Advances in the cellular structural biology of nucleic acids

Evaluation of the Stability of DNA i-Motifs in the Nuclei of Living Mammalian Cells

(2018) Simon Dzatko et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

A Bioresistant Nitroxide Spin Label for In-Cell EPR Spectroscopy: In Vitro and In Oocytes Protein Structural Dynamics Studies

(2018) Ganesan Karthikeyan et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Real-Time In-Cell Nuclear Magnetic Resonance: Ribosome-Targeted Antibiotics Modulate Quinary Protein Interactions

(2018) Leonard Breindel et al.   BIOCHEMISTRY

Advances in the synthesis of nitroxide radicals for use in biomolecule spin labelling

(2018) Marius M. Haugland et al.   CHEMICAL SOCIETY REVIEWS

A Cytidine Phosphoramidite with Protected Nitroxide Spin Label: Synthesis of a Full-Length TAR RNA and Investigation by In-Line Probing and EPR Spectroscopy

(2018) Timo Weinrich et al.   CHEMISTRY-A EUROPEAN JOURNAL

The first successful observation of in-cell NMR signals of DNA and RNA in living human cells

(2018) Yudai Yamaoki et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

Room-temperature distance measurements using RIDME and the orthogonal spin labels trityl/nitroxide

(2018) Andrey A. Kuzhelev et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

Simultaneous Drug Targeting of the Promoter MYC G-Quadruplex and BCL2 i-Motif in Diffuse Large B-Cell Lymphoma Delays Tumor Growth

(2017) Samantha Kendrick et al.   JOURNAL OF MEDICINAL CHEMISTRY

A Versatile Approach to Attachment of Triarylmethyl Labels to DNA for Nanoscale Structural EPR Studies at Physiological Temperatures

(2017) Georgiy Yu. Shevelev et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Structure of a Stable G-Hairpin

(2017) Martin Gajarský et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Insight into the Complexity of the i-Motif and G-Quadruplex DNA Structures Formed in the KRAS Promoter and Subsequent Drug-Induced Gene Repression

(2017) Christine E. Kaiser et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Characterization of human telomere RNA G-quadruplex structures in vitro and in living cells using 19F NMR spectroscopy

(2017) Hong-Liang Bao et al.   NUCLEIC ACIDS RESEARCH

Topological impact of noncanonical DNA structures on Klenow fragment of DNA polymerase

(2017) Shuntaro Takahashi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fluorescent RNA cytosine analogue – an internal probe for detailed structure and dynamics investigations

(2017) Anders Foller Füchtbauer et al.   Scientific Reports

A new carbamidemethyl-linked lanthanoid chelating tag for PCS NMR spectroscopy of proteins in living HeLa cells

(2016) Yuya Hikone et al.   JOURNAL OF BIOMOLECULAR NMR

Perspectives on DNP-enhanced NMR spectroscopy in solutions

(2016) Jan van Bentum et al.   JOURNAL OF MAGNETIC RESONANCE

Interaction of Individual Structural Domains of hnRNP LL with the BCL2 Promoter i-Motif DNA

(2016) Basab Roy et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A Mechanosensor Mechanism Controls the G-Quadruplex/i-Motif Molecular Switch in the MYC Promoter NHE III1

(2016) Caleb Sutherland et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Structural disorder of monomeric α-synuclein persists in mammalian cells

(2016) Francois-Xavier Theillet et al.   NATURE

G-quadruplex structures mark human regulatory chromatin

(2016) Robert Hänsel-Hertsch et al.   NATURE GENETICS

rG4-seq reveals widespread formation of G-quadruplex structures in the human transcriptome

(2016) Chun Kit Kwok et al.   NATURE METHODS

In vivosingle-RNA tracking shows that most tRNA diffuses freely in live bacteria

(2016) Anne Plochowietz et al.   NUCLEIC ACIDS RESEARCH

RNA G-quadruplexes are globally unfolded in eukaryotic cells and depleted in bacteria

(2016) J. U. Guo et al.   SCIENCE

DNA polymorphism in crystals: three stable conformations for the decadeoxynucleotide d(GCATGCATGC)

(2016) Arunachalam Thirugnanasambandam et al.   Acta Crystallographica Section D-Structural Biology

Metal Cations in G-Quadruplex Folding and Stability

(2016) Debmalya Bhattacharyya et al.   Frontiers in Chemistry

RNA G-Quadruplex: The New Potential Targets for Therapy

(2015) Shi-Ke Wang et al.   CURRENT TOPICS IN MEDICINAL CHEMISTRY

2′-O-[(4-CF3-triazol-1-yl)methyl] Uridine – A Sensitive 19F NMR Sensor for the Detection of RNA Secondary Structures

