Electron Crystallography of Soluble and Membrane Proteins: Methods and Protocols

ISBN-13: 9781627031752 / Angielski / Twarda / 2012 / 586 str.

Ingeborg Schmidt-Krey; Yifan Cheng

Opis

The basic principle of electron crystallography is to calculate a 3D density map by combining the amplitudes obtained from electron diffraction patterns with the experimental phases calculated from images of two-dimensional crystals of membrane or soluble proteins. This technology is very well developed and has produced a number of atomic models of membrane proteins in a lipid environment. Focused on comprehensive experimental protocols, Electron Crystallography of Soluble and Membrane Proteins: Methods and Protocols covers the entire range of techniques used in electron crystallography, including protein sample preparation, 2D crystallization, and screening in negative stain over electron cryo-microscopy (cryo-EM) and data processing, as well as modeling of conformational changes. Additional chapters provide perspective on past, present, and future challenges as well as complementary methods. Written for the popular Methods in Molecular Biology series, the work contains the kind of detailed descriptions and implementation advice necessary to ensure successful results.Comprehensive and cutting-edge, Electron Crystallography of Soluble and Membrane Proteins: Methods and Protocols serves laboratories new to the methods as well as state-of-the-art facilities pursuing this exciting area of protein science.

Recenzje

From the reviews:

"This book contains chapters covering all of the key elements of electron crystallography. ... This is definitely a valuable book to have in every laboratory that is actively working in the area of electron crystallography because it provides a great deal of information in one convenient place. It would also be useful for anyone who just wants to get a general understanding about this branch of electron microscopy and structural biology, even without intending to use crystals in their own work." (Robert Glaeser, Microscopy and Microanalysis, Vol. 19 (3), June, 2013)

Spis treści

1. Introduction to Electron Crystallography

            Werner Kühlbrandt

 

2. Practical Aspects in Expression and Purification of Membrane Proteins for Structural Analysis

            Kutti R. Vinothkumar, Patricia C. Edwards, and Joerg Standfuss

 

3. Two-Dimensional Crystallization of Membrane Proteins by Reconstitution through Dialysis

            Matthew C. Johnson, Tina M. Dreaden, Laura Y. Kim, Frederik Rudolph, Bridgette Barry, and Ingeborg Schmidt-Krey

 

4. Monolayer Two-Dimensional Crystallization

            Luc Lebeau and Catherine Vénien-Bryan

 

5. Screening for Two-Dimensional Crystals by Transmission Electron Microscopy of Negatively Stained Samples

            Tina M. Dreaden, Maureen Metcalfe, Laura Y. Kim, Matthew C. Johnson, Bridgette A. Barry, and Ingeborg Schmidt-Krey

 

6. Low Dose Techniques and Cryo-Electron Microscopy

            Yoshinori Fujiyoshi

 

7. Grid Preparation for Cryo-Electron Microscopy

            Nobuhiko Gyobu

 

8. Recording High-Resolution Images of Two-Dimensional Crystals of Membrane Proteins

            Agustin Avila-Sakar, Xueming Li, Shawn Q. Zheng, and Yifan Cheng

 

9. The Collection of High-Resolution Electron Diffraction Data

            Tamir Gonen

 

10. Image Processing of 2D Crystal Images

            Marcel Arheit, Daniel Castaño-Diéz, Raphael Thierry, Bryant R. Gipson, Xiangyan Zeng, and Henning Stahlberg

 

11. Merging of Image Data in Electron Crystallography

            Marcel Arheit, Daniel Castaño-Diéz, Raphael Thierry, Priyanka Abeyrathne, Bryant R. Gipson, and Henning Stahlberg

 

12. Evaluation of Electron Crystallographic Data From Images of Two-Dimensional Crystals

            Vinzenz M. Unger

 

13. Modeling, Docking, and Fitting of Atomic Structures to 3D Maps from Cryo-Electron Microscopy

            Gregory S. Allen and David L. Stokes

 

14. Phasing Electron Diffraction Data by Molecular Replacement: Strategy for Structure Determination and Refinement

            Goragot Wisedchaisri and Tamir Gonen

 

15. High-Throughput Methods for Electron Crystallography

            David L. Stokes, Iban Ubarretxena-Belandia, Tamir Gonen, and Andreas Engel

 

16. Automated Grid Handling and Image Acquisition for Two-Dimensional Crystal Screening

            Anchi Cheng

 

17. Automation of Data Acquisition in Electron Crystallography

            Anchi Cheng

 

18. Automation of Image Processing in Electron Crystallography

            Marcel Arheit, Daniel Castaño-Diéz, Raphael Thierry, Bryant R. Gipson, Xiangyan Zeng, and Henning Stahlberg

 

19. Choice and Maintenance of Equipment for Electron Crystallography

            Deryck J. Mills and Janet Vonck

 

20. Future Developments in Instrumentation for Electron Crystallography

            Kenneth H. Downing

 

21. Tubular Crystals and Helical Arrays: Structural Determination of HIV-1 Capsid Assemblies Using Iterative Helical Real-Space Reconstruction

            Peijun Zhang, Xin Meng, and Gongpu Zhao

 

22. Single Particle Electron Microscopy

            Wilson C.Y. Lau and John L. Rubinstein

 

23. Electron Tomography of Paracrystalline 2D Arrays

            Hanspeter Winkler, Shenping Wu, and Kenneth A. Taylor

 

24. High-Resolution Imaging of 2D Outer Membrane Protein F (OmpF) Crystals by Atomic Force Microscopy

            Dimitrios Fotiadis and Daniel J. Müller

 

25. Determination of Soluble and Membrane Protein Structures by X-Ray Crystallography

            Raquel L. Lieberman, Mary E. Peek, and J. Derrick Watkins

 

26. Solution Nuclear Magnetic Resonance (NMR) Spectroscopy

            James J. Chou and Remy Sounier

 

27. Structure-Function Insights of Membrane and Soluble Proteins Revealed by Electron Crystallography

            Tina M. Dreaden, Bharanidharan Devarajan, Bridgette A. Barry, and Ingeborg Schmidt-Krey

 

28. Lipid Monolayer and Sparse Matrix Screening for Growing Two-Dimensional Crystals for Electron Crystallography: Methods and Examples

            Mark Yeager, Kelly A. Dryden, and Barbie K. Ganser-Pornillos

 

29. Processing of Electron Diffraction Patterns with the XDP Program

            Kaoru Mitsuoka

 

30. Future Directions of Electron Crystallography

            Yoshinori Fujiyoshi