RNA Remodeling Proteins : Methods and Protocols - Boudvillain, Marc.; SpringerLink (Online service) (New York, NY : Springer New York : Imprint: Humana, 2015)
Key Points to Consider When Studying RNA Remodeling by Proteins -- Happy Birthday: 25 years of DEAD-box Proteins -- In vivo Cross-linking Followed by polyA Enrichment to Identify Yeast mRNA Binding Proteins -- Dynamics of the Spb4 Interactome Monitored by Affinity Purification -- Using EMOTE to Map the Exact 5'-ends of Processed RNA on a Transcriptome-wide Scale -- Cellular Localization of RNA Degradation and Processing Components in Escherichia coli -- Recombineering Applications for the Mutational Analysis of Bacterial RNA-binding Proteins and Their Sites of Action -- Determination of RNA Chaperone Activity Using an Escherichia coli Mutant -- Biochemical Characterization of G4 Quadruplex Telomerase RNA Unwinding by the RNA Helicase RHAU -- ATPase Site Configuration of the RNA Helicase DbpA Probed by ENDOR Spectroscopy -- Bioinformatics and Biochemical Methods to Study the Structural and Functional Elements of DEAD-box RNA Helicases -- Measuring Helicase Inhibition of the DEAD-box Protein Dbp2 by Yra1 -- A FRET-based, Continuous Assay for the Helicase Activity of DEAD-box Proteins -- A Fluorescence-Based Screening Assay for Identification of Hepatitis C Virus NS3 Helicase Inhibitors and Characterization of Their Inhibitory Mechanism -- Mechanisms of HCV NS3 Helicase Monitored by Optical Tweezers -- Constructing a Magnetic Tweezers to Monitor RNA Translocation at the Single-molecule Level -- Probing RNA Translocases with DNA -- Monitoring RNA Unwinding by the Transcription Termination Factor Rho From Mycobacterium Tuberculosis -- Characterization of the Mechanisms of Transcription Termination by the Helicase Sen1 -- Characterization of TRAP-mediated Regulation of the B. subtilis trp Operon Using in vitro Transcription and Transcriptional Reporter Fusions in vivo -- Single-molecule FRET Characterization of RNA Remodeling Induced by an Antitermination Protein -- Fluorescence Reporters for Hfq Oligomerization and RNA Annealing -- Fluorescence Anisotropy-based Salt-titration Approach to Characterize Protein-Nucleic Acid Interactions -- Probing Hfq:RNA Interactions with Hydroxyl Radical and RNase Footprinting -- Purification of Eukaryotic Exoribonucleases Following Heterologous Expression in Bacteria and Analysis of Their Biochemical Properties by in vitro Enzymatic Assays -- Tips and Tricks to Probe the RNA-degrading Activities of Hyperthermophilic Archaeal β-CASP Ribonucleases.
Keywords: Proteins .; Protein Science; Protein Structure