An EPR Spectrum Simulation-Fourier Deconvolution Method for Distance Measurement in Proteins

Abstract

Abstract:

Measuring distances among the functional domains of a protein is essential for understanding the structurefunction relationship in the protein. Electron paramagnetic resonance (EPR) combined with site-directed spin labeling (SDSL) is an important approach for determining the distances among selected points in a protein. With this approach, Fourier deconvolution distance measurement (FDDM) was often used to calculate the distances. The FDDM method, however, may show poor performance under special experimental conditions, such that some crucial parameters need to be set up manually, resulting in increased susceptibility to subjective errors. To solve this problem, a new distance calculation method, spectrum simulation-Fourier deconvolution distance measurement (SS-FDDM), was developed in this study. The validity of the method was tested with an experimental model of frozen free radical solution. SS-FDDM was then compared to FDDM in terms of practicability, antinoise performance and susceptibility to field shifting. The results showed that, with SS-FDDM, calculation errors originated from spectrum center shift and high noise levels can be reduced substantially, thus giving more reliable results.

Key words: EPR, distance measurement, site-directed spin labeling, protein, Fourier deconvolution

CLC Number:

O482.53

GUO Lin-Chao, WANG Chang-Zhen, CONG Jian-Bo, XIAN Hong, WU Ke. An EPR Spectrum Simulation-Fourier Deconvolution Method for Distance Measurement in Proteins[J]. Chinese Journal of Magnetic Resonance, 2010, 27(1): 113-120.

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An EPR Spectrum Simulation-Fourier Deconvolution Method for Distance Measurement in Proteins

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