Search results for: Snorri Th. Sigurdsson

Items from 1 to 20 out of 47 results

article

Structure and Internal Dynamics of Short RNA Duplexes Determined by a Combination of Pulsed EPR Methods and MD Simulations

Maximilian Gauger, Marcel Heinz, Anna‐Lena J. Halbritter, Lukas S. Stelzl, more

Angewandte Chemie > 136 > 23 > n/a - n/a

We used EPR spectroscopy to characterize the structure of RNA duplexes and their internal twist, stretch and bending motions. We prepared eight 20‐base‐pair‐long RNA duplexes containing the rigid spin‐label Çm, a cytidine analogue, at two positions and acquired orientation‐selective PELDOR/DEER data. By using different frequency bands (X‐, Q‐, G‐band), detailed information about the distance and orientation...

article

Structure and Internal Dynamics of Short RNA Duplexes Determined by a Combination of Pulsed EPR Methods and MD Simulations

Maximilian Gauger, Marcel Heinz, Anna‐Lena J. Halbritter, Lukas S. Stelzl, more

Angewandte Chemie International Edition > 63 > 23 > n/a - n/a

article

Highly Efficient Polarizing Agents for MAS‐DNP of Proton‐Dense Molecular Solids

Rania Harrabi, Thomas Halbritter, Fabien Aussenac, Ons Dakhlaoui, more

Angewandte Chemie > 134 > 12 > n/a - n/a

Efficiently hyperpolarizing proton‐dense molecular solids through dynamic nuclear polarization (DNP) solid‐state NMR is still an unmet challenge. Polarizing agents (PAs) developed so far do not perform well on proton‐rich systems, such as organic microcrystals and biomolecular assemblies. Herein we introduce a new PA, cAsymPol‐POK, and report outstanding hyperpolarization efficiency on 12.76 kDa U‐...

article

Highly Efficient Polarizing Agents for MAS‐DNP of Proton‐Dense Molecular Solids

Rania Harrabi, Thomas Halbritter, Fabien Aussenac, Ons Dakhlaoui, more

Angewandte Chemie International Edition > 61 > 12 > n/a - n/a

article

On the Limited Stability of BDPA Radicals

Sucharita Mandal, Snorri Th. Sigurdsson

Chemistry – A European Journal > 26 > 33 > 7486 - 7491

1,3‐Bis(diphenylene)‐2‐phenylallyl (BDPA)‐based radicals are of interest as polarizing agents for dynamic nuclear polarization (DNP). For this purpose, a BDPA‐nitroxide biradical, employing a phosphodiester linkage, was synthesized. Contrary to what is commonly assumed, BDPA‐derived radicals were observed to have limited stability. Hence, the effects of various factors on the stability of BDPA radicals...

article

Benzoyl‐Protected Hydroxylamines for Improved Chemical Synthesis of Oligonucleotides Containing Nitroxide Spin Labels

Haraldur Y. Juliusson, Anna‐Lena J. Segler, Snorri Th. Sigurdsson

European Journal of Organic Chemistry > 2019 > 23 > 3799 - 3805

Oligonucleotides containing nitroxide spin labels, used in biophysical studies of nucleic acids, are frequently prepared by chemical synthesis. However, during the synthesis of spin‐labeled oligonucleotides, the nitroxides are partially reduced to the corresponding amines. Here we report that a benzoylated hydroxylamine can be used as a protected form of the nitroxide to avoid this reduction. The...

article

Corrigendum to “Quantitative UPLC–MS/MS assay of urinary 2,8-dihydroxyadenine for diagnosis and management of adenine phosphoribosyltransferase deficiency” [J. Chromatogr. B 1036–1037 (2016) 170–177]

Margret Thorsteinsdottir, Unnur A. Thorsteinsdottir, Finnur F. Eiriksson, Hrafnhildur L. Runolfsdottir, more

Journal of Chromatography B > 2018 > 1092 > C > 530

article

Dynamics of Nucleic Acids at Room Temperature Revealed by Pulsed EPR Spectroscopy

Markus Gränz, Nicole Erlenbach, Philipp Spindler, Dnyaneshwar B. Gophane, more

Angewandte Chemie International Edition > 57 > 33 > 10540 - 10543

The investigation of the structure and conformational dynamics of biomolecules under physiological conditions is challenging for structural biology. Although pulsed electron paramagnetic resonance (like PELDOR) techniques provide long‐range distance and orientation information with high accuracy, such studies are usually performed at cryogenic temperatures. At room temperature (RT) PELDOR studies...

