Advanced Methods In Structural Biology

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Advanced Methods in Structural Biology

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Author : Ângela Sousa
Publisher : Springer Nature
ISBN 13 : 1071631470
Total Pages : 462 pages
Book Rating : 4.0/5 (716 download)

Book Synopsis Advanced Methods in Structural Biology by : Ângela Sousa

Download or read book Advanced Methods in Structural Biology written by Ângela Sousa and published by Springer Nature. This book was released on 2023-04-24 with total page 462 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume explores the latest integrated bioprocesses and technologies used to study the production of the target recombinant protein of therapeutic or diagnostic interest; its isolation, purification, and stabilization; and the bio-interaction and structural analyses. The chapters in this book are organized into four parts. Part One covers production methods of soluble and membrane proteins in prokaryotic and eukaryotic expression systems, such as Lactococcus lactis and Escherichia coli. Part Two describes traditional and novel approaches for recombinant protein purification and stabilization, and buffers and additives. Part Three discusses automated methods in structural biology based on in silico approaches; and Part Four provides examples of advanced protein investigation methodologies to assess structural analysis such as high-throughput protein crystallization and time-resolved serial crystallography. 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 comprehensive, Advanced Methods in Structural Biology is a valuable resource to those in academia (i.e., graduate students and postdoctoral researchers) and researchers in the pharmaceutical industry who wish to learn more about this developing field. Chapter 5 is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

Advances in Protein Molecular and Structural Biology Methods

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Author : Timir Tripathi
Publisher : Academic Press
ISBN 13 : 0323902650
Total Pages : 716 pages
Book Rating : 4.3/5 (239 download)

Book Synopsis Advances in Protein Molecular and Structural Biology Methods by : Timir Tripathi

Download or read book Advances in Protein Molecular and Structural Biology Methods written by Timir Tripathi and published by Academic Press. This book was released on 2022-01-14 with total page 716 pages. Available in PDF, EPUB and Kindle. Book excerpt: Advances in Protein Molecular and Structural Biology Methods offers a complete overview of the latest tools and methods applicable to the study of proteins at the molecular and structural level. The book begins with sections exploring tools to optimize recombinant protein expression and biophysical techniques such as fluorescence spectroscopy, NMR, mass spectrometry, cryo-electron microscopy, and X-ray crystallography. It then moves towards computational approaches, considering structural bioinformatics, molecular dynamics simulations, and deep machine learning technologies. The book also covers methods applied to intrinsically disordered proteins (IDPs)followed by chapters on protein interaction networks, protein function, and protein design and engineering. It provides researchers with an extensive toolkit of methods and techniques to draw from when conducting their own experimental work, taking them from foundational concepts to practical application. - Presents a thorough overview of the latest and emerging methods and technologies for protein study - Explores biophysical techniques, including nuclear magnetic resonance, X-ray crystallography, and cryo-electron microscopy - Includes computational and machine learning methods - Features a section dedicated to tools and techniques specific to studying intrinsically disordered proteins

Computational Structural Biology

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Author : Torsten Schwede
Publisher : World Scientific
ISBN 13 : 9812778780
Total Pages : 790 pages
Book Rating : 4.8/5 (127 download)

Book Synopsis Computational Structural Biology by : Torsten Schwede

Download or read book Computational Structural Biology written by Torsten Schwede and published by World Scientific. This book was released on 2008 with total page 790 pages. Available in PDF, EPUB and Kindle. Book excerpt: This is a comprehensive introduction to Landau-Lifshitz equations and Landau-Lifshitz-Maxwell equations, beginning with the work by Yulin Zhou and Boling Guo in the early 1980s and including most of the work done by this Chinese group led by Zhou and Guo since. The book focuses on aspects such as the existence of weak solutions in multi dimensions, existence and uniqueness of smooth solutions in one dimension, relations with harmonic map heat flows, partial regularity and long time behaviors. The book is a valuable reference book for those who are interested in partial differential equations, geometric analysis and mathematical physics. It may also be used as an advanced textbook by graduate students in these fields.

