Mechanical Unfolding Response Of Proteins

Author : Ionel Popa
Publisher : American Chemical Society
ISBN 13 : 0841299749
Total Pages : 183 pages
Book Rating : 4.40/5 ( download)

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Download or read book Mechanical Unfolding Response of Proteins written by Ionel Popa and published by American Chemical Society. This book was released on 2023-06-16 with total page 183 pages. Available in PDF, EPUB and Kindle. Book excerpt: Mechanical Unfolding Response of Proteins is a thermodynamically motivated overview of when, why, and how proteins respond to mechanical perturbations and the experimental techniques used to probe single protein biophysics. Relative newcomers to the field (new graduate students), and those starting from a biological background hoping for an introduction to the physics behind protein behavior, will benefit from reading this primer.

Author : Roberto Pérez-Torrado
Publisher : Humana
ISBN 13 : 9781071617311
Total Pages : 332 pages
Book Rating : 4.11/5 ( download)

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Download or read book The Unfolded Protein Response written by Roberto Pérez-Torrado and published by Humana. This book was released on 2022-01-06 with total page 332 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume is divided in six section covering the most experimental approaches involved in the study of the unfolded protein response (UPR) pathway. Chapters detail determination of unfolded protein levels, methods to study UPR signal transmission, analysing the outcomes of the UPR pathway activation, UPR studies in mammalian models, UPR in alternative models, and UPR and disease. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, The Unfolded Protein Response: Methods and Protocols aims to describe key methods and approaches used in the study of the UPR pathway and its complex cellular implications. Chapter 6 is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

Author : Joe S. Hur
Publisher :
ISBN 13 :
Total Pages : 14 pages
Book Rating : 4.84/5 ( download)

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Download or read book Unfolding of Proteins: Thermal and Mechanical Unfolding written by Joe S. Hur and published by . This book was released on 2003 with total page 14 pages. Available in PDF, EPUB and Kindle. Book excerpt: Over the past few decades, researchers have sequenced the human genome which is a blueprint for proteins. However, given only the information of the sequence we cannot yet accurately predict specific structural information such as the secondary and tertiary structure of a given protein, let alone its functionality in biological processes. Recent theoretical and experimental findings have shown that the topology or conformation of the native structure of small proteins plays a critical role in determining its biological function (Baker 2000; Alm & Baker 1999). In order to carry out their biological function properly, proteins must assume a shape, assembling themselves into an ordered structure. It is now well known that depending on the topology of proteins, for example, when proteins do not fold correctly, there can be serious medical complications, such as Parkinson's disease, Alzheimers to name a few. Furthermore, more biophysical manifestations of protein-protein interactions are reflected in processes related to phase equilibria such as crystallization, and in the marked dependence of the diffusion coefficients of macromolecules on their concentration (Price et al. 1999). The latter aspect is currently becoming of much interest to biologists and chemists with advances in techniques for monitoring protein diffusion in the crowded cellular environment (Dayel et al. 1999). With ever increasing areas of interest in biomedical applications as mentioned above, much effort has been put into understanding the mechanism of protein folding. However, at present, there exists neither a simple and universally applicable theoretical framework nor an efficient and accurate computational framework that can account for many experimental findings.

Author : Edward William Thomas Causton
Publisher :
ISBN 13 :
Total Pages : 0 pages
Book Rating : 4.53/5 ( download)

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Download or read book Protein Mechanical Unfolding in Multiple Dimensions written by Edward William Thomas Causton and published by . This book was released on 2011 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Author : Nuno C. Santos
Publisher : Humana Press
ISBN 13 : 9781493988938
Total Pages : 372 pages
Book Rating : 4.3X/5 ( download)