(2015) Lotta Granqvist et al.   JOURNAL OF ORGANIC CHEMISTRY

Structural imprints in vivo decode RNA regulatory mechanisms

(2015) Robert C. Spitale et al.   NATURE

Nucleic Acid Aptamers: An Emerging Tool for Biotechnology and Biomedical Sensing

(2015) Ti-Hsuan Ku et al.   SENSORS

G-quadruplex DNA and ligand interaction in living cells using NMR spectroscopy

(2015) Gilmar F. Salgado et al.   Chemical Science

Nanomechanical Molecular Devices made of DNA Origami

(2014) Akinori Kuzuya et al.   ACCOUNTS OF CHEMICAL RESEARCH

“Nano-oddities”: Unusual Nucleic Acid Assemblies for DNA-Based Nanostructures and Nanodevices

(2014) Liliya A. Yatsunyk et al.   ACCOUNTS OF CHEMICAL RESEARCH

In-Cell NMR and EPR Spectroscopy of Biomacromolecules

(2014) Robert Hänsel et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

DNA Switches: From Principles to Applications

(2014) Fuan Wang et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Noncanonical DNA Secondary Structures as Drug Targets: the Prospect of the i-Motif

(2014) Jussara Amato et al.   ChemMedChem

Sterically shielded spin labels for in-cell EPR spectroscopy: Analysis of stability in reducing environment

(2014) A. P. Jagtap et al.   FREE RADICAL RESEARCH

4′-C-[(4-Trifluoromethyl-1H-1,2,3-triazol-1-yl)methyl]thymidine as a Sensitive 19F NMR Sensor for the Detection of Oligonucleotide Secondary Structures

(2014) Lotta Granqvist et al.   JOURNAL OF ORGANIC CHEMISTRY

The Dynamic Character of the BCL2 Promoter i-Motif Provides a Mechanism for Modulation of Gene Expression by Compounds That Bind Selectively to the Alternative DNA Hairpin Structure

(2014) Samantha Kendrick et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

The Transcriptional Complex Between the BCL2 i-Motif and hnRNP LL Is a Molecular Switch for Control of Gene Expression That Can Be Modulated by Small Molecules

(2014) Hyun-Jin Kang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Gd(III)-PyMTA Label Is Suitable for In-Cell EPR

(2014) Mian Qi et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Physiological-Temperature Distance Measurement in Nucleic Acid using Triarylmethyl-Based Spin Labels and Pulsed Dipolar EPR Spectroscopy

(2014) Georgiy Yu. Shevelev et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Characterization of organic fluorophores for in vivo FRET studies based on electroporated molecules

(2014) A. Plochowietz et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

Smart Materials Based on DNA Aptamers: Taking Aptasensing to the Next Level

(2014) Emily Mastronardi et al.   SENSORS

An in-cell NMR study of monitoring stress-induced increase of cytosolic Ca2+ concentration in HeLa cells

(2013) Dambarudhar Shiba Sankar Hembram et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Structure of Human Telomeric RNA (TERRA): Stacking of Two G-Quadruplex Blocks in K+ Solution

(2013) Herry Martadinata et al.   BIOCHEMISTRY

Measurement of the Change in Twist at a Helical Junction in RNA Using the Orientation Dependence of FRET

(2013) Tomáš Fessl et al.   BIOPHYSICAL JOURNAL

Long-Lived Intracellular Single-Molecule Fluorescence Using Electroporated Molecules

(2013) Robert Crawford et al.   BIOPHYSICAL JOURNAL

Targeting Non-B-Form DNA in Living Cells

(2013) Yuhao Du et al.   CHEMICAL RECORD

Effects of Molecular Crowding on the Structures, Interactions, and Functions of Nucleic Acids

(2013) Shu-ichi Nakano et al.   CHEMICAL REVIEWS

High-Resolution Insight into G-Overhang Architecture

(2013) Robert Hänsel et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features

(2013) Yiliang Ding et al.   NATURE

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

(2013) Silvi Rouskin et al.   NATURE

Visualization and selective chemical targeting of RNA G-quadruplex structures in the cytoplasm of human cells

(2013) Giulia Biffi et al.   Nature Chemistry

Quantitative visualization of DNA G-quadruplex structures in human cells

(2013) Giulia Biffi et al.   Nature Chemistry

Polyethylene glycol binding alters human telomere G-quadruplex structure by conformational selection

(2013) Robert Buscaglia et al.   NUCLEIC ACIDS RESEARCH

The Nature of Hydrogen Bonds in Cytidine⋅⋅⋅H+⋅⋅⋅Cytidine DNA Base Pairs

(2012) Anna Lena Lieblein et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Solid-State NMR Spectroscopy on Cellular Preparations Enhanced by Dynamic Nuclear Polarization

(2012) Marie Renault et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

A Gel-Encapsulated Bioreactor System for NMR Studies of Protein-Protein Interactions in Living Mammalian Cells

(2012) Satoshi Kubo et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Intracellular Conformations of Human Telomeric Quadruplexes Studied by Electron Paramagnetic Resonance Spectroscopy

