Protein-Protein Interactions

by Fu, Haian

• ISBN13: 9781588291202
• ISBN10: 1588291200
• Format: Hardcover
• Copyright: 2004-04-01
• Publisher: Humana Pr Inc

Summary

A collection of highly successful biochemical, biophysical, genetic, and computational techniques for studying protein-protein interactions. These readily reproducible methods demonstrate how to identify protein interaction partners, qualitatively or quantitatively measure protein-protein interactions in vitro or in vivo, monitor protein-protein interactions as they occur in living cells, and determine interaction interfaces. The techniques described utilize a variety of cutting-edge technologies, including surface plasmon resonance (SRP), fluorescence resonance energy transfer (FRET), fluorescence polarization (FP), isothermal titration calorimetry (ITC), circular dichroism (CD), protein fragment complementation assays (PCA), various two-hybrid systems, and proteomics and bioinformatics-based approaches, such as the Scansite program for computational analysis. These powerful tools are essential for deciphering how proteins interact with each other to form biological networks, as well as for unraveling protein-protein interactions in disease to find novel therapeutic targets.

Table of Contents

Preface	v
Contributors	xiii
Part I. Overview
Structural Basis of Protein--Protein Interactions	3	(12)
Robert C. Liddington
Quantitative Analysis of Protein--Protein Interactions	15	(20)
Keith D. Wilkinson
Part II. In Vitro Techniques
Characterization of Protein--Protein Interactions by Isothermal Titration Calorimetry	35	(20)
Adrian Velazquez-Campoy
Stephanie A. Leavitt
Ernesto Freire
Circular Dichroism Analysis for Protein--Protein Interactions	55	(24)
Norma J. Greenfield
Protein--Protein Interaction Analysis by Nuclear Magnetic Resonance Spectroscopy	79	(14)
Guanghua Gao
Jason G. Williams
Sharon L. Campbell
Measuring Rhodopsin--G-Protein Interactions by Surface Plasmon Resonance	93	(20)
John Northup
Using Light Scattering to Determine the Stoichiometry of Protein Complexes	113	(6)
Jeremy Mogridge
Sedimentation Equilibrium Studies	119	(18)
Ian A. Taylor
John F. Eccleston
Katrin Rittinger
Analysis of Protein--Protein Interactions by Simulation of Small-Zone Gel Filtration Chromatography	137	(18)
Rosemarie Wilton
Elizabeth A. Myatt
Fred J. Stevens
Fluorescence Gel Retardation Assay to Detect Protein--Protein Interactions	155	(6)
Sang-Hyun Park
Ronald T. Raines
Fluorescence Polarization Assay to Quantify Protein--Protein Interactions	161	(6)
Sang-Hyun Park
Ronald T. Raines
Studying Protein--Protein Interactions via Blot Overlay or Far Western Blot	167	(8)
Randy A. Hall
Glutathione-S-Transferase--Fusion Based Assays for Studying Protein--Protein Interactions	175	(12)
Haris G. Vikis
Kun-Liang Guan
Affinity Capillary Electrophoresis Analyses of Protein-Protein Interactions in Target-Directed Drug Discovery	187	(12)
William E. Pierceall
Lixin Zhang
Dallas E. Hughes
Mapping Protein--Ligand Interactions by Hydroxyl-Radical Protein Footprinting	199	(14)
Nick Loizos
Use of Phage Display and Polyvalency to Design Inhibitors of Protein--Protein Interactions	213	(18)
Michael Mourez
R. John Collier
Part III. Detecting Protein--Protein Interactions in Heterologous Systems
A Bacterial Two-Hybrid System Based on Transcriptional Activation	231	(16)
Simon L. Dove
Ann Hochschild
Using the Yeast Two-Hybrid System to Identify Interacting Proteins	247	(16)
John Miller
Igor Stagljar
Analysis of Protein--Protein Interactions Utilizing Dual Bait Yeast Two-Hybrid System	263	(34)
llya G. Serebriiskii
Elena Kotova
The Split-Ubiquitin Membrane-Based Yeast Two-Hybrid System	297	(16)
Safia Thaminy
John Miller
Igor Stagljar
Reverse Two-Hybrid Techniques in the Yeast Saccharomyces cerevisiae	313	(14)
Matthew A. Bennett
Jack F. Shern
Richard A. Kahn
Mammalian Two-Hybrid Assay for Detecting Protein--Protein Interactions In Vivo	327	(10)
Jae Woon Lee
Soo-Kyung Lee
Co-Immunoprecipitation from Transfected Cells	337	(14)
Shane C. Masters
Part IV. Probing Protein--Protein Interactions in Living Cells
Microscopic Analysis of Fluorescence Resonance Energy Transfer (FRET)	351	(20)
Brian Herman
R. Venkata Krishnan
Victoria E. Centonze
Monitoring Molecular Interactions in Living Cells Using Flow Cytometric Analysis of Fluorescence Resonance Energy Transfer	371	(12)
Francis Ka-Ming Chan
Fluorescence Correlation Spectroscopy: A New Tool for Quantification of Molecular Interactions	383	(16)
Keith M. Berland
Confocal Microscopy for Intracellular Co-Localization of Proteins	399	(12)
Toshiyuki Miyashita
Mapping Biochemical Networks with Protein-Fragment Complementation Assays	411	(16)
Ingrid Remy
Stephen W. Michnick
In Vivo Protein Cross-Linking	427	(18)
Fabrice Agou
Fei Ye
Michel Veron
Part V. Proteomics-Based Approaches
Computational Prediction of Protein--Protein Interactions	445	(24)
John C. Obenauer
Michael B. Yaffe
Affinity Methods for Phosphorylation-Dependent Interactions	469	(10)
Greg Moorhead
Carol MacKintosh
Two-Dimensional Gel Electrophoresis for Analysis of Protein Complexes	479	(20)
Karin Barnouin
Sample Preparation of Gel Electrophoretically Separated Protein Binding Partners for Analysis by Mass Spectrometry	499	(12)
Rainer Cramer
Malcolm Saxton
Karin Barnouin
Quantitative Protein Analysis by Solid Phase Isotope Tagging and Mass Spectrometry	511	(8)
Huilin Zhou
Rosemary Boyle
Ruedi Aebersold
Internet Resources for Studying Protein--Protein Interactions	519	(6)
Shane C. Masters
Index	525