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From Small To Big Understanding Noncovalent Interactions In Chemical Systems From Quantum Mechanical Models
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Book Synopsis From Small to Big: Understanding Noncovalent Interactions in Chemical Systems from Quantum Mechanical Models by : Ashley L. Ringer
Download or read book From Small to Big: Understanding Noncovalent Interactions in Chemical Systems from Quantum Mechanical Models written by Ashley L. Ringer and published by . This book was released on 2009 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: Noncovalent interactions in complex chemical systems are examined by considering model systems which capture the essential physics of the interactions and applying correlated electronic structure techniques to these systems. Noncovalent interactions are critical to understanding a host of energetic and structural properties in complex chemical systems, from base pair stacking in DNA to protein folding in organic solids. Complex chemical and biophysical systems, such as enzymes and proteins, are too large to be studied using computational techniques rigorous enough to capture the subtleties of noncovalent interactions. Thus, the larger chemical system must be truncated to a smaller model system to which rigorous methods can be applied in order to capture the essential physics of the interaction. Computational methodologies which can account for high levels of electron correlation, such as second-order perturbation theory and coupled-cluster theory, must be used. These computational techniques will be used to study several types (pi stacking, S/pi, and C-H/pi) of noncovalent interactions in two chemical contexts: biophysical systems and organic solids.
Book Synopsis Non-covalent Interactions in Quantum Chemistry and Physics by : Alberto Otero de la Roza
Download or read book Non-covalent Interactions in Quantum Chemistry and Physics written by Alberto Otero de la Roza and published by Elsevier. This book was released on 2017-06-15 with total page 478 pages. Available in PDF, EPUB and Kindle. Book excerpt: Non-covalent Interactions in Quantum Chemistry and Physics: Theory and Applications provides an entry point for newcomers and a standard reference for researchers publishing in the area of non-covalent interactions. Written by the leading experts in this field, the book enables experienced researchers to keep up with the most recent developments, emerging methods, and relevant applications. The book gives a comprehensive, in-depth overview of the available quantum-chemistry methods for intermolecular interactions and details the most relevant fields of application for those techniques. Theory and applications are put side-by-side, which allows the reader to gauge the strengths and weaknesses of different computational techniques. Summarizes the state-of-the-art in the computational intermolecular interactions field in a comprehensive work Introduces students and researchers from related fields to the topic of computational non-covalent interactions, providing a single unified source of information Presents the theoretical foundations of current quantum mechanical methods alongside a collection of examples on how they can be applied to solve practical problems
Book Synopsis Non-covalent Interactions by : Pavel Hobza
Download or read book Non-covalent Interactions written by Pavel Hobza and published by Royal Society of Chemistry. This book was released on 2010 with total page 239 pages. Available in PDF, EPUB and Kindle. Book excerpt: Co-authored by an experimentalist (Klaus M3ller-Dethlefs ) and theoretician (Pavel Hobza), the aim of this book is to provide a general introduction into the science behind non-covalent interactions and molecular complexes using some important experimental and theoretical methods and approaches.
Book Synopsis Noncovalent Forces by : Steve Scheiner
Download or read book Noncovalent Forces written by Steve Scheiner and published by Springer. This book was released on 2015-04-16 with total page 528 pages. Available in PDF, EPUB and Kindle. Book excerpt: Computational methods, and in particular quantum chemistry, have taken the lead in our growing understanding of noncovalent forces, as well as in their categorization. This volume describes the current state of the art in terms of what we now know, and the current questions requiring answers in the future. Topics range from very strong (ionic) to very weak (CH--π) interactions. In the intermediate regime, forces to be considered are H-bonds, particularly CH--O and OH--metal, halogen, chalcogen, pnicogen and tetrel bonds, aromatic stacking, dihydrogen bonds, and those involving radicals. Applications include drug development and predictions of crystal structure.
