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E-raamat: Annual Reports in Computational Chemistry

Series edited by (Robert Ramsey Chair, The University of Alabama, Tuscaloosa, AL, USA)
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Annual Reports in Computational Chemistry, Volume 13 provides timely and critical reviews of important topics in computational chemistry. Topics in this new release include chapters on the Quantum Chemical Model for Molecular Properties and Processes at the Extreme High Pressure, a section on Interpreting Bonding and Spectra with Correlated, One-Electron Concepts from Electron Propagator Theory, Benchmark databases of intermolecular interaction energies: design, construction, and significance, Gaussian Accelerated Molecular Dynamics: Theory, Implementation and Applications, and Dissociation in Binary Acid/Base Clusters: An Examination of Inconsistencies Introduced into the Many-Body Expansion by Naive Fragmentation Schemes.

Topics covered in this series include quantum chemistry, molecular mechanics, force fields, chemical education, and applications in academic and industrial settings. Focusing on the most recent literature and advances in the field, each article covers a specific topic of importance to computational chemists.

  • Includes timely discussions on quantum chemistry and molecular mechanics
  • Covers force fields, chemical education and more
  • Presents the latest in chemical education and applications in both academic and industrial settings

Muu info

This timely and critical review of important topics and recent literature in computational chemistry applies its findings to all chemical disciplines
Contributors ix
Preface xi
Section A Quantum Chemistry - Weak and Non-Bonded Interactions
1 Benchmark Databases of Intermolecular Interaction Energies: Design, Construction, and Significance
3(90)
Konrad Patkowski
1 Introduction
4(3)
2 Computing Accurate Interaction Energies
7(31)
3 The Design of Benchmark Databases
38(15)
4 Applications of Benchmark Noncovalent Databases
53(11)
5 Summary and Outlook
64(29)
Acknowledgments
65(1)
References
66(27)
2 Dissociation in Binary Acid/Base Clusters: An Examination of Inconsistencies Introduced Into the Many-Body Expansion by Naive Fragmentation Schemes
93(24)
Gregory S. Tschumper
Thomas L. Ellington
Sarah N. Johnson
1 Introduction
94(7)
2 Computational Details
101(1)
3 Results and Discussion
101(10)
4 Summary and Conclusions
111(6)
Acknowledgments
112(1)
References
113(4)
3 The Quantum Chemical Study of Chemical Reactions at Extreme High Pressure by Means of the Extreme-Pressure Polarizable Continuum Model
117(22)
Roberto Cammi
1 Introduction
118(1)
2 The XP-PCM Method
118(7)
3 The Computational Protocol for the Study of the PES of a Reaction at Extreme High Pressure
125(3)
4 Numerical Results
128(4)
5 Conclusion
132(7)
Acknowledgments
132(1)
References
132(7)
Section B Quantum Chemistry - Novel Approaches for Understanding Bonding
4 Interpreting Bonding and Spectra With Correlated, One-Electron Concepts From Electron Propagator Theory
139(46)
Joseph V. Ortiz
1 Insight Into Molecular Properties and the Electron Propagator
140(1)
2 One-Electron Concepts in Electron Propagator Theory
141(4)
3 Electron Propagator Foundations
145(7)
4 Approximations in the Fock and Self-Energy Matrices
152(16)
5 Numerical Characterization
168(4)
6 Recent Applications and Extensions
172(3)
7 Software Developments
175(10)
Acknowledgments
175(1)
References
175(10)
Section C Quantum Chemistry - Periodic Simulations
5 Plane-Wave DFT Methods for Chemistry
185(46)
Eric J. Bylaska
1 Introduction
186(1)
2 Plane-Wave Basis Set
187(3)
3 Pseudopotential Plane-Wave and Projector Augmented Wave Methods
190(19)
4 Recent Implementation of AIMD in NWChem for Many-Core Architectures
209(6)
5 Applications
215(6)
6 Conclusion
221(10)
Acknowledgments
222(1)
References
222(9)
Section D Biochemical Simulations - Molecular Dynamics
6 Gaussian Accelerated Molecular Dynamics: Theory, Implementation, and Applications
231
Yinglong Miao
J. Andrew McCammon
1 Introduction
232(2)
2 Theory
234(5)
3 Implementation
239(7)
4 Applications
246(23)
5 Concluding Remarks
269
Acknowledgments
272(1)
References
272
Dr. David A. Dixon was born in Houston Texas on Dec. 3, 1949. He received a B.S. in chemistry from Caltech in 1971 where he did undergraduate research in x-ray crystallography and ion cyclotron resonance spectroscopy. He received a PhD from Harvard in physical chemistry in 1976 where he worked on molecular orbital theory with Prof. William Lipscomb and crossed molecular beam chemistry with Prof. Dudley Herschbach. He has been the Robert Ramsay Chair the Department of Chemistry at The University of Alabama since January 2004. The overall goal of the work in his research group is to develop computational chemistry approaches on advanced computer systems and then apply them to address a range of important national problems with a focus on energy and the environment. Important research areas include heterogeneous and homogeneous catalysis including acid gas chemistry and biomass conversion, geochemistry and mineral surfaces, biochemistry of peptides for anion-based proteomics, heavy element chemistry for environmental cleanup and advanced nuclear fuel cycles, chemical hydrogen storage materials, and fluorine and main group chemistry. Prior to moving to Alabama, he was Associate Director for Theory, Modeling, & Simulation in the William R. Wiley Environmental Molecular Science Laboratory at the Pacific Northwest National Laboratory from 1995 to 2002 and a Battelle Fellow from 2002-2003. He was the leader of the Molecular Sciences Computing Facility in the EMSL as well as a computational chemistry and biology groups. His research at PNNL involved using computational methods to solve environmental problems facing the Department of Energy nuclear weapons production complex. He spent 12 years at DuPonts Central Research focusing on hydrofluorocarbons as chlorofluorocarbon replacements, fluoropolymers, catalysis, metal oxides, and main group chemistry in support of the Companys different businesses. He has received a number of awards including being a Junior Fellow at Harvard, Sloan Fellow, Dreyfus Teacher-Scholar, the 1989 Leo Hendrik Baekeland Award of the American Chemical Society, a 2000 Federal Laboratory Consortium Technology Transfer Award, the 2003 American Chemical Society Award for Creative Work in Fluorine Chemistry, a 2010 DOE Hydrogen Program R&D Award, the 2011 Burnum Award from The University of Alabama, the 2012 University of Alabama SEC Faculty Achievement Award, and the ACS Division of Fluorine Chemistry Distinguished Service Award in 2015. He is a Fellow of the American Association for the Advancement of Science, the American Physical Society, the American Chemical Society, and the European Academy of Sciences.