Literature DB >> 18485736

Multi-disciplinary studies of viruses: the role of structure in shaping the questions and answers.

John E Johnson1.   

Abstract

This contribution to the 50th anniversary issue of the Journal of Structural Biology traces a path in which the author evolved from seeing macromolecular structure as end in it self to a means of organizing and correlating data from many sources. The author looks at where we have been and where we are going in this enterprise and the role that structure plays in defining ever more ambitious biological questions and testing and refining models that incorporate data from many techniques. In this, essentially, personal account, the author reflects on 35 years of structural virology and the stages experienced; from "stand alone" crystallography of virus particles to the study of virus assembly and maturation in vitro and eventually into the entire virus infection process from particle cell entry to egress. In the process data from many sources were incorporated into reasonable and testable models based on structures ranging in resolution from near-atomic determined by crystallography, to nanometer, determined by electron cryo-microscopy and image reconstruction, to five nanometer tomographic studies in the cell. The technological development over this period, for structural studies at all resolutions and functional studies that were unimaginable three decades ago, has been astonishing. Here we look at an aspect of this development applied to virology.

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Year:  2008        PMID: 18485736      PMCID: PMC2952275          DOI: 10.1016/j.jsb.2008.03.013

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


  69 in total

1.  Multicolor and electron microscopic imaging of connexin trafficking.

Authors:  Guido Gaietta; Thomas J Deerinck; Stephen R Adams; James Bouwer; Oded Tour; Dale W Laird; Gina E Sosinsky; Roger Y Tsien; Mark H Ellisman
Journal:  Science       Date:  2002-04-19       Impact factor: 47.728

2.  Large conformational changes in the maturation of a simple RNA virus, nudaurelia capensis omega virus (NomegaV).

Authors:  M A Canady; M Tihova; T N Hanzlik; J E Johnson; M Yeager
Journal:  J Mol Biol       Date:  2000-06-09       Impact factor: 5.469

3.  Mapping 70S ribosomes in intact cells by cryoelectron tomography and pattern recognition.

Authors:  Julio O Ortiz; Friedrich Förster; Julia Kürner; Alexandros A Linaroudis; Wolfgang Baumeister
Journal:  J Struct Biol       Date:  2006-06-03       Impact factor: 2.867

4.  The structure of the adenovirus capsid. III. Hexon packing determined from electron micrographs of capsid fragments.

Authors:  J van Oostrum; P R Smith; M Mohraz; R M Burnett
Journal:  J Mol Biol       Date:  1987-11-05       Impact factor: 5.469

5.  An immunodominant N-terminal region of VP1 protein of poliovirion that is buried in crystal structure can be exposed in solution.

Authors:  M Roivainen; L Piirainen; T Rysä; A Närvänen; T Hovi
Journal:  Virology       Date:  1993-08       Impact factor: 3.616

6.  Visualizing flock house virus infection in Drosophila cells with correlated fluorescence and electron microscopy.

Authors:  Jason Lanman; John Crum; Thomas J Deerinck; Guido M Gaietta; Anette Schneemann; Gina E Sosinsky; Mark H Ellisman; John E Johnson
Journal:  J Struct Biol       Date:  2007-09-19       Impact factor: 2.867

7.  The combination of chemical fixation procedures with high pressure freezing and freeze substitution preserves highly labile tissue ultrastructure for electron tomography applications.

Authors:  Gina E Sosinsky; John Crum; Ying Z Jones; Jason Lanman; Benjamin Smarr; Masako Terada; Maryann E Martone; Thomas J Deerinck; John E Johnson; Mark H Ellisman
Journal:  J Struct Biol       Date:  2007-09-14       Impact factor: 2.867

8.  Direct imaging of interactions between an icosahedral virus and conjugate F(ab) fragments by cryoelectron microscopy and X-ray crystallography.

Authors:  C Porta; G Wang; H Cheng; Z Chen; T S Baker; J E Johnson
Journal:  Virology       Date:  1994-11-01       Impact factor: 3.616

9.  Structure of human rhinovirus complexed with Fab fragments from a neutralizing antibody.

Authors:  T J Smith; N H Olson; R H Cheng; H Liu; E S Chase; W M Lee; D M Leippe; A G Mosser; R R Rueckert; T S Baker
Journal:  J Virol       Date:  1993-03       Impact factor: 5.103

10.  Three-dimensional analysis of a viral RNA replication complex reveals a virus-induced mini-organelle.

Authors:  Benjamin G Kopek; Guy Perkins; David J Miller; Mark H Ellisman; Paul Ahlquist
Journal:  PLoS Biol       Date:  2007-09       Impact factor: 8.029

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  4 in total

1.  Self-catalyzed growth of S layers via an amorphous-to-crystalline transition limited by folding kinetics.

Authors:  Sungwook Chung; Seong-Ho Shin; Carolyn R Bertozzi; James J De Yoreo
Journal:  Proc Natl Acad Sci U S A       Date:  2010-09-07       Impact factor: 11.205

2.  Electrostatic interactions between capsid and scaffolding proteins mediate the structural polymorphism of a double-stranded RNA virus.

Authors:  Irene Saugar; Nerea Irigoyen; Daniel Luque; José L Carrascosa; José F Rodríguez; José R Castón
Journal:  J Biol Chem       Date:  2009-11-20       Impact factor: 5.157

Review 3.  Proposed ancestors of phage nucleic acid packaging motors (and cells).

Authors:  Philip Serwer
Journal:  Viruses       Date:  2011-07-20       Impact factor: 5.048

Review 4.  From lows to highs: using low-resolution models to phase X-ray data.

Authors:  David I Stuart; Nicola G A Abrescia
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2013-10-18
  4 in total

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