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Allostery Aron W. Fenton

Allostery By Aron W. Fenton

Allostery by Aron W. Fenton


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Summary

Despite considerable variability within the scientific community, allosteric regulation can best be defined functionally as how a macromolecule binds one ligand differently when a second ligand is or is not pre-bound to the macromolecule, which constitutes a vital aspect of protein structure/function.

Allostery Summary

Allostery: Methods and Protocols by Aron W. Fenton

Despite considerable variability within the scientific community, allosteric regulation can best be defined functionally as how a macromolecule binds one ligand differently when a second ligand is or is not pre-bound to the macromolecule, which constitutes a vital aspect of protein structure/function. In Allostery: Methods and Protocols, expert researchers in the field provide key techniques to investigate this biological phenomenon. Focusing on heterotropic systems with some coverage of homotropic systems, this volume covers the monitoring of allosteric function, allosteric conformational changes, and allosteric changes in protein dynamics/sub-population distribution, as well as topics such as macromolecular and ligand engineering of allosteric functions and computational aids in the study of allostery. Written in the highly successful Methods in Molecular Biology (TM) series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory.

Thorough and intuitive, Allostery: Methods and Protocols aids scientists in continuing to study ligand-induced, through-protein effects on protein function (ligand binding/catalysis), a phenomenon that is well recognized through the history of the life sciences and very poorly understood at the molecular level.

Table of Contents

Part I: Monitoring Allosteric Function

1. Binding Techniques to Study the Allosteric Energy Cycle

James K. Kranz and Jose C. Clemente

2. Kinetic Trapping of a Key Hemoglobin Intermediate

Jo M. Holt and Gary K. Ackers

3. Allosteric Coupling Between Transition Metal Binding Sites in Homooligomeric Metal Sensor Proteins

Nicholas E. Grossoehme and David P. Giedroc

4. Studying the Allosteric Energy Cycle by Isothermal Titration Calorimetry

Marta Martinez-Julvez, Olga Abian, Sonia Vega, Milagros Medina, and Adrian Velazquez-Campoy

5. Detecting Silent Allosteric Coupling

Harvey F. Fisher

6. Using Mutant Cycle Analysis to Elucidate Long-Range Functional Coupling in Allosteric Receptors

Jai A.P. Shanata, Shawnalea J. Frazier, Henry A. Lester, and Dennis A. Dougherty

Part II: Monitoring Allosteric Conformational Changes

7. A Review of Methods Used for Identifying Structural Changes in a Large Protein Complex

Owen W. Nadeau and Gerald M. Carlson

8. Allosteric Mechanisms of G Protein-Coupled Receptor Signaling: A Structural Perspective

Tarjani M. Thaker, Ali I. Kaya, Anita M. Preininger, Heidi E. Hamm, and T.M. Iverson

9. Dynamic Light Scattering to Study Allosteric Regulation

Aaron L. Lucius, P. Keith Veronese, and Ryan P. Stafford

10. Dissecting the Linkage Between Transcription Factor Self-Assembly and Site-Specific DNA Binding: The Role of the Analytical Ultracentrifuge

Amie D. Moody, James P. Robblee, and David L. Bain

11. Fluorescence Correlation Spectroscopy and Allostery: The Case of GroEL

Gabriel A. Frank, Amnon Horovitz, and Gilad Haran

12. The Morpheein Model of Allostery: Evaluating Proteins as Potential Morpheeins

Eileen K. Jaffe and Sarah H. Lawrence

Part III: Monitoring Allosteric Changes in Protein Dynamics/Sub-Population Distribution

13. Combining NMR and Molecular Dynamics Studies for Insights into the Allostery of Small GTPase-Protein Interactions

Liqun Zhang, Sabine Bouguet-Bonnet, and Matthias Buck

14. H/D-Exchange Study of an Allosteric Energy Cycle

Dorothy Beckett

15. Ensemble Properties of Network Rigidity Reveal Allosteric Mechanisms

Donald J. Jacobs, Dennis R. Livesay, James M. Mottonen, Oleg K. Vorov, Andrei Y. Istomin, and Deeptak Verma

Part IV: Macromolecular and Ligand Engineering Allosteric Functions

16. An In Vivo Approach to Isolating Allosteric Pathways Using Hybrid Multimeric Proteins

Cuijuan Tie and Gregory D. Reinhart

17. Mutations in the GABAA Receptor that Mimic the Allosteric Ligand, Etomidate

Stuart A. Forman and Deirdre Stewart

18. Allosteric Regulation of Human Liver Pyruvate Kinase by Peptides that Mimic the Phosphorylated/Dephosphorylated N-Terminus

Charulata B. Prasannan, Qingling Tang, and Aron W. Fenton

19. In Silico Screening Approaches for Lead Generation: Identification of Novel Allosteric Modulators of Human-Erythrocyte Pyruvate Kinase

Ashutosh Tripathi and Martin K. Safo

20. Identification of Allosteric-Activating Drug Leads for Human Liver Pyruvate Kinase

Aron W. Fenton

Part V: Computational Methods/Aids in the Study of Allostery

21. A Critical Evaluation of Correlated Mutation Algorithms and Coevolution Within Allosteric Mechanisms

Dennis R. Livesay, Kyle E. Kreth, and Anthony A. Fodor

22. The Advantage of Global Fitting of Data Involving Complex Linked Reactions

Petr Herman and J. Ching Lee

23. Predicting Binding Sites by Analyzing Allosteric Effects

Dengming Ming and Michael E. Wall

Additional information

NLS9781493958641
9781493958641
149395864X
Allostery: Methods and Protocols by Aron W. Fenton
New
Paperback
Humana Press Inc.
2016-08-23
439
N/A
Book picture is for illustrative purposes only, actual binding, cover or edition may vary.
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