Protein-Ligand Interactions: Methods and Applications

ISBN-13: 9781627033978 / Angielski / Twarda / 2013 / 530 str.

Mark A. Williams; Tina Daviter

Opis

Proteins are the cell's workers, their messengers and overseers. In these roles, proteins specifically bind small molecules, nucleic acid and other protein partners. Cellular systems are closely regulated and biologically significant changes in populations of particular protein complexes correspond to very small variations of their thermodynamics or kinetics of reaction. Interfering with the interactions of proteins is the dominant strategy in the development of new pharmaceuticals. Protein Ligand Interactions: Methods and Applications, Second Edition provides a complete introduction to common and emerging procedures for characterizing the interactions of individual proteins. From the initial discovery of natural substrates or potential drug leads, to the detailed quantitative understanding of the mechanism of interaction, all stages of the research process are covered with a focus on those techniques that are, or are anticipated to become, widely accessible and performable with mainstream commercial instrumentation. Written in the highly successful Methods in Molecular Biology series format, chapters contain introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and accessible, Protein Ligand Interactions: Methods and Applications, Second Edition serves as an ideal guide for researchers new to the field of biophysical characterization of protein interactions - whether they are beginning graduate students or experts in allied areas of molecular cell biology, microbiology, pharmacology, medicinal chemistry or structural biology.

Spis treści

Part I. Introduction and Overview

 

1. Protein-Ligand Interactions: Fundamentals

Mark A. Williams

 

2. Protein Sample Characterization

Tina Daviter and Rémi Fronzes

 

3. Measurement of Protein-Ligand Complex Formation

Peter N. Lowe, Cara Vaughan, and Tina Daviter

 

Part II. Quantitation of Thermodynamics and Kinetics

 

4. Isothermal Titration Calorimetry for Studying Protein-Ligand Interactions

Luminita Damian

 

5. Rapid Mixing Kinetic Techniques

Stephen R. Martin and Maria J. Schilstra

 

6. Protein-Ligand Interactions Using SPR Systems

Åsa Frostell, Lena Vinterbäck and Hans Sjöbom

 

Part III. Spectroscopic Methods

 

7. Fluorescence Techniques in Analysis of Protein-Ligand Interactions       

Gabor Mocz and Justin A. Ross

 

8. Circular and Linear Dichroism Spectroscopy for the Study of Protein-Ligand Interactions

Tina Daviter, Nikola Chmel, and Alison Rodger

 

9. Analyzing Protein-Ligand Interactions by Dynamic NMR Spectroscopy

Anthony Mittermaier and Erick Meneses

 

10. Studying Metal Ion - Protein Interactions: Electronic Absorption, Circular Dichroism and Electron Paramagnetic Resonance

Lilliana Quintanar and Lina Rivillas-Acevedo

 

11. Monitoring Protein-Ligand Interactions by Time-resolved FTIR Difference Spectroscopy

Carsten Kötting and Klaus Gerwert

 

Part IV. Ligand Discovery

 

12. Biophysical Methods in Drug Discovery from Small Molecule to Pharmaceutical

Geoffrey Holdgate, Stefan Geschwindner, Alex Breeze, Gareth Davies, Nicola Colclough, David Temesi, and Lara Ward

 

13. Biophysical Screening for the Discovery of Small-Molecule Ligands

Alessio Ciulli

 

14. Screening Protein-Small Molecule Interactions by NMR

Ben Davis

 

Part V. Molecules in Cellular Environments

 

15. Model Membrane Systems

Heiko Keller, Remigiusz Worch, and Petra Schwille

 

16. Quantitative Fluorescence Co-localization to Study Protein-Receptor Complexes

Shanica N. Pompey, Peter Michaely, and Katherine Luby-Phelps

 

Part VI. Structural & Computational Methods

 

17. Studying Protein-Ligand Interactions Using X-Ray Crystallography

Andrew P. Turnbull and Paul Emsley

 

18. Molecular Fields in Ligand Discovery

Paul J. Gane and A. W. Edith Chan

 

19. Structure-Based Virtual Screening for Novel Ligands

William R. Pitt, Mark D. Calmiano, Boris Kroeplien, Richard D. Taylor, James P. Turner, and Michael A. King