Riboswitch discovery, structure and function. Volume 549 /

• Άλλοι συγγραφείς: Burke, Donald H. (Επιμελητής έκδοσης), Alvarado, Luigi J. (Συντελεστής)
• Μορφή: Ηλ. βιβλίο
• Γλώσσα: English
• Έκδοση: Waltham, Massachusetts : Academic Press, 2014.
• Έκδοση: First edition.
• Σειρά: Methods in enzymology ; v. 549.
• Θέματα: Small interfering RNA.; SCIENCE > Life Sciences > Biochemistry.; Small interfering RNA; Riboswitch.; Electronic books.

This volume covers research methods in riboswitch discovery and validation, synthesis and sample prep methods for large RNAs, riboswitch structure and function methods, folding pathways and dynamics, and ligand interactions and thermodynamics. Continues the legacy of this premier serial with quality...

Πίνακας περιεχομένων:

• Riboswitch discovery by combining RNA-seq and genome-wide indentification of transcriptional start sites
• Discoverying human RNA aptamers by structure-based bioinformatics and genome-based in vitro selection
• Affinity purification of in vitro transcribed RNA with homogenous ends using a 3'-ARiBo tag
• Deoxyribozyme-mediated ligation for incorporating EPR spin labels and reporter groups into RNA
• A flexible, scalable method for preparation of homogenous aminoacylated tRNAs
• Synthesis of a biotinylated photocleavable nucleotide monophosphate for the preparation of natively folded RNAs
• Chemo-enzymatic synthesis of selectively 13C/15N-labeled RNA for NMR structural and dynamics studies
• SHAPE analysis of small RNAs and riboswitches
• Experimental approaches for measuring pKa's in RNA and DNA
• Crystallographic analysis of TPP riboswitch binding by small-molecule ligands discovered through fragment-based drug discovery approaches
• Methods for using new conceptual tools and parameters to assess RNA structure by small-angle X-ray scattering
• Use of 19F NMR methods to probe conformational heterogeneity and dynamics of exchange in functional RNA molecules
• Site-directed spin-labeling strategies and electron paramagetic resonance spectroscopy for large riboswitches
• Using sm-FRET and denaturants to reveal folding landscapes
• Riboswitch structure and dynamics by smFRET microscopy
• Ribosome structure and dynamics by smFRET microscopy
• Unraveling the thermodynamics and kinetics of RNA assembly: surface plasmon resonance, isothermal titration calorimetry, and circular dichroism
• ITC analysis of ligand binding to PreQ1 riboswitches
• Facile characterization of aptamer kinetic and equilibrium binding properties using surface plasmon resonance
• The AdoCbl-riboswitch interaction investitaged by in-line probing and surface plasmon resonance spectroscopoy (SPR)
• Assessing RNA interactions with proteins by DRaCALA.