10 Hands on Native Mass Spectrometry Analysis
of Multi-protein Complexes. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 173
Ste ´phane Erb, Sarah Cianfe ´rani, and Julien Marcoux
11 Studying Protein–DNA Interactions by Hydrogen/Deuterium Exchange
Mass Spectrometry . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 193
Ruzena Filandrova, Daniel Kavan,
Alan Kadek, Petr Novak, and Petr Man
12 Integrative Mass Spectrometry–Based Approaches for Modeling
Macromolecular Assemblies . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 221
Andy M. Lau and Argyris Politis
13 Optimization of Sample Preparation for the Observation
of Macromolecular Complexes by Electron (cryo-)Microscopy . . . . . . . . . . . . . . . 243
Alexandre Frechard, Grigory Sharov,
Maximilien Werderer, and Patrick Schultz
14 Solubilization and Stabilization of Native Membrane Proteins
for Drug Discovery . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 257
Vincent Corvest and Anass Jawhari
PART III ANALYSIS IN A CELLULAR CONTEXT
15 Practical Aspects of Super-Resolution Imaging and Segmentation
of Macromolecular Complexes by dSTORM . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 271
Leonid Andronov, Jean-Luc Vonesch,
and Bruno P. Klaholz
16 Multicolor FRET-FLIM Microscopy to Analyze Multiprotein
Interactions in Live Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 287
Abdullah Ahmed, Jennifer Schoberer,
Emily Cooke, and Stanley W. Botchway
17 Context-Specific and Proximity-Dependent Labeling
for the Proteomic Analysis of Spatiotemporally Defined
Protein Complexes with Split-BioID . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 303
Cinthia Amaya Ramirez, Stefanie Egetemaier,
and Julien Be ´thune
18 A Directed Evolution System for Lysine Deacetylases . . . . . . . . . . . . . . . . . . . . . . . 319
Martin Spinck, Maria Ecke,
Damian Schiller, and Heinz Neumann
Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 339
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of Multi-protein Complexes. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 173
Ste ´phane Erb, Sarah Cianfe ´rani, and Julien Marcoux
11 Studying Protein–DNA Interactions by Hydrogen/Deuterium Exchange
Mass Spectrometry . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 193
Ruzena Filandrova, Daniel Kavan,
Alan Kadek, Petr Novak, and Petr Man
12 Integrative Mass Spectrometry–Based Approaches for Modeling
Macromolecular Assemblies . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 221
Andy M. Lau and Argyris Politis
13 Optimization of Sample Preparation for the Observation
of Macromolecular Complexes by Electron (cryo-)Microscopy . . . . . . . . . . . . . . . 243
Alexandre Frechard, Grigory Sharov,
Maximilien Werderer, and Patrick Schultz
14 Solubilization and Stabilization of Native Membrane Proteins
for Drug Discovery . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 257
Vincent Corvest and Anass Jawhari
PART III ANALYSIS IN A CELLULAR CONTEXT
15 Practical Aspects of Super-Resolution Imaging and Segmentation
of Macromolecular Complexes by dSTORM . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 271
Leonid Andronov, Jean-Luc Vonesch,
and Bruno P. Klaholz
16 Multicolor FRET-FLIM Microscopy to Analyze Multiprotein
Interactions in Live Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 287
Abdullah Ahmed, Jennifer Schoberer,
Emily Cooke, and Stanley W. Botchway
17 Context-Specific and Proximity-Dependent Labeling
for the Proteomic Analysis of Spatiotemporally Defined
Protein Complexes with Split-BioID . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 303
Cinthia Amaya Ramirez, Stefanie Egetemaier,
and Julien Be ´thune
18 A Directed Evolution System for Lysine Deacetylases . . . . . . . . . . . . . . . . . . . . . . . 319
Martin Spinck, Maria Ecke,
Damian Schiller, and Heinz Neumann
Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 339
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Contents