Literature DB >> 17201674

Visualizing flexibility at molecular resolution: analysis of heterogeneity in single-particle electron microscopy reconstructions.

Andres E Leschziner1, Eva Nogales.   

Abstract

It is becoming increasingly clear that many macromolecules are intrinsically flexible and exist in multiple conformations in solution. Single-particle reconstruction of vitrified samples (cryo-electron microscopy, or cryo-EM) is uniquely positioned to visualize this conformational flexibility in its native state. Although heterogeneity remains a significant challenge in cryo-EM single-particle analysis, recent efforts in the field point to a future where it will be possible to tap into this rich source of biological information on a routine basis. In this article, we review the basic principles behind a few relatively new and generally applicable methods that show particular promise as tools to analyze macromolecular flexibility. We also discuss some of their recent applications to problems of biological interest.

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Year:  2007        PMID: 17201674     DOI: 10.1146/annurev.biophys.36.040306.132742

Source DB:  PubMed          Journal:  Annu Rev Biophys Biomol Struct        ISSN: 1056-8700


  40 in total

1.  Conformational flexibility in the chromatin remodeler RSC observed by electron microscopy and the orthogonal tilt reconstruction method.

Authors:  Andres E Leschziner; Anjanabha Saha; Jacqueline Wittmeyer; Yongli Zhang; Carlos Bustamante; Bradley R Cairns; Eva Nogales
Journal:  Proc Natl Acad Sci U S A       Date:  2007-03-13       Impact factor: 11.205

2.  Modeling experimental image formation for likelihood-based classification of electron microscopy data.

Authors:  Sjors H W Scheres; Rafael Núñez-Ramírez; Yacob Gómez-Llorente; Carmen San Martín; Paul P B Eggermont; José María Carazo
Journal:  Structure       Date:  2007-10       Impact factor: 5.006

Review 3.  3D electron microscopy of biological nanomachines: principles and applications.

Authors:  C O S Sorzano; S Jonic; M Cottevieille; E Larquet; N Boisset; S Marco
Journal:  Eur Biophys J       Date:  2007-07-05       Impact factor: 1.733

4.  Snapshots of the RNA editing machine in trypanosomes captured at different assembly stages in vivo.

Authors:  Monika M Golas; Cordula Böhm; Bjoern Sander; Kerstin Effenberger; Michael Brecht; Holger Stark; H Ulrich Göringer
Journal:  EMBO J       Date:  2009-02-05       Impact factor: 11.598

5.  Molecular basis of transcription initiation in Archaea.

Authors:  Sacha De Carlo; Shih-Chieh Lin; Dylan J Taatjes; Andreas Hoenger
Journal:  Transcription       Date:  2010 Sep-Oct

6.  Structure, assembly and dynamics of macromolecular complexes by single particle cryo-electron microscopy.

Authors:  Alexandre Durand; Gabor Papai; Patrick Schultz
Journal:  J Nanobiotechnology       Date:  2013-12-10       Impact factor: 10.435

7.  Maximum likelihood refinement of electron microscopy data with normalization errors.

Authors:  Sjors H W Scheres; Mikel Valle; Patricia Grob; Eva Nogales; José-María Carazo
Journal:  J Struct Biol       Date:  2009-02-21       Impact factor: 2.867

8.  Introducing robustness to maximum-likelihood refinement of electron-microscopy data.

Authors:  Sjors H W Scheres; José María Carazo
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-06-20

9.  Mapping the initiator binding Taf2 subunit in the structure of hydrated yeast TFIID.

Authors:  Gabor Papai; Manish K Tripathi; Christine Ruhlmann; Sebastiaan Werten; Corinne Crucifix; P Anthony Weil; Patrick Schultz
Journal:  Structure       Date:  2009-03-11       Impact factor: 5.006

10.  Human TFIID binds to core promoter DNA in a reorganized structural state.

Authors:  Michael A Cianfrocco; George A Kassavetis; Patricia Grob; Jie Fang; Tamar Juven-Gershon; James T Kadonaga; Eva Nogales
Journal:  Cell       Date:  2013-01-17       Impact factor: 41.582

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