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Rna Regulatory Networks Diversified Through Curvature Of The Puf Protein Scaffold
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Book Synopsis RNA Regulatory Networks Diversified Through Curvature of the PUF Protein Scaffold by :
Download or read book RNA Regulatory Networks Diversified Through Curvature of the PUF Protein Scaffold written by and published by . This book was released on 2015 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: Proteins bind and control mRNAs, directing their localization, translation and stability. Members of the PUF family of RNA-binding proteins control multiple mRNAs in a single cell, and play key roles in development, stem cell maintenance and memory formation. Here we identified the mRNA targets of a S. cerevisiae PUF protein, Puf5p, by ultraviolet-crosslinking-affinity purification and high-throughput sequencing (HITS-CLIP). The binding sites recognized by Puf5p are diverse, with variable spacer lengths between two specific sequences. Each length of site correlates with a distinct biological function. Crystal structures of Puf5p-RNA complexes reveal that the protein scaffold presents an exceptionally flat and extended interaction surface relative to other PUF proteins. In complexes with RNAs of different lengths, the protein is unchanged. A single PUF protein repeat is sufficient to induce broadening of specificity. Changes in protein architecture, such as alterations in curvature, may lead to evolution of mRNA regulatory networks.
Book Synopsis Evolution of RNA-PUF Protein Networks by :
Download or read book Evolution of RNA-PUF Protein Networks written by and published by . This book was released on 2015 with total page 200 pages. Available in PDF, EPUB and Kindle. Book excerpt: Proteins bind and control mRNAs, directing their localization, translation, and stability. Members of the PUF family of RNA-binding proteins control multiple mRNAs in a single cell, and play key roles in development, stem cell maintenance and memory formation. Here we demonstrate the conservation of PUF regulatory networks by bioinformatic analysis. We identified the mRNA targets of two Saccharomyces cerevisiae PUF proteins, Puf3p and Puf5p, and two Neurospora crassa PUF proteins, PUF3 and PUF5, by UV-crosslinking-affinity purification and high-throughput sequencing (HITS-CLIP). Taken together these data allowed us to elucidate a rewiring of a nulcear-endcoded circuit of mitochondrial related mRNAs. S. cerevisiae Puf5p associates with ~1,000 RNAs, suggesting that it is a broad spectrum regulator. The binding sites recognized by both Puf5 proteins are diverse, with variable spacer lengths between two specific sequences. S. cerevisiae Puf3p binds a group of RNAs significantly enriched for nuclear encoded RNAs that code for mitochondrial proteins. Many of these orthologous RNAs are bound by N. crassa PUF5. This constitutes a switch, from Puf3p to Puf5, regulation, when comparing S. cerevisiae and N. crassa PUF regulatory networks. Crystal structures of S. cerevisiae Puf5p-RNA complexes reveal that the protein scaffold presents an exceptionally flat and extended interaction surface relative to other PUF proteins. A single PUF protein repeat is sufficient to induce broadening of specificity. Changes in protein architecture, such as alterations in curvature, may have led to evolution of mRNA regulatory networks which we observe.
Download or read book RNA Recognition written by and published by Academic Press. This book was released on 2019-06-23 with total page 468 pages. Available in PDF, EPUB and Kindle. Book excerpt: RNA Recognition, Volume 623, the latest volume in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. This updated volume covers a variety of topics, including The Preparation of cooperative RNA recognition complexes for crystallographic structural studies, Methods for thermal denaturation studies of fluorogenic aptamers, Dynamic combinatorial chemistry as a rapid, fragment-based approach to RNA-targeted compound discovery, Using a click chemistry assay to identify natural product ligands for pre-microRNAs, Lessons from exploration of chemical and structural small molecule:RNA space, Using ligand-observed NMR to study RNA-small molecule interactions, and much more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Methods in Enzymology series Includes the latest information on RNA Recognition
Book Synopsis Applied RNA Bioscience by : Seiji Masuda
Download or read book Applied RNA Bioscience written by Seiji Masuda and published by Springer. This book was released on 2018-04-10 with total page 286 pages. Available in PDF, EPUB and Kindle. Book excerpt: The focus of this book is to introduce up-to-date information on applications and practical use of RNA for agriculture, biotechnology and medicine. It provides unique ideas, tools, and methods in detail from a variety of scientific and technical disciplines. RNA science has progressed enormously in recent decades, and vast amounts of information on RNA functions and their regulatory mechanisms are becoming available. Such a progress opened the door to an age of practical application of RNA in many fields including agriculture, plant science, medical science, brewing and fermentation technology, and material production. This book inspires its readership and contributes to not only expansion in application of RNA but also to basic research.
Book Synopsis RNA Infrastructure and Networks by : Lesley J. Collins
Download or read book RNA Infrastructure and Networks written by Lesley J. Collins and published by Springer Science & Business Media. This book was released on 2011-09-15 with total page 297 pages. Available in PDF, EPUB and Kindle. Book excerpt: RNAs form complexes with proteins and other RNAs. The RNA‐infrastructure represents the spatiotemporal interaction of these proteins and RNAs in a cell‐wide network. RNA Infrastructure and Networks brings together these ideas to illustrate the scope of RNA‐based biology, and how connecting RNA mechanisms is a powerful tool to investigate regulatory pathways. This book is but a taste of the wide range of RNA‐based mechanisms that connect in the RNA infrastructure.
