Translational diffusion of cyclic peptides measured using pulsed-field gradient NMR

Wang, Conan K., Northfield, Susan E., Swedberg, Joakim E., Harvey, Peta J., Mathiowetz, Alan M., Price, David A, Liras, Spiros and Craik, David J. (2014) Translational diffusion of cyclic peptides measured using pulsed-field gradient NMR. Journal of Physical Chemistry B, 118 38: 11129-11136. doi:10.1021/jp506678f

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Author Wang, Conan K.
Northfield, Susan E.
Swedberg, Joakim E.
Harvey, Peta J.
Mathiowetz, Alan M.
Price, David A
Liras, Spiros
Craik, David J.
Title Translational diffusion of cyclic peptides measured using pulsed-field gradient NMR
Journal name Journal of Physical Chemistry B   Check publisher's open access policy
ISSN 1520-5207
1520-6106
Publication date 2014-09-01
Year available 2014
Sub-type Article (original research)
DOI 10.1021/jp506678f
Open Access Status File (Author Post-print)
Volume 118
Issue 38
Start page 11129
End page 11136
Total pages 8
Place of publication Washington DC United States
Publisher American Chemical Society
Language eng
Abstract Cyclic peptides are increasingly being recognized as valuable templates for drug discovery or design. To facilitate efforts in the structural characterization of cyclic peptides, we explore the use of pulse-field gradient experiments as a convenient and noninvasive approach for characterizing their diffusion properties in solution. We present diffusion coefficient measurements of five cyclic peptides, including dichC, SFTI-1, cVc1.1, kB1, and kB2. These peptides range in size from six to 29 amino acids and have various therapeutically interesting activities. We explore the use of internal standards, such as dioxane and acetonitrile, to evaluate the hydrodynamic radius from the diffusion coefficient, and show that 2,2-dimethyl-2-silapentane-5-sulfonic acid, a commonly used chemical shift reference, can be used as an internal standard to avoid spectral overlap issues and simplify data analysis. The experimentally measured hydrodynamic radii correlate with increasing molecular weight and in silico predictions. We further applied diffusion measurements to characterize the self-association of kB2 and showed that it forms oligomers in a concentration-dependent manner, which may be relevant to its mechanism of action. Diffusion coefficient measurements appear to have broad utility in cyclic peptide structural biology, allowing for the rapid characterization of their molecular shape in solution.
Formatted abstract
Cyclic peptides are increasingly being recognized as valuable templates for drug discovery or design. To facilitate efforts in the structural characterization of cyclic peptides, we explore the use of pulse-field gradient experiments as a convenient and noninvasive approach for characterizing their diffusion properties in solution. We present diffusion coefficient measurements of five cyclic peptides, including dichC, SFTI-1, cVc1.1, kB1, and kB2. These peptides range in size from six to 29 amino acids and have various therapeutically interesting activities. We explore the use of internal standards, such as dioxane and acetonitrile, to evaluate the hydrodynamic radius from the diffusion coefficient, and show that 2,2-dimethyl-2-silapentane-5-sulfonic acid, a commonly used chemical shift reference, can be used as an internal standard to avoid spectral overlap issues and simplify data analysis. The experimentally measured hydrodynamic radii correlate with increasing molecular weight and in silico predictions. We further applied diffusion measurements to characterize the self-association of kB2 and showed that it forms oligomers in a concentration-dependent manner, which may be relevant to its mechanism of action. Diffusion coefficient measurements appear to have broad utility in cyclic peptide structural biology, allowing for the rapid characterization of their molecular shape in solution.
Keyword Chemistry, Physical
Chemistry
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2015 Collection
Institute for Molecular Bioscience - Publications
 
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Created: Tue, 21 Oct 2014, 10:25:49 EST by System User on behalf of Institute for Molecular Bioscience