This volume of Methods in Enzymology aims to provide a reference for the diverse, powerful tools used to analyze RNA helicases. The contributions in this volume cover the broad scope of methods in the research on these enzymes. Several chapters describe quantitative biophysical and biochemical approaches to study molecular mechanisms and conformational changes of RNA helicases. Further chapters cover structural analysis, examination of co-factor effects on several representative examples, and the analysis of cellular functions of select enzymes. Two chapters outline approaches to the analysis of inhibitors that target RNA helicases.
1. Cover image 2. Table of Contents 3. Series Page 4. Copyright 5. Contributors 6. Preface 7. Volume in Series 8. Chapter one: Analysis of Duplex Unwinding by RNA Helicases Using Stopped-Flow Fluorescence Spectroscopy 9. Chapter Two: Analyzing ATP Utilization by DEAD-Box RNA Helicases Using Kinetic and Equilibrium Methods 10. Chapter three: Oxygen Isotopic Exchange Probes of ATP Hydrolysis by RNA Helicases 11. Chapter four: Conformational Changes of DEAD-Box Helicases Monitored by Single Molecule Fluorescence Resonance Energy Transfer 12. Chapter Five: RNA Catalysis as a Probe for Chaperone Activity of DEAD-Box Helicases 13. Chapter Six: Molecular Mechanics of RNA Translocases 14. Chapter Seven: Analysis of Helicase–RNA Interactions Using Nucleotide Analog Interference Mapping 15. Chapter Eight: Crystallization and X-ray Structure Determination of an RNA-Dependent Hexameric Helicase 16. Chapter Nine: Structural Analysis of RNA Helicases with Small-Angle X-ray Scattering 17. Chapter Ten: Analysis of Cofactor Effects on RNA Helicases 18. Chapter Eleven: Analysis of DEAD-Box Proteins in mRNA Export 19. Chapter Twelve: Biochemical Characterization of the RNA Helicase UPF1 Involved in Nonsense-Mediated mRNA Decay 20. Chapter Thirteen: Identification of RNA Helicase Target Sites by UV Cross-Linking and Analysis of cDNA 21. Chapter Fourteen: In Vivo Approaches to Dissecting the Function of RNA Helicases in Eukaryotic Ribosome Assembly 22. Chapter Fifteen: Analysis of RNA Helicases in P-Bodies and Stress Granules 23. Chapter Sixteen: DEAD-Box RNA Helicases as Transcription Cofactors 24. Chapter Seventeen: DEAD-Box RNA Helicases in Gram-Positive RNA Decay 25. Chapter Eighteen: RNA Helicases in Cyanobacteria: Biochemical and Molecular Approaches 26. Chapter Nineteen: Determination of Host RNA Helicases Activity in Viral Replication 27. Chapter Twenty: Inhibitors of Translation Targeting Eukaryotic Translation Initiation Factor 4A 28. Chapter Twenty-One: Identification and Analysis of Inhibitors Targeting the Hepatitis C Virus NS3 Helicase 29. Author Index 30. Subject Index
This volume of Methods in Enzymology aims to provide a reference for the diverse, powerful tools used to analyze RNA helicases. The contributions in this volume cover the broad scope of methods in the research on these enzymes. Several chapters describe quantitative biophysical and biochemical approaches to study molecular mechanisms and conformational changes of RNA helicases. Further chapters cover structural analysis, examination of co-factor effects on several representative examples, and the analysis of cellular functions of select enzymes. Two chapters outline approaches to the analysis of inhibitors that target RNA helicases.
1. Cover image 2. Table of Contents 3. Series Page 4. Copyright 5. Contributors 6. Preface 7. Volume in Series 8. Chapter one: Analysis of Duplex Unwinding by RNA Helicases Using Stopped-Flow Fluorescence Spectroscopy 9. Chapter Two: Analyzing ATP Utilization by DEAD-Box RNA Helicases Using Kinetic and Equilibrium Methods 10. Chapter three: Oxygen Isotopic Exchange Probes of ATP Hydrolysis by RNA Helicases 11. Chapter four: Conformational Changes of DEAD-Box Helicases Monitored by Single Molecule Fluorescence Resonance Energy Transfer 12. Chapter Five: RNA Catalysis as a Probe for Chaperone Activity of DEAD-Box Helicases 13. Chapter Six: Molecular Mechanics of RNA Translocases 14. Chapter Seven: Analysis of Helicase–RNA Interactions Using Nucleotide Analog Interference Mapping 15. Chapter Eight: Crystallization and X-ray Structure Determination of an RNA-Dependent Hexameric Helicase 16. Chapter Nine: Structural Analysis of RNA Helicases with Small-Angle X-ray Scattering 17. Chapter Ten: Analysis of Cofactor Effects on RNA Helicases 18. Chapter Eleven: Analysis of DEAD-Box Proteins in mRNA Export 19. Chapter Twelve: Biochemical Characterization of the RNA Helicase UPF1 Involved in Nonsense-Mediated mRNA Decay 20. Chapter Thirteen: Identification of RNA Helicase Target Sites by UV Cross-Linking and Analysis of cDNA 21. Chapter Fourteen: In Vivo Approaches to Dissecting the Function of RNA Helicases in Eukaryotic Ribosome Assembly 22. Chapter Fifteen: Analysis of RNA Helicases in P-Bodies and Stress Granules 23. Chapter Sixteen: DEAD-Box RNA Helicases as Transcription Cofactors 24. Chapter Seventeen: DEAD-Box RNA Helicases in Gram-Positive RNA Decay 25. Chapter Eighteen: RNA Helicases in Cyanobacteria: Biochemical and Molecular Approaches 26. Chapter Nineteen: Determination of Host RNA Helicases Activity in Viral Replication 27. Chapter Twenty: Inhibitors of Translation Targeting Eukaryotic Translation Initiation Factor 4A 28. Chapter Twenty-One: Identification and Analysis of Inhibitors Targeting the Hepatitis C Virus NS3 Helicase 29. Author Index 30. Subject Index
