (5) ◽  
pp. 3015-3025 ◽  
Author(s):  
Anokhi Shah ◽  
Amandine Roux ◽  
Matthieu Starck ◽  
Jackie A. Mosely ◽  
Michael Stevens ◽  
...  
Keyword(s):  
Spin Label ◽  
Distance Measurements ◽  
Electron Resonance ◽  
Central Transition ◽  
Double Electron ◽  
Double Electron Electron Resonance
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