Literature DB >> 28055037

Advances in the field of single-particle cryo-electron microscopy over the last decade.

Joachim Frank1.   

Abstract

In single-particle cryo-electron microscopy (cryo-EM), molecules suspended in a thin aqueous layer are rapidly frozen and imaged at cryogenic temperature in the transmission electron microscope. From the random projection views, a three-dimensional image is reconstructed, enabling the structure of the molecule to be obtained. In this article I discuss technological progress over the past decade, which has, in my own field of study, culminated in the determination of ribosome structure at 2.5-Å resolution. I also discuss likely future improvements in methodology.

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Year:  2017        PMID: 28055037      PMCID: PMC5479931          DOI: 10.1038/nprot.2017.004

Source DB:  PubMed          Journal:  Nat Protoc        ISSN: 1750-2799            Impact factor:   13.491


  20 in total

1.  Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis.

Authors:  Elizabeth Villa; Jayati Sengupta; Leonardo G Trabuco; Jamie LeBarron; William T Baxter; Tanvir R Shaikh; Robert A Grassucci; Poul Nissen; Måns Ehrenberg; Klaus Schulten; Joachim Frank
Journal:  Proc Natl Acad Sci U S A       Date:  2009-01-02       Impact factor: 11.205

2.  Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics.

Authors:  Leonardo G Trabuco; Elizabeth Villa; Kakoli Mitra; Joachim Frank; Klaus Schulten
Journal:  Structure       Date:  2008-05       Impact factor: 5.006

Review 3.  The potential and limitations of neutrons, electrons and X-rays for atomic resolution microscopy of unstained biological molecules.

Authors:  R Henderson
Journal:  Q Rev Biophys       Date:  1995-05       Impact factor: 5.318

4.  A model of protein synthesis based on cryo-electron microscopy of the E. coli ribosome.

Authors:  J Frank; J Zhu; P Penczek; Y Li; S Srivastava; A Verschoor; M Radermacher; R Grassucci; R K Lata; R K Agrawal
Journal:  Nature       Date:  1995-08-03       Impact factor: 49.962

5.  Structural dynamics of ribosome subunit association studied by mixing-spraying time-resolved cryogenic electron microscopy.

Authors:  Bo Chen; Sandip Kaledhonkar; Ming Sun; Bingxin Shen; Zonghuan Lu; David Barnard; Toh-Ming Lu; Ruben L Gonzalez; Joachim Frank
Journal:  Structure       Date:  2015-05-21       Impact factor: 5.006

6.  A Bayesian view on cryo-EM structure determination.

Authors:  Sjors H W Scheres
Journal:  J Mol Biol       Date:  2011-11-12       Impact factor: 5.469

7.  High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome.

Authors:  Yaser Hashem; Amedee des Georges; Jie Fu; Sarah N Buss; Fabrice Jossinet; Amy Jobe; Qin Zhang; Hstau Y Liao; Robert A Grassucci; Chandrajit Bajaj; Eric Westhof; Susan Madison-Antenucci; Joachim Frank
Journal:  Nature       Date:  2013-02-10       Impact factor: 49.962

8.  Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles.

Authors:  Xiao-Chen Bai; Israel S Fernandez; Greg McMullan; Sjors H W Scheres
Journal:  Elife       Date:  2013-02-19       Impact factor: 8.140

9.  Structure of the TRPV1 ion channel determined by electron cryo-microscopy.

Authors:  Maofu Liao; Erhu Cao; David Julius; Yifan Cheng
Journal:  Nature       Date:  2013-12-05       Impact factor: 49.962

10.  TRPV1 structures in distinct conformations reveal activation mechanisms.

Authors:  Erhu Cao; Maofu Liao; Yifan Cheng; David Julius
Journal:  Nature       Date:  2013-12-05       Impact factor: 49.962

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  50 in total

1.  Differences in the path to exit the ribosome across the three domains of life.

Authors:  Khanh Dao Duc; Sanjit S Batra; Nicholas Bhattacharya; Jamie H D Cate; Yun S Song
Journal:  Nucleic Acids Res       Date:  2019-05-07       Impact factor: 16.971

2.  Structural determination of the large photosystem II-light-harvesting complex II supercomplex of Chlamydomonas reinhardtii using nonionic amphipol.

Authors:  Raymond N Burton-Smith; Akimasa Watanabe; Ryutaro Tokutsu; Chihong Song; Kazuyoshi Murata; Jun Minagawa
Journal:  J Biol Chem       Date:  2019-08-15       Impact factor: 5.157

Review 3.  Challenges and opportunities in cryo-EM single-particle analysis.

Authors:  Dmitry Lyumkis
Journal:  J Biol Chem       Date:  2019-02-25       Impact factor: 5.157

4.  Automated cryo-EM structure refinement using correlation-driven molecular dynamics.

Authors:  Maxim Igaev; Carsten Kutzner; Lars V Bock; Andrea C Vaiana; Helmut Grubmüller
Journal:  Elife       Date:  2019-03-04       Impact factor: 8.140

Review 5.  Cryo-EM in drug discovery: achievements, limitations and prospects.

Authors:  Jean-Paul Renaud; Ashwin Chari; Claudio Ciferri; Wen-Ti Liu; Hervé-William Rémigy; Holger Stark; Christian Wiesmann
Journal:  Nat Rev Drug Discov       Date:  2018-06-08       Impact factor: 84.694

6.  Mapping Ryanodine Binding Sites in the Pore Cavity of Ryanodine Receptors.

Authors:  Van A Ngo; Laura L Perissinotti; Williams Miranda; S R Wayne Chen; Sergei Y Noskov
Journal:  Biophys J       Date:  2017-04-25       Impact factor: 4.033

Review 7.  Computational membrane biophysics: From ion channel interactions with drugs to cellular function.

Authors:  Williams E Miranda; Van A Ngo; Laura L Perissinotti; Sergei Yu Noskov
Journal:  Biochim Biophys Acta Proteins Proteom       Date:  2017-08-26       Impact factor: 3.036

8.  Angular reconstitution-based 3D reconstructions of nanomolecular structures from superresolution light-microscopy images.

Authors:  Desirée Salas; Antoine Le Gall; Jean-Bernard Fiche; Alessandro Valeri; Yonggang Ke; Patrick Bron; Gaetan Bellot; Marcelo Nollmann
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-15       Impact factor: 11.205

9.  Affinity maturation of a portable Fab-RNA module for chaperone-assisted RNA crystallography.

Authors:  Deepak Koirala; Sandip A Shelke; Marcel Dupont; Stormy Ruiz; Saurja DasGupta; Lucas J Bailey; Steven A Benner; Joseph A Piccirilli
Journal:  Nucleic Acids Res       Date:  2018-03-16       Impact factor: 16.971

Review 10.  Dawning of a new era in TRP channel structural biology by cryo-electron microscopy.

Authors:  M Gregor Madej; Christine M Ziegler
Journal:  Pflugers Arch       Date:  2018-01-17       Impact factor: 3.657

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