NMR methods for exploring ‘dark’ states in ligand binding and protein-protein interactions

Probing the interaction of huntingtin exon‐1 polypeptides with the chaperonin nanomachine GroEL

(2021) Marielle A. Walti et al.   CHEMBIOCHEM

Oligomeric assembly regulating mitochondrial HtrA2 function as examined by methyl-TROSY NMR

(2021) Yuki Toyama et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantitative Exchange NMR-Based Analysis of Huntingtin–SH3 Interactions Suggests an Allosteric Mechanism of Inhibition of Huntingtin Aggregation

(2021) Alberto Ceccon et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Competing stress-dependent oligomerization pathways regulate self-assembly of the periplasmic protease-chaperone DegP

(2021) Robert W. Harkness et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Abrogation of prenucleation, transient oligomerization of the Huntingtin exon 1 protein by human profilin I

(2020) Alberto Ceccon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Analyzing multi-step ligand binding reactions for oligomeric proteins by NMR: theoretical and computational considerations

(2020) Robert W. Harkness et al.   JOURNAL OF MAGNETIC RESONANCE

Kinetics of Fast Tetramerization of the Huntingtin Exon 1 Protein Probed by Concentration-Dependent On-Resonance R1ρ Measurements

(2020) Alberto Ceccon et al.   Journal of Physical Chemistry Letters

Broadband Dynamics of Ubiquitin by Anionic and Cationic Nanoparticle‐Assisted NMR Spin Relaxation

(2020) Stacey Wardenfelt et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

An S/T motif controls reversible oligomerization of the Hsp40 chaperone DNAJB6b through subtle reorganization of a β sheet backbone

(2020) Theodoros K. Karamanos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing initial transient oligomerization events facilitating Huntingtin fibril nucleation at atomic resolution by relaxation-based NMR

(2019) Samuel A. Kotler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An NMR View of Protein Dynamics in Health and Disease

(2019) Ashok Sekhar et al.   Annual Review of Biophysics

A Double Resonance CEST Experiment to Study Multistate Protein Conformational Exchange: An Application to Protein Folding

(2019) Pramodh Vallurupalli et al.   Journal of Physical Chemistry Letters

Exchange saturation transfer and associated NMR techniques for studies of protein interactions involving high-molecular-weight systems

(2019) Vitali Tugarinov et al.   JOURNAL OF BIOMOLECULAR NMR

Functional protein dynamics on uncharted time scales detected by nanoparticle-assisted NMR spin relaxation

(2019) Mouzhe Xie et al.   Science Advances

Perspective: the essential role of NMR in the discovery and characterization of intrinsically disordered proteins

(2019) H. Jane Dyson et al.   JOURNAL OF BIOMOLECULAR NMR

Unraveling the structure and dynamics of the human DNAJB6b chaperone by NMR reveals insights into Hsp40-mediated proteostasis

(2019) Theodoros K. Karamanos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Unveiling invisible protein states with NMR spectroscopy

(2019) T Reid Alderson et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Targeting a Dark Excited State of HIV-1 Nucleocapsid by Antiretroviral Thioesters Revealed by NMR Spectroscopy

(2018) Lalit Deshmukh et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Profilin reduces aggregation and phase separation of huntingtin N-terminal fragments by preferentially binding to soluble monomers and oligomers

(2018) Ammon E. Posey et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Interaction of Huntingtin Exon-1 Peptides with Lipid-Based Micellar Nanoparticles Probed by Solution NMR and Q-Band Pulsed EPR

(2018) Alberto Ceccon et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Probing Conformational Exchange in Weakly Interacting, Slowly Exchanging Protein Systems via Off-Resonance R1ρ Experiments: Application to Studies of Protein Phase Separation

(2018) Tairan Yuwen et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Quantitative Binding Behavior of Intrinsically Disordered Proteins to Nanoparticle Surfaces at Individual Residue Level

(2018) Mouzhe Xie et al.   CHEMISTRY-A EUROPEAN JOURNAL

Decorrelating Kinetic and Relaxation Parameters in Exchange Saturation Transfer NMR: A Case Study of N-Terminal Huntingtin Peptides Binding to Unilamellar Lipid Vesicles

(2018) Alberto Ceccon et al.   JOURNAL OF PHYSICAL CHEMISTRY B

TiO2 Nanoparticles Catalyze Oxidation of Huntingtin Exon 1-Derived Peptides Impeding Aggregation: A Quantitative NMR Study of Binding and Kinetics

(2018) Alberto Ceccon et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Probing the mechanism of inhibition of amyloid-β(1–42)–induced neurotoxicity by the chaperonin GroEL

(2018) Marielle A. Wälti et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing conformational dynamics in biomolecules via chemical exchange saturation transfer: a primer

(2017) Pramodh Vallurupalli et al.   JOURNAL OF BIOMOLECULAR NMR

Probing the Binding Modes of a Multidomain Protein to Lipid-based Nanoparticles by Relaxation-based NMR

(2017) Alberto Ceccon et al.   Journal of Physical Chemistry Letters

Binding kinetics and substrate selectivity in HIV-1 protease−Gag interactions probed at atomic resolution by chemical exchange NMR

(2017) Lalit Deshmukh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Protein folding by NMR

(2017) Anastasia Zhuravleva et al.   PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY

Separating Dipolar and Chemical Exchange Magnetization Transfer Processes in 1 H-CEST

(2016) Tairan Yuwen et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Quantitative Resolution of Monomer-Dimer Populations by Inversion Modulated DEER EPR Spectroscopy

(2016) Thomas Schmidt et al.   CHEMPHYSCHEM

Towards interpretation of intermolecular paramagnetic relaxation enhancement outside the fast exchange limit

(2016) Alberto Ceccon et al.   JOURNAL OF BIOMOLECULAR NMR

Global Dynamics and Exchange Kinetics of a Protein on the Surface of Nanoparticles Revealed by Relaxation-Based Solution NMR Spectroscopy

(2016) Alberto Ceccon et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Evolution of magnetization due to asymmetric dimerization: theoretical considerations and application to aberrant oligomers formed by apoSOD12SH

(2016) Ashok Sekhar et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

Hsp70 biases the folding pathways of client proteins

(2016) Ashok Sekhar et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing the free energy landscapes of ALS disease mutants of SOD1 by NMR spectroscopy

(2016) Ashok Sekhar et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Using NMR spectroscopy to elucidate the role of molecular motions in enzyme function

(2016) George P. Lisi et al.   PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY

Intrinsic unfoldase/foldase activity of the chaperonin GroEL directly demonstrated using multinuclear relaxation-based NMR

(2015) David S. Libich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reply to Marchenko et al.: Flux analysis of GroEL-assisted protein folding/unfolding

(2015) David S. Libich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Visualizing transient dark states by NMR spectroscopy

(2015) Nicholas J. Anthis et al.   QUARTERLY REVIEWS OF BIOPHYSICS

Seeing the invisible by paramagnetic and diamagnetic NMR

(2015) G. Marius Clore   BIOCHEMICAL SOCIETY TRANSACTIONS

Characterizing Methyl-Bearing Side Chain Contacts and Dynamics Mediating Amyloid β Protofibril Interactions Using13Cmethyl-DEST and Lifetime Line Broadening

(2014) Nicolas L. Fawzi et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

The C-Terminal Threonine of Aβ43 Nucleates Toxic Aggregation via Structural and Dynamical Changes in Monomers and Protofibrils

(2014) Alexander E. Conicella et al.   BIOCHEMISTRY

Triple resonance-based 13Cα and 13Cβ CEST experiments for studies of ms timescale dynamics in proteins

(2014) Dong Long et al.   JOURNAL OF BIOMOLECULAR NMR

Chemical exchange in biomacromolecules: Past, present, and future

(2014) Arthur G. Palmer   JOURNAL OF MAGNETIC RESONANCE

Dynamics of a Globular Protein Adsorbed to Liposomal Nanoparticles

(2014) Alberto Ceccon et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Measurement of histidine pKa values and tautomer populations in invisible protein states

(2014) A. L. Hansen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing Slow Chemical Exchange at Carbonyl Sites in Proteins by Chemical Exchange Saturation Transfer NMR Spectroscopy

(2013) Pramodh Vallurupalli et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

A Comparative CEST NMR Study of Slow Conformational Dynamics of Small GTPases Complexed with GTP and GTP Analogues

(2013) Dong Long et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Probing slowly exchanging protein systems via 13Cα-CEST: monitoring folding of the Im7 protein

(2013) Alexandar L. Hansen et al.   JOURNAL OF BIOMOLECULAR NMR

Probing the transient dark state of substrate binding to GroEL by relaxation-based solution NMR

(2013) D. S. Libich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Studying “Invisible” Excited Protein States in Slow Exchange with a Major State Conformation

(2012) Pramodh Vallurupalli et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Probing exchange kinetics and atomic resolution dynamics in high-molecular-weight complexes using dark-state exchange saturation transfer NMR spectroscopy

(2012) Nicolas L Fawzi et al.   Nature Protocols

Structure of an Intermediate State in Protein Folding and Aggregation

(2012) P. Neudecker et al.   SCIENCE

Whole-Body Rocking Motion of a Fusion Peptide in Lipid Bilayers from Size-Dispersed15N NMR Relaxation

(2011) Justin L. Lorieau et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Atomic-resolution dynamics on the surface of amyloid-β protofibrils probed by solution NMR

(2011) Nicolas L. Fawzi et al.   NATURE

Kinetics of Amyloid β Monomer-to-Oligomer Exchange by NMR Relaxation

(2010) Nicolas L. Fawzi et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Exploring sparsely populated states of macromolecules by diamagnetic and paramagnetic NMR relaxation

(2010) G. Marius Clore   PROTEIN SCIENCE

Theory, Practice, and Applications of Paramagnetic Relaxation Enhancement for the Characterization of Transient Low-Population States of Biological Macromolecules and Their Complexes

(2009) G. Marius Clore et al.   CHEMICAL REVIEWS

NMR spectroscopy brings invisible protein states into focus

(2009) Andrew J Baldwin et al.   Nature Chemical Biology

Probing Invisible, Low-Populated States of Protein Molecules by Relaxation Dispersion NMR Spectroscopy: An Application to Protein Folding

(2008) Dmitry M. Korzhnev et al.   ACCOUNTS OF CHEMICAL RESEARCH

Visualizing lowly-populated regions of the free energy landscape of macromolecular complexes by paramagnetic relaxation enhancement

(2008) G. Marius Clore   Molecular BioSystems