Computer Simulations Of Aggregation Of Proteins And Peptides

Author : Mai Suan Li,Andrzej Kloczkowski,Marek Cieplak,Maksim Kouza
Publisher : Unknown
Page : 478 pages
File Size : 42,6 Mb
Release : 2022
Category : Cell aggregation
ISBN : 1071615467

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Computer Simulations of Aggregation of Proteins and Peptides by Mai Suan Li,Andrzej Kloczkowski,Marek Cieplak,Maksim Kouza Pdf

This volume provides computational methods and reviews various aspects of computational studies of protein aggregation. Chapters discuss the relationship between protein misfolding and protein aggregation, methods of prediction of aggregation propensities of protein, peptides, protein structure, results of computer simulations of aggregation, and computational simulations focused on specific diseases such as Alzheimer’s, Parkinson’s, and preeclampsia. 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, Computer Simulations of Aggregation of Proteins and Peptides aims to ensure successful results in the further study of this vital field.

Author : Victor Muñoz
Publisher : Royal Society of Chemistry
Page : 288 pages
File Size : 47,9 Mb
Release : 2008-06-24
Category : Science
ISBN : 9781847558282

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Protein Folding, Misfolding and Aggregation by Victor Muñoz Pdf

Protein folding and aggregation is the process by which newly synthesized proteins fold into the specific three-dimensional structures defining their biologically active states. It has always been a major focus of research in biochemistry and has often been seen as the unsolved second part of the genetic code. In the last 10 years we have witnessed a quantum leap in the research in this exciting area. Computational methods have improved to the extent of making possible to simulate the complete folding process of small proteins and the early stages of protein aggregation. Experimental methods have evolved to permit resolving fast processes of folding reactions and visualizing single molecules during folding. The findings from these novel experiments and detailed computer simulations have confirmed the main predictions of analytical theory of protein folding. In summary, protein folding research has finally acquired the status of a truly quantitative science, paving the way for more exciting developments in the near future. This unique book covers all the modern approaches and the many advances experienced in the field during the last 10 years. There is also much emphasis on computational methods and studies of protein aggregation which have really flourished in the last decade. It includes chapters in the areas that have witnessed major developments and are written by top experts including:computer simulations of folding, fast folding, single molecule spectroscopy, protein design, aggregation studies (both computational and experimental). Readers will obtain a unique perspective of the problems faced in the biophysical study of protein conformational behaviour in aqueous solution and how these problems are being solved with a multidisciplinary approach that combines theory, experiment and computer simulations. Protein Folding, Misfolding and Aggregation Classical Themes and Novel Approaches is essential reading for graduate students actively involved in protein folding research, other scientists interested in the recent progress of the field and instructors revamping the protein folding section of their biochemistry and biophysics courses.

Author : Luis Olivares-Quiroz,Orlando Guzmán-López,Hector Eduardo Jardón-Valadez
Publisher : Springer
Page : 177 pages
File Size : 54,6 Mb
Release : 2015-10-22
Category : Science
ISBN : 9783319216874

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Physical Biology of Proteins and Peptides by Luis Olivares-Quiroz,Orlando Guzmán-López,Hector Eduardo Jardón-Valadez Pdf

This book covers the latest developments in the physical biology of proteins and peptides. Key insights into microscopic and macroscopic approaches to describe biologically relevant macromolecules and their interactions are provided. This book also covers a wide range of tools, including theoretical methods as statistical mechanics, normal mode analysis, kinetic theory and stochastic processes, and all-atom and coarse-grained molecular dynamics simulations. New experimental techniques are also discussed, particularly related to amiloidogenic peptides and their mutations. This is an excellent book for molecular biologists, physicists, computational scientists, and chemists. It covers cutting-edge research in this exciting, interdisciplinary research field. This book also: Discusses the latest developments in the physical biology of proteins, peptides and enzymes covering theoretical, computational, and experimental approaches Broadens readers’ understanding on the r ole of intra- and inter-molecular interactions as a fundamental cornerstone of macroscopic biological properties of macromolecules Provides a wide and useful perspective on different aspects of the physics, biology, and chemistry of proteins and peptides suitable for interdisciplinary research.

Author : Serafin Fraga,J.M.Robert Parker,Jennifer M. Pocock
Publisher : Springer
Page : 284 pages
File Size : 47,7 Mb
Release : 1995-08-18
Category : Science
ISBN : 3540601333

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Computer Simulations of Protein Structures and Interactions by Serafin Fraga,J.M.Robert Parker,Jennifer M. Pocock Pdf

Protein engineering endeavors to design new peptides and proteins or to change the structural and/or functional characteristics of existing ones for specific purposes, opening the way for the development of new drugs. This work develops in a comprehensive way the theoretical formulation for the methods used in computer-assisted modeling and predictions, starting from the basic concepts and proceeding to the more sophisticated methods, such as Monte Carlo and molecular dynamics. An evaluation of the approximations inherent to the simulations will allow the reader to obtain a perspective of the possible deficiencies and difficulties and approach the task with realistic expectations. Examples from the authors laboratories, as well as from the literature provide useful information.

