The proposed research focuses on the continued application and development of solid state NMR (ssNMR) as a tool for structural investigations of peptides and proteins. The research covers two broad areas. Structure of Peptides and Proteins (1) With ssNMR measurements of intermolecular distances on both the WT TTR and L111M mutant peptides from transthyretin we plan to refine the structures of the amyloid protofilaments formed by these two peptides. These structures represent the initial high resolution structure of amyloid fibrils. (2) We plan to determine the molecular structure of the monoclinic and orthorhombic crystals formed by the prion peptide GNNQQNY and its three structurally distinct amyloid fibrils. (3) The protein PI3-SH3 forms well-ordered amyloid fibrils that can be uniformly or sparsely 13C,15N labeled. Our goal is to determine the high-resolution structure of the PI3-SH3 amyloid fibril using dipole recoupling. High field EPR will be used to measure distances between monomers. (4) beta-2-microglobulin (?2m) is associated with dialysis related amyloidosis (DRA). We plan to determine the structure of the fibrillized form of this protein and compare it to its native structure. (5) We plan to determine a high resolution structures of at least one peptide derived from A? (LMVGGVVIA) and A? itself using mutants which yield spectra with improved resolution. (6) Two nanocrystalline proteins, GB1 and Crh, are ideal systems to validate new NMR methods and provide a platform for establishing robust and efficient methodology that can be utilized for structure determination of amyloid proteins. We plan to utilize these two systems in this manner. NMR Methods for Protein Structure Determination (1) Recently we showed that two techniques (CMAR and RFDR) perform 13C-13C recoupling and 1H-13C decoupling simultaneously. We plan to extend the development of the new methods and use them to measure distances for structural studies by optimizing the shape of the CMAR sweep for distance measurements. PAIN-CP 13C-15N recoupling experiments will be developed for experiments at high field and high spinning frequency. (2) Spin diffusion is used extensively in ssNMR as a semiquantitative method to measure distances. Using SPINEVOLUTION software we plan to improve the accuracy of distance measurements and apply the results to proteins. (3) 17O NMR experiments offer the possibility of a significant increase in resolution at high field. We plan to develop methods to perform 17O-13C and 17O-15N correlation experiments that will add another important spectral dimension to protein NMR experiments.

Agency
National Institute of Health (NIH)
Institute
National Institute of Biomedical Imaging and Bioengineering (NIBIB)
Type
Research Project (R01)
Project #
5R01EB003151-34
Application #
8090298
Study Section
Macromolecular Structure and Function C Study Section (MSFC)
Program Officer
Mclaughlin, Alan Charles
Project Start
1977-05-01
Project End
2012-06-30
Budget Start
2011-07-01
Budget End
2012-06-30
Support Year
34
Fiscal Year
2011
Total Cost
$540,075
Indirect Cost
Name
Massachusetts Institute of Technology
Department
Type
Organized Research Units
DUNS #
001425594
City
Cambridge
State
MA
Country
United States
Zip Code
02139
Frederick, Kendra K; Michaelis, Vladimir K; Caporini, Marc A et al. (2017) Combining DNP NMR with segmental and specific labeling to study a yeast prion protein strain that is not parallel in-register. Proc Natl Acad Sci U S A 114:3642-3647
Gunther, William R; Michaelis, Vladimir K; Griffin, Robert G et al. (2016) Interrogating the Lewis Acidity of Metal Sites in Beta Zeolites with 15N Pyridine Adsorption Coupled with MAS NMR Spectroscopy. J Phys Chem C Nanomater Interfaces 120:28533-28544
Kaushik, Monu; Bahrenberg, Thorsten; Can, Thach V et al. (2016) Gd(iii) and Mn(ii) complexes for dynamic nuclear polarization: small molecular chelate polarizing agents and applications with site-directed spin labeling of proteins. Phys Chem Chem Phys 18:27205-27218
Colvin, Michael T; Silvers, Robert; Ni, Qing Zhe et al. (2016) Atomic Resolution Structure of Monomorphic A?42 Amyloid Fibrils. J Am Chem Soc 138:9663-74
Keeler, Eric G; Michaelis, Vladimir K; Griffin, Robert G (2016) (17)O NMR Investigation of Water Structure and Dynamics. J Phys Chem B 120:7851-8
Zhukhovitskiy, Aleksandr V; Zhong, Mingjiang; Keeler, Eric G et al. (2016) Highly branched and loop-rich gels via formation of metal-organic cages linked by polymers. Nat Chem 8:33-41
Lin, James; Griffin, R G; Nielsen, Niels Chr et al. (2016) Three pulse recoupling and phase jump matching. J Magn Reson 263:172-183
Eddy, Matthew T; Su, Yongchao; Silvers, Robert et al. (2015) Lipid bilayer-bound conformation of an integral membrane beta barrel protein by multidimensional MAS NMR. J Biomol NMR 61:299-310
Michaelis, Vladimir K; Keeler, Eric G; Ong, Ta-Chung et al. (2015) Structural Insights into Bound Water in Crystalline Amino Acids: Experimental and Theoretical (17)O NMR. J Phys Chem B 119:8024-36
Frederick, Kendra K; Michaelis, Vladimir K; Corzilius, Björn et al. (2015) Sensitivity-enhanced NMR reveals alterations in protein structure by cellular milieus. Cell 163:620-8

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