Computational Design Of Protein Ligand Interactions Experiments And Applications
DOWNLOAD
Download Computational Design Of Protein Ligand Interactions Experiments And Applications PDF/ePub or read online books in Mobi eBooks. Click Download or Read Online button to get Computational Design Of Protein Ligand Interactions Experiments And Applications book now. This website allows unlimited access to, at the time of writing, more than 1.5 million titles, including hundreds of thousands of titles in various foreign languages. If the content not found or just blank you must refresh this page
Computational Design Of Protein Ligand Interactions Experiments And Applications
DOWNLOAD
Author : Shahir Samir Rizk
language : en
Publisher:
Release Date : 2006
Computational Design Of Protein Ligand Interactions Experiments And Applications written by Shahir Samir Rizk and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006 with Protein engineering categories.
This work describes the application of engineering protein-ligand interactions to the design of biosensors and multisensors. Structure-based computational design was used to engineer a zinc binding site in the enzyme ATPase. As a result, zinc acts as an allosteric regulator of the enzymatic activity. Computational design was further applied to the redesign of the binding specificity of glucose- and ribose binding proteins to bind pinacolymethylphosphonic acid (PMPA), a degradation product of the nerve agent soman. The computationally redesigned binding proteins were labeled with a thiolreactive fluorophore at a unique cysteine position and as a result, a change in fluorescence is exhibited by the protein-fluorophore conjugate in response to ligand binding. The results demonstrate that the engineered proteins act as reagentless fluorescent biosensors for PMPA and exhibit a range of affinities between 0.045 and 10 muM. Protein engineering techniques were used to extent the ability of a single biosensor element to distinguish between several similar target ligands by incorporating many sensor elements in a multisensor system. The protein PhnD, a periplasmic binding protein that binds many phosphonates, was characterized, and variants were constructed by introducing point mutations in its binding pocket. The PhnD variants exhibit differential binding affinities to several similar molecules and were used as sensor elements in a fluorescent multisensor system. The multisensor can be used to determine the concentrations of many analytes in a solution and can detect the presence of an interferent for which it has not been characterized by taking advantage of the non-linear nature of the fluorescent response to ligand binding.
The Computational Design Of Protein Ligand Interfaces
DOWNLOAD
Author : Andrew Morin
language : en
Publisher:
Release Date : 2011
The Computational Design Of Protein Ligand Interfaces written by Andrew Morin and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011 with Biological interfaces categories.
Protein Interactions Computational Methods Analysis And Applications
DOWNLOAD
Author : M Michael Gromiha
language : en
Publisher: World Scientific
Release Date : 2020-03-05
Protein Interactions Computational Methods Analysis And Applications written by M Michael Gromiha and has been published by World Scientific this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-03-05 with Science categories.
This book is indexed in Chemical Abstracts ServiceThe interactions of proteins with other molecules are important in many cellular activities. Investigations have been carried out to understand the recognition mechanism, identify the binding sites, analyze the the binding affinity of complexes, and study the influence of mutations on diseases. Protein interactions are also crucial in structure-based drug design.This book covers computational analysis of protein-protein, protein-nucleic acid and protein-ligand interactions and their applications. It provides up-to-date information and the latest developments from experts in the field, using illustrations to explain the key concepts and applications. This volume can serve as a single source on comparative studies of proteins interacting with proteins/DNAs/RNAs/carbohydrates and small molecules.
Protein Ligand Interactions
DOWNLOAD
Author : G. Ulrich Nienhaus
language : en
Publisher: Humana
Release Date : 2010-11-19
Protein Ligand Interactions written by G. Ulrich Nienhaus and has been published by Humana this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-11-19 with Science categories.
A readily reproducible collection of established and emerging techniques for studying the interaction between proteins and ligands, including biochemical/bulk techniques, structure analysis, spectroscopy, single-molecule studies, and theoretical/computational tools. Among the highlights are surface plasmon resonance (SPR) and reflectometric biosensor approaches, high-throughput screening with confocal optics microscopy, single molecule fluorescence and fluorescence correlation spectroscopy (FCS), atomic force microscopy (AFM), crystallography of reaction intermediates, and time-resolved x-ray crystallography. The protocols follow the successful Methods in Molecular BiologyTM series format, each offering step-by-step laboratory instructions, an introduction outlining the principle behind the technique, lists of the necessary equipment and reagents, and tips on troubleshooting and avoiding known pitfalls.
Computational Design Of Ligand Binding Proteins
DOWNLOAD
Author : Barry L. Stoddard
language : en
Publisher: Humana
Release Date : 2016-04-20
Computational Design Of Ligand Binding Proteins written by Barry L. Stoddard and has been published by Humana this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-04-20 with Science categories.
This volume provides a collection of protocols and approaches for the creation of novel ligand binding proteins, compiled and described by many of today's leaders in the field of protein engineering. Chapters focus on modeling protein ligand binding sites, accurate modeling of protein-ligand conformational sampling, scoring of individual docked solutions, structure-based design program such as ROSETTA, protein engineering, and additional methodological approaches. Examples of applications include the design of metal-binding proteins and light-induced ligand binding proteins, the creation of binding proteins that also display catalytic activity, and the binding of larger peptide, protein, DNA and RNA ligands. 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.
