November 24, 2020

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Principles of Nucleic Acid Structure

Principles of Nucleic Acid Structure
Author : Stephen Neidle
Publisher : Elsevier
Release Date : 2010-07-26
Category : Science
Total pages :302
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This unique and practical resource provides the most complete and concise summary of underlying principles and approaches to studying nucleic acid structure, including discussion of x-ray crystallography, NMR, molecular modelling, and databases. Its focus is on a survey of structures especially important for biomedical research and pharmacological applications. To aid novices, Principles of Nucleic Acid Structure includes an introduction to technical lingo used to describe nucleic acid structure and conformations (roll, slide, twist, buckle, etc.). This completely updated edition features expanded coverage of the latest advances relevant to recognition of DNA and RNA by small molecules and proteins. In particular, the reader will find extensive new discussions on: RNA folding, ribosome structure and antibiotic interactions, DNA quadruplexes, DNA and RNA protein complexes, and short interfering RNA (siRNA). This handy guide ends with a complete list of resources, including relevant online databases and software. Completely updated with expanded discussion of topics such as RNA folding, ribosome structure and antibiotic interactions, DNA quadruplexes, DNA and RNA protein complexes, and short interfering RNA (siRNA) Includes a complete list of resources, including relevant online databases and software Defines technical lingo for novices

Principles of Nucleic Acid Structure

Principles of Nucleic Acid Structure
Author : Wolfram Saenger
Publisher : Springer Science & Business Media
Release Date : 2013-12-01
Category : Science
Total pages :556
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New textbooks at all levels of chemistry appear with great regularity. Some fields like basic biochemistry, organic reaction mechanisms, and chemical ther modynamics are well represented by many excellent texts, and new or revised editions are published sufficiently often to keep up with progress in research. However, some areas of chemistry, especially many of those taught at the grad uate level, suffer from a real lack of up-to-date textbooks. The most serious needs occur in fields that are rapidly changing. Textbooks in these subjects usually have to be written by scientists actually involved in the research which is advancing the field. It is not often easy to persuade such individuals to set time aside to help spread the knowledge they have accumulated. Our goal, in this series, is to pinpoint areas of chemistry where recent progress has outpaced what is covered in any available textbooks, and then seek out and persuade experts in these fields to produce relatively concise but instructive introductions to their fields. These should serve the needs of one semester or one quarter graduate courses in chemistry and biochemistry. In some cases the availability of texts in active research areas should help stimulate the creation of new courses. CHARLES R. CANTOR New York Preface This monograph is based on a review on polynucleotide structures written for a book series in 1976.

Nucleic Acid Structure and Recognition

Nucleic Acid Structure and Recognition
Author : Cancer Research Campaign Biomolecular Structure Unit Stephen Neidle,Stephen Neidle
Publisher : Oxford University Press, USA
Release Date : 2002
Category : Science
Total pages :188
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This book provides a detailed view of the molecular structures of DNA and RNA and how they are recognised by small molecules and proteins. Extensive source material is provided, including information on relevant web sites and computer programmes. The major methods of structural investigationfor nucleic acids: X-ray crystallography, NMR, and molecular modelling are reviewed and their scope and limitations (in the context of nucleic acids) discussed. Also covered are the conformational features of nucleic acid building blocks, including a description of how base-pair morphologies areanalysed; the structures of DNA double helices and helical oligonucleotides, emphasising current ideas on sequence-dependent structure; and DNA-DNA interactions, including triplexes and quadruplexes. The principles of RNA folding, ribosome, and ribozyme structure are also surveyed. Both covalent andnon-covalent nucleic acid interactions with small molecules are described, with the emphasis on recognition principles and sequence specific gene recognition. The principles of protein - nucleic acid are covered, focussing on regulatory proteins.Nucleic Acid Structure and Recognition will therefore equip readers with a good understanding of all the important aspects of this major field.The Nucleic Acid Database (NDB) crystallographic and NMR structures for the nucleic acid structures described in the book are freely available through the Nucleic Acid Structure and Recognition website.

Basic Principles in Nucleic Acid Chemistry

Basic Principles in Nucleic Acid Chemistry
Author : Paul O.P. Ts'o
Publisher : Elsevier
Release Date : 2012-12-02
Category : Science
Total pages :532
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Basic Principles in Nuclear Acid Chemistry, Volume II presents the significant progress in nucleic acid research and its contribution and influence on various aspects of human life. This book contains five chapters and begins with the susceptibility of nucleic acids towards attack by chemical reagents whose reactions with polynucleotides have been studied. This topic is followed by a presentation of experimental techniques used to study the properties of nucleic acids. The following chapter discusses some basic features embodied in the polyribo- and poly-deoxyribonucleotide backbone chains; the possibility of rotation around backbone bonds in the ""random"" single-stranded form; and the short- and long-range interactions in idealized and real chains. This chapter also looks into the thermodynamic and polyelectrolyte aspects of nucleic acid behavior. A chapter describes the special features of the third class of DNA, namely, closed duplex DNA, in which covalent chain scissions are absent. The last chapter examines the intrinsic properties and the interaction of the dimers and oligomers, with special emphasis on the influence of the phosphodiester linkages on the conformation and interaction of these short segments of nucleic acids. This book is of great value to workers in biomedical research and to higher level biochemistry instructors.

Protein-Nucleic Acid Interactions

Protein-Nucleic Acid Interactions
Author : Phoebe A Rice,Carl C Correll
Publisher : Royal Society of Chemistry
Release Date : 2008-04-22
Category : Science
Total pages :416
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The structural biology of protein-nucleic acid interactions is in some ways a mature field and in others in its infancy. High-resolution structures of protein-DNA complexes have been studied since the mid 1980s and a vast array of such structures has now been determined, but surprising and novel structures still appear quite frequently. High-resolution structures of protein-RNA complexes were relatively rare until the last decade. Propelled by advances in technology as well as the realization of RNA's importance to biology, the number of example structures has ballooned in recent years. New insights are now being gained from comparative studies only recently made possible due to the size of the database, as well as from careful biochemical and biophysical studies. As a result of the explosion of research in this area, it is no longer possible to write a comprehensive review. Instead, current review articles tend to focus on particular subtopics of interest. This makes it difficult for newcomers to the field to attain a solid understanding of the basics. One goal of this book is therefore to provide in-depth discussions of the fundamental principles of protein-nucleic acid interactions as well as to illustrate those fundamentals with up-to-date and fascinating examples for those who already possess some familiarity with the field. The book also aims to bridge the gap between the DNA- and the RNA- views of nucleic acid - protein recognition, which are often treated as separate fields. However, this is a false dichotomy because protein - DNA and protein - RNA interactions share many general principles. This book therefore includes relevant examples from both sides, and frames discussions of the fundamentals in terms that are relevant to both. The monograph approaches the study of protein-nucleic acid interactions in two distinctive ways. First, DNA-protein and RNA-protein interactions are presented together. Second, the first half of the book develops the principles of protein-nucleic acid recognition, whereas the second half applies these to more specialized topics. Both halves are illustrated with important real life examples. The first half of the book develops fundamental principles necessary to understand function. An introductory chapter by the editors reviews the basics of nucleic acid structure. Jen-Jacobsen and Jacobsen discuss how solvent interactions play an important role in recognition, illustrated with extensive thermodynamic data on restriction enzymes. Marmorstein and Hong introduce the zoology of the DNA binding domains found in transcription factors, and describe the combinational recognition strategies used by many multiprotein eukaryotic complexes. Two chapters discuss indirect readout of DNA sequence in detail: Berman and Lawson explain the basic principles and illustrate them with in-depth studies of CAP, while in their chapter on DNA bending and compaction Johnson, Stella and Heiss highlight the intrinsic connections between DNA bending and indirect readout. Horvath lays out the fundamentals of protein recognition of single stranded DNA and single stranded RNA, and describes how they apply in a detailed analysis of telomere end binding proteins. Nucleic acids adopt more complex structures - Lilley describes the conformational properties of helical junctions, and how proteins recognize and cleave them. Because RNA readily folds due to the stabilizing role of its 2'-hydroxyl groups, Li discusses how proteins recognize different RNA folds, which include duplex RNA. With the fundamentals laid out, discussion turns to more specialized examples taken from important aspects of nucleic acid metabolism. Schroeder discusses how proteins chaperone RNA by rearranging its structure into a functional form. Berger and Dong discuss how topoisomerases alter the topology of DNA and relieve the superhelical tension introduced by other processes such as replication and transcription. Dyda and Hickman show how DNA transposes mediate genetic mobility and Van Duyne discusses how site-specific recombinases "cut" and "paste" DNA. Horton presents a comprehensive review of the structural families and chemical mechanisms of DNA nucleases, whereas Li in her discussion of RNA-protein recognition also covers RNA nucleases. Lastly, FerrÚ-D'AmarÚ shows how proteins recognize and modify RNA transcripts at specific sites. The book also emphasises the impact of structural biology on understanding how proteins interact with nucleic acids and it is intended for advanced students and established scientists wishing to broaden their horizons.

Computational studies of RNA and DNA

Computational studies of RNA and DNA
Author : Jirí Šponer,Filip Lankaš
Publisher : Springer Science & Business Media
Release Date : 2006-10-05
Category : Science
Total pages :638
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This book integrates modern computational studies of nucleic acids, ranging from advanced electronic structure quantum chemical calculations through explicit solvent molecular dynamics (MD) simulations up to mesoscopic modelling, with the main focus given to the MD field. It gives an equal emphasis to the leading methods and applications while successes as well as pitfalls of the computational techniques are discussed.

Nucleic Acids

Nucleic Acids
Author : Victor A. Bloomfield,Donald M. Crothers,Ignacio Tinoco,John E. Hearst,Peter A. Killman,David E. Wemmer,Douglas H. Turner
Publisher : Sterling Publishing Company
Release Date : 2000-04-17
Category : Science
Total pages :794
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NucleicAcids presents an up-to-date and comprehensive account of thestructures and physical chemistry properties of nucleic acids,with special emphasis on biological function. With a targetedaudience of 1)molecular biologists, 2)physical biochemists, and3)physical chemists, the book has been carefully organized toreach three different audiences while requiring only introductoryphysical chemistry and molecular biology as prerequisites. NucleicAcidswill serve as a textbook in physical biochemistry andbiophysical chemistry classes, as well as a supplemental text incourses on nucleic acid biochemistry or molecular biology, and asa personal reference for students and researchers in thesefields. KeyFeatures Organized according to a systematic consideration of techniques used in the study of nucleic acid structure and properties. Key topics--such as protein-DNA and protein-drug complexes, conformational transitions, characterization of nucleic acids by gel and solution techniques, and behavior of supercoiled DNA--are covered in great detail as veritable mini-monographs. Heavily illustrated with diagrams, graphs, and molecular structures, including nearly 2 dozen color figures. Includes numerous figures, tables and an extensive bibliography to facilitate use as a reference volume.

Diagnostic Molecular Biology

Diagnostic Molecular Biology
Author : Chang-Hui Shen
Publisher : Academic Press
Release Date : 2019-04-02
Category : Science
Total pages :471
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Diagnostic Molecular Biology describes the fundamentals of molecular biology in a clear, concise manner to aid in the comprehension of this complex subject. Each technique described in this book is explained within its conceptual framework to enhance understanding. The targeted approach covers the principles of molecular biology including the basic knowledge of nucleic acids, proteins, and genomes as well as the basic techniques and instrumentations that are often used in the field of molecular biology with detailed procedures and explanations. This book also covers the applications of the principles and techniques currently employed in the clinical laboratory. • Provides an understanding of which techniques are used in diagnosis at the molecular level • Explains the basic principles of molecular biology and their application in the clinical diagnosis of diseases • Places protocols in context with practical applications

Molecular Diagnostics

Molecular Diagnostics
Author : William B. Coleman,Gregory J. Tsongalis
Publisher : Springer Science & Business Media
Release Date : 2007-10-28
Category : Medical
Total pages :567
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Accompanying CD-ROM contains ... "a companion eBook version of Molecular diagnostics : for the clinical laboratorian, Second edition ... for downloading and use in the reader's PC or PDA." -- p. [4] of cover.

Basic Principles in Nucleic Acid Chemistry

Basic Principles in Nucleic Acid Chemistry
Author : Paul O.P. Ts'o
Publisher : Elsevier
Release Date : 2012-12-02
Category : Science
Total pages :648
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Basic Principles in Nucleic Acid Chemistry, Volume I provides information pertinent to the fundamental aspects of nucleic acids. This book discusses the development of the basic principles in nucleic acid research that will serve as a foundation for further advancement in nucleic acid research. Organized into six chapters, this volume begins with an overview of the history of the scientific study of nucleic acid as a genetic material. This text then examines the utility of the analogs of the naturally occurring nucleic acid components as biochemical tools and as therapeutic agents. Other chapters consider mass spectrometry that deals with the production and chemistry of ions in the vapor phase. This book discusses as well the various aspects of the excited states of the nucleic acids. The final chapter deals with the systematic study of the physiochemical properties of the monomeric units of nucleic acid. This book is a valuable resource for molecular biologists, scientists, and research workers.

Essentials of Nucleic Acid Analysis

Essentials of Nucleic Acid Analysis
Author : Jacquie T. Keer
Publisher : Royal Society of Chemistry
Release Date : 2008-01-01
Category : Science
Total pages :248
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An indispensable handbook of the highest standard for those working in the fields of food analysis and forensic applications.

Molecular Biology of the Cell

Molecular Biology of the Cell
Author : Bruce Alberts
Publisher : Unknown
Release Date : 2004
Category :
Total pages :129
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Nucleic Acids in Chemistry and Biology

Nucleic Acids in Chemistry and Biology
Author : G. Michael Blackburn,Michael J. Gait
Publisher : Irl Press
Release Date : 1996
Category : Science
Total pages :528
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Since the discovery of the DNA double helix in 1953, nucleic acids have formed the central theme of much of contemporary molecular science. Nowhere is this more apparent than in the increasing efforts to determine the DNA sequence of the human genome and the development of new diagnostics of genetic disease. Recent sophistication of nucleic acids synthesis has been key to the establishment of the biotechnology industry and our improving knowledge of nucleic acid structures and interactions is noticeably influencing the design of novel drugs.This second and completely revised edition draws on the expertise of the same international group of authors to set the basics of the nucleic acids in the context of the expanding horizons set by modern structural biology, RNA enzymology, drug discovery and biotechnology.

Chemical Biology of Nucleic Acids

Chemical Biology of Nucleic Acids
Author : Volker A. Erdmann,Wojciech T. Markiewicz,Jan Barciszewski
Publisher : Springer Science & Business
Release Date : 2014-04-22
Category : Science
Total pages :599
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This volume contains 29 engrossing chapters contributed by worldwide, leading research groups in the field of chemical biology. Topics include pre-biology; the establishment of the genetic code; isomerization of RNA; damage of nucleobases in RNA; the dynamic structure of nucleic acids and their analogs in DNA replication, extra- and intra-cellular transport; molecular crowding by the use of ionic liquids; new technologies enabling the modification of gene expression via editing of therapeutic genes; the use of riboswitches; the modification of mRNA cap regions; new approaches to detect appropriately modified RNAs with EPR spectroscopy and the use of parallel and high-throughput techniques for the analysis of the structure and new functions of nucleic acids. This volume discusses how chemistry can add new frontiers to the field of nucleic acids in molecular medicine, biotechnology and nanotechnology and is not only an invaluable source of information to chemists, biochemists and life scientists but will also stimulate future research.

Textbook of Structural Biology

Textbook of Structural Biology
Author : Anders Liljas
Publisher : World Scientific
Release Date : 2009
Category : Science
Total pages :572
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A textbook for undergraduate and graduate students in structural biology, chemistry, biochemistry, biology and medicine. It covers various aspects of proteins, nucleic acids and lipids, including the rise and fall of proteins, membranes and gradients, the structural biology of cells, and evolution - the comparative structural biology.