Protein Crystallography: Methods and Protocols

ISBN-13: 9781493969982 / Angielski / Twarda / 2017 / 672 str.

Alexander Wlodawer; Zbigniew Dauter; Mariusz Jaskolski

Opis

This volume provides methods for modern macromolecular crystallography, including all steps leading to crystal structure determination and analysis. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Protein Crystallography aims to ensure successful results in the further study of this vital field.

Spis treści

1. Expression and Purification of Recombinant Proteins in Escherichia Coli with a His₆ or Dual His₆-MBP Tag

Sreejith Raran-Kurussi and David S. Waugh

 

2. Protein Crystallization

Alexander McPherson

 

3. Advanced Methods of Protein Crystallization

Abel Moreno

 

4. The ‘Sticky Patch’ Model of Crystallization and Modification of Proteins for Enhanced Crystallizability

Zygmunt S. Derewenda and Adam Godzik

 

5. Crystallization of Membrane Proteins: and Overview

Andrii Ishchenko, Enrique Abola, and Vadim Cherezov

 

6. Locating and Visualizing Crystals for X-ray Diffraction Experiments

Michael Becker, David J. Kissick, and Craig M. Ogata

 

7. Collection of X-ray Diffraction Data from Macromolecular Crystals

Zbigniew Dauter

 

8. Identifying and Overcoming Crystal Pathologies: Disorder and Twinning

 Michael C. Thompson

 

9. Applications of X-ray Micro-beam for Data Collection

Ruslan Sanishvili and Robert F. Fischetti

 

10. Serial Synchrotron X-ray Crystallography (SSX)

Kay Diederichs and Meitian Wang

11. Time-Resolved Macromolecular Crystallography at Modern X-ray Sources

Marius Schmidt

 

12. Structure Determination Using X-ray Free-electron Laser Pulses

Henry N. Chapman

 

13. Processing of XFEL Data

Thomas A. White

 

14. Many Ways to Derivatize Macromolecules and their Crystals for Phasing

Miroslawa Dauter and Zbigniew Dauter

15. Experimental Phasing: Substructure Solution and Density Modification as Implemented in SHELX

Andrea Thorn

 

16. Contemporary Use of Anomalous Diffraction in Biomolecular Structure Analysis

Qun Liu and Wayne A. Hendrickson

 

17. Long-Wavelength X-ray Diffraction and its Applications in Macromolecular Crystallography

Manfred S. Weiss

 

18. Acknowledging Errors: Advanced Molecular Replacement with Phaser

 Airlie J. McCoy

 

19. Rosetta Structure Prediction as a Tool for Solving Difficult Molecular Replacement Problems

Frank DiMaio

 

20. Radiation Damage in Macromolecular Crystallography

Elspeth F. Garman and Martin Weik

 

21. Boxes of Model Building and Visualization

Dusan Turk

 

22. Structure Refinement at Atomic Resolution

Mariusz Jaskolski

 

23. Low Resolution Refinement of Atomic Models against Crystallographic Data

Robert A. Nicholls, Oleg Kovalevskiy, and Garib N. Murshudov

 

24. Stereochemistry and Validation of Macromolecular Structures

Alexander Wlodawer

 

25. Validation of Protein-Ligand Crystal Structure Models: Small Molecule and Peptide Ligands

Edwin Pozharski, Marc C. Deller and Bernhard Rupp

 

26. Protein Data Bank - the Single Global Macromolecular Structure Archive Managed by the Worldwide Protein Data Bank

Stephen K. Burley Helen M. Berman, Gerard J. Kleywegt, John L. Markley, Haruki Nakamura, and Sameer Velankar

 

27. Databases, Repositories and Other Data Resources in Structural Biology

Heping Zheng, Przemyslaw J. Porebski, Marek Grabowski, David R. Cooper, and Wladek Minor