Advanced Methods in Structural Biology

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Author : Toshiya Senda
Publisher : Springer
ISBN 13 : 9784431560289
Total Pages : 0 pages
Book Rating : 4.5/5 (62 download)

Book Synopsis Advanced Methods in Structural Biology by : Toshiya Senda

Download or read book Advanced Methods in Structural Biology written by Toshiya Senda and published by Springer. This book was released on 2016-08-03 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides practical information on a whole set of protein experiments for advanced structural biology, such as X-ray crystallography, NMR, electron microscopy, advanced mass spectroscopy, and surface plasmon resonance, as well as a wide variety of expression systems including eukaryotic and in vitro expression. In the past decade, structural genomics studies have pushed forward the development of automated methods in the field of structural biology, however there is an increasing need for the structural analysis of difficult targets, such as large protein complexes and membrane proteins, which are hard to achieve using conventional automated methods, and require knowledge that goes beyond standard protein chemistry protocols. To address these problems and to help researchers develop novel methods, this volume provides examples of the development of new protein investigation methods and their theoretical background. This book particularly appeals to graduate students, postdoctoral researchers, young investigators wishing to gain a better understanding of the theory behind experiments, and those seeking further advanced, practical structural biology methods.

Structural Molecular Biology

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Author : David Davies
Publisher : Springer Science & Business Media
ISBN 13 : 1468442201
Total Pages : 528 pages
Book Rating : 4.4/5 (684 download)

Book Synopsis Structural Molecular Biology by : David Davies

Download or read book Structural Molecular Biology written by David Davies and published by Springer Science & Business Media. This book was released on 2013-03-09 with total page 528 pages. Available in PDF, EPUB and Kindle. Book excerpt: Structural biology is undergoing a revolution in both the sophistication of new biophysical methods and the complexity of problems in biomolecular structure and organization opened up for study. These changes are directly attributable to major advances in computer technology, computational methods, development of high intensity synchrotron radiation sources, new magnetic resonance methods, laser optical techniques, etc. Structure-function problems previously considered intractable may now be solved. As this area of specialisation continues to expand, there is a need to review the various physical methods currently being used and developed in struc tural molecular biology. At the same time that individual techniques and their applications become more specialized, the need for effect ive communication between investigators gains in imperative. It is vital to forge links among sub-disciplines and to emphasise the complementary nature of results observed by different biophysical methods. This publication contains the review lectures given at a meeting on "Current Methods in Structural Molecular Biology" spon sored by NATO as an Advanced Study Institute and by FEBS ~s Advanced Course No. 78. The aim of the meeting was to bring together, in a teaching environment, students and specialists in diverse biophysical methodologies with the specific purpose of exploring, questioning and critically assessing the present and future state of biological structure research. The scientific content of the interdisciplinary Study Institute centred around three interrelated aspects; biophysical methods and instrumentation, their application to biological structure problems, and derivation of structural information and insights.

Structural Biology in Drug Discovery

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Author : Jean-Paul Renaud
Publisher : John Wiley & Sons
ISBN 13 : 1118900502
Total Pages : 1367 pages
Book Rating : 4.1/5 (189 download)

Book Synopsis Structural Biology in Drug Discovery by : Jean-Paul Renaud

Download or read book Structural Biology in Drug Discovery written by Jean-Paul Renaud and published by John Wiley & Sons. This book was released on 2020-01-09 with total page 1367 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the most comprehensive and up-to-date overview of structure-based drug discovery covering both experimental and computational approaches, Structural Biology in Drug Discovery: Methods, Techniques, and Practices describes principles, methods, applications, and emerging paradigms of structural biology as a tool for more efficient drug development. Coverage includes successful examples, academic and industry insights, novel concepts, and advances in a rapidly evolving field. The combined chapters, by authors writing from the frontlines of structural biology and drug discovery, give readers a valuable reference and resource that: Presents the benefits, limitations, and potentiality of major techniques in the field such as X-ray crystallography, NMR, neutron crystallography, cryo-EM, mass spectrometry and other biophysical techniques, and computational structural biology Includes detailed chapters on druggability, allostery, complementary use of thermodynamic and kinetic information, and powerful approaches such as structural chemogenomics and fragment-based drug design Emphasizes the need for the in-depth biophysical characterization of protein targets as well as of therapeutic proteins, and for a thorough quality assessment of experimental structures Illustrates advances in the field of established therapeutic targets like kinases, serine proteinases, GPCRs, and epigenetic proteins, and of more challenging ones like protein-protein interactions and intrinsically disordered proteins

Textbook Of Structural Biology (Second Edition)

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Author : Anders Liljas
Publisher : World Scientific
ISBN 13 : 9813142499
Total Pages : 610 pages
Book Rating : 4.8/5 (131 download)

Book Synopsis Textbook Of Structural Biology (Second Edition) by : Anders Liljas

Download or read book Textbook Of Structural Biology (Second Edition) written by Anders Liljas and published by World Scientific. This book was released on 2016-09-27 with total page 610 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a comprehensive coverage of the basic principles of structural biology, as well as an up-to-date summary of some main directions of research in the field. The relationship between structure and function is described in detail for soluble proteins, membrane proteins, membranes, and nucleic acids.There are several books covering protein structure and function, but none that give a complete picture, including nucleic acids, lipids, membranes and carbohydrates, all being of central importance in structural biology.The book covers state-of-the-art research in various areas. It is unique for its breadth of coverage by experts in the fields. The book is richly illustrated with more than 400 color figures to highlight the wide range of structures.

