Literature DB >> 21115172

Present and future of membrane protein structure determination by electron crystallography.

Iban Ubarretxena-Belandia1, David L Stokes.   

Abstract

Membrane proteins are critical to cell physiology, playing roles in signaling, trafficking, transport, adhesion, and recognition. Despite their relative abundance in the proteome and their prevalence as targets of therapeutic drugs, structural information about membrane proteins is in short supply. This chapter describes the use of electron crystallography as a tool for determining membrane protein structures. Electron crystallography offers distinct advantages relative to the alternatives of X-ray crystallography and NMR spectroscopy. Namely, membrane proteins are placed in their native membranous environment, which is likely to favor a native conformation and allow changes in conformation in response to physiological ligands. Nevertheless, there are significant logistical challenges in finding appropriate conditions for inducing membrane proteins to form two-dimensional arrays within the membrane and in using electron cryo-microscopy to collect the data required for structure determination. A number of developments are described for high-throughput screening of crystallization trials and for automated imaging of crystals with the electron microscope. These tools are critical for exploring the necessary range of factors governing the crystallization process. There have also been recent software developments to facilitate the process of structure determination. However, further innovations in the algorithms used for processing images and electron diffraction are necessary to improve throughput and to make electron crystallography truly viable as a method for determining atomic structures of membrane proteins.
Copyright © 2010 Elsevier Inc. All rights reserved.

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Year:  2010        PMID: 21115172      PMCID: PMC3121533          DOI: 10.1016/B978-0-12-381357-2.00002-5

Source DB:  PubMed          Journal:  Adv Protein Chem Struct Biol        ISSN: 1876-1623            Impact factor:   3.507


  98 in total

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Review 2.  Bilayer thickness and membrane protein function: an energetic perspective.

Authors:  Olaf S Andersen; Roger E Koeppe
Journal:  Annu Rev Biophys Biomol Struct       Date:  2007

3.  Towards automated screening of two-dimensional crystals.

Authors:  Anchi Cheng; Albert Leung; Denis Fellmann; Joel Quispe; Christian Suloway; James Pulokas; Priyanka D Abeyrathne; Joseph S Lam; Bridget Carragher; Clinton S Potter
Journal:  J Struct Biol       Date:  2007-09-25       Impact factor: 2.867

4.  X-ray structure of EmrE supports dual topology model.

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Journal:  Proc Natl Acad Sci U S A       Date:  2007-11-16       Impact factor: 11.205

5.  Single particle refinement in electron crystallography: a pilot study.

Authors:  Philip J B Koeck; Pasi Purhonen; Ronny Alvang; Björn Grundberg; Hans Hebert
Journal:  J Struct Biol       Date:  2007-09-11       Impact factor: 2.867

6.  X-ray structure of a prokaryotic pentameric ligand-gated ion channel.

Authors:  Ricarda J C Hilf; Raimund Dutzler
Journal:  Nature       Date:  2008-03-05       Impact factor: 49.962

Review 7.  How protein transmembrane segments sense the lipid environment.

Authors:  Thomas K M Nyholm; Suat Ozdirekcan; J Antoinette Killian
Journal:  Biochemistry       Date:  2007-02-13       Impact factor: 3.162

8.  A high-throughput strategy to screen 2D crystallization trials of membrane proteins.

Authors:  Martin Vink; Kd Derr; James Love; David L Stokes; Iban Ubarretxena-Belandia
Journal:  J Struct Biol       Date:  2007-09-14       Impact factor: 2.867

9.  Structural basis for induced formation of the inflammatory mediator prostaglandin E2.

Authors:  Caroline Jegerschöld; Sven-Christian Pawelzik; Pasi Purhonen; Priyaranjan Bhakat; Karina Roxana Gheorghe; Nobuhiko Gyobu; Kaoru Mitsuoka; Ralf Morgenstern; Per-Johan Jakobsson; Hans Hebert
Journal:  Proc Natl Acad Sci U S A       Date:  2008-08-05       Impact factor: 11.205

10.  Electron crystallography reveals plasticity within the drug binding site of the small multidrug transporter EmrE.

Authors:  Vladimir M Korkhov; Christopher G Tate
Journal:  J Mol Biol       Date:  2008-01-31       Impact factor: 5.469

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  11 in total

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Review 2.  HIV-1 envelope glycoprotein biosynthesis, trafficking, and incorporation.

Authors:  Mary Ann Checkley; Benjamin G Luttge; Eric O Freed
Journal:  J Mol Biol       Date:  2011-07-22       Impact factor: 5.469

Review 3.  High throughput platforms for structural genomics of integral membrane proteins.

Authors:  Filippo Mancia; James Love
Journal:  Curr Opin Struct Biol       Date:  2011-07-30       Impact factor: 6.809

Review 4.  Toward structure determination using membrane-protein nanocrystals and microcrystals.

Authors:  Mark S Hunter; Petra Fromme
Journal:  Methods       Date:  2011-12-22       Impact factor: 3.608

5.  Sparse and incomplete factorial matrices to screen membrane protein 2D crystallization.

Authors:  R Lasala; N Coudray; A Abdine; Z Zhang; M Lopez-Redondo; R Kirshenbaum; J Alexopoulos; Z Zolnai; D L Stokes; I Ubarretxena-Belandia
Journal:  J Struct Biol       Date:  2014-12-03       Impact factor: 2.867

Review 6.  Using X-ray Footprinting and Mass Spectrometry to Study the Structure and Function of Membrane Proteins.

Authors:  Sayan Gupta
Journal:  Protein Pept Lett       Date:  2019       Impact factor: 1.890

7.  High-throughput methods for electron crystallography.

Authors:  David L Stokes; Iban Ubarretxena-Belandia; Tamir Gonen; Andreas Engel
Journal:  Methods Mol Biol       Date:  2013

Review 8.  Membrane protein structure determination by electron crystallography.

Authors:  Iban Ubarretxena-Belandia; David L Stokes
Journal:  Curr Opin Struct Biol       Date:  2012-05-08       Impact factor: 6.809

9.  Perspective: A toolbox for protein structure determination in physiological environment through oriented, 2D ordered, site specific immobilization.

Authors:  M Altissimo; M Kiskinova; R Mincigrucci; L Vaccari; C Guarnaccia; C Masciovecchio
Journal:  Struct Dyn       Date:  2017-04-14       Impact factor: 2.920

Review 10.  Cryo-electron microscopy--a primer for the non-microscopist.

Authors:  Jacqueline L S Milne; Mario J Borgnia; Alberto Bartesaghi; Erin E H Tran; Lesley A Earl; David M Schauder; Jeffrey Lengyel; Jason Pierson; Ardan Patwardhan; Sriram Subramaniam
Journal:  FEBS J       Date:  2012-12-17       Impact factor: 5.542

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