Literature DB >> 20888969

Correcting for the ewald sphere in high-resolution single-particle reconstructions.

Peter A Leong1, Xuekui Yu, Z Hong Zhou, Grant J Jensen.   

Abstract

To avoid the challenges of crystallization and the size limitations of NMR, it has long been hoped that single-particle cryo-electron microscopy (cryo-EM) would eventually yield atomically interpretable reconstructions. For the most favorable class of specimens (large icosahedral viruses), one of the key obstacles is curvature of the Ewald sphere, which leads to a breakdown of the Projection Theorem used by conventional three-dimensional (3D) reconstruction programs. Here, we review the basic problem and our implementation of the "paraboloid" reconstruction method, which overcomes the limitation by averaging information from images recorded from different points of view.
Copyright © 2010 Elsevier Inc. All rights reserved.

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Year:  2010        PMID: 20888969      PMCID: PMC3716286          DOI: 10.1016/S0076-6879(10)82015-4

Source DB:  PubMed          Journal:  Methods Enzymol        ISSN: 0076-6879            Impact factor:   1.600


  14 in total

1.  EMAN: semiautomated software for high-resolution single-particle reconstructions.

Authors:  S J Ludtke; P R Baldwin; W Chiu
Journal:  J Struct Biol       Date:  1999-12-01       Impact factor: 2.867

2.  Structure of the reovirus core at 3.6 A resolution.

Authors:  K M Reinisch; M L Nibert; S C Harrison
Journal:  Nature       Date:  2000-04-27       Impact factor: 49.962

3.  Defocus-gradient corrected back-projection.

Authors:  G J Jensen; R D Kornberg
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4.  Correction of high-resolution data for curvature of the Ewald sphere.

Authors:  D J DeRosier
Journal:  Ultramicroscopy       Date:  2000-03       Impact factor: 2.689

5.  UCSF Chimera--a visualization system for exploratory research and analysis.

Authors:  Eric F Pettersen; Thomas D Goddard; Conrad C Huang; Gregory S Couch; Daniel M Greenblatt; Elaine C Meng; Thomas E Ferrin
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6.  Refined structure of the nicotinic acetylcholine receptor at 4A resolution.

Authors:  Nigel Unwin
Journal:  J Mol Biol       Date:  2005-01-25       Impact factor: 5.469

7.  Ewald sphere correction for single-particle electron microscopy.

Authors:  Matthias Wolf; David J DeRosier; Nikolaus Grigorieff
Journal:  Ultramicroscopy       Date:  2005-12-09       Impact factor: 2.689

8.  FREALIGN: high-resolution refinement of single particle structures.

Authors:  Nikolaus Grigorieff
Journal:  J Struct Biol       Date:  2006-06-02       Impact factor: 2.867

9.  Atomic model of plant light-harvesting complex by electron crystallography.

Authors:  W Kühlbrandt; D N Wang; Y Fujiyoshi
Journal:  Nature       Date:  1994-02-17       Impact factor: 49.962

10.  Methods used in the structure determination of foot-and-mouth disease virus.

Authors:  E Fry; R Acharya; D Stuart
Journal:  Acta Crystallogr A       Date:  1993-01-01       Impact factor: 2.290

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  12 in total

1.  How good can cryo-EM become?

Authors:  Robert M Glaeser
Journal:  Nat Methods       Date:  2016-01       Impact factor: 28.547

2.  Atomic structure of the human cytomegalovirus capsid with its securing tegument layer of pp150.

Authors:  Xuekui Yu; Jonathan Jih; Jiansen Jiang; Z Hong Zhou
Journal:  Science       Date:  2017-06-30       Impact factor: 47.728

3.  Long shelf-life streptavidin support-films suitable for electron microscopy of biological macromolecules.

Authors:  Bong-Gyoon Han; Zoe Watson; Hannah Kang; Arto Pulk; Kenneth H Downing; Jamie Cate; Robert M Glaeser
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4.  Single particle cryo-electron microscopy and 3-D reconstruction of viruses.

Authors:  Fei Guo; Wen Jiang
Journal:  Methods Mol Biol       Date:  2014

Review 5.  Atomic cryo-EM structures of viruses.

Authors:  Wen Jiang; Liang Tang
Journal:  Curr Opin Struct Biol       Date:  2017-08-05       Impact factor: 6.809

Review 6.  Limiting factors in atomic resolution cryo electron microscopy: no simple tricks.

Authors:  Xing Zhang; Z Hong Zhou
Journal:  J Struct Biol       Date:  2011-05-24       Impact factor: 2.867

Review 7.  Atomic resolution cryo electron microscopy of macromolecular complexes.

Authors:  Z Hong Zhou
Journal:  Adv Protein Chem Struct Biol       Date:  2011       Impact factor: 3.507

8.  Four levels of hierarchical organization, including noncovalent chainmail, brace the mature tumor herpesvirus capsid against pressurization.

Authors:  Z Hong Zhou; Wong Hoi Hui; Sanket Shah; Jonathan Jih; Christine M O'Connor; Michael B Sherman; Dean H Kedes; Stan Schein
Journal:  Structure       Date:  2014-09-11       Impact factor: 5.006

9.  Biophysical studies of the membrane-embedded and cytoplasmic forms of the glucose-specific Enzyme II of the E. coli phosphotransferase system (PTS).

Authors:  Mohammad Aboulwafa; Milton H Saier
Journal:  PLoS One       Date:  2011-09-15       Impact factor: 3.240

10.  Pushing the resolution limit by correcting the Ewald sphere effect in single-particle Cryo-EM reconstructions.

Authors:  Dongjie Zhu; Xiangxi Wang; Qianglin Fang; James L Van Etten; Michael G Rossmann; Zihe Rao; Xinzheng Zhang
Journal:  Nat Commun       Date:  2018-04-19       Impact factor: 14.919

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