Literature DB >> 22297510

Reconstructing virus structures from nanometer to near-atomic resolutions with cryo-electron microscopy and tomography.

Juan Chang1, Xiangan Liu, Ryan H Rochat, Matthew L Baker, Wah Chiu.   

Abstract

The past few decades have seen tremendous advances in single-particle electron -cryo-microscopy (cryo-EM). The field has matured to the point that near-atomic resolution density maps can be generated for icosahedral viruses without the need for crystallization. In parallel, substantial progress has been made in determining the structures of nonicosahedrally arranged proteins in viruses by employing either single-particle cryo-EM or cryo-electron tomography (cryo-ET). Implicit in this course have been the availability of a new generation of electron cryo-microscopes and the development of the computational tools that are essential for generating these maps and models. This methodology has enabled structural biologists to analyze structures in increasing detail for virus particles that are in different morphogenetic states. Furthermore, electron imaging of frozen, hydrated cells, in the process of being infected by viruses, has also opened up a new avenue for studying virus structures "in situ". Here we present the common techniques used to acquire and process cryo-EM and cryo-ET data and discuss their implications for structural virology both now and in the future.

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Year:  2012        PMID: 22297510      PMCID: PMC3954858          DOI: 10.1007/978-1-4614-0980-9_4

Source DB:  PubMed          Journal:  Adv Exp Med Biol        ISSN: 0065-2598            Impact factor:   2.622


  158 in total

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Journal:  Proc Natl Acad Sci U S A       Date:  2005-03-17       Impact factor: 11.205

9.  Refinement of protein structures by iterative comparative modeling and CryoEM density fitting.

Authors:  Maya Topf; Matthew L Baker; Marc A Marti-Renom; Wah Chiu; Andrej Sali
Journal:  J Mol Biol       Date:  2006-02-02       Impact factor: 5.469

10.  Marker-free image registration of electron tomography tilt-series.

Authors:  Carlos Oscar Sanchez Sorzano; Cédric Messaoudi; Matthias Eibauer; J R Bilbao-Castro; R Hegerl; S Nickell; S Marco; J M Carazo
Journal:  BMC Bioinformatics       Date:  2009-04-27       Impact factor: 3.169

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  21 in total

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Authors:  Grigore Pintilie; Dong-Hua Chen; Cameron A Haase-Pettingell; Jonathan A King; Wah Chiu
Journal:  Biophys J       Date:  2015-12-30       Impact factor: 4.033

Review 2.  Advances in tomography: probing the molecular architecture of cells.

Authors:  Karen Fridman; Asaf Mader; Monika Zwerger; Natalie Elia; Ohad Medalia
Journal:  Nat Rev Mol Cell Biol       Date:  2012-10-10       Impact factor: 94.444

Review 3.  Focused ion beams in biology.

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Journal:  Nat Methods       Date:  2015-11       Impact factor: 28.547

4.  Single particle analysis integrated with microscopy: a high-throughput approach for reconstructing icosahedral particles.

Authors:  Xiaodong Yan; Giovanni Cardone; Xing Zhang; Z Hong Zhou; Timothy S Baker
Journal:  J Struct Biol       Date:  2014-03-05       Impact factor: 2.867

5.  Gum-Net: Unsupervised Geometric Matching for Fast and Accurate 3D Subtomogram Image Alignment and Averaging.

Authors:  Xiangrui Zeng; Min Xu
Journal:  Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit       Date:  2020-08-05

6.  Should Virus Capsids Assemble Perfectly? Theory and Observation of Defects.

Authors:  Justin Spiriti; James F Conway; Daniel M Zuckerman
Journal:  Biophys J       Date:  2020-09-28       Impact factor: 4.033

7.  Cryo-EM techniques to resolve the structure of HSV-1 capsid-associated components.

Authors:  Ryan H Rochat; Corey W Hecksel; Wah Chiu
Journal:  Methods Mol Biol       Date:  2014

Review 8.  Biomedical and Catalytic Opportunities of Virus-Like Particles in Nanotechnology.

Authors:  B Schwarz; M Uchida; T Douglas
Journal:  Adv Virus Res       Date:  2016-11-08       Impact factor: 9.937

Review 9.  Magic angle spinning NMR of viruses.

Authors:  Caitlin M Quinn; Manman Lu; Christopher L Suiter; Guangjin Hou; Huilan Zhang; Tatyana Polenova
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2015-02-16       Impact factor: 9.795

10.  Protein secondary structure determination by constrained single-particle cryo-electron tomography.

Authors:  Alberto Bartesaghi; Federico Lecumberry; Guillermo Sapiro; Sriram Subramaniam
Journal:  Structure       Date:  2012-12-05       Impact factor: 5.006

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