Book Synopsis An Introduction to Ecological Genomics by : Nico M. van Straalen
Download or read book An Introduction to Ecological Genomics written by Nico M. van Straalen and published by Oxford University Press. This book was released on 2012 with total page 374 pages. Available in PDF, EPUB and Kindle. Book excerpt: The authors also provide a comparative survey of the properties of genomes (genome size, gene families, synteny, and polymorphism) for prokaryotes as well as the main eukaryotic models.
Book Synopsis RNA-protein Interactions by : Kiyoshi Nagai
Download or read book RNA-protein Interactions written by Kiyoshi Nagai and published by Oxford University Press, USA. This book was released on 1994 with total page 302 pages. Available in PDF, EPUB and Kindle. Book excerpt: The study of RNA-protein interactions is crucial to understanding the mechanisms and control of gene expression and protein synthesis. The realization that RNAs are often far more biologically active than was previously appreciated has stimulated a great deal of new research in this field. Uniquely, in this book, the world's leading researchers have collaborated to produce a comprehensive and current review of RNA-protein interactions for all scientists working in this area. Timely, comprehensive, and authoritative, this new Frontiers title will be invaluable for all researchers in molecular biology, biochemistry and structural biology.
Book Synopsis Transcriptional and Translational Regulation of Stem Cells by : Gary Hime
Download or read book Transcriptional and Translational Regulation of Stem Cells written by Gary Hime and published by Springer Science & Business Media. This book was released on 2013-05-22 with total page 370 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume describes the latest findings on transcriptional and translational regulation of stem cells. Both transcriptional activators and repressors have been shown to be crucial for the maintenance of the stem cell state. A key element of stem cell maintenance is repression of differentiation factors or developmental genes – achieved transcriptionally, epigenetically by the Polycomb complex, and post-transcriptionally by RNA-binding proteins and microRNAs. This volume takes two approaches to this topic – (1) illustrating the general principles outlined above through a series of different stem cell examples – embryonic, iPS and adult stem cells, and (2) describing several molecular families that have been shown to have roles in regulation of multiple stem cell populations.
Book Synopsis Protein-Protein Interactions by : Weibo Cai
Download or read book Protein-Protein Interactions written by Weibo Cai and published by BoD – Books on Demand. This book was released on 2012-03-30 with total page 488 pages. Available in PDF, EPUB and Kindle. Book excerpt: Proteins are indispensable players in virtually all biological events. The functions of proteins are coordinated through intricate regulatory networks of transient protein-protein interactions (PPIs). To predict and/or study PPIs, a wide variety of techniques have been developed over the last several decades. Many in vitro and in vivo assays have been implemented to explore the mechanism of these ubiquitous interactions. However, despite significant advances in these experimental approaches, many limitations exist such as false-positives/false-negatives, difficulty in obtaining crystal structures of proteins, challenges in the detection of transient PPI, among others. To overcome these limitations, many computational approaches have been developed which are becoming increasingly widely used to facilitate the investigation of PPIs. This book has gathered an ensemble of experts in the field, in 22 chapters, which have been broadly categorized into Computational Approaches, Experimental Approaches, and Others.
Book Synopsis Cell-Free Protein Expression by : James R. Swartz
Download or read book Cell-Free Protein Expression written by James R. Swartz and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 213 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cell-free protein synthesis is coming of age! Motivated by an escalating need for efficient protein synthesis and empowered by readily accessible cell-free protein synthesis kits, the technology is expanding both in the range of feasible proteins and in the ways that proteins can be labeled and modified. This volume follows "Cell-Free Translation Systems", edited by Professor Alexander S. Spirin in 2002. Since then, an impressive collection of new work has emerged that demonstrates a substantial expansion of capability. In this volume, we show that proteins now can be efficiently produced using PCR products as DNA templates and that even membrane proteins and proteins with multiple disulfide proteins are obtained at high yields. Many additional advances are also presented. It is an exciting time for protein synthesis technology.
Book Synopsis A Life and Career in Chemistry by : Pierre Laszlo
Download or read book A Life and Career in Chemistry written by Pierre Laszlo and published by Springer Nature. This book was released on 2021-09-13 with total page 250 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is an enthusiastic account of Pierre Laszlo’s life and pioneering work on catalysis of organic reactions by modified clays, and his reflections on doing science from the 1960s to 1990s. In this autobiography, readers will discover a first-hand testimony of the chemical revolution in the second half of the 20th century, and the author’s perspective on finding a calling in science and chemistry, as well as his own experience on doing science, teaching science and managing a scientific career. During this period, Pierre Laszlo led an academic laboratory and worked also in three different countries: the US, Belgium and France, where he had the opportunity to meet remarkable colleagues. In this book, he recalls his encounters and collaborations with important scientists, who shaped the nature of chemistry at times of increased pace of change, and collates a portrait of the worldwide scientific community at that time. In addition, the author tells us about the turns and twists of his own life, and how he ended up focusing his research on clay based chemistry, where clay minerals were turned in his lab to catalysis of key chemical transformations. Given its breath, the book offers a genuine information on the life and career of a chemist, and it will appeal not only to scientists and students, but also to historians of science and to the general reader.
