Protein Folding in Silico Book

Protein Folding in Silico


  • Author : Irena Roterman-Konieczna
  • Publisher : Elsevier
  • Release Date : 2012-10-04
  • Genre: Science
  • Pages : 240
  • ISBN 10 : 9781908818256

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Protein Folding in Silico Excerpt :

Protein folding is a process by which a protein structure assumes its functional shape of conformation, and has been the subject of research since the publication of the first software tool for protein structure prediction. Protein folding in silico approaches this issue by introducing an ab initio model that attempts to simulate as far as possible the folding process as it takes place in vivo, and attempts to construct a mechanistic model on the basis of the predictions made. The opening chapters discuss the early stage intermediate and late stage intermediate models, followed by a discussion of structural information that affects the interpretation of the folding process. The second half of the book covers a variety of topics including ligand binding site recognition, the "fuzzy oil drop" model and its use in simulation of the polypeptide chain, and misfolded proteins. The book ends with an overview of a number of other ab initio methods for protein structure predictions and some concluding remarks. Discusses a range of ab initio models for protein structure prediction Introduces a unique model based on experimental observations Describes various methods for the quantitative assessment of the presented models from the viewpoint of information theory

Protein Folding in Silico Book

Protein Folding in Silico


  • Author : Irena Roterman-Konieczna
  • Publisher : Woodhead Publishing
  • Release Date : 2012-10-18
  • Genre: Science
  • Pages : 240
  • ISBN 10 : 1907568174

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Protein Folding in Silico Excerpt :

Protein folding is a process by which a protein structure assumes its functional shape of conformation, and has been the subject of research since the publication of the first software tool for protein structure prediction. Protein folding in silico approaches this issue by introducing an ab initio model that attempts to simulate as far as possible the folding process as it takes place in vivo, and attempts to construct a mechanistic model on the basis of the predictions made. The opening chapters discuss the early stage intermediate and late stage intermediate models, followed by a discussion of structural information that affects the interpretation of the folding process. The second half of the book covers a variety of topics including ligand binding site recognition, the "fuzzy oil drop" model and its use in simulation of the polypeptide chain, and misfolded proteins. The book ends with an overview of a number of other ab initio methods for protein structure predictions and some concluding remarks. Discusses a range of ab initio models for protein structure prediction Introduces a unique model based on experimental observations Describes various methods for the quantitative assessment of the presented models from the viewpoint of information theory

Multiscale Approaches to Protein Modeling Book

Multiscale Approaches to Protein Modeling


  • Author : Andrzej Kolinski
  • Publisher : Springer Science & Business Media
  • Release Date : 2010-10-13
  • Genre: Science
  • Pages : 355
  • ISBN 10 : 9781441968890

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Multiscale Approaches to Protein Modeling Excerpt :

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.

Systems Biology Book

Systems Biology


  • Author : Leszek Konieczny
  • Publisher : Springer Science & Business Media
  • Release Date : 2013-10-01
  • Genre: Medical
  • Pages : 204
  • ISBN 10 : 9783319013367

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Systems Biology Excerpt :

The objective of this book is to present the strategies employed by living organisms on a molecular level and to help understand the basics of Systems Biology. Its content is organized in a way to meet the exponential growth in the volume of biological knowledge, and the need for a multidisciplinary approach in the practice of teaching modern biology. For this reason, the whole material is divided into five chapters, each devoted to a fundamental concept: Structure-Function, Energy, Information, Regulation and Interrelationships. The book describes generic mechanisms which occur in biology and promotes a simulation-based approach to the subject of Systems Biology. The use of basic knowledge as the background for presenting biological problems obligates the teachers to deal with generalized phenomena comprising the ever increasing volume of teaching materials. This book is intended for biologists and is informative for specialists in the areas of computer science, robotics and engineering.

Computational Protein Design Book

Computational Protein Design


  • Author : Ilan Samish
  • Publisher : Humana Press
  • Release Date : 2016-12-03
  • Genre: Science
  • Pages : 450
  • ISBN 10 : 1493966359

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Computational Protein Design Excerpt :

The aim this volume is to present the methods, challenges, software, and applications of this widespread and yet still evolving and maturing field. Computational Protein Design, the first book with this title, guides readers through computational protein design approaches, software and tailored solutions to specific case-study targets. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Computational Protein Design aims to ensure successful results in the further study of this vital field.

