Download or read book Molecular Chaperones in the Life Cycle of Proteins written by Anthony Fink and published by CRC Press. This book was released on 1997-09-26 with total page 648 pages. Available in PDF, EPUB and Kindle. Book excerpt: Considers the integral role of molecular chaperones at different stages of a protein's life cycle. The text focuses on the biophysical, structural and functional properties of molecular chaperones, providing a biophysical view of chaperone problems useful in in vivo and in vitro studies, and augmenting current understanding of molecular chaperones as facilitators of de novo protein synthesis and recombinant protein folding.

Download or read book Structure And Action Of Molecular Chaperones Machines That Assist Protein Folding In The Cell written by Lila M Gierasch and published by World Scientific. This book was released on 2016-08-08 with total page 328 pages. Available in PDF, EPUB and Kindle. Book excerpt: This unique volume reviews the beautiful architectures and varying mechanical actions of the set of specialized cellular proteins called molecular chaperones, which provide essential kinetic assistance to processes of protein folding and unfolding in the cell. Ranging from multisubunit ring-shaped chaperonin and Hsp100 machines that use their central cavities to bind and compartmentalize action on proteins, to machines that use other topologies of recognition — binding cellular proteins in an archway or at the surface of a 'clamp' or at the surface of a globular assembly — the structures show us the ways and means the cell has devised to assist its major effectors, proteins, to reach and maintain their unique active forms, as well as, when required, to disrupt protein structure in order to remodel or degrade. Each type of chaperone is beautifully illustrated by X-ray and EM structure determinations at near- atomic level resolution and described by a leader in the study of the respective family. The beauty of what Mother Nature has devised to accomplish essential assisting actions for proteins in vivo is fully appreciable.

Download or read book Molecular Biology of the Cell written by and published by . This book was released on 2002 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book The Chaperonins written by Robert L. Ellis and published by Elsevier. This book was released on 1996-04-01 with total page 339 pages. Available in PDF, EPUB and Kindle. Book excerpt: The first of its kind, this volume presents the latest research findings on the chaperonins, the best studied family of a class of proteins known as molecular chaperones. These findings are changing our view of some fundamental cellular processes involving proteins, especially how proteins fold into their functional conformations. - Origins of the new view of protein folding - Prokaryotic chaperonins - Eukaryotic chaperonins - Evolution of the chaperonins - Refolding of denatured proteins - Organelle biosynthesis - Biomedical aspects