Algorithms in Structural Molecular Biology

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Author : Bruce R. Donald
Publisher : MIT Press
ISBN 13 : 0262548798
Total Pages : 497 pages
Book Rating : 4.2/5 (625 download)

Book Synopsis Algorithms in Structural Molecular Biology by : Bruce R. Donald

Download or read book Algorithms in Structural Molecular Biology written by Bruce R. Donald and published by MIT Press. This book was released on 2023-08-15 with total page 497 pages. Available in PDF, EPUB and Kindle. Book excerpt: An overview of algorithms important to computational structural biology that addresses such topics as NMR and design and analysis of proteins.Using the tools of information technology to understand the molecular machinery of the cell offers both challenges and opportunities to computational scientists. Over the past decade, novel algorithms have been developed both for analyzing biological data and for synthetic biology problems such as protein engineering. This book explains the algorithmic foundations and computational approaches underlying areas of structural biology including NMR (nuclear magnetic resonance); X-ray crystallography; and the design and analysis of proteins, peptides, and small molecules. Each chapter offers a concise overview of important concepts, focusing on a key topic in the field. Four chapters offer a short course in algorithmic and computational issues related to NMR structural biology, giving the reader a useful toolkit with which to approach the fascinating yet thorny computational problems in this area. A recurrent theme is understanding the interplay between biophysical experiments and computational algorithms. The text emphasizes the mathematical foundations of structural biology while maintaining a balance between algorithms and a nuanced understanding of experimental data. Three emerging areas, particularly fertile ground for research students, are highlighted: NMR methodology, design of proteins and other molecules, and the modeling of protein flexibility. The next generation of computational structural biologists will need training in geometric algorithms, provably good approximation algorithms, scientific computation, and an array of techniques for handling noise and uncertainty in combinatorial geometry and computational biophysics. This book is an essential guide for young scientists on their way to research success in this exciting field.

Structural Biology Using Electrons and X-rays

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Author : Michael F Moody
Publisher : Academic Press
ISBN 13 : 0080919456
Total Pages : 451 pages
Book Rating : 4.0/5 (89 download)

Book Synopsis Structural Biology Using Electrons and X-rays by : Michael F Moody

Download or read book Structural Biology Using Electrons and X-rays written by Michael F Moody and published by Academic Press. This book was released on 2011-03-03 with total page 451 pages. Available in PDF, EPUB and Kindle. Book excerpt: Structural Biology Using Electrons and X-Rays discusses the diffraction and image-based methods used for the determination of complex biological macromolecules. The book focuses on the Fourier transform theory, which is a mathematical function that is computed to transform signals between time and frequency domain. Composed of five parts, the book examines the development of nuclear magnetic resonance (NMR), which allows the calculation of the images of a certain protein. Parts 1 to 4 provide the basic information and the applications of Fourier transforms, as well as the different methods used for image processing using X-ray crystallography and the analysis of electron micrographs. Part 5 focuses entirely on the mathematical aspect of Fourier transforms. In addition, the book examines detailed structural analyses of a specimen’s symmetry (i.e., crystals, helices, polyhedral viruses and asymmetrical particles). This book is intended for the biologist or biochemist who is interested in different methods and techniques for calculating the images of proteins using nuclear magnetic resonance (NMR). It is also suitable for readers without a background in physical chemistry or mathematics. Emphasis on common principles underlying all diffraction-based methods Thorough grounding in theory requires understanding of only simple algebra Visual representations and explanations of challenging content Mathematical detail offered in short-course form to parallel the text

Computational Structural Biology

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Author : Manuel Claude Peitsch
Publisher : World Scientific
ISBN 13 : 9812778772
Total Pages : 790 pages
Book Rating : 4.8/5 (127 download)

Book Synopsis Computational Structural Biology by : Manuel Claude Peitsch

Download or read book Computational Structural Biology written by Manuel Claude Peitsch and published by World Scientific. This book was released on 2008 with total page 790 pages. Available in PDF, EPUB and Kindle. Book excerpt: This work covers the impact of computational structural biology on protein structure prediction methods, macromolecular function and protein design, and key methods in drug discovery. It also addresses the computational challenges of experimental approaches in structural biology.