From Globular Proteins to Amyloids Book

From Globular Proteins to Amyloids


  • Author : Irena Roterman-Konieczna
  • Publisher : Elsevier
  • Release Date : 2019-01-02
  • Genre: Business & Economics
  • Pages : 210
  • ISBN 10 : 9780081029824

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From Globular Proteins to Amyloids Excerpt :

From Globular Proteins to Amyloids

Homology Molecular Modeling Book

Homology Molecular Modeling


  • Author : Rafael Trindade Maia
  • Publisher : BoD – Books on Demand
  • Release Date : 2021-03-10
  • Genre: Science
  • Pages : 146
  • ISBN 10 : 9781839628054

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Homology Molecular Modeling Excerpt :

Homology modeling is an extremely useful and versatile technique that is gaining more and more space and demand in research in computational and theoretical biology. This book, “Homology Molecular Modeling - Perspectives and Applications”, brings together unpublished chapters on this technique. In this book, 7 chapters are intimately related to the theme of molecular modeling, carefully selected and edited for academic and scientific readers. It is an indispensable read for anyone interested in the areas of bioinformatics and computational biology. Divided into 4 sections, the reader will have a didactic and comprehensive view of the theme, with updated and relevant concepts on the subject. This book was organized from researchers to researchers with the aim of spreading the fascinating area of molecular modeling by homology.

Abridged Thermodynamic and Thermochemical Tables Book

Abridged Thermodynamic and Thermochemical Tables


  • Author : Frederick Douglas Hamblin
  • Publisher : Pergamon
  • Release Date : 1968
  • Genre: Chemistry, Physical and theoretical
  • Pages : 73
  • ISBN 10 : 9780081029817

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Abridged Thermodynamic and Thermochemical Tables Excerpt :

The phenomenon of amyloidosis has attracted the attention of numerous researchers for two main reasons: (1) it involves unexpected changes in protein conformation (without chemical intervention) and (2) has practical implications, such as elucidating the mechanisms which drive neurodegenerative diseases carries. In particular, understanding the process of amyloidosis is a fundamental prerequisite in the search for new, effective drugs and therapies targeting the key area of neurodegenerative diseases. The book proposes a model and a mechanism which explain protein misfolding. The concepts presented are based on a model originally intended to show how proteins attain their native conformations. The model is quantitative in nature and founded upon arguments derived from information theory. It facilitates prediction and simulation of the amyloid fibrillation process. It also identifies progressive changes which occur in native proteins, leading to the emergence of amyloid aggregations.

Identification of Ligand Binding Site and Protein Protein Interaction Area Book

Identification of Ligand Binding Site and Protein Protein Interaction Area


  • Author : Irena Roterman-Konieczna
  • Publisher : Springer Science & Business Media
  • Release Date : 2012-10-19
  • Genre: Medical
  • Pages : 170
  • ISBN 10 : 9789400752849

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Identification of Ligand Binding Site and Protein Protein Interaction Area Excerpt :

This volume presents a review of the latest numerical techniques used to identify ligand binding and protein complexation sites. It should be noted that there are many other theoretical studies devoted to predicting the activity of specific proteins and that useful protein data can be found in numerous databases. The aim of advanced computational techniques is to identify the active sites in specific proteins and moreover to suggest a generalized mechanism by which such protein-ligand (or protein-protein) interactions can be effected. Developing such tools is not an easy task – it requires extensive expertise in the area of molecular biology as well as a firm grasp of numerical modeling methods. Thus, it is often viewed as a prime candidate for interdisciplinary research.

