Visualising RNA Folding Dynamics in Crowded Environments and with Single-molecule Resolution PDF Download
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Author: Bishnu Paudel
Publisher:
ISBN:
Category :
Languages : en
Pages :
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Author: Bishnu Paudel
Publisher:
ISBN:
Category :
Languages : en
Pages :
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Author:
Publisher: Academic Press
ISBN: 0128024887
Category : Science
Languages : en
Pages : 412
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Book Description
Methods in Enzymology: Visualizing RNA Dynamics in the Cell continues the legacy of this premier serial with quality chapters authored by leaders in the field. This volume covers research methods visualizing RNA dynamics in the cell, and includes sections on such topics as identification of RNA cis-regulatory sequences, IRAS, IMAGEtags, MERFISH, plant RNA labeling using MS2, and visualization of 5S dynamics in live cells using photostable corn probe. - Continues the legacy of this premier serial with quality chapters authored by leaders in the field - Covers research methods in visualizing RNA dynamics in the cell - Contains sections on such topics as identification of RNA cis-regulatory sequences, IRAS, IMAGEtags, MERFISH, plant RNA labeling using MS2 and visualization of 5S dynamics in live cells using photostable corn probe
Author: Lucas Gregorio Nivón
Publisher:
ISBN:
Category :
Languages : en
Pages : 316
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RNA plays an indispensable enzymatic and structural role in many critical cellular processes, but understanding of its folding mechanism is relatively incomplete. Here I present studies that combine computer predictions based on a simple model of folding with direct observations of single molecules to bring greater understanding to the dynamics and folding pathways of three different RNAs. Many cellular RNAs require a protein co-factor in order to function, so we first use single molecule experimental techniques to understand RNA folding in the presence of a protein co-factor, in chapter I. In parallel, a Go-based technique was developed for the simulation of RNA folding, allowing some of the first computer simulations of the process. The results of these in silico studies are reported in chapter II, for a very small (and computationally accessible) example RNA, the GCAA tetraloop, demonstrating a "zipper" pathway with a putative intermediate. This methodology is then applied to the hairpin ribozyme in chapter III, to derive a model of the folding transition state for the ribozyme and make predictions about the ribozyme dynamics. In chapter III preliminary observations are also made of the high-speed dynamics of the ribozyme in single molecule experiments using two different types of microscopy.
Author: William James Greenleaf
Publisher:
ISBN:
Category :
Languages : en
Pages : 296
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Author: Krishnarjun Sarkar
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Category :
Languages : en
Pages :
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Author: Sarah Dubnik
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Category :
Languages : en
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These methods and protocols were then applied to the studies detailed in Chapter 3, which examines the implications of the thermodynamic and kinetic analyses of RNA stem-loop folding and unfolding as investigated with smFET. Chapter 4 concludes with a brief overview of what has been accomplished and potential future directions for this platform. The work expressed here thus presents a cohesive view of RNA stem-loop folding, integrating the past results of both experimental and computational studies. With this improved smFET methodology, this technique can be applied to many other essential and increasingly complex biological systems to achieve a fuller and richer understanding of the processes that govern life.
Author: James Tucker
Publisher: Frontiers Media SA
ISBN: 2889661105
Category : Science
Languages : en
Pages : 125
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Book Description
This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact.
Author: Bruce Stillman
Publisher: CSHL Press
ISBN: 9780879695507
Category : Medical
Languages : en
Pages : 724
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Book Description
Proceedings of a summer 1998 meeting, presenting results of recent studies in gene transcription. Covers events ranging from activation, through promoter recognition, repression, chromosome structure, chromatin remodeling, initiation and elongation, and regulatory complexes and pathways. Subjects include targeting sir proteins to sites of action, the yeast RNA polymerase III transcription machinery, nuclear matrix attachment regions to confer long-range function on immunoglobulin, ATP-dependent remodeling of chromatin, and the transcriptional basis of steroid physiology. Annotation copyrighted by Book News, Inc., Portland, OR.
Author: Victor A. Bloomfield
Publisher: Sterling Publishing Company
ISBN: 9780935702491
Category : Science
Languages : en
Pages : 854
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Book Description
Providing a comprehensive account of the structures and physical chemistry properties of nucleic acids, with special emphasis on biological function, this text has been organized to meet the needs of those who have only a basic understanding of physical chemistry and molecular biology.
Author: Ke-li Han
Publisher: Springer Science & Business Media
ISBN: 3319029703
Category : Medical
Languages : en
Pages : 488
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Book Description
This book discusses how biological molecules exert their function and regulate biological processes, with a clear focus on how conformational dynamics of proteins are critical in this respect. In the last decade, the advancements in computational biology, nuclear magnetic resonance including paramagnetic relaxation enhancement, and fluorescence-based ensemble/single-molecule techniques have shown that biological molecules (proteins, DNAs and RNAs) fluctuate under equilibrium conditions. The conformational and energetic spaces that these fluctuations explore likely contain active conformations that are critical for their function. More interestingly, these fluctuations can respond actively to external cues, which introduces layers of tight regulation on the biological processes that they dictate. A growing number of studies have suggested that conformational dynamics of proteins govern their role in regulating biological functions, examples of this regulation can be found in signal transduction, molecular recognition, apoptosis, protein / ion / other molecules translocation and gene expression. On the experimental side, the technical advances have offered deep insights into the conformational motions of a number of proteins. These studies greatly enrich our knowledge of the interplay between structure and function. On the theoretical side, novel approaches and detailed computational simulations have provided powerful tools in the study of enzyme catalysis, protein / drug design, protein / ion / other molecule translocation and protein folding/aggregation, to name but a few. This work contains detailed information, not only on the conformational motions of biological systems, but also on the potential governing forces of conformational dynamics (transient interactions, chemical and physical origins, thermodynamic properties). New developments in computational simulations will greatly enhance our understanding of how these molecules function in various biological events.