Protein Ligand Interactions
DOWNLOAD
Author : Hans-Joachim Böhm
language : en
Publisher: John Wiley & Sons
Release Date : 2006-03-06
Protein Ligand Interactions written by Hans-Joachim Böhm and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006-03-06 with Science categories.
The lock-and-key principle formulated by Emil Fischer as early as the end of the 19th century has still not lost any of its significance for the life sciences. The basic aspects of ligand-protein interaction may be summarized under the term 'molecular recognition' and concern the specificity as well as stability of ligand binding. Molecular recognition is thus a central topic in the development of active substances, since stability and specificity determine whether a substance can be used as a drug. Nowadays, computer-aided prediction and intelligent molecular design make a large contribution to the constant search for, e. g., improved enzyme inhibitors, and new concepts such as that of pharmacophores are being developed. An up-to-date presentation of an eternally young topic, this book is an indispensable information source for chemists, biochemists and pharmacologists dealing with the binding of ligands to proteins.
Computational And Structural Approaches To Drug Discovery
DOWNLOAD
Author : Robert Stroud
language : en
Publisher: Royal Society of Chemistry
Release Date : 2007-10-31
Computational And Structural Approaches To Drug Discovery written by Robert Stroud and has been published by Royal Society of Chemistry this book supported file pdf, txt, epub, kindle and other format this book has been release on 2007-10-31 with Science categories.
Computational methods impact all aspects of modern drug discovery and most notably these methods move rapidly from academic exercises to becoming drugs in clinical trials... This insightful book represents the experience and understanding of the global experts in the field and spotlights both the structural and medicinal chemistry aspects of drug design. The need to 'encode' the factors that determine adsorption, distribution, metabolism, excretion and toxicology are explored, as they remain the critical issues in this area of research. This indispensable resource provides the reader with: * A rich understanding of modern approaches to docking * A comparison and critical evaluation of state-of-the-art methods * Details on harnessing computational methods for both analysis and prediction * An insight into prediction potencies and protocols for unbiased evaluations of docking and scoring algorithms * Critical reviews of current fragment based methods with perceptive applications to kinases Addressing a wide range of uses of protein structures for drug discovery the Editors have created and essential reference for professionals in the pharmaceutical industry and moreover an indispensable core text for all graduate level courses covering molecular interactions and drug discovery.
Peptide And Protein Design For Biopharmaceutical Applications
DOWNLOAD
Author : Knud Jensen
language : en
Publisher: John Wiley & Sons
Release Date : 2009-09-01
Peptide And Protein Design For Biopharmaceutical Applications written by Knud Jensen and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-09-01 with Science categories.
Peptides serve as effective drugs in the clinic today. However the inherent drawbacks of peptide structures can limit their efficacy as drugs. To overcome this researchers are developing new methods to create ‘tailor-made’ peptides and proteins with improved pharmacological properties. Design of Peptides and Proteins provides an overview of the experimental and computational methods for peptide and protein design, with an emphasis on specific applications for therapeutics and biomedical research. Topics covered include: Computer modeling of peptides and proteins Peptidomimetics Design and synthesis of cyclic peptides Carbohydrates in peptide and protein design De novo design of peptides and proteins Medical development applications An extended case study – the design of insulin variants Design of Peptides and Proteins presents the state-of-the-art of this exciting approach for therapeutics, with contributions from international experts. It is an essential resource for academic and industrial scientists in the fields of peptide and protein drug design, biomedicine, biochemistry, biophysics, molecular modelling, synthetic organic chemistry and medicinal/pharmaceutical chemistry.
Protein Ligand Interactions
DOWNLOAD
Author : Holger Gohlke
language : en
Publisher: John Wiley & Sons
Release Date : 2012-06-04
Protein Ligand Interactions written by Holger Gohlke and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012-06-04 with Medical categories.
Innovative and forward-looking, this volume focuses on recent achievements in this rapidly progressing field and looks at future potential for development. The first part provides a basic understanding of the factors governing protein-ligand interactions, followed by a comparison of key experimental methods (calorimetry, surface plasmon resonance, NMR) used in generating interaction data. The second half of the book is devoted to insilico methods of modeling and predicting molecular recognition and binding, ranging from first principles-based to approximate ones. Here, as elsewhere in the book, emphasis is placed on novel approaches and recent improvements to established methods. The final part looks at unresolved challenges, and the strategies to address them. With the content relevant for all drug classes and therapeutic fields, this is an inspiring and often-consulted guide to the complexity of protein-ligand interaction modeling and analysis for both novices and experts.
Computational Structural Biology
DOWNLOAD
Author : Manuel Claude Peitsch
language : en
Publisher: World Scientific
Release Date : 2008
Computational Structural Biology written by Manuel Claude Peitsch and has been published by World Scientific this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008 with Science categories.
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.