Bayesian Methods in Structural Bioinformatics

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Author : Thomas Hamelryck
Publisher : Springer
ISBN 13 : 3642272258
Total Pages : 399 pages
Book Rating : 4.6/5 (422 download)

Book Synopsis Bayesian Methods in Structural Bioinformatics by : Thomas Hamelryck

Download or read book Bayesian Methods in Structural Bioinformatics written by Thomas Hamelryck and published by Springer. This book was released on 2012-03-23 with total page 399 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is an edited volume, the goal of which is to provide an overview of the current state-of-the-art in statistical methods applied to problems in structural bioinformatics (and in particular protein structure prediction, simulation, experimental structure determination and analysis). It focuses on statistical methods that have a clear interpretation in the framework of statistical physics, rather than ad hoc, black box methods based on neural networks or support vector machines. In addition, the emphasis is on methods that deal with biomolecular structure in atomic detail. The book is highly accessible, and only assumes background knowledge on protein structure, with a minimum of mathematical knowledge. Therefore, the book includes introductory chapters that contain a solid introduction to key topics such as Bayesian statistics and concepts in machine learning and statistical physics.

Macromolecular Crystallography

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Author : Maria Armenia Carrondo
Publisher : Springer
ISBN 13 : 9400725302
Total Pages : 213 pages
Book Rating : 4.4/5 (7 download)

Book Synopsis Macromolecular Crystallography by : Maria Armenia Carrondo

Download or read book Macromolecular Crystallography written by Maria Armenia Carrondo and published by Springer. This book was released on 2011-12-01 with total page 213 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume is a collection of the contributions presented at the 42nd Erice Crystallographic Course whose main objective was to train the younger generation on advanced methods and techniques for examining structural and dynamic aspects of biological macromolecules. The papers review the techniques used to study protein assemblies and their dynamics, including X-ray diffraction and scattering, electron cryo-electron microscopy, electro nanospray mass spectrometry, NMR, protein docking and molecular dynamics. A key theme throughout the book is the dependence of modern structural science on multiple experimental and computational techniques, and it is the development of these techniques and their integration that will take us forward in the future.

Scattering Methods in Structural Biology Part B

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Author :
Publisher : Elsevier
ISBN 13 : 0323991823
Total Pages : 462 pages
Book Rating : 4.3/5 (239 download)

Book Synopsis Scattering Methods in Structural Biology Part B by :

Download or read book Scattering Methods in Structural Biology Part B written by and published by Elsevier. This book was released on 2023-01-12 with total page 462 pages. Available in PDF, EPUB and Kindle. Book excerpt: Scattering Methods in Structural Biology, Part B, Volume 676 in the Methods in Enzymology serial, highlights advances in the field, presenting chapters on Quality controls, Refining biomolecular structures and ensembles by SAXS-driven molecular dynamics simulations, Data analysis and modelling of small-angle scattering data with contrast variation, Observing protein degradation in solution by the PAN-20S proteasome complex: state-of-the-art and future perspectives of TR-SANS as a complementary tool to NMR, crystallography and Cryo-EM, Extracting structural insights from chemically-specific soft X-ray scattering, Reconstruction of 3D density of biological macromolecules from solution scattering, ATSAS- present state and new developments in computational methods, and much more. Additional chapters cover Modeling Structure and Dynamics of Protein Complexes with SAXS Profiles (FoXSDock and MultiFoXS), Validation of macromolecular flexibility in solution by SAXS, Combining NMR, SAXS and SANS to characterize the structure and dynamics of protein complexes, Application of Molecular Simulation Methods to Analyze SAS Data, and more. - Provides the authority and expertise of leading contributors from an international board of authors - Presents the latest release in the Methods in Enzymology serial - Updated release includes the latest information on Small Angle Scattering Methods for Structural Interpretation

Methods in Molecular Biophysics

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Author : Nathan R. Zaccai
Publisher : Cambridge University Press
ISBN 13 : 1108508804
Total Pages : 710 pages
Book Rating : 4.1/5 (85 download)

