Literature DB >> 30742896

Enhancement of tomogram interpretability using the locked self-rotation function.

Andrei Fokine1, Baldeep Khare2, Yingyuan Sun2, Michael G Rossmann3.   

Abstract

The interpretation of cryo-electron tomograms of macromolecular complexes can be difficult because of the large amount of noise and because of the missing wedge effect. Here it is shown how the presence of rotational symmetry in a sample can be utilized to enhance the quality of a tomographic analysis. The orientation of symmetry axes in a sub-tomogram can be determined using a locked self-rotation function. Given this knowledge, the sub-tomogram density can then be averaged to improve its interpretability. Sub-tomograms of the icosahedral bacteriophage phiX174 are used to demonstrate the procedure.
Copyright © 2019 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Cryo-electron tomography; Locked self-rotation function; Macromolecular complexes; Point group symmetry; Virus structure

Mesh:

Year:  2019        PMID: 30742896      PMCID: PMC6420866          DOI: 10.1016/j.jsb.2019.01.006

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


  16 in total

1.  Atomic structure of single-stranded DNA bacteriophage phi X174 and its functional implications.

Authors:  R McKenna; D Xia; P Willingmann; L L Ilag; S Krishnaswamy; M G Rossmann; N H Olson; T S Baker; N L Incardona
Journal:  Nature       Date:  1992-01-09       Impact factor: 49.962

2.  EMAN2: an extensible image processing suite for electron microscopy.

Authors:  Guang Tang; Liwei Peng; Philip R Baldwin; Deepinder S Mann; Wen Jiang; Ian Rees; Steven J Ludtke
Journal:  J Struct Biol       Date:  2006-06-08       Impact factor: 2.867

3.  Computer visualization of three-dimensional image data using IMOD.

Authors:  J R Kremer; D N Mastronarde; J R McIntosh
Journal:  J Struct Biol       Date:  1996 Jan-Feb       Impact factor: 2.867

4.  Rotation function calculations with GLRF program.

Authors:  L Tong; M G Rossmann
Journal:  Methods Enzymol       Date:  1997       Impact factor: 1.600

5.  Crystal structure of human enterovirus 71.

Authors:  Pavel Plevka; Rushika Perera; Jane Cardosa; Richard J Kuhn; Michael G Rossmann
Journal:  Science       Date:  2012-03-01       Impact factor: 47.728

6.  Dynamo Catalogue: Geometrical tools and data management for particle picking in subtomogram averaging of cryo-electron tomograms.

Authors:  Daniel Castaño-Díez; Mikhail Kudryashev; Henning Stahlberg
Journal:  J Struct Biol       Date:  2016-06-08       Impact factor: 2.867

Review 7.  Cryo-Electron Tomography: Can it Reveal the Molecular Sociology of Cells in Atomic Detail?

Authors:  Martin Beck; Wolfgang Baumeister
Journal:  Trends Cell Biol       Date:  2016-09-23       Impact factor: 20.808

8.  Structural changes of tailless bacteriophage ΦX174 during penetration of bacterial cell walls.

Authors:  Yingyuan Sun; Aaron P Roznowski; Joshua M Tokuda; Thomas Klose; Alexander Mauney; Lois Pollack; Bentley A Fane; Michael G Rossmann
Journal:  Proc Natl Acad Sci U S A       Date:  2017-12-11       Impact factor: 11.205

9.  In vivo assembly of an archaeal virus studied with whole-cell electron cryotomography.

Authors:  Chi-Yu Fu; Kang Wang; Lu Gan; Jason Lanman; Reza Khayat; Mark J Young; Grant J Jensen; Peter C Doerschuk; John E Johnson
Journal:  Structure       Date:  2010-12-08       Impact factor: 5.006

Review 10.  Cryo-electron tomography: the challenge of doing structural biology in situ.

Authors:  Vladan Lučič; Alexander Rigort; Wolfgang Baumeister
Journal:  J Cell Biol       Date:  2013-08-05       Impact factor: 10.539

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