Single Molecule Enzymology: Methods and Protocols (Methods in Molecular Biology)

The last fifteen years have witnessed the birth and maturation of many original methods and the development of protocols specific to single molecule measurements and their analysis, including techniques involving optical imaging, electron microscopy, optical and magnetic trapping, and developments in atomic force microscopy.  In Single Molecule Enzymology: Methods and Protocols, experts in the field provide procedures which enable the extraction of detailed information about enzyme work cycles, their static and kinetic properties, and information about their location and activity within cells. The detailed volume offers practical advice on many aspects of single molecule enzymology and includes strategic overviews of interconnected methods involved in sample preparation, single molecule measurements, and data analysis.  Written in the highly successful Methods in Molecular Biology(TM) series format, chapters contain 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 up-to-date, Single Molecule Enzymology: Methods and Protocols is intended for use within the diverse community of molecular biologists, biochemists, and biophysicists studying enzymes in detail and can be used by researchers planning their first single molecule study or to aid more experienced researchers in further developing their existing studies. 1. Single Enzyme Studies: A Historical Perspective             Alex E. Knight   2. Functional Surface-Attachment in a Sandwich Geometry of GFP-Labeled Motor Proteins             Volker Bormuth, Felix Zrgibel, Erik Schffer, and Jonathon Howard   3. Studying Kinesin’s Enzymatic Cycle Using a Single-Motor Confocal Motility Assay, Employing Frster Resonance Energy Transfer             Zdenek Lansky and Erwin J.G. Peterman   4. Fluorescence Imaging with One Nanometer Accuracy: In Vitro and In Vivo Studies of Molecular Motors             Melinda Tonks Hoffman, Janet Sheung, and Paul R. Selvin   5. Snapshots of Kinesin Motors on Microtubule Tracks             Franck J. Fourniol and Carolyn A. Moores   6. Structural and Dynamic Characterization of Biochemical Processes by Atomic Force Microscopy             Frdric Eghiaian and Iwan A.T. Schaap   7. Using Optical Tweezers to Study Fine Details of Myosin ATPase Mechanochemical Cycle             Christopher Batters and Claudia Veigel   8. Quantum Dot Labeling Strategies to Characterize Single Molecular Motors             Shane R. Nelson, M. Yusuf Ali, and David M. Warshaw   9. Imaging Individual Myosin Molecules Within Living Cells             Tatiana A. Nenasheva, Gregory I. Mashanov, Michelle Peckham, and Justin E. Molloy   10. Single Molecule Measurements Using Microneedles             Toshio Yanagida, Yoshiharu Ishii, and Akihiko Ishijima   11. Fluorescent Nucleoside Triphosphates for Single Molecule Enzymology             Christopher P. Toseland and Martin R. Webb   12. Probing the Mechanics of the Complete DNA Transcription Cycle in Real-Time Using Optical Tweezers             Christoph G. Baumann and Stephen J. Cross   13. A Single-Molecule Approach to Visualize the Unwinding Activity of DNA Helicases             Natalia Fili, Christopher P. Toseland, Mark S. Dillingham, Martin R. Webb, and Justin E. Molloy   14. Real-Time Single-Molecule Observation of Green Fluorescent Protein Synthesis by Immobilized Ribosomes             Ryo Iizuka, Takashi Funatsu, and Sotaro Uemura   15. Single-Molecule Measurements of Topoisomerase Activity with Magnetic Tweezers             Yeonee Seol and Keir C. Neuman   16. Assembly of Recombinant Nucleosomes on Nanofabricated DNA Curtains for Single Molecule Imaging             Ja Yil Lee and Eric C. Greene   17. Simultaneous Observation of Chemomechanical Coupling of a Molecular Motor             Takayuki Nishizaka*, Yuu Hashimoto, and Tomoko Masaike   18. Microsecond Resolution of Single Molecule Rotation Catalyzed by Molecular Motors             Tassilo Hornung, James Martin, David Spetzler, Robert Ishmukhametov, and Wayne D. Frasch