Author : Mai Suan Li,Andrzej Kloczkowski,Marek Cieplak,Maksim Kouza
Publisher : Humana
Page : 478 pages
File Size : 48,5 Mb
Release : 2022-02-16
Category : Science
ISBN : 1071615459

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Computer Simulations of Aggregation of Proteins and Peptides by Mai Suan Li,Andrzej Kloczkowski,Marek Cieplak,Maksim Kouza Pdf

This volume provides computational methods and reviews various aspects of computational studies of protein aggregation. Chapters discuss the relationship between protein misfolding and protein aggregation, methods of prediction of aggregation propensities of protein, peptides, protein structure, results of computer simulations of aggregation, and computational simulations focused on specific diseases such as Alzheimer’s, Parkinson’s, and preeclampsia. 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, Computer Simulations of Aggregation of Proteins and Peptides aims to ensure successful results in the further study of this vital field.

Author : Anonim
Publisher : Academic Press
Page : 552 pages
File Size : 49,8 Mb
Release : 2020-03-18
Category : Science
ISBN : 9780128211359

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Computational Approaches for Understanding Dynamical Systems: Protein Folding and Assembly by Anonim Pdf

Computational Approaches for Understanding Dynamical Systems: Protein Folding and Assembly, Volume 170 in the Progress in Molecular Biology and Translational Science series, provides the most topical, informative and exciting monographs available on a wide variety of research topics. The series includes in-depth knowledge on the molecular biological aspects of organismal physiology, with this release including chapters on Pairwise-Additive and Polarizable Atomistic Force Fields for Molecular Dynamics Simulations of Proteins, Scale-consistent approach to the derivation of coarse-grained force fields for simulating structure, dynamics, and thermodynamics of biopolymers, Enhanced sampling and free energy methods, and much more. Includes comprehensive coverage on molecular biology Presents ample use of tables, diagrams, schemata and color figures to enhance the reader's ability to rapidly grasp the information provided Contains contributions from renowned experts in the field

Author : Anonim
Publisher : Elsevier
Page : 430 pages
File Size : 51,6 Mb
Release : 2006-10-06
Category : Science
ISBN : 0080522548

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Amyloid, Prions, and Other Protein Aggregates by Anonim Pdf

The ability of polypeptides to form alternatively folded, polymeric structures such as amyloids and related aggregates is being increasingly recognized as a major new frontier in protein research. This new volume of Methods in Enzymology along with Part C (volume 413) on Amyloid, Prions and other Protein Aggregates continue in the tradition of the first volume (309) in containing detailed protocols and methodological insights, provided by leaders in the field, into the latest methods for investigating the structures, mechanisms of formation, and biological activities of this important class of protein assemblies. Presents detailed protocols Includes troubleshooting tips Provides coverage on structural biology, computational methods, and biology

Author : Ben M. Dunn
Publisher : Bentham Science Publishers
Page : 911 pages
File Size : 53,9 Mb
Release : 2013-10-30
Category : Science
ISBN : 9781608054879

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Advances in Protein and Peptide Sciences by Ben M. Dunn Pdf

Advances in Protein and Peptide Sciences is a book series focused on leading-edge research on the structure, physical properties, and functions of proteins and peptides. The series presents highly cited contributions first published in the journal Current Protein and Peptide Science. Authors of these contributions have updated their work with new experimental data and references following their initial research. Each volume highlights a number of important topics in current research in the field of protein and peptide chemistry and molecular biology, including membrane proteins and their interactions with ligands, computational methods, and proteins in disease and biotechnology.

Author : Peter Eastman
Publisher : Unknown
Page : 248 pages
File Size : 47,5 Mb
Release : 2000
Category : Electronic
ISBN : STANFORD:36105023716983

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Long Time Scale Computer Simulations of Proteins by Peter Eastman Pdf

Author : Anonim
Publisher : Academic Press
Page : 320 pages
File Size : 41,8 Mb
Release : 2017-02-01
Category : Science
ISBN : 9780128122525

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Early Stage Protein Misfolding and Amyloid Aggregation by Anonim Pdf

Early Stage Protein Misfolding and Amyloid Aggregation, Volume 329, the latest in the International Review of Cell and Molecular Biology series presents comprehensive reviews and current advances in cell and molecular biology, including articles that address the structure and control of gene expression, nucleocytoplasmic interactions, control of cell development and differentiation, and cell transformation and growth. The series has a worldwide readership and maintains a high standard by publishing invited articles on important and timely topics as authored by prominent cell and molecular biologists. Provides comprehensive reviews and current advances Presents a wide range of perspectives on specific subjects Includes valuable reference material for advanced undergraduates, graduate students, and professional scientists