Book Synopsis Methods in Molecular Biophysics by : Nathan R. Zaccai

Download or read book Methods in Molecular Biophysics written by Nathan R. Zaccai and published by Cambridge University Press. This book was released on 2017-05-18 with total page 710 pages. Available in PDF, EPUB and Kindle. Book excerpt: Current techniques for studying biological macromolecules and their interactions are based on the application of physical methods, ranging from classical thermodynamics to more recently developed techniques for the detection and manipulation of single molecules. Reflecting the advances made in biophysics research over the past decade, and now including a new section on medical imaging, this new edition describes the physical methods used in modern biology. All key techniques are covered, including mass spectrometry, hydrodynamics, microscopy and imaging, diffraction and spectroscopy, electron microscopy, molecular dynamics simulations and nuclear magnetic resonance. Each method is explained in detail using examples of real-world applications. Short asides are provided throughout to ensure that explanations are accessible to life scientists, physicists and those with medical backgrounds. The book remains an unparalleled and comprehensive resource for graduate students of biophysics and medical physics in science and medical schools, as well as for research scientists looking for an introduction to techniques from across this interdisciplinary field.

Entropy and Free Energy in Structural Biology

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Author : Hagai Meirovitch
Publisher : CRC Press
ISBN 13 : 1000072304
Total Pages : 374 pages
Book Rating : 4.0/5 ( download)

Book Synopsis Entropy and Free Energy in Structural Biology by : Hagai Meirovitch

Download or read book Entropy and Free Energy in Structural Biology written by Hagai Meirovitch and published by CRC Press. This book was released on 2020-08-14 with total page 374 pages. Available in PDF, EPUB and Kindle. Book excerpt: Computer simulation has become the main engine of development in statistical mechanics. In structural biology, computer simulation constitutes the main theoretical tool for structure determination of proteins and for calculation of the free energy of binding, which are important in drug design. Entropy and Free Energy in Structural Biology leads the reader to the simulation technology in a systematic way. The book, which is structured as a course, consists of four parts: Part I is a short course on probability theory emphasizing (1) the distinction between the notions of experimental probability, probability space, and the experimental probability on a computer, and (2) elaborating on the mathematical structure of product spaces. These concepts are essential for solving probability problems and devising simulation methods, in particular for calculating the entropy. Part II starts with a short review of classical thermodynamics from which a non-traditional derivation of statistical mechanics is devised. Theoretical aspects of statistical mechanics are reviewed extensively. Part III covers several topics in non-equilibrium thermodynamics and statistical mechanics close to equilibrium, such as Onsager relations, the two Fick's laws, and the Langevin and master equations. The Monte Carlo and molecular dynamics procedures are discussed as well. Part IV presents advanced simulation methods for polymers and protein systems, including techniques for conformational search and for calculating the potential of mean force and the chemical potential. Thermodynamic integration, methods for calculating the absolute entropy, and methodologies for calculating the absolute free energy of binding are evaluated. Enhanced by a number of solved problems and examples, this volume will be a valuable resource to advanced undergraduate and graduate students in chemistry, chemical engineering, biochemistry biophysics, pharmacology, and computational biology.

Integrative Structural Biology with Hybrid Methods

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Author : Haruki Nakamura
Publisher : Springer
ISBN 13 : 9811322007
Total Pages : 272 pages
Book Rating : 4.8/5 (113 download)

Book Synopsis Integrative Structural Biology with Hybrid Methods by : Haruki Nakamura

Download or read book Integrative Structural Biology with Hybrid Methods written by Haruki Nakamura and published by Springer. This book was released on 2019-01-08 with total page 272 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents a new emerging concept of "Integrative Structural Biology". It covers current trends of the molecular and cellular structural biology, providing new methods to observe, validate, and keep the structural models of the large cellular machines with recent scientific results. Structures of very large macromolecular machines in cells are being determined by combining observations from complementary experimental methods. Thus, this volume presents the each methods such as X-ray crystallography, NMR spectroscopy, 3DEM, small-angle scattering (SAS), FRET, crosslinking, and enables the readers to understand the hybrid methods. This book discusses how those integrative models should be represented, validated and archived. A unique highlight of this book is discussion of the data validation and archive, which are big problems in this filed along with the progress of this field. The researchers in biology will be interested in this book as a guide book for learning the current structure biology, but also those in structure biology may use this book as a comprehensive reference to cover broad topics.

Structural Molecular Biology

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Author : David B. Davies
Publisher :
ISBN 13 :
Total Pages : 0 pages
Book Rating : 4.:/5 (252 download)

Book Synopsis Structural Molecular Biology by : David B. Davies

Download or read book Structural Molecular Biology written by David B. Davies and published by . This book was released on 1982 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: