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Protein Nanotechnology
by Tuan Vo-DinhLeading experts in nanobiotechnology comprehensively review the most recent advances in instrumentation and methodology, as well as their applications in genomics and proteomics. The authors provide a wide variety of techniques and methods for dealing with protein functions and structures at the nanoscale level, including nanostructured systems, nanomaterials, carbon nanotubes and nanowires, optical nanosensors, and nanoelectrodes. Among the highlights are techniques for the in vivo tracking of biochemical processes using fluorescent molecular probes and nanosensors, and the exploration of biochemical processes and submicroscopic structures of living cells at unprecedented resolutions using near-field optics. Also discussed is the development of nanocarrier methodology for the targeted delivery of drugs whose shells are conjugated with antibodies for targeting specific antigens.
Protein Networks and Pathway Analysis
by Julie Bryant Yuri NikolskyFrom the beginning of the OMICs biology era, science has been pursuing the reduction of the complex "genome-wide" assays in order to understand the essential biology that lies beneath it. In Protein Networks and Pathway Analysis, expert practitioners present a compilation of methods of functional data analysis, often referred to as "systems biology," and its applications in drug discovery, medicine and basic disease research. The volume is divided into three convenient sections, covering the elucidation of protein, compound and gene interactions, analytical tools, including networks, interactome and ontologies, and applications of functional analysis. As a volume in the highly successful Methods in Molecular BiologyTM series, this work provides detailed descriptions and hands-on implementation advice. Authoritative and cutting-edge, Protein Networks and Pathway Analysis presents both "wet lab" experimental methods and computational tools in order to cover a broad spectrum of issues in this fascinating new field.
Protein NMR
by Lawrence BerlinerThis book covers new techniques in protein NMR, from basic principles to state-of-the-art research. It covers a spectrum of topics ranging from a "toolbox" for how sequence-specific resonance assignments can be obtained using a suite of 2D and 3D NMR experiments and tips on how overlap problems can be overcome. Further topics include the novel applications of Overhauser dynamic nuclear polarization methods (DNP), assessing protein structure, and aspects of solid-state NMR of macroscopically aligned membrane proteins. This book is an ideal resource for students and researchers in the fields of biochemistry, chemistry, and pharmacology and NMR physics. Comprehensive and intuitively structured, this book examines protein NMR and new novel applications that include the latest technological advances. This book also has the features of: * A selection of various applications and cutting-edge advances, such as novel applications of Overhauser dynamic nuclear polarization methods (DNP) and a suite of 2D and 3D NMR experiments and tips on how overlap problems can be overcome * A pedagogical approach to the methodology * Engaging the reader and student with a clear, yet critical presentation of the applications
Protein NMR
by Ranajeet GhoseThis volume covers state-of-the-art applications of solid-state and solution nuclear magnetic resonance( NMR) spectroscopy to study protein structure, dynamics and interactions. Chapters detail various aspects of data acquisition and processing, determination of the structure, multi-timescale dynamics of entities ranging from individual proteins to large macromolecular complexes to intact viral assemblies. The final two chapters will highlight the promise of NMR beyond field strengths of 1 GHz to study the structure, dynamics and interactions of a larger class of proteins and protein complexes of extraordinary biological interest. Written in the highly successful Methods in Molecular Biology series format, chapters provide detailed laboratory protocols and troubleshooting tips that would be of great practical help to NMR spectroscopists with different levels of expertise. Authoritative and cutting-edge, Protein NMR: Methods and Protocol aims to ensure successful results in the further study of this vital field.