(2012) Mykhailo Azarkh et al.   CHEMPHYSCHEM

Development of a Robust Model System of FRET using Base Surrogates Tethering Fluorophores for Strict Control of Their Position and Orientation within DNA Duplex

(2012) Tomohiro Kato et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

RNA SHAPE analysis in living cells

(2012) Robert C Spitale et al.   Nature Chemical Biology

Site-directed spin-labeling of nucleotides and the use of in-cell EPR to determine long-range distances in a biologically relevant environment

(2012) Mykhailo Azarkh et al.   Nature Protocols

Towards characterization of DNA structure under physiological conditions in vivo at the single-molecule level using single-pair FRET

(2012) Tomáš Fessl et al.   NUCLEIC ACIDS RESEARCH

Polymorphism of human telomeric quadruplex structure controlled by DNA concentration: a Raman study

(2012) Jan Palacký et al.   NUCLEIC ACIDS RESEARCH

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

(2011) Ivan Krstić et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Targeting DNA

(2011) J.B. Chaires et al.   BIOCHIMIE

Long-Range Distance Determination in a DNA Model System inside Xenopus laevis Oocytes by In-Cell Spin-Label EPR

(2011) Mykhailo Azarkh et al.   CHEMBIOCHEM

Conformational changes of non-B DNA

(2011) Jungkweon Choi et al.   CHEMICAL SOCIETY REVIEWS

Evaluation of spin labels for in-cell EPR by analysis of nitroxide reduction in cell extract of Xenopus laevis oocytes

(2011) Mykhailo Azarkh et al.   JOURNAL OF MAGNETIC RESONANCE

Synthesis and Photophysical Properties of Biaryl-Substituted Nucleos(t)ides. Polymerase Synthesis of DNA Probes Bearing Solvatochromic and pH-Sensitive Dual Fluorescent and 19F NMR Labels

(2011) Jan Riedl et al.   JOURNAL OF ORGANIC CHEMISTRY

Förster resonance energy transfer – A spectroscopic nanoruler: Principle and applications

(2011) Harekrushna Sahoo   JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY C-PHOTOCHEMISTRY REVIEWS

NMR Cross-Correlated Relaxation Rates Reveal Ion Coordination Sites in DNA

(2011) Radovan Fiala et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Structure of Human Telomeric DNA in Crowded Solution

(2011) Brahim Heddi et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

The parallel G-quadruplex structure of vertebrate telomeric repeat sequences is not the preferred folding topology under physiological conditions

(2011) Robert Hänsel et al.   NUCLEIC ACIDS RESEARCH

Promising Application of Dynamic Nuclear Polarization for in Vivo 13C MR Imaging

(2011) Yi-Fen YEN et al.   Magnetic Resonance in Medical Sciences

Electrospray Mass Spectrometry of Telomeric RNA (TERRA) Reveals the Formation of Stable Multimeric G-Quadruplex Structures

(2010) Gavin W. Collie et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Telomeric repeat-containing RNA structure in living cells

(2010) Y. Xu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Human Telomeric Quadruplex Conformations Studied by Pulsed EPR

(2009) Vijay Singh et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Fluorescence Quenching by Photoinduced Electron Transfer: A Reporter for Conformational Dynamics of Macromolecules

(2009) Sören Doose et al.   CHEMPHYSCHEM

A bioreactor for in-cell protein NMR

(2009) Naima G. Sharaf et al.   JOURNAL OF MAGNETIC RESONANCE

Characterization of Nucleobase Analogue FRET Acceptor tCnitro

(2009) Søren Preus et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Hydration of Watson−Crick Base Pairs and Dehydration of Hoogsteen Base Pairs Inducing Structural Polymorphism under Molecular Crowding Conditions

(2009) Daisuke Miyoshi et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Evaluation of Parameters Critical for Observing Nucleic Acids Inside LivingXenopus laevisOocytes by In-Cell NMR Spectroscopy

(2009) Robert Hänsel et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Observation of NMR Signals from Proteins Introduced into Living Mammalian Cells by Reversible Membrane Permeabilization Using a Pore-Forming Toxin, Streptolysin O

(2009) Shinji Ogino et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Structure of the Human Telomere in K+Solution: A Stable Basket-Type G-Quadruplex with Only Two G-Tetrad Layers

(2009) Kah Wai Lim et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Circular dichroism and conformational polymorphism of DNA

(2009) J. Kypr et al.   NUCLEIC ACIDS RESEARCH

Polymorphism of human telomeric quadruplex structures

(2008) Jixun Dai et al.   BIOCHIMIE

19F NMR Spectroscopy for the Analysis of RNA Secondary Structure Populations

(2008) Dagmar Graber et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A Nonafluoro Nucleoside as a Sensitive19F NMR Probe of Nucleic Acid Conformation

(2008) Nivrutti B. Barhate et al.   ORGANIC LETTERS

Orientation dependence in fluorescent energy transfer between Cy3 and Cy5 terminally attached to double-stranded nucleic acids

(2008) A. Iqbal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA