Protein Structure Determination by Magic-Angle Spinning Solid-State NMR, and Insights into the Formation, Structure, and Stability of Amyloid Fibrils

2013 ◽  
Vol 42 (1) ◽  
pp. 515-536 ◽  
Author(s):  
Gemma Comellas ◽  
Chad M. Rienstra
2007 ◽  
Vol 46 (44) ◽  
pp. 8380-8383 ◽  
Author(s):  
Donghua H. Zhou ◽  
John J. Shea ◽  
Andrew J. Nieuwkoop ◽  
W. Trent Franks ◽  
Benjamin J. Wylie ◽  
...  

2007 ◽  
Vol 119 (44) ◽  
pp. 8532-8535 ◽  
Author(s):  
Donghua H. Zhou ◽  
John J. Shea ◽  
Andrew J. Nieuwkoop ◽  
W. Trent Franks ◽  
Benjamin J. Wylie ◽  
...  

2016 ◽  
Vol 113 (33) ◽  
pp. 9187-9192 ◽  
Author(s):  
Loren B. Andreas ◽  
Kristaps Jaudzems ◽  
Jan Stanek ◽  
Daniela Lalli ◽  
Andrea Bertarello ◽  
...  

Protein structure determination by proton-detected magic-angle spinning (MAS) NMR has focused on highly deuterated samples, in which only a small number of protons are introduced and observation of signals from side chains is extremely limited. Here, we show in two fully protonated proteins that, at 100-kHz MAS and above, spectral resolution is high enough to detect resolved correlations from amide and side-chain protons of all residue types, and to reliably measure a dense network of 1H-1H proximities that define a protein structure. The high data quality allowed the correct identification of internuclear distance restraints encoded in 3D spectra with automated data analysis, resulting in accurate, unbiased, and fast structure determination. Additionally, we find that narrower proton resonance lines, longer coherence lifetimes, and improved magnetization transfer offset the reduced sample size at 100-kHz spinning and above. Less than 2 weeks of experiment time and a single 0.5-mg sample was sufficient for the acquisition of all data necessary for backbone and side-chain resonance assignment and unsupervised structure determination. We expect the technique to pave the way for atomic-resolution structure analysis applicable to a wide range of proteins.


2021 ◽  
Vol 8 ◽  
Author(s):  
Patrick C. A. van der Wel

In structural studies of immobilized, aggregated and self-assembled biomolecules, solid-state NMR (ssNMR) spectroscopy can provide valuable high-resolution structural information. Among the structural restraints provided by magic angle spinning (MAS) ssNMR the canonical focus is on inter-atomic distance measurements. In the current review, we examine the utility of ssNMR measurements of angular constraints, as a complement to distance-based structure determination. The focus is on direct measurements of angular restraints via the judicious recoupling of multiple anisotropic ssNMR parameters, such as dipolar couplings and chemical shift anisotropies. Recent applications are highlighted, with a focus on studies of nanocrystalline polypeptides, aggregated peptides and proteins, receptor-substrate interactions, and small molecule interactions with amyloid protein fibrils. The review also examines considerations of when and where ssNMR torsion angle experiments are (most) effective, and discusses challenges and opportunities for future applications.


2016 ◽  
Vol 113 (6) ◽  
pp. 1546-1551 ◽  
Author(s):  
Cody L. Hoop ◽  
Hsiang-Kai Lin ◽  
Karunakar Kar ◽  
Gábor Magyarfalvi ◽  
Jonathan M. Lamley ◽  
...  

Polyglutamine expansion within the exon1 of huntingtin leads to protein misfolding, aggregation, and cytotoxicity in Huntington’s disease. This incurable neurodegenerative disease is the most prevalent member of a family of CAG repeat expansion disorders. Although mature exon1 fibrils are viable candidates for the toxic species, their molecular structure and how they form have remained poorly understood. Using advanced magic angle spinning solid-state NMR, we directly probe the structure of the rigid core that is at the heart of huntingtin exon1 fibrils and other polyglutamine aggregates, via measurements of long-range intramolecular and intermolecular contacts, backbone and side-chain torsion angles, relaxation measurements, and calculations of chemical shifts. These experiments reveal the presence of β-hairpin–containing β-sheets that are connected through interdigitating extended side chains. Despite dramatic differences in aggregation behavior, huntingtin exon1 fibrils and other polyglutamine-based aggregates contain identical β-strand–based cores. Prior structural models, derived from X-ray fiber diffraction and computational analyses, are shown to be inconsistent with the solid-state NMR results. Internally, the polyglutamine amyloid fibrils are coassembled from differently structured monomers, which we describe as a type of “intrinsic” polymorphism. A stochastic polyglutamine-specific aggregation mechanism is introduced to explain this phenomenon. We show that the aggregation of mutant huntingtin exon1 proceeds via an intramolecular collapse of the expanded polyglutamine domain and discuss the implications of this observation for our understanding of its misfolding and aggregation mechanisms.


2013 ◽  
Vol 57 (2) ◽  
pp. 129-139 ◽  
Author(s):  
Matthew T. Eddy ◽  
Marina Belenky ◽  
Astrid C. Sivertsen ◽  
Robert G. Griffin ◽  
Judith Herzfeld

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