article

Dynamics of Nucleic Acids at Room Temperature Revealed by Pulsed EPR Spectroscopy

Markus Gränz, Nicole Erlenbach, Philipp Spindler, Dnyaneshwar B. Gophane, more

Angewandte Chemie > 130 > 33 > 10700 - 10703

article

Purine‐Derived Nitroxides for Noncovalent Spin‐Labeling of Abasic Sites in Duplex Nucleic Acids

Nilesh R. Kamble, Snorri Th. Sigurdsson

Chemistry – A European Journal > 24 > 16 > 4157 - 4164

A series of purine‐based spin labels was prepared for noncovalent spin‐labeling of abasic sites of duplex nucleic acids through hydrogen bonding to an orphan base on the opposing strand and π‐stacking interactions with the flanking bases. Both 1,1,3,3‐tetramethylisoindolin‐2‐yloxyl and 2,2,6,6‐tetramethylpiperidine‐1‐oxyl (TEMPO) were conjugated to either the C2‐ or C6‐position of the purines, yielding...

article

Dynamic Nuclear Polarization Provides New Insights into Chromophore Structure in Phytochrome Photoreceptors

Daniel Stöppler, Chen Song, Barth‐Jan van Rossum, Michel‐Andreas Geiger, more

Angewandte Chemie International Edition > 55 > 52 > 16017 - 16020

Phytochromes are red/far‐red photochromic photoreceptors acting as master regulators of development in higher plants, thereby controlling transcription of about 20 % of their genes. Light‐induced isomerization of the bilin chromophore leads to large rearrangements in protein structure, whereby the role of protonation dynamics and charge distribution is of particular interest. To help unravel the inherent...

article

Dynamic Nuclear Polarization Provides New Insights into Chromophore Structure in Phytochrome Photoreceptors

Daniel Stöppler, Chen Song, Barth‐Jan van Rossum, Michel‐Andreas Geiger, more

Angewandte Chemie > 128 > 52 > 16251 - 16254

article

Quantitative UPLC–MS/MS assay of urinary 2,8-dihydroxyadenine for diagnosis and management of adenine phosphoribosyltransferase deficiency

Margret Thorsteinsdottir, Unnur A. Thorsteinsdottir, Finnur F. Eiriksson, Hrafnhildur L. Runolfsdottir, more

Journal of Chromatography B > 2016 > 1036-1037 > C > 170-177

Adenine phosphoribosyltransferase (APRT) deficiency is a hereditary disorder that leads to excessive urinary excretion of 2,8-dihydroxyadenine (DHA), causing nephrolithiasis and chronic kidney disease. Treatment with allopurinol or febuxostat reduces DHA production and attenuates the renal manifestations. Assessment of DHA crystalluria by urine microscopy is used for therapeutic monitoring, but lacks...

article

Conformationally Restricted Isoindoline‐Derived Spin Labels in Duplex DNA: Distances and Rotational Flexibility by Pulsed Electron–Electron Double Resonance Spectroscopy

Dnyaneshwar B. Gophane, Burkhard Endeward, Thomas F. Prisner, Snorri Th. Sigurdsson

Chemistry – A European Journal > 20 > 48 > 15913 - 15919

Three structurally related isoindoline‐derived spin labels that have different mobilities were incorporated into duplex DNA to systematically study the effect of motion on orientation‐dependent pulsed electron–electron double resonance (PELDOR) measurements. To that end, a new nitroxide spin label, ^ExImU, was synthesized and incorporated into DNA oligonucleotides. ^ExImU is the first example of a conformationally...

article

Rigid 5′-6-locked phenanthroline-derived nucleosides chelated to ruthenium and europium ions

Kristmann Gislason, Snorri Th. Sigurdsson

Bioorganic & Medicinal Chemistry Letters > 2013 > 23 > 1 > 264-267

We describe complexes of ruthenium and europium with rigid, 5′-6-locked 1,10-phenanthroline-containing nucleosides. Both nucleosides were synthesized from condensation of 5-amino-2′-deoxycytidine with the corresponding diketone. The ruthenium nucleoside displayed fluorescence characteristic of polypyridine ruthenium complexes with a maximum at 616nm and a quantum yield of 0.011. Binding of europium...

article

Trityl Radicals: Spin Labels for Nanometer‐Distance Measurements

Gunnar W. Reginsson, Nitin C. Kunjir, Snorri Th. Sigurdsson, Olav Schiemann

Chemistry – A European Journal > 18 > 43 > 13580 - 13584

Spin labelling with trityls: To gather information about the structure and dynamics of trityl radicals, spin‐labelled polymers were measured with pulsed electron–electron double resonance (PELDOR) and double‐quantum coherence (DQC). This study demonstrates that trityl radicals have great potential as spin labels that eliminate some limitations of nitroxide spin labels (see figure).