Protein NMR Spectroscopy
by Gordon Roberts Lu-Yun LianNuclear Magnetic Resonance (NMR) spectroscopy, a physical phenomenon based upon the magnetic properties of certain atomic nuclei, has found a wide range of applications in life sciences over recent decades. The dramatic advances in NMR techniques have led to corresponding advances in the ability of NMR to study structure, dynamics and interactions of biological macromolecules in solution under close to physiological conditions. This volume focuses on the use of NMR to study proteins.NMR can be used to determine detailed three-dimensional structures of proteins in solution. Furthermore, it provides information about conformational or chemical exchange, internal mobility and dynamics at timescales varying from pcoseconds to seconds. It is the primary technique used to obtain information on intrinsically disordered (unfolded) proteins, since these proteins will not crystallize easily. NMR is also a very powerful method for the study of interactions of protein with other molecules, whether small molecules (including drugs), nuclear acids or other proteins.This up-to-date volume covers NMR techiniques and their application to proteins, with a focus on practical details. This book will provide a newcomer to NMR with the practical guidance in order to carry out successful experiments with proteins and to analyze the resulting spectra. Those who are familiar with the chemical applications of NMR will also find is useful in understanding the special requirements of protien NMR.
Protein NMR Techniques
by A. Kristina DowningThis collection of readily reproducible methods using the latest advances in NMR technology includes methods for high-level recombinant protein expression using sophisticated isotopic labeling strategies, TROSY methods for the study of structure and dynamics, and methods for the acquisition and interpretation of residual dipolar coupling data. There are also applications of dynamics measurements on multiple timescales, new developments in NMR data analysis, structure calculation protocols, and solid-state methods. The protocols follow the successful Methods in Molecular BiologyTM series format, each offering detailed laboratory instructions, an introduction outlining the principle behind the technique, lists of equipment and reagents, and tips on troubleshooting and avoiding known pitfalls.
Protein NMR Techniques
by David G. ReidLeading experts demonstrate how to successfully apply the fundamentals of NMR to the study of the properties of proteins. They cover not only assignment and structure determination techniques, but also the practical aspects of experimental set-up, protein production, data processing, and binding studies. Extensive treatments of paramagnetics and metalloproteins, membrane-bound proteins, and protein-ligand complexes are also included. Its focused treatment of proteins make it an indispensable study guide for chemists and biochemists, including both those with only a basic knowledge of NMR, as well as more experienced investigators.
Protein NMR Techniques
by Alexander Shekhtman David S. BurzThe field of protein NMR spectroscopy has rapidly expanded into new areas of biochemistry, molecular biology and cell biology research that were impossible to study as recently as ten years ago. This third edition of Protein NMR Techniques, expands upon the previous editions with current, detailed authoritative but down-to-earth descriptions of new methodologies. These include techniques for NMR sample preparation, solution and solid state NMR methodologies and data processing. Written in the highly successful Methods in Molecular BiologyTM series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Protein NMR Techniques,Third Edition, seeks to aid scientists in understanding the latest innovations in the field of protein NMR.
Protein Nutrition and Mineral Absorption
by Raul A. WapnirThis volume presents information regarding the mechanisms of protein absorption under normal and pathologic conditions, in addition to reviewing changes that occur at various stages of life. General modifiers of intestinal absorption, such as the processing of foods, the nutritional status of the individual, and disease, are explored with reference to both proteins and minerals. Inorganic macronutrients, namely calcium, magnesium and phosphorus, are discussed in relation to protein ingestion. The book also explores the concept of essential trace elements (e.g., iron, zinc, copper, and iodine) and their link to protein sufficiency. The relationship of ultratrace elements with the content of proteins in food is examined, and the book offers a fresh view of the role of certain elements, particularly zinc, on the conformation of proteins linked to DNA, hormone receptors, and gene products. Protein Nutrition and Mineral Absorption is packed with 2,300 references, 100 figures and graphs, plus 25 tables. Nutritionists and physicians will find this book to be an invaluable reference source for rationalizing nutritional interventions and diet modifications for their patients.
Protein Oxidation and Aging
by Tilman Grune Vladimir Uversky Tobias Jung Betul CatalgolReviews our current understanding of the role of protein oxidation in aging and age-related diseasesProtein oxidation is at the core of the aging process. Setting forth a variety of new methods and approaches, this book helps researchers conveniently by exploring the aging process and developing more effective therapies to prevent or treat age-related diseases. There have been many studies dedicated to the relationship between protein oxidation and age-related pathology; now it is possible for researchers and readers to learn new techniques as utilizing protein oxidation products as biomarkers for aging.Protein Oxidation and Aging begins with a description of the tremendous variety of protein oxidation products. Furthermore, it covers:Major aspects of the protein oxidation processCellular mechanisms for managing oxidized proteinsRole of protein oxidation in agingInfluence of genetic and environmental factors on protein oxidationMeasuring protein oxidation in the aging processProtein oxidation in age-related diseasesReferences at the end of each chapter serve as a gateway to the growing body of original research studies and reviews in the field.
Protein/Peptide Sequence Analysis: Current Methodologies
by A.S. BhownThis book is an attempt to provide in a single source current state-of-the-art methodologies for protein sequence analysis. It is hoped that these various chapters are presented in such a way that both the newcomer and the established protein chemist will find useful information and directions to new techniques. This book offers a rich array of techniques and methods for sequencing proteins and peptides. It should meet the expectations of investigators in protein chemistry who wish to update their knowledge of sequencing techniques, and of those who wish to reacquaint themselves with the best available current technologies.
Protein Phosphatase Protocols
by John W. LudlowCutting-edge techniques presented with foolproof, step-by-step instructions make this collection indispensable for investigating the structure and function of protein serine/threonine phosphatases. The book contains methods designed to enable the investigator to isolate, identify, and assay phosphatase activities from both prokaryotic and eukaryotic sources, and includes a discussion of the functional significance of this group of enzymes with respect to cell growth and development. Written by leaders with extensive practice in their use, each method is time-tested and sufficiently detailed to ensure reproducibility for both new and established investigators.
Protein Phosphatase Protocols
by Greg MoorheadProtein Phosphatase Protocols presents a broad range of protocols for the study of protein phosphatases, all written by experts and innovators from phosphatase laboratories around the world. This volume is a compendium of resources for the study of protein phosphatases and their potential as drug targets. Experimental methodologies are taken from proteomics, bioinformatics, genomics, biochemistry, RNAi, and genetics.
Protein Phosphatases and Stress Management in Plants: Functional Genomic Perspective
by Girdhar K. PandeyThe regulation of the phosphorylation/dephosphorylation process, resulting in “cellular switches” that monitor normal plant physiology, growth and development, has immense potential in crop systems. With much of the information in the nascent stages, coming largely from Arabidopsis and rice particularly, the use of cell biology, genetic screens, biochemical approaches aided by an omics approach should help unravel the detail functional information available about signaling pathways in plants. The regulation could be exploited to develop crop varieties better equipped to handle changing environments and enhance agricultural productivity. In the post-genomic era, one of the major challenges is investigation and understanding of multiple genes and gene families regulating a particular physiological and developmental aspect of plant life cycle. One of the important physiological processes is regulation of stress response, which leads to adaptation or adjustment in response to adverse stimuli. With the holistic understanding of the signaling pathways involving phosphatases, one gene family or multiple genes or gene families, plant biologist can lay a foundation for designing and generating future crops, which can withstand the higher degree of environmental stresses. Especially abiotic stresses, which are the major cause of crop loss throughout the world without losing crop yield and productivity.This book incorporates the contributions from leading plant biologists in the field of stress-mediated dephosphorylation by phosphatases as an important task to elucidate the aspects of stress signaling by functional genomic approaches.
Protein Phosphorylation and Meat Quality
by Dequan Zhang Xin Li Li Chen Chengli Hou Zhenyu WangThe book focuses on the current research of the relation between protein phosphorylation and meat quality, reviews the influence mechanism of protein phosphorylation on meat quality, and summarizes the improvement of meat quality by regulating protein phosphorylation. It could help to clarify some dilemmas and encourage further research in this field, aiming for effective application of protein phosphorylation in meat quality in the near future. The book is written for researchers and graduate students in the field of meat science, food chemistry and molecular biology etc.
Protein-Protein and Domain-Domain Interactions
by Pandjassarame Kangueane Christina NiloferThis book illustrates the importance and significance of the molecular (physical and chemical) and evolutionary (gene fusion) principles of protein-protein and domain-domain interactions towards the understanding of cell division, disease mechanism and target definition in drug discovery. It describes the complex issues associated with this phenomenon using cutting edge advancement in Bioinformatics and Bioinformation Discovery. The chapters provide current information pertaining to the types of protein-protein complexes (homodimers, heterodimers, multimer complexes) in context with various specific and sensitive biological functions. The significance of such complex formation in human biology in the light of molecular evolution is also highlighted using several examples. The chapters also describe recent advancements on the molecular principles of protein-protein interaction with reference to evolution towards target identification in drug discovery. Finally, the book also elucidates a comprehensive yet a representative description of a large number of challenges associated with the molecular interaction of proteins.
Protein-Protein Docking: Methods and Protocols (Methods in Molecular Biology #2780)
by Agnieszka A. KaczorThis volume covers a wide array of topics on protein-protein docking ranging from the fundamentals of the method and its recent developments to docking tools and examples of protein-protein docking applications. The chapters in this book are organized into four parts. Part One looks at the fundamentals of protein-protein docking such as rigid and flexible docking, and sampling and scoring in protein-protein docking. Part Two focuses on the latest advancements made in the field such as how the protein backbone flexibility is treated. Part Three explores practical applications of protein-protein docking tools and databases, with emphasis on software for predicting binding free energy of protein-protein complexes and their mutants. Part Four talks about protein-protein docking approaches to different systems, and their challenges and strategies of molecular docking of intrinsically disordered proteins. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Protein-Protein Docking: Methods and Protocols is a valuable resource for structural biologists, bioinformaticians, molecular modelers, and medicinal chemists looking to learn more about this important field.
Protein-Protein Interaction Networks: Methods and Protocols (Methods in Molecular Biology #2074)
by Stefan Canzar Francisca Rojas RingelingThis volume explores techniques that study interactions between proteins in different species, and combines them with context-specific data, analysis of omics datasets, and assembles individual interactions into higher-order semantic units, i.e., protein complexes and functional modules. The chapters in this book cover computational methods that solve diverse tasks such as the prediction of functional protein-protein interactions; the alignment-based comparison of interaction networks by SANA; using the RaptorX-ComplexContact webserver to predict inter-protein residue-residue contacts; the docking of alternative confirmations of proteins participating in binary interactions and the visually-guided selection of a docking model using COZOID; the detection of novel functional units by KeyPathwayMiner and how PathClass can use such de novo pathways to classify breast cancer subtypes. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary hardware- and software, step-by-step, readily reproducible computational protocols, and tips on troubleshooting and avoiding known pitfalls.Cutting-edge and comprehensive, Protein-Protein Interaction Networks: Methods and Protocols is a valuable resource for both novice and expert researchers who are interested in learning more about this evolving field.
Protein-Protein Interactions
by Cheryl L. Meyerkord Haian FuThe second edition covers a wide range of protein-protein interaction detection topics. Protein-Protein Interactions: Methods and Applications focuses on core technological platforms used to study protein-protein interactions and cutting-edge technologies that reflect recent scientific advances and the emerging focus on therapeutic discovery. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of necessary materials and reagents, step-by-step laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. These well-detailed protocols describe methods for identifying protein-protein interaction partners, analyzing of protein-protein interactions quantitatively and qualitatively, monitoring protein-protein interactions in live cells, and predicting and determining interaction interfaces. Authoritative and cutting-edge, Protein-Protein Interactions: Methods and Applications, Second Edition is a valuable resource that will enable readers to elucidate the mechanisms of protein-protein interactions, determine the role of these interactions in diverse biological processes, and target protein-protein interactions for therapeutic discovery.
Protein-Protein Interactions: Methods and Protocols (Methods in Molecular Biology #2690)
by Shahid MukhtarThis detailed volume provides a comprehensive collection of classic and cutting-edge methods and techniques in mapping protein-protein interactions. The chapters include a variety of in vitro and in vivo experimental methods covering cell biology, biochemistry, and biophysics. In addition, the book also explores in silico methods including sequence-, structure-, and phylogenetic profile-based approaches as well as gene expression and machine learning methods. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, as well as tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Protein-Protein Interactions: Methods and Protocols serves as an ideal guide for researchers working in protein science and beyond.