Download or read book Contribution of the Ribosome and Molecular Chaperones to de Novo Protein Folding in Bacteria written by Rayna Addabbo and published by . This book was released on 2018 with total page 174 pages. Available in PDF, EPUB and Kindle. Book excerpt: Protein folding is the critical process by which proteins achieve their native conformations, often necessary to perform life-sustaining functions for the cell. While all organisms rely on protein folding for survival, it is not well understood how proteins fold, especially within the complex environment of the cell. While evolution has optimized protein folding for success, it is not an infallible process. Aside from the many human diseases whose pathology is closely linked to protein misfolding and aggregation, aberrant folding has made it challenging for researchers to use recombinant DNA technologies to over-produce soluble functional proteins. This limitation has had significant consequences for research, biotechnology and medicine, particularly in the field of protein-based biopharmaceuticals. It follows that there is great motivation to understand how cells successfully produce structurally accurate proteins. In this thesis I will gain insights into the parameters that dictate whether a protein successfully folds or aggregates upon release from the ribosome. I will then examine how molecular chaperones promote protein folding and the prevention of protein aggregation. This thesis is divided into four chapters. Chapter 1 is an introductory chapter that reviews the current literature on protein folding in the cell and incorporates my current research findings. This chapter aims at highlighting why proteins need the cellular environment for successful folding and prevention of aggregation. In Chapter 2, I explore how co-and-posttranslational protein folding in the absence of molecular chaperones is related to successful native state formation and to detrimental aggregation. I describe investigations showing that the ribosome plays a critical role in promoting nascent-protein solubility during biosynthesis. Further, I describe the features of an important kinetic competition that takes place upon protein release from the ribosome immediately following translation. During this time, proteins are irreversibly channeled towards either their native state or aggregated conformations. I find that, to avoid aggregation, proteins must be able to fold faster than they aggregate, as they depart from the environment established by the ribosomal surface and its immediate vicinity. Before completion of translation, the ribosomal environment discourages aggregation due to the large size of the ribosome-nascent-protein complex (RNC). However, this translational-diffusion advantage vanishes after the newly synthesized protein departs from the ribosome. In summary, this chapter highlights the role of the ribosome in promoting the solubility of newly synthesized proteins. The sequence and structural diversity of proteins in the E. coli cytosol implies that not all proteins have the same ability to fold rapidly upon release from the ribosome. In Chapters 3 and 4, I focus on understanding how the highly conserved molecular chaperone Hsp70 mediates protein folding and helps preventing aggregation in bacteria. In Chapter 3, I experimentally demonstrate that the Hsp70 molecular chaperone (also known as DnaK in bacteria) promotes protein structural accuracy and native-state formation. When proteins are biosynthesized at sub-optimal Hsp70 concentration, a mixture of the native state and aggregated species is produced. Surprisingly, even proteins that are soluble after release from the ribosome in the absence of Hsp70 are not necessarily in their native conformation. These proteins often include a significant population of soluble aggregate as well as soluble native state. In summary, this chapter highlights the key role of the Hsp70 molecular chaperone for protein structural accuracy upon release from the ribosome. In Chapter 4, I employ a combination of experiments and computation to show that the Hsp70 chaperone concentration and the chaperone-to-protein ratio needed for protein solubility and structural accuracy are directly dependent on the features of the kinetic partitioning as nascent proteins are release from the ribosome (see Chapter 2). Proteins that aggregate rapidly relative to folding are more highly dependent upon interactions with DnaK upon release from the ribosome. It follows that Hsp70-mediated protein folding promotes the existence of a more diverse cellular proteome by allowing the cell to access slow-folding and aggregation-prone proteins that would otherwise not be accessible. The findings in this dissertation are consistent with a global view of cellular protein folding according to which folding begins on the ribosome. The role of the ribosome is to support conformational sampling and solubility while molecular chaperones ensure structural accuracy as well as high yields of native state. Depending upon the folding and aggregation properties of the protein under investigation, different proteins rely on the ribosome and molecular chaperones to a different extent, for successful protein folding. The dual dependence on the ribosome and molecular chaperones provides a robust machinery to produce a variety of proteins needed to support life and properly promote sequence, structural and functional diversity.

Download or read book Molecular Aspects of the Stress Response Chaperones Membranes and Networks written by Peter Csermely and published by Springer Science & Business Media. This book was released on 2007-08-09 with total page 218 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book makes a novel synthesis of the molecular aspects of the stress response and long term adaptation processes with the system biology approach of biological networks. Authored by an exciting mixture of top experts and young rising stars, it provides a comprehensive summary of the field and identifies future trends.

Download or read book Protein Folding and Aggregation in the Presence of the Hsp70 Chaperone written by Miranda F. Mecha and published by . This book was released on 2021 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Most life on earth depends on ribosome-assisted biosynthesis and on the generation and preservation of correct protein structure. Molecular chaperones and their cochaperones act co- and post-translationally to promote de novo protein folding, overcome protein damage upon stress and even disaggregate protein aggregates. Hsp70, a ubiquitous and highly conserved 70 kDa heat shock protein, is a particularly important and well-studied chaperone. It is often referred to as a central "hub" due to its myriad of functions and its profound effect on cell viability. While the Hsp70 chaperone cycle has been well-documented in the literature, there is still much to be understood about the interplay between Hsp70 and its client-proteins, including the kinetic and thermodynamic client-protein characteristics required for interaction with Hsp70. The Hsp70 chaperone is nucleotide-dependent and derives part of its driving force for assisting protein folding from ATP hydrolysis. The Hsp70-related studies carried out to date bear an apparent inconsistency. Namely, some proteins were reported to attain their native state more slowly in the presence of the Hsp70 chaperone than under chaperone-free conditions. On the other hand, aggregation-prone proteins routinely acquire a bioactive native state faster, in the presence of Hsp70. Part of the work carried out in this thesis attempts to explain this apparent inconsistency. In addition, we explore the kinetic and thermodynamic client-protein characteristics necessary for interaction with the Hsp70 chaperone. Finally, we address the relation between protein aging and Hsp70-chaperone activity.The thesis is divided into six chapters. Chapter 1 delves into the current literature and summarizes what is known about protein folding and how the folding process is influenced by the Hsp70 chaperone cycle. This chapter further discusses the structure and function of Hsp70 and how these characteristics affect the conformation and dynamics of chaperone-bound client proteins. The chapter also provides a brief overview of the current computational approaches to predict the timecourse of Hsp70-assisted protein folding. Chapter 2 focuses on the development of CHAMPION70, a computational model able to perform Chaperone-Mediated Protein folding kinetic Simulations involving Hsp70. We then apply CHAMPION70 to four classes of client proteins with different kinetic (fast- or slow-folding) and thermodynamic (stable or unstable) stabilities in the presence of either no aggregation, weak aggregation or strong aggregation propensities. We find that, in the absence of aggregation, unstable client proteins capture (i.e., stay bound to) the Hsp70 chaperone indefinitely. This is a clear disadvantage unless Hsp70 serves as a transport machine, for these proteins. Conversely, in the presence of weak or strong aggregation propensities, it is very beneficial for client-proteins to interact with the Hsp70 chaperone system. Specifically, slow-folding and thermodynamically stable client proteins experience the greatest aggregation-prevention advantages in the presence of Hsp70, especially if the class of client proteins is strongly aggregation-prone. However, Hsp70 is unable to assist the folding of strongly aggregation-prone and thermodynamically unstable proteins. Importantly, we also predict that the E. coli Hsp70 chaperone system is unable to prevent protein aggregation over long time spans long-term (i.e., greater than ca 60 years). This result suggests that one of the consequence of protein aging is the intrinsic failure of the bacterial Hsp70 chaperone machinery. Of course E. coli bacteria double in only a few minutes and "old proteins" likely persist in the progeny (i.e., daughter cells). Yet these old proteins progressively become more and more dilute, hence less-aggregation-prone. This phenomenon may rescue bacteria from disaster. Yet one wonders whether this effect may have a more severe impact on eukaryotic Hsp70s. In summary, the CHAMPION70 simulator is a powerful tool to enable the prediction of client-protein behavior in the presence of one of the most amazing cellular machines, the Hsp70 chaperone system. Chapter 3 provides simple computational tools to discriminate folded from intrinsically disordered proteins (IDPs) under physiologically relevant conditions, solely based on protein amino-acid composition. This tool only requires knowledge on protein hydrophobicity-per-residue and net-charge-per-residue. The net-charge-non-polar (NECNOP) algorithm results in 95% accuracy, and this value increases for proteins of more than 140 residues. Chapter 4 delves into influence of the E. coli ribosome on both co- and post-translational protein folding in the absence typical molecular chaperone systems (DnaK, trigger factor) and in the presence of aggregation. In this experimental investigation, translation through the ribosome is found to promote nascent-protein solubility even in the absence of cotranslationally active molecular chaperones. This work also shows that the E. coli trigger factor and DnaK molecular chaperones increase the solubility of nascent chains emerging from the ribosomal exit tunnel and minimize co- and post-translational aggregation. Most importantly, this work shows the importance of immediately post-translational kinetic partitioning of nascent proteins between native-state and aggregates, upon release form the ribosome. This partitioning is dramatically sensitive to subtle variations in amino-acid sequence, including single-point mutations. Chapter 5 demonstrates the increased sensitivity of the NMR hyperpolarization technique known as low-concentration photochemically induced dynamic nuclear polarization (LC-photo-CIDNP). This technique is used for detection of aromatic amino acids in the presence of both a photosensitizer dye (fluorescein) and a cryogenic probe. Experiments rapidly detect the amino acids tryptophan (Trp) and tyrosine (Tyr) at unprecedented concentrations (200 nM). Detection of the model protein drkN SH3 (which bears Trp, Tyr and His) at 500 nM on a 600 MHz spectrometer via LC-Photo-CIDNP leads to a 30-fold better S/N relative to conventional 2D experiments performed at higher magnetic field (900MHz spectrometer). Spectral editing of the model protein allowed for secondary and tertiary structure analysis. In contrast to regular photo-CIDNP, LC-photo-CIDNP does not heavily depend on laser intensity, thus allowing for safer and more cost-effective experiments. Chapter 6 further develops the investigations of Chapter 5 on LC-photo-CIDNP. A major limitation of LC-photo-CIDNP is that a limited number of scans (up to ca 200) can typically be collected before sample degradation takes over. The signal-to-noise (SN) ratio becomes progressively weaker as the number of scans increases. This disadvantage strongly limits the ability to perform long-term experiments. Two reductive radical quenchers - ascorbic acid (vitamin C) and 2-mercaptoethylamine (MEA) - were employed in this study, to minimize the extent of photodamage in NMR samples. This technique both enhanced the S/N by over 100% and allowed for more transients to be acquired for amino-acid and protein samples in solution.

Download or read book Protein Folding in the Cell written by and published by Elsevier. This book was released on 2002-02-20 with total page 516 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume of Advances in Protein Chemistry provides a broad, yet deep look at the cellular components that assist protein folding in the cell. This area of research is relatively new--10 years ago these components were barely recognized, so this book is a particularly timely compilation of current information. Topics covered include a review of the structure and mechanism of the major chaperone components, prion formation in yeast, and the use of microarrays in studying stress response. Outlines preceding each chapter allow the reader to quickly access the subjects of greatest interest. The information presented in this book should appeal to biochemists, cell biologists, and structural biologists.

Download or read book The Hsp70 Molecular Chaperone Machines written by Matthias P. Mayer and published by Frontiers Media SA. This book was released on 2017-03-24 with total page 71 pages. Available in PDF, EPUB and Kindle. Book excerpt: Members of the HSP70 family form a central hub of the molecular chaperone network, controlling protein homeostasis in prokaryotes and in the ATP-containing compartments of the eukaryotic cells. The heat-inducible form HSPA1A (HSP70), its constitutive cytosolic cognate HSPA8 (Hsc70), its endoplasmic reticulum form HSPA5 (BiP), and its mitochondrial form HSPA9 (Mortalin), as well as the more distantly related HSPHs (HSP110s), make up 1-2 % of the total mass of proteins in human cells. They use the energy of ATP-hydrolysis to prevent and forcefully revert the process of protein misfolding and aggregation during and following various stresses, presumably by working as unfoldases to lift aberrant conformers out of kinetic traps. As such, HSP70s, in cooperation with their J-domain co-chaperones and nucleotide exchange factors (NEFs) and co-disaggregases, form an efficient network of cellular defenses against the accumulation of cytotoxic misfolded protein conformers, which may cause degenerative diseases such as Parkinson's and Alzheimer's disease, diabetes, and aging in general. In addition to their function in repair of stress-induced damage, HSP70s fulfill many housekeeping functions, including assisting the de novo folding and maturation of proteins, driving the translocation of protein precursors across narrow membrane pores into organelles, and by controlling the oligomeric state of key regulator protein complexes involved in signal transduction and vesicular trafficking. For reasons not well understood, HSP70s are also found on the surface of some animal cells, in particular cancer cells where they may serve as specific targets for cancer immunotherapy. Here, we gathered seven mini reviews, each presenting a complementary aspect of HSP70’s structure and function in bacteria and eukaryotes, under physiological and stressful conditions. These articles highlight how, the various members of this conserved family of molecular chaperones, assisted by their various J-domain and NEF cochaperones and co-disaggregases, harness ATP hydrolysis to perform a great diversity of life-sustaining cellular functions using a similar molecular mechanism.

Download or read book Prokaryotic Chaperonins written by C. M. Santosh Kumar and published by Springer. This book was released on 2017-08-30 with total page 172 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book focuses on a topical and timely aspect of prokaryotic biology - the biology of prokaryotic multiple chaperonins. Chaperonins are a class of molecular chaperones, the proteins that assist folding of other proteins in the cell. The book begins with an introductory chapter on the structural and functional aspects of chaperonins, followed by an outline on different mechanisms of their regulation. Subsequently, the book provides a comprehensive overview on how the multiple-chaperonins have embraced biological requirements in different classes of microbes, discussing their functional diversity, evolutionary paths and the latest advances in the field. It brings together leading experts from across the globe in offering a detailed account of the structural, biochemical, functional and phylogenetic characteristics of microbial chaperonins for students, researchers and teachers working in the area of microbiology/ biophysics/ parasitology – more specifically, in protein folding pathways.

Download or read book The Molecular Chaperones Interaction Networks in Protein Folding and Degradation written by Walid A. Houry and published by Springer. This book was released on 2014-09-01 with total page 481 pages. Available in PDF, EPUB and Kindle. Book excerpt: Molecular chaperones are a fundamental group of proteins that have been identified only relatively recently. They are key components of a protein quality machinery in the cell which insures that the folding process of any newly-synthesized polypeptide chain results in the formation of a properly folded protein and that the folded protein is maintained in an active conformation throughout its functional lifetime. Molecular chaperones have been shown to play essential roles in cell viability under both normal and stress conditions. Chaperones can also assist in the unfolding and degradation of misfolded proteins and in disaggregating preformed protein aggregates. Chaperones are also involved in other cellular functions including protein translocation across membranes, vesicle fusion events, and protein secretion. In recent years, tremendous advances have been made in our understanding of the biology, biochemistry, and biophysics of function of molecular chaperones. In addition, recent technical developments in the fields of proteomics and genomics allowed us to obtain a global view of chaperone interaction networks. Finally, there is now a growing interest in the role of molecular chaperones in diseases. This book will provide a comprehensive analysis of the structure and function of the diverse systems of molecular chaperones and their role in cell stress responses and in diseases from a global network perspective. ​

Download or read book Molecular Chaperones and Folding Catalysts written by Bernd Bakau and published by CRC Press. This book was released on 2003-09-02 with total page 784 pages. Available in PDF, EPUB and Kindle. Book excerpt: One of the most intriguing discoveries in molecular biology in the last decade is the existence of an evolutionary conserved and essential system, consisting of molecular chaperones and folding catalysts, which promotes the folding of the proteins in the cell. This text summarizes our current knowledge of the cellular roles, the regulation and the mechanism of action of this system. It has a broad scope, covering cell biological, genetic and biochemical aspects of protein folding in cells from bacteria to man. Particularly appropriate to researchers working in basic and applied aspects of molecular medicine, this volume should also prove useful as an up-to-date reference book and as a textbook for specialized university courses.

Download or read book Protein Oxidation and Aging written by Tilman Grune and published by John Wiley & Sons. This book was released on 2013-01-04 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Reviews our current understanding of the role of protein oxidation in aging and age-related diseases Protein 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 process Cellular mechanisms for managing oxidized proteins Role of protein oxidation in aging Influence of genetic and environmental factors on protein oxidation Measuring protein oxidation in the aging process Protein oxidation in age-related diseases References at the end of each chapter serve as a gateway to the growing body of original research studies and reviews in the field.

Download or read book Molecular Biology written by Burton E. Tropp and published by Jones & Bartlett Learning. This book was released on 2008 with total page 1032 pages. Available in PDF, EPUB and Kindle. Book excerpt: Molecular Biology or Molecular Genetics - Biology Department Biochemical Genetics - Biology or Biochemistry Department Microbial Genetics - Genetics Department The book is typically used in a one-semester course that may be taught in the fall or the spring. However, the book contains sufficient information so that it could be used for a full year course. It is appropriate for juniors and seniors or first year graduate students.

Download or read book Guidebook to Molecular Chaperones and Protein Folding Catalysts written by Mary-Jane Gething and published by OUP Oxford. This book was released on 1997-11-27 with total page 586 pages. Available in PDF, EPUB and Kindle. Book excerpt: The precise shape of a protein is a crucial factor in its function. How do proteins become folded into the right conformation? Molecular chaperones and protein folding catalysts bind to developing polypeptides in the cytoplasm and ensure correct folding and transport. This Guidebook catalogues the latest information on nearly 200 of these molecules, including the important class of heat shock proteins; each entry is written by leading researchers in the field.

Download or read book Protein Homeostasis written by Richard I. Morimoto and published by . This book was released on 2012 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Proper folding of proteins is crucial for cell function. Chaperones and enzymes that post-translationally modify newly synthesized proteins help ensure that proteins fold correctly, and the unfolded protein response functions as a homeostatic mechanism that removes misfolded proteins when cells are stressed. This book covers the entire spectrum of proteostasis in healthy cells and the diseases that result when control of protein production, protein folding, and protein degradation goes awry.

Download or read book RNA Chaperones written by Tilman Heise and published by . This book was released on 2020 with total page 314 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a wide spectrum of methods to study RNA chaperones in vitro, at the single molecule level, and protocols useful for cell-based assays. Beginning with a section on a number of bacterial proteins for study, the volume also explores proteins from eukaryotic cells and how to delve into the complex interactions between RNA chaperones and the folding and unfolding of proteins. 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, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, RNA Chaperones: Methods and Protocols serves as an ideal guide for scientists and students interested in RNA biology and RNA chaperones. Chapter 3 is available Open Access under a CC-BY 4.0 license via link.springer.com.