Literature DB >> 24841283

Spherical deconvolution improves quality of single particle reconstruction.

Gregory P Kishchenko1, Ardean Leith2.   

Abstract

One single-particle reconstruction technique is the reconstruction of macromolecules from projection images of randomly oriented particles (SPRR). In SPRR the reliability and consequent interpretation of the final reconstruction is affected by errors arising from incorrect assignment of projection angles to individual particles. In order to improve the resolution of SPRR we studied the influence of imperfect assignment on 3D blurring. We find that this blurring can be described as a Point Spread Function (PSF) that depends on the distance from geometrical center of the reconstructed volume and that blurring is higher at the periphery. This particular PSF can be described by an almost pure tangential angular function with a negligible radial component. We have developed a reliable algorithm for spherical deconvolution of the 3D reconstruction. This spherical deconvolution operation was tested on reconstructions of GroEL and mitochondrial ribosomes. We show that spherical deconvolution improves the quality of SPRR by reducing blurring and enhancing high frequency components, particularly near the periphery of the reconstruction.
Copyright © 2014 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  GroEL; Incorrect angular assignment; Mitochondrial ribosome; Single-particle reconstruction; Spherical deconvolution

Mesh:

Substances:

Year:  2014        PMID: 24841283      PMCID: PMC4135516          DOI: 10.1016/j.jsb.2014.05.002

Source DB:  PubMed          Journal:  J Struct Biol        ISSN: 1047-8477            Impact factor:   2.867


  9 in total

1.  A 11.5 A single particle reconstruction of GroEL using EMAN.

Authors:  S J Ludtke; J Jakana; J L Song; D T Chuang; W Chiu
Journal:  J Mol Biol       Date:  2001-11-23       Impact factor: 5.469

2.  Optimal determination of particle orientation, absolute hand, and contrast loss in single-particle electron cryomicroscopy.

Authors:  Peter B Rosenthal; Richard Henderson
Journal:  J Mol Biol       Date:  2003-10-31       Impact factor: 5.469

3.  Crystal structure of Escherichia coli MscS, a voltage-modulated and mechanosensitive channel.

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Journal:  Science       Date:  2002-11-22       Impact factor: 47.728

4.  Stereochemical quality of protein structure coordinates.

Authors:  A L Morris; M W MacArthur; E G Hutchinson; J M Thornton
Journal:  Proteins       Date:  1992-04

5.  Spherical harmonics-based parametric deconvolution of 3D surface images using bending energy minimization.

Authors:  Khaled Khairy; Jonathon Howard
Journal:  Med Image Anal       Date:  2007-10-30       Impact factor: 8.545

6.  De novo backbone trace of GroEL from single particle electron cryomicroscopy.

Authors:  Steven J Ludtke; Matthew L Baker; Dong-Hua Chen; Jiu-Li Song; David T Chuang; Wah Chiu
Journal:  Structure       Date:  2008-03       Impact factor: 5.006

7.  Sharpening high resolution information in single particle electron cryomicroscopy.

Authors:  J J Fernández; D Luque; J R Castón; J L Carrascosa
Journal:  J Struct Biol       Date:  2008-06-03       Impact factor: 2.867

8.  Deconvolution of disoriented fiber diffraction data using iterative convolution and local regression.

Authors:  T T Tibbitts; D L Caspar
Journal:  Acta Crystallogr A       Date:  1993-05-01       Impact factor: 2.290

9.  Deblurring of Class-Averaged Images in Single-Particle Electron Microscopy.

Authors:  Wooram Park; Dean R Madden; Daniel N Rockmore; Gregory S Chirikjian
Journal:  Inverse Probl       Date:  2010-03-01       Impact factor: 2.407

  9 in total
  1 in total

Review 1.  Emerging Themes in CryoEM─Single Particle Analysis Image Processing.

Authors:  Jose Luis Vilas; Jose Maria Carazo; Carlos Oscar S Sorzano
Journal:  Chem Rev       Date:  2022-07-04       Impact factor: 72.087

  1 in total

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