Protein-Protein Interactions: Principles and Techniques: Volume I
by Krishna Mohan Poluri Khushboo Gulati Sharanya SarkarThis book provides a comprehensive overview of the fundamental aspects of protein-protein interactions (PPI), including a detailed account of the energetics and thermodynamics involved in these interactions. It also discusses a number of computational and experimental approaches for the prediction of PPI interactions and reviews their principles, advantages, drawbacks, and the recent developments. Further, it offers structural and mechanistic insights into the formation of protein-protein complexes and maps different PPIs into networks to delineate various pathways that operate at the cellular level. Lastly, it describes computational protein-protein docking techniques and discusses their implications for further experimental research. Given its scope, this book is a valuable resource for students, researchers, scientists, entrepreneurs, and medical/healthcare professionals.
Protein-Protein Interactions: Pathophysiological and Therapeutic Aspects: Volume II
by Krishna Mohan Poluri Khushboo Gulati Deepak Kumar Tripathi Nupur NagarThe second volume of the book-Protein-Protein Interactions (PPIs) provides an overview of various protein-protein interactions (PPIs) that are involved in various human diseases including cancer, neurodegenerative diseases, immune diseases, and inflammation. It summarizes the structure and ligand-based drug designing approaches for the discovery of small molecules that can inhibit PPIs in these diseases. The book discusses different computational and experimental tools that are used to determine the anomalous interactions underlying the diseases. Lastly, it also reviews the classical interactions between pathogens and hosts that are responsible for the pathophysiology of infectious diseases.
Protein-Protein Interactions
by Michael D. WendtMichael D. Wendt Protein-Protein Interactions as Drug Targets Shaomeng Wang , Yujun Zhao , Denzil Bernard , Angelo Aguilar , Sanjeev Kumar Targeting the MDM2-p53 Protein-Protein Interaction for New Cancer Therapeutics Kurt Deshayes , Jeremy Murray , Domagoj Vucic The Development of Small-Molecule IAP Antagonists for the Treatment of Cancer John F. Kadow , David R. Langley , Nicholas A. Meanwell , Michael A. Walker , Kap-Sun Yeung , Richard Pracitto Protein-Protein Interaction Targets to Inhibit HIV-1 Infection Nicholas A. Meanwell , David R. Langley Inhibitors of Protein-Protein Interactions in Paramyxovirus Fusion - a Focus on Respiratory Syncytial Virus Andrew B. Mahon , Stephen E. Miller , Stephen T. Joy , Paramjit S. Arora Rational Design Strategies for Developing Synthetic Inhibitors of Helical Protein Interfaces Michael D. Wendt The Discovery of Navitoclax, a Bcl-2 Family Inhibitor
Protein-protein Interactions and Networks
by Anna Panchenko Teresa M. PrzytyckaThe biological interactions of living organisms, and protein-protein interactions in particular, are astonishingly diverse. This comprehensive book provides a broad, thorough and multidisciplinary coverage of its field. It integrates different approaches from bioinformatics, biochemistry, computational analysis and systems biology to offer the reader a comprehensive global view of the diverse data on protein-protein interactions and protein interaction networks.
The Protein Protocols Handbook
by John M. WalkerThis greatly enhanced second edition introduces 60 critically important new chapters dealing with topics and techniques that have emerged since the first edition, as well as significantly updating the remaining articles. The new chapters cover with many rapidly developing areas, particularly the application of mass spectrometry in protein characterization, as well as the now well-established 2-D PAGE technique in proteomics. The section on glycoprotein analysis has also been significantly expanded, and methods for the production of single-chain and phage-displayed antibodies have been added to the section on antibodies. Each readily reproducible method follows the highly praised format of the Methods in Molecular BiologyTM series, offering a concise summary of its basic theory, a complete materials list, a step-by-step protocol for its successful execution, and extensive notes on avoiding pitfalls and on modifying the method to function within your own experimental circumstances.