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Single molecule biology / [edited by] Alex E. Knight. — London : Elsevier Academic Press, c2009. – (58.178/S617) |
Contents
CONTENTS
Preface xi
Acknowledgments xiii
List of Contributors xv
Introduction: The "Single Molecule" Paradigm xvii
The "Single Molecule" Paradigm xvii
Life as a Molecule xxiii
Single Molecule Techniques xxv
Overview of Single Molecule Biology xxix
Conclusions xxxii
Acknowledgments xxxii
References xxxiii
Chapter 1 Single Molecule Studies of Myosins 1
Introduction 2
Motility Assays 5
Molecular Mechanics 8
Technologies 10
The Myosin Working Stroke 14
Force and Stiffness 18
Kinetics 18
Conclusions 28
Acknowledgments 28
References 29
Chapter 2 Single Molecule Experiments and the Kinesin Motor Protein Superfamily: Walking Hand in Hand 35
Introduction 36
Overall Mechanical Parameters of Kinesins 37
Advanced Mechanochemistry of Kinesin- 1 43
Lattice Diffusion as an Additional Motility Mode 46
Regulation of Kinesin Motors 50
Final Thoughts 54
Acknowledgments 54
References 55
Chapter 3 Force-Generating Mechanisms of Dynein Revealed through Single molecule Studies 61
Introduction 62
Molecular Organization of Dynein 65
Mechanism of Force Generation by Dyneins 75
Mechanical Properties of Dyneins Studied by Single molecule Methods
Dyneins in Axonemes
Perspectives: From Single Molecules to Ensembles
Acknowledgments
References
Chapter 4 The Bacterial Flagellar Motor 105
Introduction 105
Structure 108
Function 114
Outlook 130
References 131
Chapter 5 Single Molecule Studies of Chromatin Structure and Dynamics 143
Introduction 144
Sperm Chromatin 144
Spermiogenesis 146
Previous Studies of Toroid Structure 146
Single molecule Experiments 146
The Protamines P1 and P2
The Transition Proteins TP1 and TP2.
Shaping of the Sperm Head and the Role of the Manchette 150
Posttranscriptional Modifications of Sperm Nuclear Proteins 151
Conclusions: Sperm Chromatin 152
Somatic Chromatin 152
Conclusion 162
Acknowledgments 163
References 163
Chapter 6 Single Molecule Studies of Nucleic Acid Enzymes 173
Introduction 173
Methods 174
Single molecule Studies of Nucleic Acid Enzymes 176
Conclusion 188
References 188
Chapter 7 Single Molecule Studies of Prokaryotic Translation 195
Introduction 196
Directly Observing Translation 197
Translation at Atomic Resolution 200
Single molecule Translation 201
Conclusions 213
References 214
Chapter 8 Single Ion Channels 223
Comparison of Fluorescence Methods with Single-Channel Recording
How to Get Information about Mechanisms from Single molecule Measurements
Some Recent Results from Single-Channel Recording
Conclusions
References
Chapter 9 Single Molecule Fluorescence in Membrane Biology 253
The Structure and Function of Cellular Membranes 253
Why Apply Single molecule Fluorescence to Membranes? 254
Fluorescent Labels and Artificial Cell Membranes 255
Single molecule Fluorescence Techniques 256
The Role of SMF in Studying Membranes and Membrane Proteins 260
Probing the Structure and Behavior of Cell Membranes 260
Membrane-Cytoskeleton Interactions 262
Lipid Rafts 264
Understanding the Dynamics and Interactions of Membrane Proteins 266
Signalling 266
Membrane Transport 270
Vesicle Tracking， Docking， and Fusion 273
Conclusions 275
References 276
Chapter 10 Single Molecule Microarray Analysis 289
Introduction 290
Speed and Sensitivity: Mutually Exclusive Demands? 291
Microarrays: Attempting a Definition 294
Microarray Surfaces: There is Plenty to Groom at the Bottom 295
Applications: Learning from Singles 299
DNA Methylation Analysis 304
DNA Fragment Sizing 304
DNA (Combing and) Mapping 305
Single Molecule Sequencing 306
Conclusions 307
Acknowledgments 307
References 308
Appendix 317
Index 325