Book Synopsis Cell Cycle Control by : Tim Humphrey
Download or read book Cell Cycle Control written by Tim Humphrey and published by Springer Science & Business Media. This book was released on 2008-02-04 with total page 405 pages. Available in PDF, EPUB and Kindle. Book excerpt: The fundamental question of how cells grow and divide has perplexed biologists since the development of the cell theory in the mid-19th century, when it was recognized by Virchow and others that “all cells come from cells.” In recent years, considerable effort has been applied to the identification of the basic molecules and mechanisms that regulate the cell cycle in a number of different organisms. Such studies have led to the elucidation of the central paradigms that underpin eukaryotic cell cycle control, for which Lee Hartwell, Tim Hunt, and Paul Nurse were jointly awarded the Nobel Prize for Medicine and Physiology in 2001 in recognition of their seminal contributions to this field. The importance of understanding the fundamental mechanisms that modulate cell division has been reiterated by relatively recent discoveries of links between cell cycle control and DNA repair, growth, cellular metabolism, development, and cell death. This new phase of integrated cell cycle research provides further challenges and opportunities to the biological and medical worlds in applying these basic concepts to understanding the etiology of cancer and other proliferative diseases.
Book Synopsis Photomorphogenesis in Plants and Bacteria by : Eberhard Schäfer
Download or read book Photomorphogenesis in Plants and Bacteria written by Eberhard Schäfer and published by Springer Science & Business Media. This book was released on 2006-06-11 with total page 695 pages. Available in PDF, EPUB and Kindle. Book excerpt: This unique resource reviews progress made by scientists researching into how ambient changes in the wavelength, intensity, direction and duration of light environment affect plant growth and development. It explains how combinations of new research with classical photobiology and physiology have made it feasible to interpret intriguing light dependent phenomena such as phototropism, determination of flowering time, shade avoidance etc. at molecular level. Written by over 20 leading experts in the field the book covers major breakthroughs achieved in the last decade. It is generously referenced with more than 2389 bibliographic citations.
Book Synopsis Mass Spectrometry in Medicinal Chemistry by : Klaus Wanner
Download or read book Mass Spectrometry in Medicinal Chemistry written by Klaus Wanner and published by John Wiley & Sons. This book was released on 2007-06-27 with total page 460 pages. Available in PDF, EPUB and Kindle. Book excerpt: This first overview of mass spectrometry-based pharmaceutical analysis is the key to improved high-throughput drug screening, rational drug design and analysis of multiple ligand-target interactions. The ready reference opens with a general introduction to the use of mass spectrometry in pharmaceutical screening, followed by a detailed description of recently developed analytical systems for use in the pharmaceutical laboratory. Applications range from simple binding assays to complex screens of biological activity and systems containing multiple targets or ligands -- all highly relevant techniques in the early stages in drug discovery, from target characterization to hit and lead finding.
Book Synopsis DNA-protein Interactions by : Andrew Arthur Travers
Download or read book DNA-protein Interactions written by Andrew Arthur Travers and published by Oxford University Press, USA. This book was released on 2000 with total page 416 pages. Available in PDF, EPUB and Kindle. Book excerpt: DNA-Protein Interactions is a novel compilation of methods for studying the interactions of proteins with DNA. It is a rapidly advancing research area in which multidisciplinary approaches are especially valuable for solving problems and obtaining a detailed understanding of the molecular regulatory interactions involved. This book covers all the major tools that are required for the study of the large macromolecular enzymatic machines that manipulate DNA, with particular emphasis on biophysical techniques applied to the analysis of transcription and its relation to chromatin structure. Knowledge of basic techniques is assumed, although advances in fundamental fields are covered.
Author :Richard E. Kendrick Publisher :Springer Science & Business Media ISBN 13 :9780792325505 Total Pages :868 pages Book Rating :4.3/5 (255 download)
Book Synopsis Photomorphogenesis in Plants by : Richard E. Kendrick
Download or read book Photomorphogenesis in Plants written by Richard E. Kendrick and published by Springer Science & Business Media. This book was released on 1994 with total page 868 pages. Available in PDF, EPUB and Kindle. Book excerpt: David Dickinson is a household name, the king of the catchphrase, undisputed darling of daytime TV and a rising star. He's a respected antiques expert and exudes a taste for the finer things in life. But the road to his success has not been as smooth as his patter and he's learnt a lot at the school of hard knocks.
Book Synopsis Protein Engineering and Design by : Sheldon J. Park
Download or read book Protein Engineering and Design written by Sheldon J. Park and published by CRC Press. This book was released on 2009-09-25 with total page 434 pages. Available in PDF, EPUB and Kindle. Book excerpt: Experimental protein engineering and computational protein design are broad but complementary strategies for developing proteins with altered or novel structural properties and biological functions. By describing cutting-edge advances in both of these fields, Protein Engineering and Design aims to cultivate a synergistic approach to protein science