Advances in Protein Chemistry and Structural Biology Book

Advances in Protein Chemistry and Structural Biology


  • Author : Anonim
  • Publisher : Academic Press
  • Release Date : 2014-03-11
  • Genre: Science
  • Pages : 488
  • ISBN 10 : 9780128003732

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Advances in Protein Chemistry and Structural Biology Excerpt :

This eclectic volume features two major topics: applications of mass spectrometry in bioscience; and computational methods for analysis of protein structure and interactions with other macromolecules. Published continuously since 1944, the Advances in Protein Chemistry and Structural Biology series has been the essential resource for protein chemists. Each volume brings forth new information about protocols and analysis of proteins. Each thematically organized volume is guest edited by leading experts in a broad range of protein-related topics. Describes advances in application of powerful techniques in a wide bioscience area Chapters are written by authorities in their field Targeted to a wide audience of researchers, specialists, and students The information provided in the volume is well supported by a number of high quality illustrations, figures, and tables

Molecular Biology of Protein Folding Book

Molecular Biology of Protein Folding


  • Author : P. Michael Conn
  • Publisher : Academic Press
  • Release Date : 2009-01-09
  • Genre: Science
  • Pages : 288
  • ISBN 10 : 0080923399

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Molecular Biology of Protein Folding Excerpt :

Nucleic acids are the fundamental building blocks of DNA and RNA and are found in virtually every living cell. Molecular biology is a branch of science that studies the physicochemical properties of molecules in a cell, including nucleic acids, proteins, and enzymes. Increased understanding of nucleic acids and their role in molecular biology will further many of the biological sciences including genetics, biochemistry, and cell biology. Progress in Nucleic Acid Research and Molecular Biology is intended to bring to light the most recent advances in these overlapping disciplines with a timely compilation of reviews comprising each volume. *Follow the new editor-in-chief, P. Michael Conn, as he introduces this second thematic volume in the series – an in-depth aid to researchers who are looking for the best techniques and tools for understanding the complexities of protein folding *Understand the advantages of protein folding over other therapeutic approaches and see how protein folding plays a critical role in the development of diseases such as Alzheimer’s and diabetes *Decipher the rules of protein folding through compelling and timely reviews combined with chapters written by international authors in engineering, biochemistry, physics and computer science

Structure Function Relation In Proteins Book

Structure Function Relation In Proteins


  • Author : Irena Roterman
  • Publisher : Unknown
  • Release Date : 2009-01-01
  • Genre: Uncategoriezed
  • Pages : 148
  • ISBN 10 : 8178954095

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Structure Function Relation In Proteins Excerpt :

The protein structure seems to be the materialization of the secret of Nature. The structures of proteins seem to be at the first glance the completely random arrangements of the ribbon-like polypeptide chain. The short visual analysis reveals the existence of some ordered fragments called helices or beta-forms. The order may be of two categories: local short range arrangement and multi-units system engaging few ordered fragments into the non-random structural form generation. Majority of the structures are of random form. The question can be asked How random structures are able to participate in quite complicated processes. The search for the method allowing prediction the structure on the basis of amino acid sequence has longer than 40 years history. The progress in this discipline is measured every second year in CASP (Critical Assessment of Structure Prediction) and CAPRI (Critical Assessment of Protein Interaction). This progress is difficult to be recognized as significant. The methods applied for structure prediction treat the structure as the main goal to be reached. Another interpretation is presented in this volume of Recent Advances in Structural Bioinformatics. The different point of view shall be defined before this new strategy may be discussed. The assumption is that the Nature is interested in making the organism to be active. The organism requires many processes to be run properly, in the correct moment, with the appropriate speed and in the correct place. This large set of conditions may be achieved only when all elements participating in the processes called life are precisely well defined in respect to their duties (understood as biological function). The assumption is that the proteins are tools to perform particular jobs. The job of high specificity (the participation in particular process) performed with high precision makes the proteins unique and highly specialized. The search for protein structure shall be changed into the search for the bi

Protein Folding Book

Protein Folding


  • Author : Cláudio M. Gomes
  • Publisher : Springer
  • Release Date : 2019-02-25
  • Genre: Science
  • Pages : 63
  • ISBN 10 : 9783319008820

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Protein Folding Excerpt :

This snapshot volume is designed to provide a smooth entry into the field of protein folding. Presented in a concise manner, each section introduces key concepts while providing a brief overview of the relevant literature. Outlook subsections will pinpoint specific aspects related to emerging methodologies, concepts and trends.

Superhydrophobic Surfaces Book

Superhydrophobic Surfaces


  • Author : Mehdi Khodaei
  • Publisher : Unknown
  • Release Date : 2020-07
  • Genre: Uncategoriezed
  • Pages : 130
  • ISBN 10 : 9781838805975

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Superhydrophobic Surfaces Excerpt :