Literature DB >> 17103018

Milestones in electron crystallography.

Ludovic Renault1, Hui-Ting Chou, Po-Lin Chiu, Rena M Hill, Xiangyan Zeng, Bryant Gipson, Zi Yan Zhang, Anchi Cheng, Vinzenz Unger, Henning Stahlberg.   

Abstract

Electron crystallography determines the structure of membrane embedded proteins in the two-dimensionally crystallized state by cryo-transmission electron microscopy imaging and computer structure reconstruction. Milestones on the path to the structure are high-level expression, purification of functional protein, reconstitution into two-dimensional lipid membrane crystals, high-resolution imaging, and structure determination by computer image processing. Here we review the current state of these methods. We also created an Internet information exchange platform for electron crystallography, where guidelines for imaging and data processing method are maintained. The server (http://2dx.org) provides the electron crystallography community with a central information exchange platform, which is structured in blog and Wiki form, allowing visitors to add comments or discussions. It currently offers a detailed step-by-step introduction to image processing with the MRC software program. The server is also a repository for the 2dx software package, a user-friendly image processing system for 2D membrane protein crystals.

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Year:  2006        PMID: 17103018      PMCID: PMC2194810          DOI: 10.1007/s10822-006-9075-x

Source DB:  PubMed          Journal:  J Comput Aided Mol Des        ISSN: 0920-654X            Impact factor:   3.686


  64 in total

1.  The Protein Data Bank.

Authors:  H M Berman; J Westbrook; Z Feng; G Gilliland; T N Bhat; H Weissig; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  Parameters affecting specimen flatness of two-dimensional crystals for electron crystallography.

Authors:  J Vonck
Journal:  Ultramicroscopy       Date:  2000-11       Impact factor: 2.689

Review 3.  From words to literature in structural proteomics.

Authors:  Andrej Sali; Robert Glaeser; Thomas Earnest; Wolfgang Baumeister
Journal:  Nature       Date:  2003-03-13       Impact factor: 49.962

4.  Structure and mechanism of the lactose permease of Escherichia coli.

Authors:  Jeff Abramson; Irina Smirnova; Vladimir Kasho; Gillian Verner; H Ronald Kaback; So Iwata
Journal:  Science       Date:  2003-08-01       Impact factor: 47.728

5.  Structural genomics of membrane proteins.

Authors:  Yoshimasa Kyogoku; Yoshinori Fujiyoshi; Ichio Shimada; Haruki Nakamura; Tomitake Tsukihara; Hideo Akutsu; Takayuki Odahara; Tetsuji Okada; Nobuo Nomura
Journal:  Acc Chem Res       Date:  2003-03       Impact factor: 22.384

6.  Molecular structure determination by electron microscopy of unstained crystalline specimens.

Authors:  P N Unwin; R Henderson
Journal:  J Mol Biol       Date:  1975-05-25       Impact factor: 5.469

7.  Specimen charging on thin films with one conducting layer: discussion of physical principles.

Authors:  Robert M Glaeser; Kenneth H Downing
Journal:  Microsc Microanal       Date:  2004-12       Impact factor: 4.127

8.  Atomic model of plant light-harvesting complex by electron crystallography.

Authors:  W Kühlbrandt; D N Wang; Y Fujiyoshi
Journal:  Nature       Date:  1994-02-17       Impact factor: 49.962

9.  A continuous cell-free translation system capable of producing polypeptides in high yield.

Authors:  A S Spirin; V I Baranov; L A Ryabova; S Y Ovodov; Y B Alakhov
Journal:  Science       Date:  1988-11-25       Impact factor: 47.728

10.  Model for the structure of bacteriorhodopsin based on high-resolution electron cryo-microscopy.

Authors:  R Henderson; J M Baldwin; T A Ceska; F Zemlin; E Beckmann; K H Downing
Journal:  J Mol Biol       Date:  1990-06-20       Impact factor: 5.469

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  11 in total

1.  Detection of membrane protein two-dimensional crystals in living cells.

Authors:  E J Gualtieri; F Guo; D J Kissick; J Jose; R J Kuhn; W Jiang; G J Simpson
Journal:  Biophys J       Date:  2011-01-05       Impact factor: 4.033

Review 2.  The neurobiologist's guide to structural biology: a primer on why macromolecular structure matters and how to evaluate structural data.

Authors:  Daniel L Minor
Journal:  Neuron       Date:  2007-05-24       Impact factor: 17.173

3.  2dx_merge: data management and merging for 2D crystal images.

Authors:  Bryant Gipson; Xiangyan Zeng; Henning Stahlberg
Journal:  J Struct Biol       Date:  2007-09-25       Impact factor: 2.867

Review 4.  Vertebrate membrane proteins: structure, function, and insights from biophysical approaches.

Authors:  Daniel J Müller; Nan Wu; Krzysztof Palczewski
Journal:  Pharmacol Rev       Date:  2008-03-05       Impact factor: 25.468

5.  Segmentation of electron tomographic data sets using fuzzy set theory principles.

Authors:  Edgar Garduño; Mona Wong-Barnum; Niels Volkmann; Mark H Ellisman
Journal:  J Struct Biol       Date:  2008-02-16       Impact factor: 2.867

6.  The structure of the prokaryotic cyclic nucleotide-modulated potassium channel MloK1 at 16 A resolution.

Authors:  Po-Lin Chiu; Matthew D Pagel; James Evans; Hui-Ting Chou; Xiangyan Zeng; Bryant Gipson; Henning Stahlberg; Crina M Nimigean
Journal:  Structure       Date:  2007-09       Impact factor: 5.006

Review 7.  Cryo-electron tomography: an ideal method to study membrane-associated proteins.

Authors:  Michelle A Dunstone; Alex de Marco
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2017-08-05       Impact factor: 6.237

8.  Lead discovery and in silico 3D structure modeling of tumorigenic FAM72A (p17).

Authors:  Subrata Pramanik; Arne Kutzner; Klaus Heese
Journal:  Tumour Biol       Date:  2014-09-20

9.  From electron crystallography of 2D crystals to MicroED of 3D crystals.

Authors:  Michael W Martynowycz; Tamir Gonen
Journal:  Curr Opin Colloid Interface Sci       Date:  2018-01-31       Impact factor: 6.448

10.  A maximum likelihood approach to two-dimensional crystals.

Authors:  Xiangyan Zeng; Henning Stahlberg; Nikolaus Grigorieff
Journal:  J Struct Biol       Date:  2007-09-25       Impact factor: 2.867

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