Literature DB >> 21845206

Near-atomic-resolution cryo-EM for molecular virology.

Corey F Hryc1, Dong-Hua Chen, Wah Chiu.   

Abstract

Electron cryo-microscopy (cryo-EM) is a technique in structural biology that is widely used to solve the three-dimensional structures of macromolecular assemblies, close to their biological and solution conditions. Recent improvements in cryo-EM and single-particle reconstruction methodologies have led to the determination of several virus structures at near-atomic resolution (3.3 - 4.6 Å). These cryo-EM structures not only resolve the Cα backbones and side-chain densities of viral capsid proteins, but also suggest functional roles that the protein domains and some key amino acid residues play. This paper reviews the recent advances in near-atomic-resolution cryo-EM for probing the mechanisms of virus assembly and morphogenesis.

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Year:  2011        PMID: 21845206      PMCID: PMC3155204          DOI: 10.1016/j.coviro.2011.05.019

Source DB:  PubMed          Journal:  Curr Opin Virol        ISSN: 1879-6257            Impact factor:   7.090


  40 in total

1.  Atomic structure of the major capsid protein of rotavirus: implications for the architecture of the virion.

Authors:  M Mathieu; I Petitpas; J Navaza; J Lepault; E Kohli; P Pothier; B V Prasad; J Cohen; F A Rey
Journal:  EMBO J       Date:  2001-04-02       Impact factor: 11.598

2.  Molecular architecture of bacteriophage T4 capsid: vertex structure and bimodal binding of the stabilizing accessory protein, Soc.

Authors:  K Iwasaki; B L Trus; P T Wingfield; N Cheng; G Campusano; V B Rao; A C Steven
Journal:  Virology       Date:  2000-06-05       Impact factor: 3.616

3.  Topologically linked protein rings in the bacteriophage HK97 capsid.

Authors:  W R Wikoff; L Liljas; R L Duda; H Tsuruta; R W Hendrix; J E Johnson
Journal:  Science       Date:  2000-09-22       Impact factor: 47.728

4.  Novel fold and capsid-binding properties of the lambda-phage display platform protein gpD.

Authors:  F Yang; P Forrer; Z Dauter; J F Conway; N Cheng; M E Cerritelli; A C Steven; A Plückthun; A Wlodawer
Journal:  Nat Struct Biol       Date:  2000-03

5.  Reconstruction of three dimensional structures from electron micrographs.

Authors:  D J De Rosier; A Klug
Journal:  Nature       Date:  1968-01-13       Impact factor: 49.962

6.  Temperature-sensitive mutations in the phage P22 coat protein which interfere with polypeptide chain folding.

Authors:  C L Gordon; J King
Journal:  J Biol Chem       Date:  1993-05-05       Impact factor: 5.157

7.  Cryo-electron microscopy of viruses.

Authors:  M Adrian; J Dubochet; J Lepault; A W McDowall
Journal:  Nature       Date:  1984 Mar 1-7       Impact factor: 49.962

8.  The structure of the adenovirus capsid. II. The packing symmetry of hexon and its implications for viral architecture.

Authors:  R M Burnett
Journal:  J Mol Biol       Date:  1985-09-05       Impact factor: 5.469

9.  Coat protein fold and maturation transition of bacteriophage P22 seen at subnanometer resolutions.

Authors:  Wen Jiang; Zongli Li; Zhixian Zhang; Matthew L Baker; Peter E Prevelige; Wah Chiu
Journal:  Nat Struct Biol       Date:  2003-02

10.  Difference imaging of adenovirus: bridging the resolution gap between X-ray crystallography and electron microscopy.

Authors:  P L Stewart; S D Fuller; R M Burnett
Journal:  EMBO J       Date:  1993-07       Impact factor: 11.598

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  18 in total

1.  Constructing and validating initial Cα models from subnanometer resolution density maps with pathwalking.

Authors:  Mariah R Baker; Ian Rees; Steven J Ludtke; Wah Chiu; Matthew L Baker
Journal:  Structure       Date:  2012-03-07       Impact factor: 5.006

2.  Direct electron detection yields cryo-EM reconstructions at resolutions beyond 3/4 Nyquist frequency.

Authors:  Benjamin E Bammes; Ryan H Rochat; Joanita Jakana; Dong-Hua Chen; Wah Chiu
Journal:  J Struct Biol       Date:  2012-01-21       Impact factor: 2.867

3.  High-affinity gold nanoparticle pin to label and localize histidine-tagged protein in macromolecular assemblies.

Authors:  Kelsey C Anthony; Changjiang You; Jacob Piehler; Daniel A Pomeranz Krummel
Journal:  Structure       Date:  2014-02-20       Impact factor: 5.006

4.  GPU-accelerated analysis and visualization of large structures solved by molecular dynamics flexible fitting.

Authors:  John E Stone; Ryan McGreevy; Barry Isralewitz; Klaus Schulten
Journal:  Faraday Discuss       Date:  2014-06-30       Impact factor: 4.008

5.  An Iterative Bézier Method for Fitting Beta-sheet Component of a Cryo-EM Density Map.

Authors:  Michael Poteat; Jing He
Journal:  Mol Based Math Biol       Date:  2017-04-27

6.  Cryo-electron microscopy modeling by the molecular dynamics flexible fitting method.

Authors:  Kwok-Yan Chan; Leonardo G Trabuco; Eduard Schreiner; Klaus Schulten
Journal:  Biopolymers       Date:  2012-09       Impact factor: 2.505

Review 7.  Trendspotting in the Protein Data Bank.

Authors:  Helen M Berman; Buvaneswari Coimbatore Narayanan; Luigi Di Costanzo; Shuchismita Dutta; Sutapa Ghosh; Brian P Hudson; Catherine L Lawson; Ezra Peisach; Andreas Prlić; Peter W Rose; Chenghua Shao; Huanwang Yang; Jasmine Young; Christine Zardecki
Journal:  FEBS Lett       Date:  2013-01-18       Impact factor: 4.124

8.  CHALLENGES IN MATCHING SECONDARY STRUCTURES IN CRYO-EM: AN EXPLORATION.

Authors:  Devin Haslam; Mohammad Zubair; Desh Ranjan; Abhishek Biswas; Jing He
Journal:  Proceedings (IEEE Int Conf Bioinformatics Biomed)       Date:  2017-01-19

9.  SFG analysis of surface bound proteins: a route towards structure determination.

Authors:  Tobias Weidner; David G Castner
Journal:  Phys Chem Chem Phys       Date:  2013-08-14       Impact factor: 3.676

10.  An Effective Computational Method Incorporating Multiple Secondary Structure Predictions in Topology Determination for Cryo-EM Images.

Authors:  Abhishek Biswas; Desh Ranjan; Mohammad Zubair; Stephanie Zeil; Kamal Al Nasr; Jing He
Journal:  IEEE/ACM Trans Comput Biol Bioinform       Date:  2016-03-17       Impact factor: 3.710

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