Literature DB >> 22835744

Go hybrid: EM, crystallography, and beyond.

Gabriel C Lander1, Helen R Saibil, Eva Nogales.   

Abstract

A mechanistic understanding of the molecular transactions that govern cellular function requires knowledge of the dynamic organization of the macromolecular machines involved in these processes. Structural biologists employ a variety of biophysical methods to study large macromolecular complexes, but no single technique is likely to provide a complete description of the structure-function relationship of all the constituent components. Since structural studies generally only provide snapshots of these dynamic machines as they accomplish their molecular functions, combining data from many methodologies is crucial to our understanding of molecular function.
Copyright © 2012 Elsevier Ltd. All rights reserved.

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Year:  2012        PMID: 22835744      PMCID: PMC3478466          DOI: 10.1016/j.sbi.2012.07.006

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  63 in total

1.  A protein-protein interaction map of the Caenorhabditis elegans 26S proteasome.

Authors:  A Davy; P Bello; N Thierry-Mieg; P Vaglio; J Hitti; L Doucette-Stamm; D Thierry-Mieg; J Reboul; S Boulton; A J Walhout; O Coux; M Vidal
Journal:  EMBO Rep       Date:  2001-09       Impact factor: 8.807

2.  Subunit interaction maps for the regulatory particle of the 26S proteasome and the COP9 signalosome.

Authors:  H Fu; N Reis; Y Lee; M H Glickman; R D Vierstra
Journal:  EMBO J       Date:  2001-12-17       Impact factor: 11.598

3.  Low-resolution structure refinement in electron microscopy.

Authors:  James Z Chen; Johannes Fürst; Michael S Chapman; Nikolaus Grigorieff
Journal:  J Struct Biol       Date:  2003 Oct-Nov       Impact factor: 2.867

4.  Crystal structure of a central stalk subunit C and reversible association/dissociation of vacuole-type ATPase.

Authors:  Momi Iwata; Hiromi Imamura; Elizabeth Stambouli; Chiyo Ikeda; Masatada Tamakoshi; Koji Nagata; Hisayoshi Makyio; Ben Hankamer; Jim Barber; Masasuke Yoshida; Ken Yokoyama; So Iwata
Journal:  Proc Natl Acad Sci U S A       Date:  2003-12-18       Impact factor: 11.205

5.  Complete atomic model of the bacterial flagellar filament by electron cryomicroscopy.

Authors:  Koji Yonekura; Saori Maki-Yonekura; Keiichi Namba
Journal:  Nature       Date:  2003-08-07       Impact factor: 49.962

6.  Structure of the 26S proteasome from Schizosaccharomyces pombe at subnanometer resolution.

Authors:  Stefan Bohn; Florian Beck; Eri Sakata; Thomas Walzthoeni; Martin Beck; Ruedi Aebersold; Friedrich Förster; Wolfgang Baumeister; Stephan Nickell
Journal:  Proc Natl Acad Sci U S A       Date:  2010-11-22       Impact factor: 11.205

7.  Molecular interactions in rotavirus assembly and uncoating seen by high-resolution cryo-EM.

Authors:  James Z Chen; Ethan C Settembre; Scott T Aoki; Xing Zhang; A Richard Bellamy; Philip R Dormitzer; Stephen C Harrison; Nikolaus Grigorieff
Journal:  Proc Natl Acad Sci U S A       Date:  2009-06-01       Impact factor: 11.205

8.  Protein-induced membrane curvature investigated through molecular dynamics flexible fitting.

Authors:  Jen Hsin; James Gumbart; Leonardo G Trabuco; Elizabeth Villa; Pu Qian; C Neil Hunter; Klaus Schulten
Journal:  Biophys J       Date:  2009-07-08       Impact factor: 4.033

9.  Structure at 2.8 A resolution of F1-ATPase from bovine heart mitochondria.

Authors:  J P Abrahams; A G Leslie; R Lutter; J E Walker
Journal:  Nature       Date:  1994-08-25       Impact factor: 49.962

10.  3.88 A structure of cytoplasmic polyhedrosis virus by cryo-electron microscopy.

Authors:  Xuekui Yu; Lei Jin; Z Hong Zhou
Journal:  Nature       Date:  2008-04-30       Impact factor: 49.962

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  13 in total

Review 1.  Modeling stochastic kinetics of molecular machines at multiple levels: from molecules to modules.

Authors:  Debashish Chowdhury
Journal:  Biophys J       Date:  2013-06-04       Impact factor: 4.033

2.  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

3.  Biochemistry. Integrative structural biology.

Authors:  Andrew B Ward; Andrej Sali; Ian A Wilson
Journal:  Science       Date:  2013-02-22       Impact factor: 47.728

Review 4.  Signal transduction: From the atomic age to the post-genomic era.

Authors:  Jeremy Thorner; Tony Hunter; Lewis C Cantley; Richard Sever
Journal:  Cold Spring Harb Perspect Biol       Date:  2014-10-30       Impact factor: 10.005

Review 5.  High-resolution network biology: connecting sequence with function.

Authors:  Colm J Ryan; Peter Cimermančič; Zachary A Szpiech; Andrej Sali; Ryan D Hernandez; Nevan J Krogan
Journal:  Nat Rev Genet       Date:  2013-11-07       Impact factor: 53.242

6.  Optimod--an automated approach for constructing and optimizing initial models for single-particle electron microscopy.

Authors:  Dmitry Lyumkis; Staal Vinterbo; Clinton S Potter; Bridget Carragher
Journal:  J Struct Biol       Date:  2013-10-24       Impact factor: 2.867

7.  Deep mutational scanning: a new style of protein science.

Authors:  Douglas M Fowler; Stanley Fields
Journal:  Nat Methods       Date:  2014-08       Impact factor: 28.547

8.  Combining X-Ray Crystallography with Small Angle X-Ray Scattering to Model Unstructured Regions of Nsa1 from S. Cerevisiae.

Authors:  Yu-Hua Lo; Monica C Pillon; Robin E Stanley
Journal:  J Vis Exp       Date:  2018-01-10       Impact factor: 1.355

9.  Topological models of heteromeric protein assemblies from mass spectrometry: application to the yeast eIF3:eIF5 complex.

Authors:  Argyris Politis; Carla Schmidt; Elina Tjioe; Alan M Sandercock; Keren Lasker; Yuliya Gordiyenko; Daniel Russel; Andrej Sali; Carol V Robinson
Journal:  Chem Biol       Date:  2014-12-24

10.  TEMPy: a Python library for assessment of three-dimensional electron microscopy density fits.

Authors:  Irene Farabella; Daven Vasishtan; Agnel Praveen Joseph; Arun Prasad Pandurangan; Harpal Sahota; Maya Topf
Journal:  J Appl Crystallogr       Date:  2015-06-27       Impact factor: 3.304

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