Book Synopsis Protein Simulations by : Valerie Daggett
Download or read book Protein Simulations written by Valerie Daggett and published by Elsevier. This book was released on 2003-11-26 with total page 477 pages. Available in PDF, EPUB and Kindle. Book excerpt: Protein Simulation focuses on predicting how protein will act in vivo. These studies use computer analysis, computer modeling, and statistical probability to predict protein function. * Force Fields* Ligand Binding* Protein Membrane Simulation* Enzyme Dynamics* Protein Folding and unfolding simulations
Book Synopsis Accurate and Efficient Quantum Chemistry Calculations for Noncovalent Interactions in Many-body Systems by : Ka Un Lao
Download or read book Accurate and Efficient Quantum Chemistry Calculations for Noncovalent Interactions in Many-body Systems written by Ka Un Lao and published by . This book was released on 2016 with total page 512 pages. Available in PDF, EPUB and Kindle. Book excerpt: We discuss the development and application of a number of fragmentation methods focused on understanding of intermolecular interactions in different systems. The advantage of fragmentation methods is to avoid the exponential growth of required computational power for the most advanced and accurate quantum chemistry theories which preclude the application in systems with large number of atoms and molecules. In those fragmentation methods, the full chemical system is partitioned into different subsystems, circumventing the exponential scaling computational cost. How this partitioning is performed and applied appropriately is the principal emphasis of this work. One of the fragmentation methods developed by our group, called extended XSAPT, combines an efficient, iterative, monomer-based approach to computing many-body polarization interactions with a two-body version of symmetry-adapted perturbation theory (SAPT). The result is an efficient method for computing accurate intermolecular interaction energies in large non-covalent assemblies such as molecular and ionic clusters, supramolecular complexes, clathrates, or DNA--drug complexes. As in traditional SAPT, the XSAPT energy is decomposable into physically-meaningful components. Dispersion interactions are problematic in traditional low-order SAPT, and the empirical atom-atom dispersion potentials are introduced here in an attempt to improve this situation. Comparison to high-level ab initio benchmarks for biologically-related dimers, water clusters, halide--water clusters, supremolecular complexes, methane clathrate hydrates, and a DNA intercalation complex illustrate both the accuracy of XSAPT-based methods as well as their limitations. The computational cost of XSAPT scales as third to fifth order with respect to monomer size, depending upon the particular version that is employed, but the accuracy is typically superior to alternative ab initio methods with similar scaling. Moreover, the monomer-based nature of XSAPT calculations makes them trivially parallelizable, such that wall times scale linearly with respect to the number of monomer units. XSAPT-based methods thus open the door to both qualitative and quantitative studies of non-covalent interactions in clusters, biomolecules, and condensed-phase systems.
Book Synopsis Recent Progress in Coupled Cluster Methods by : Petr Cársky
Download or read book Recent Progress in Coupled Cluster Methods written by Petr Cársky and published by Springer Science & Business Media. This book was released on 2010-07-03 with total page 672 pages. Available in PDF, EPUB and Kindle. Book excerpt: I feel very honored that I have been asked to write a Foreword to this book. The subject of the book – “Coupled cluster theory” – has been around for about half a century. The basic theory and explicit equations for closed-shell ground states were formulated before 1970. At the beginning of the seventies the rst ab initio calcu- tion were carried out. At that time speed and memory of computers were very limited compared to today’s standards. Moreover, the size of one-electron bases employed was small, so that it was only possible to achieve an orientation in methodical aspects rather than to generate new signi cant results. Extensive use of the coupled-cluster method started at the beginning of the eighties. With the help of more powerful computers the results of coupled-cluster approaches started to yield more and more interesting results of relevance to the interpretation of experimental data. New ideas in methodology kept appearing and computer codes became more and more ef cient. This exciting situation continues to this very day. Remarkably enough, even the - quired equations can now be generated by a computer with the help of symbolic languages. The size of this monograph and the rich variety of articles it contains attests to the usefulness and viability of the couple-cluster formalism for the h- dling of many-electron correlation effects. This represents a vivid testimony of a tremendous work that has been accomplished in coupled-cluster methodology and its exploitation.
Book Synopsis Quantum Mechanical Study of Weak Molecular Interactions by : Upendra Adhikari
Download or read book Quantum Mechanical Study of Weak Molecular Interactions written by Upendra Adhikari and published by . This book was released on 2014 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: Noncovalent interactions have a long history and have received huge attention since their discovery almost a century ago. The prevalence of noncovalent interactions can be seen in the formation of simple dimers to structural and functional modification of large biomolecules. Even though plenty of experimental and theoretical studies are performed to understand various noncovalent interactions, the nature and variety of those interactions are still subject of study. And still they are receiving tremendous attention due to their significant role in the stability and conformation of biomolecules, catalysis of organic and inorganic reactions, crystal packing and material design. This dissertation explores various new sorts of noncovalent interactions, compares them with existing ones, and extensively studies the relevance of noncovalent interactions to various biological systems of interest by applying quantum mechanical tools. A new sort of noncovalent interaction has been identified where two electronegative atoms interact directly with each other with no intervening hydrogen or halogen atoms. These interactions are found to be surprisingly strong, even stronger than regular OH℗ʺ℗ʺ℗ʺO and NH℗ʺ℗ʺ℗ʺO hydrogen bonds in some cases, and are stabilized by the charge transfer from electron donor to electron acceptor. The major portion of this dissertation deals with the rigorous investigation of new sorts of interactions like P℗ʺ℗ʺ℗ʺN, S℗ʺ℗ʺ℗ʺN, Cl℗ʺ℗ʺ℗ʺN and several other charge transfer types of interactions with side by side comparison with hydrogen and halogen bonds. Similarly, a new carbonyl-carbonyl stacking geometry in peptide-peptide interactions is explored. These stacking geometries are energetically close to stronger NH℗ʺ℗ʺ℗ʺO hydrogen bonds, and get some assistance from CH℗ʺ℗ʺ℗ʺO hydrogen bonds. Carbon is considered one of the potent H-bond donors, albeit weaker, due to its ubiquitous presence in biomolecules. So, another portion of this dissertation is focused on the study of neutral and charged CH hydrogen bonds simulating various interpeptide interactions and enzyme catalysis. And the last part of this dissertation deals with the putative H-bonds that might be present in tip functionalized carbon nanotubes.
Book Synopsis Quantum Biochemistry by : Chérif F. Matta
Download or read book Quantum Biochemistry written by Chérif F. Matta and published by John Wiley & Sons. This book was released on 2010-01-14 with total page 978 pages. Available in PDF, EPUB and Kindle. Book excerpt: Divided into five major parts, the two volumes of this ready reference cover the tailoring of theoretical methods for biochemical computations, as well as the many kinds of biomolecules, reaction and transition state elucidation, conformational flexibility determination, and drug design. Throughout, the chapters gradually build up from introductory level to comprehensive reviews of the latest research, and include all important compound classes, such as DNA, RNA, enzymes, vitamins, and heterocyclic compounds. The result is in-depth and vital knowledge for both readers already working in the field as well as those entering it. Includes contributions by Prof. Ada Yonath (Nobel Prize in Chemistry 2009) and Prof. Jerome Karle (Nobel Prize in Chemistry 1985).
Book Synopsis Computational Quantum Chemistry by : Masoud Soroush
Download or read book Computational Quantum Chemistry written by Masoud Soroush and published by Elsevier. This book was released on 2018-10-16 with total page 386 pages. Available in PDF, EPUB and Kindle. Book excerpt: Computational Quantum Chemistry: Insights into Polymerization Reactions consolidates extensive research results, couples them with computational quantum chemistry (CQC) methods applicable to polymerization reactions, and presents those results systematically. CQC has advanced polymer reaction engineering considerably for the past two decades. The book puts these advances into perspective. It also allows you to access the most up-to-date research and CQC methods applicable to polymerization reactions in a single volume. The content is rigorous yet accessible to graduate students as well as researchers who need a reference of state-of-the-art CQC methods with polymerization applications. Consolidates more than 10 years of theoretical polymerization reaction research currently scattered across journal articles Accessibly presents CQC methods applicable to polymerization reactions Provides researchers with a one-stop source of the latest theoretical developments in polymer reaction engineering
Book Synopsis Thermodynamics and Statistical Mechanics of Macromolecular Systems by : Michael Bachmann
Download or read book Thermodynamics and Statistical Mechanics of Macromolecular Systems written by Michael Bachmann and published by Cambridge University Press. This book was released on 2014-04-24 with total page 359 pages. Available in PDF, EPUB and Kindle. Book excerpt: Reviewing statistical mechanics concepts for analysis of macromolecular structure formation processes, for graduate students and researchers in physics and biology.
Book Synopsis Some Applications, Insights, and Approximations for the Quantum Mechanical Treatment of Molecular Interactions by : Brian Ernst
Download or read book Some Applications, Insights, and Approximations for the Quantum Mechanical Treatment of Molecular Interactions written by Brian Ernst and published by . This book was released on 2022 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: The 21st century has seen theoretical computational chemistry reach such a great level of accuracy and computational speed that enormous chemical insights can be gained from routine quantum chemical calculations. In this thesis I discuss a number of applications where computational chemistry has played a role in understanding experimental work. One such work investigated the modes of degradation of piperidinium functionalized polyethylene in basic solution, where density functional theory showed that the local polyethylene backbone morphology plays a critical role in determining the primary mode of degradation. In another work I cover our investigation of the enantioselective hydrocyanation of conjugated alkenes via an electrocatalytic reaction, where density functional theory and transition state theory are used to rationalize the preferential formation of the R-enantiomer. In addition, I discuss insights modern theoretical chemistry tools give into the fundamental nature of ion-pi interactions. I then discuss the creation and use of benchmark databases to train/test approximations in computational chemistry. The first of these databases is NENCI-2021, comprised of non-equilibrium non-covalent interactions. The next such database is QM7-X, a large database of quantum-mechanical properties containing ~4.2 million molecular conformations. Finally, I discuss new state-of-the-art density functional approximations built to both fit benchmark data and satisfy known exact physical constraints.
Book Synopsis Understanding Non-covalent Interactions by : Scott L. Cockroft
Download or read book Understanding Non-covalent Interactions written by Scott L. Cockroft and published by . This book was released on 2006 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Intermolecular Forces and Clusters II by : R.A. Christie
Download or read book Intermolecular Forces and Clusters II written by R.A. Christie and published by Springer Science & Business Media. This book was released on 2005-12-20 with total page 184 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Practical Aspects of Computational Chemistry V by : Jerzy Leszczynski
Download or read book Practical Aspects of Computational Chemistry V written by Jerzy Leszczynski and published by Springer Nature. This book was released on 2021-10-21 with total page 292 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents contributions on a wide range of computational research applied to fields ranging from molecular systems to bulk structures. This volume highlights current trends in modern computational chemistry and discusses the development of theoretical methodologies, state-of-the-art computational algorithms and their practical applications. This volume is part of a continuous effort by the editors to document recent advances by prominent researchers in the area of computational chemistry. Most of the chapters are contributed by invited speakers and participants to International annual conference “Current Trends in Computational Chemistry”, organized by Jerzy Leszczynski, one of the editors of the current volume. This conference series has become an exciting platform for eminent theoretical and computational chemists to discuss their recent findings and is regularly honored by the presence of Nobel laureates. Topics covered in the book include reactive force-field methodologies, coarse-grained modeling, DNA damage radiosensitizers, modeling and simulation of surfaces and interfaces, non-covalent interactions, and many others. The book is intended for theoretical and computational chemists, physical chemists, material scientists and those who are eager to apply computational chemistry methods to problems of chemical and physical importance. It is a valuable resource for undergraduate, graduate and PhD students as well as for established researchers.
Book Synopsis Chemical and Biochemical Applications by : Pierre Laszlo
Download or read book Chemical and Biochemical Applications written by Pierre Laszlo and published by Elsevier. This book was released on 2012-12-02 with total page 317 pages. Available in PDF, EPUB and Kindle. Book excerpt: NMR of Newly Accessible Nuclei, Volume 1: Chemical and Biochemical Applications is a 10-chapter text that explores the properties, advantages, developments, and chemical and biochemical applications of NMR technique. This book describes first the operation of an NMR spectrometer under its two aspects, namely, the instrumental and the computational aspects. The next chapters are devoted to some of the most important pulse sequences. The discussion then shifts to the various factors determining the position of the observed absorption and those responsible for the various relaxation processes. The last chapters deal with the specific applications of NMR, including in cation salvation, calcium-binding proteins, polyelectrolyte systems, halogens, and antibiotic ionophores. This book is of value to inorganic and analytical chemists, and biophysicists.
Book Synopsis Theoretical Investigations of Non-covalent Interactions by : Alexis Taylor
Download or read book Theoretical Investigations of Non-covalent Interactions written by Alexis Taylor and published by . This book was released on 2010 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:
