Description

      This new volume of Methods in Enzymology continues the legacy of this premier serial with quality chapters authored by leaders in the field. This volume covers G protein coupled receptors, and includes chapters on such topics as GPCR modelling, interactions with other molecules, virtual screening and GPCR activation.

Key Features

    • Continues the legacy of this premier serial with quality chapters authored by leaders in the field
    • Covers G protein coupled receptors
    • Contains chapters on such topics as GPCR modelling, interactions with other molecules, virtual screening and GPCR activation.

    Readership

    Biochemists, biophysicists, molecular biologists, analytical chemists, and physiologists

    Table of Contents

    Contributors

    Preface

    Methods in Enzymology

    Chapter One. The Protein Local Optimization Program and G-Protein-Coupled Receptors: Loop Restoration and Applications to Homology Modeling

    1 Introduction

    2 PLOP Performance for Loop Prediction

    3 PLOP and GPCRs

    4 Loop Prediction with the Single-Residue Library

    5 Loop Prediction with the Dipeptide Library

    6 Hierarchical Loop Prediction with Surrounding Side Chain Optimization

    7 Additional Sampling Methods

    8 VSGB 2.0: The Newest Energy Model Incorporated into PLOP

    9 Conclusions

    References

    Chapter Two. Modeling Active GPCR Conformations

    1 Introduction

    2 General Approaches

    3 Agonist-Induced Activation

    4 Simulation Methods

    5 Microswitches

    6 Biophysical Restraints

    7 Virtual Screening

    8 Class B GPCRs

    References

    Chapter Three. Molecular Modeling of Adenosine Receptors

    1 Introduction

    2 Adenosine A2a Receptor

    3 Receptor Modeling

    4 Summary

    References

    Chapter Four. Predicting G-Protein-Coupled Receptors Families Using Different Physiochemical Properties and Pseudo Amino Acid Composition

    1 Introduction

    2 GPCRs Prediction

    3 Performance Evaluation of GPCR Predictor

    4 Webserver for GPCR Predictor

    5 Concluding Remarks

    References

    Chapter Five. Computational Design and Experimental Characterization of GPCR Segment Models

    1 Introduction

    2 Design of GPCR Segment Models

    3 Experimental Characterization of GPCR Segment Models

    4 Integration of GPCR Segment Models into GPCR Homology Models

    5 Summary

    References

    Chapter Six. G-Protein-Coupled Receptor Interaction with Small GTPases

    1 Introduction

    2 Assays for GPCR Interaction with Small GTPases

    3 Function of GPCR–Small GTPa

    Details

    No. of pages:
    528
    Language:
    English
    Copyright:
    © 2013
    Published:
    Imprint:
    Academic Press
    Print ISBN:
    9780124078659
    Electronic ISBN:
    9780124079441