article

Conformation and dynamics of nucleotides in bulges and symmetric internal loops in duplex DNA studied by EPR and fluorescence spectroscopies

Pavol Cekan, Snorri Th. Sigurdsson

Biochemical and Biophysical Research Communications > 2012 > 420 > 3 > 656-661

The dynamics and conformation of base bulges and internal loops in duplex DNA were studied using the bifunctional spectroscopic probe Ç, which becomes fluorescent (Ç ^f ) upon reduction of the nitroxide functional group, along with EPR and fluorescence spectroscopies. A one-base bulge was in a conformational equilibrium between looped-out and stacked states, the former favored at higher temperature...

article

Site‐Directed Spin Labelling of Nucleic Acids

Sandip A. Shelke, Snorri Th. Sigurdsson

European Journal of Organic Chemistry > 2012 > 12 > 2291 - 2301

The study of the structure and dynamics of the nucleic acids and their complexes with other biomolecules is the basis for understanding their functions. Electron paramagnetic resonance (EPR) spectroscopy is a biophysical technique that in recent years has been increasingly used to investigate nucleic acids. EPR studies require paramagnetic centre(s), usually nitroxide spin‐label(s) that are incorporated...

article

W-band PELDOR with 1kW microwave power: Molecular geometry, flexibility and exchange coupling

Gunnar W. Reginsson, Robert I. Hunter, Paul A.S. Cruickshank, David R. Bolton, more

Journal of Magnetic Resonance > 2012 > 216 > Complete > 175-182

A technique that is increasingly being used to determine the structure and conformational flexibility of biomacromolecules is Pulsed Electron–Electron Double Resonance (PELDOR or DEER), an Electron Paramagnetic Resonance (EPR) based technique. At X-band frequencies (9.5GHz), PELDOR is capable of precisely measuring distances in the range of 1.5–8nm between paramagnetic centres but the orientation...

article

Conformational Flexibility of DNA

Andriy Marko, Vasyl Denysenkov, Dominik Margraf, Pavol Cekan, more

Journal of the American Chemical Society > 2011 > 133 > 34 > 13375 - 13379

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Keywords

EPR SPECTROSCOPY (10)
DNA (6)
DYNAMIC NUCLEAR POLARIZATION (4)
NUCLEIC ACIDS (4)
RNA (4)
PELDOR SPECTROSCOPY (3)
AMINOXYL RADICAL (2)
BIOMOLECULES (2)
DEER (2)
ENDOR SPECTROSCOPY (2)
MAS-DNP (2)
MOLECULAR DYNAMICS (2)
NUCLEAR MAGNETIC RESONANCE (2)
PELDOR (2)
PHARMACEUTICALS (2)
POLARIZING AGENTS (2)
RADICALS (2)
SITE-DIRECTED SPIN-LABELING (2)
SPIN LABELS (2)
3,6-DI-O-TBDMS-CHITOSAN (1)
31P{19F} REDOR (1)
ANTIBIOTICS (1)
ANTITUMOR COMPDS (1)
APRT DEFICIENCY (1)
BASE-DISCRIMINATING FLUOROSIDES (BDFS) (1)
BDPA (1)
CHEMOMETRICS (1)
CHITIN (1)
CHITOSAN (1)
CHLORTETRACYCLINE (1)
CHROMOPHORE (1)
CHROMOPHORES (1)
CLINICAL MASS SPECTROMETRY (1)
CONFORMATIONAL DYNAMICS (1)
CROSS-LINK (1)
D-OPTIMAL DESIGN (1)
DEER SPECTROSCOPY (1)
DEER-SPEKTROSKOPIE (1)
DIPOLAR COUPLING (1)
DIPOLAR RECOUPLING (1)
DNA/RNA (1)
DOUBLE‐QUANTUM COHERENCE (1)
DYNAMIC SIGNATURES (1)
DYNAMISCHE KERNPOLARISATION (1)
ELECTRON PARAMAGNETIC RESONANCE SPECTROSCOPY (1)
ELECTRON SPIN RESONANCE SPECTROSCOPY (1)
EPR-SPEKTROSKOPIE (1)
EPR‐SPEKTROSKOPIE (1)
ESR (1)
EXCHANGE COUPLING (1)
FLUORESCENCE QUENCHING (1)
HAIRPIN RIBOZYME (1)
INTERNUCLEAR DISTANCE (1)
LANTHANIDE (1)
MERCURIC IONS (1)
METAL ION-DEPENDENT RNA CLEAVAGE (1)
METAL–ION COMPLEX (1)
NANOSTRUCTURES (1)
NEOMYCIN B (1)
NITROXIDE (1)
NITROXIDE SPIN LABELS (1)
NITROXIDES (1)
NITROXIDE RADICALS (1)
NMR SPECTROSCOPY (1)
NMR-SPEKTROSKOPIE (1)
NONCOVALENT INTERACTIONS (1)
NUCLEINSÄUREN (1)
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OLIGONUCLEOTIDES (1)
ORIENTATION SELECTIVE PELDOR (1)
PELDOR-SPEKTROSKOPIE (1)
PHENOXAZINE (1)
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PHOTOCHEMISTRY (1)
PHYTOCHROME (1)
PHYTOCHROMES (1)
POLYPYRIDINE (1)
PROTECTION GROUPS (1)
PULSED ELECTRON–ELECTRON DOUBLE RESONANCE (1)
RADICAL STABILITY (1)
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REZEPTOR‐LIGAND‐WECHSELWIRKUNGEN (1)
RIBOSE ZIPPER (1)
RNA DYNAMICS (1)
RNA FOLDING (1)
RNA MODELLING (1)
RNA-METAL ION INTERACTIONS (1)
RNA-RNA CROSS-LINKING (1)
ROTATIONAL-ECHO DOUBLE RESONANCE (1)
SDSL (1)
SENSITATION (1)
SILYLATION (1)
SINGLE NUCLEOTIDE POLYMORPHISMS (SNP) (1)
SITE‐DIRECTED SPIN LABELING (1)
SOLID-STATE NUCLEAR MAGNETIC RESONANCE (1)
SPIN LABELLING (1)
SPINMARKIERUNG (1)
STRUCTURE ELUCIDATION (1)
TERT-BUTYLDIMETHYLSILYL CHLORIDE (1)
THERAPEUTIC DRUG MONITORING (1)
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Chemistry – A European Journal (4)
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European Journal of Organic Chemistry (2)
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Journal of Magnetic Resonance (2)
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INFONA - science communication portal

Search results for: Snorri Th. Sigurdsson

Structure and Internal Dynamics of Short RNA Duplexes Determined by a Combination of Pulsed EPR Methods and MD Simulations

Structure and Internal Dynamics of Short RNA Duplexes Determined by a Combination of Pulsed EPR Methods and MD Simulations

Highly Efficient Polarizing Agents for MAS‐DNP of Proton‐Dense Molecular Solids

Highly Efficient Polarizing Agents for MAS‐DNP of Proton‐Dense Molecular Solids

On the Limited Stability of BDPA Radicals

Benzoyl‐Protected Hydroxylamines for Improved Chemical Synthesis of Oligonucleotides Containing Nitroxide Spin Labels

Corrigendum to “Quantitative UPLC–MS/MS assay of urinary 2,8-dihydroxyadenine for diagnosis and management of adenine phosphoribosyltransferase deficiency” [J. Chromatogr. B 1036–1037 (2016) 170–177]

Dynamics of Nucleic Acids at Room Temperature Revealed by Pulsed EPR Spectroscopy

Dynamics of Nucleic Acids at Room Temperature Revealed by Pulsed EPR Spectroscopy

Purine‐Derived Nitroxides for Noncovalent Spin‐Labeling of Abasic Sites in Duplex Nucleic Acids

Dynamic Nuclear Polarization Provides New Insights into Chromophore Structure in Phytochrome Photoreceptors

Dynamic Nuclear Polarization Provides New Insights into Chromophore Structure in Phytochrome Photoreceptors

Quantitative UPLC–MS/MS assay of urinary 2,8-dihydroxyadenine for diagnosis and management of adenine phosphoribosyltransferase deficiency

Conformationally Restricted Isoindoline‐Derived Spin Labels in Duplex DNA: Distances and Rotational Flexibility by Pulsed Electron–Electron Double Resonance Spectroscopy

Rigid 5′-6-locked phenanthroline-derived nucleosides chelated to ruthenium and europium ions

Trityl Radicals: Spin Labels for Nanometer‐Distance Measurements

Conformation and dynamics of nucleotides in bulges and symmetric internal loops in duplex DNA studied by EPR and fluorescence spectroscopies

Site‐Directed Spin Labelling of Nucleic Acids

W-band PELDOR with 1kW microwave power: Molecular geometry, flexibility and exchange coupling

Conformational Flexibility of DNA

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