Catalytic RNA

Catalytic RNA

1st Edition - October 21, 2013
  • Editor: Garrett A. Soukup
  • eBook ISBN: 9780123812872
  • Hardcover ISBN: 9780123812865

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Description

This special volume of Progress in Molecular Biology and Translational Science focuses on catalytic RNA. Written by experts in the field, the reviews cover a range of topics, from hammerhead ribozymes to spliceosome catalysis to Varkud satellite and hairpin ribozymes.

Key Features

  • Contributions from leading authorities
  • Informs and updates on all the latest developments in the field

Readership

Researchers, professors and graduate students in biochemistry, chemistry, molecular biology, biotechnology, and medicine.

Table of Contents

  • Contributors

    Preface

    Chapter One. The Hammerhead Ribozyme: Structure, Catalysis, and Gene Regulation

    Abstract

    1 Discovery and Context

    2 The Minimal Sequence

    3 The Full-Length Sequence

    4 Hammerhead Ribozymes in Mammalian Gene Regulation

    References

    Chapter Two. Bridging the Gap Between Theory and Experiment to Derive a Detailed Understanding of Hammerhead Ribozyme Catalysis

    Abstract

    1 Introduction

    2 A Metal Ion Story with a Happy Ending

    3 Finding the Catalytic Reaction Path Through Multidimensional Free-Energy Surfaces

    4 HHR Uses Specific Cation-Binding Modes to Reach Its Catalytically Active Conformation

    5 Computational Mutagenesis of Key Residues of HHR

    6 Conclusion

    Acknowledgments

    References

    Chapter Three. A Mechanistic Comparison of the Varkud Satellite and Hairpin Ribozymes

    Abstract

    1 Introduction

    2 The Hairpin and VS Ribozymes

    3 General Themes

    Acknowledgments

    References

    Chapter Four. HDV Family of Self-Cleaving Ribozymes

    Abstract

    1 Introduction

    2 Hepatitis Delta Virus

    3 HDV Ribozymes

    4 HDV Ribozymes’ Reaction Mechanism

    5 Ribozymes Outside of the Hepatitis Delta Virus

    6 Evolutionary Relationship Among HDV-Like Ribozymes

    References

    Chapter Five. The Structural and Functional Uniqueness of the glmS Ribozyme

    Abstract

    1 Introduction

    2 The glmS Riboswitch/Ribozyme

    3 Biological Function of the glmS Ribozyme

    4 glmS Ribozyme Uniqueness

    5 glmS Ribozyme Structure and Function—Biochemical Analyses

    6 glmS Ribozyme Structure and Function—Crystallographic Analysis

    7 Metal Ion Usage by the glmS Ribozyme

    8 Essential Coenzyme GlcN6P Functional Groups

    9 Mechanism of glmS Ribozyme Self-Cleavage Using Coenzyme GlcN6P

    10 pH-Reactivity Profiles Provide Mechanistic Insight

    11 Potential for Antibiotic Development Affecting glmS Ribozyme/Riboswitch Function

    Acknowledgments

    References

    Chapter Six. The Role of snRNAs in Spliceosomal Catalysis

    Abstract

    1 Evolution of Eukaryotic Splicing Machines

    2 Structural and Functional Similarities Between snRNAs and the Group II Self-Splicing Introns

    3 Role of snRNAs in the Spliceosomal Active Site

    4 The Three-Dimensional Positioning of snRNAs in the Catalytic Core

    5 An RNA-Centric View of the Active Site

    6 Functionally Critical snRNA–Metal Ion Interactions

    7 Catalytic Activity of the snRNAs in Isolation

    8 The snRNAs in the Context of the Spliceosomal Active Site

    9 The Role of Proteins in the Spliceosomal Catalytic Core

    10 The Role of Spliceosomal Proteins in Remodeling the Catalytic Core

    11 Concluding Remarks

    References

    Index

Product details

  • No. of pages: 248
  • Language: English
  • Copyright: © Academic Press 2013
  • Published: October 21, 2013
  • Imprint: Academic Press
  • eBook ISBN: 9780123812872
  • Hardcover ISBN: 9780123812865

About the Serial Volume Editor

Garrett A. Soukup

Affiliations and Expertise

Creighton University, Omaha, USA