Author : Regina Murphy,Amos Tsai
Publisher : Springer Science & Business Media
Page : 348 pages
File Size : 53,8 Mb
Release : 2007-10-12
Category : Science
ISBN : 9780387360638

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Misbehaving Proteins by Regina Murphy,Amos Tsai Pdf

This text provides an up-to-date collection of theoretical and experimental studies into protein folding, misfolding, aggregation, and stability. Additionally, issues faced during the development of protein products are illustrated. It contains an introductory chapter for readers new to the protein folding field. The book provides a thorough and clear discussion of computational approaches to understanding and modeling protein aggregation.

Author : Gang Wei,Sangamesh G. Kum bar
Publisher : Woodhead Publishing
Page : 504 pages
File Size : 41,9 Mb
Release : 2020-07-28
Category : Technology & Engineering
ISBN : 9780081028513

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Artificial Protein and Peptide Nanofibers by Gang Wei,Sangamesh G. Kum bar Pdf

Artificial Protein and Peptide Nanofibers: Design, Fabrication, Characterization, and Applications provides comprehensive knowledge of the preparation, modification and applications of protein and peptide nanofibers. The book reviews the synthesis and strategies necessary to create protein and peptide nanofibers, such as self-assembly (including supramolecular assembly), electrospinning, template synthesis, and enzymatic synthesis. Then, the key chemical modification and molecular design methods are highlighted that can be utilized to improve the bio-functions of these synthetic fibers. Finally, fabrication methods for key applications, such as sensing, drug delivery, imaging, tissue engineering and electronic devices are reviewed. This book will be an ideal resource for those working in materials science, polymer science, chemical engineering, nanotechnology and biomedicine. Reviews key chemical modification and molecular design methods to improve the bio-functions of synthetic peptide and protein nanofibers Discusses the most important synthesis strategies, including supramolecular assembly, electrospinning, template synthesis and enzymatic synthesis Provides information on fabrication of nanofibers for key applications such as sensing, imaging, drug delivery and tissue engineering

Author : Yuan Jian-min,Zhou Huan-xiang
Publisher : World Scientific
Page : 328 pages
File Size : 49,5 Mb
Release : 2017-06-02
Category : Science
ISBN : 9789813202399

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Biophysics And Biochemistry Of Protein Aggregation: Experimental And Theoretical Studies On Folding, Misfolding, And Self-assembly Of Amyloidogenic Peptides by Yuan Jian-min,Zhou Huan-xiang Pdf

This book reviews current research on the important processes involved in neurodegenerative diseases (e.g. Alzheimer's disease) and the peptides and proteins involved in the amyloidogenic processes. It covers the design and developments of anti-amyloid inhibitors, and gives readers a fundamental understanding of the underlying oligomerization and aggregation processes of these diseases from both computational and experimental points of view.

Author : Andrzej Kolinski
Publisher : Springer Science & Business Media
Page : 360 pages
File Size : 51,7 Mb
Release : 2010-10-13
Category : Science
ISBN : 9781441968890

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Multiscale Approaches to Protein Modeling by Andrzej Kolinski Pdf

The book gives a comprehensive review of the most advanced multiscale methods for protein structure prediction, computational studies of protein dynamics, folding mechanisms and macromolecular interactions. It approaches span a wide range of the levels of coarse-grained representations, various sampling techniques and variety of applications to biomedical and biophysical problems. This book is intended to be used as a reference book for those who are just beginning their adventure with biomacromolecular modeling but also as a valuable source of detailed information for those who are already experts in the field of biomacromolecular modeling and in related areas of computational biology or biophysics.

Author : J. Robin Harris
Publisher : Springer Science & Business Media
Page : 654 pages
File Size : 49,7 Mb
Release : 2012-12-09
Category : Medical
ISBN : 9789400754164

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Protein Aggregation and Fibrillogenesis in Cerebral and Systemic Amyloid Disease by J. Robin Harris Pdf

This volume of the Subcellular Biochemistry series is the result of the long-standing research interest of the editor in the molecular mechanism underlying Alzheimer’s disease and other amyloid diseases, indicated also by the earlier book in the series (Volume 38), devoted to Alzheimer’s disease. The broad coverage within the present amyloidogenesis book represents an attempt to collate current knowledge relating to the proteins and peptides involved in most of the known amyloid diseases, together with some amyloid/fibril-forming proteins and peptides that are not involved in diseases. Thus, the range of topics included is comprehensive and furthermore it was thought appropriate to include both basic science and clinical presentation of the subjects under discussion.