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Download or read book Atomic Force Microscopy written by Nuno C. Santos and published by Humana Press. This book was released on 2018-10-30 with total page 372 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book aims to provide examples of applications of atomic force microscopy (AFM) using biological samples, showing different methods for AFM sample preparation, data acquisition and processing, and avoiding technical problems. Divided into two sections, chapters guide readers through image artifacts, process and quantitatively analyze AFM images, lipid bilayers, image DNA-protein complexes, AFM cell topography, single-molecule force spectroscopy, single-molecule dynamic force spectroscopy, fluorescence methodologies, molecular recognition force spectroscopy, biomechanical characterization, AFM-based biosensor setup, and detail how to implement such an in vitro system, which can monitor cardiac electrophysiology, intracellular calcium dynamics, and single cell mechanics. 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. Authoritative and cutting-edge, Atomic Force Microscopy: Methods and Protocols is useful for researchers at different stages, from newcomers to experienced users, interested in new AFM applications.

Author : H.L. Granzier
Publisher : Springer Science & Business Media
ISBN 13 : 1461542677
Total Pages : 427 pages
Book Rating : 4.74/5 ( download)

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Download or read book Elastic Filaments of the Cell written by H.L. Granzier and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 427 pages. Available in PDF, EPUB and Kindle. Book excerpt: Elastic filaments refer mainly to titin, the largest of all known proteins. Titin was discovered initially in muscle cells, where it interconnects the thick filament with the Z-line. Titin forms a molecular spring that is responsible for maintaining the structural integrity of contracting muscle, ensuring efficient muscle contraction. More recently, it has become clear that titin is not restricted to muscle cells alone. For example, titin is found in chromosomes of neurons and also in blood platelets. This topic is fast becoming a focal point for research in understanding viscoelastic properties at the molecular, cellular, and tissue levels. In titin may lie a generic basis for biological viscoelasticity. It has become clear that titin may hold the key to certain clinical anomalies. For example, it is clear that titin-based ventricular stiffness is modulated by calcium and that titin is responsible for the altered stiffness in cardiomyopathies. It is also clear from evidence from a group of Finnish families that titin mutations may underlie some muscular dystrophies and that with other mutations chromatids fail to separate during mitosis. Thus, it is clear that this protein will have important clinical implications stemming from its biomechanical role. One aspect of this field is the bringing together of bioengineers with clinical researchers and biologists. Genetic and biochemical aspects of titin-related proteins are being studied together with front-line engineering approaches designed to measure the mechanics of titin either in small aggregates or in single molecules.

Author : Camilo Perez
Publisher : Humana
ISBN 13 : 9781071603758
Total Pages : 423 pages
Book Rating : 4.52/5 ( download)

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Download or read book Expression, Purification, and Structural Biology of Membrane Proteins written by Camilo Perez and published by Humana. This book was released on 2021-03-14 with total page 423 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book collects up-to-date advanced protocols and advice from leading experts in the area of membrane protein biology that can be applied to structural and functional studies of any membrane protein system. The contents explore methods for cloning and expression of membrane proteins and membrane protein complexes in prokaryotic and eukaryotic systems, approaches for protein purification, nanobody applications, as well as biophysical characterization and much more. 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 thorough, Expression, Purification, and Structure Biology of Membrane Proteins serves to guide and encourage young researchers and newcomers to the field to tackle bold new studies on membrane proteins. Chapter 11 is available open access under a CC-BY 4.0 license via link.springer.com.

Author : Vladimir N Uversky
Publisher : Academic Press
ISBN 13 : 0123978211
Total Pages : 556 pages
Book Rating : 4.19/5 ( download)

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Download or read book Bio-nanoimaging written by Vladimir N Uversky and published by Academic Press. This book was released on 2013-11-05 with total page 556 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bio-Nanoimaging: Protein Misfolding & Aggregation provides a unique introduction to both novel and established nanoimaging techniques for visualization and characterization of misfolded and aggregated protein species. The book is divided into three sections covering: - Nanotechnology and nanoimaging technology, including cryoelectron microscopy of beta(2)-microglobulin, studying amyloidogensis by FRET; and scanning tunneling microscopy of protein deposits - Polymorphisms of protein misfolded and aggregated species, including fibrillar polymorphism, amyloid-like protofibrils, and insulin oligomers - Polymorphisms of misfolding and aggregation processes, including multiple pathways of lysozyme aggregation, misfolded intermediate of a PDZ domain, and micelle formation by human islet amyloid polypeptide Protein misfolding and aggregation is a fast-growing frontier in molecular medicine and protein chemistry. Related disorders include cataracts, arthritis, cystic fibrosis, late-onset diabetes mellitus, and numerous neurodegenerative diseases like Alzheimer's and Parkinson's. Nanoimaging technology has proved crucial in understanding protein-misfolding pathologies and in potential drug design aimed at the inhibition or reversal of protein aggregation. Using these technologies, researchers can monitor the aggregation process, visualize protein aggregates and analyze their properties. Provides practical examples of nanoimaging research from leading molecular biology, cell biology, protein chemistry, biotechnology, genetics, and pharmaceutical labs Includes over 200 color images to illustrate the power of various nanoimaging technologies Focuses on nanoimaging techniques applied to protein misfolding and aggregation in molecular medicine

Author : Marisa B. Roman
Publisher :
ISBN 13 :
Total Pages : 360 pages
Book Rating : 4.96/5 ( download)

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Download or read book Macromolecular Crowding Effects in the Mechanical Unfolding Forces of Proteins written by Marisa B. Roman and published by . This book was released on 2012 with total page 360 pages. Available in PDF, EPUB and Kindle. Book excerpt: Macromolecules can occupy a large fraction of the volume of a cell and this crowded environment influences the behavior and properties of the proteins, such as mechanical unfolding forces, thermal stability and rates of folding and diffusion. Although much is already known about molecular crowding, it is not well understood how it affects a protein's resistance to mechanical stress in a crowded environment and how the size of the crowders affect those changes. An atomic force microscope-based single molecule method was used to measure the effects of the crowding on the mechanical stability of a model protein, in this case I-27. As proteins tend to aggregate, single molecule methods provided a way to prevent aggregation because of the very low concentration of proteins in the solution under study. Dextran was used as the crowding agent with three different molecular weights 6kDa, 10 kDa and 40 kDa, with concentrations varying from zero to 300 grams per liter in a pH neutral buffer solution at room temperature. Results showed that the forces required to unfold biomolecules were increased when a high concentration of crowder molecules were added to the buffer solution and that the maximum force required to unfold a domain was when the crowder size was 10 kDa, which is comparable to the protein size. Unfolding rates obtained from Monte Carlo simulations showed that they were also affected in the presence of crowders. As a consequence, the energy barrier was also affected. These effects were most notable when the size of the crowder was 10 kDa, comparable to the size of the protein. On the other hand, distances to the transition state did not seem to change when crowders were added to the solution. The effect of Dextran on the energy barrier was modeled by using established theories such as Ogston's and scaled particle theory, neither of which was completely convincing at describing the results. It can be hypothesized that the composition of Dextran plays a role in the deviation of the predicted behavior with respect to the experimental data.

Author : Monika Fuxreiter
Publisher : Springer Science & Business Media
ISBN 13 : 1461406595
Total Pages : 210 pages
Book Rating : 4.94/5 ( download)

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Download or read book Fuzziness written by Monika Fuxreiter and published by Springer Science & Business Media. This book was released on 2012-03-07 with total page 210 pages. Available in PDF, EPUB and Kindle. Book excerpt: Detailed characterization of fuzzy interactions will be of central importance for understanding the diverse biological functions of intrinsically disordered proteins in complex eukaryotic signaling networks. In this volume, Peter Tompa and Monika Fuxreiter have assembled a series of papers that address the issue of fuzziness in molecular interactions. These papers provide a broad overview of the phenomenon of fuzziness and provide compelling examples of the central role played by fuzzy interactions in regulation of cellular signaling processes and in viral infectivity. These contributions summarize the current state of knowledge in this new field and will undoubtedly stimulate future research that will further advance our understanding of fuzziness and its role in biomolecular interactions.