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Raugei S, Klein ML. An ab initio study of water molecules in the bromide ion solvation shell. J Chem Phys 2002. [DOI: 10.1063/1.1421366] [Citation(s) in RCA: 136] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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253
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Vassilev P, Hartnig C, Koper MTM, Frechard F, van Santen RA. Ab initio molecular dynamics simulation of liquid water and water–vapor interface. J Chem Phys 2001. [DOI: 10.1063/1.1413515] [Citation(s) in RCA: 64] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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254
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Wilson PJ, Bradley TJ, Tozer DJ. Hybrid exchange-correlation functional determined from thermochemical data and ab initio potentials. J Chem Phys 2001. [DOI: 10.1063/1.1412605] [Citation(s) in RCA: 458] [Impact Index Per Article: 19.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023] Open
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255
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Sancho-García JC, Pérez-Jiménez AJ, Moscardó F. Description of C(sp2)−C(sp2) Rotation in Butadiene by Density Functionals. J Phys Chem A 2001. [DOI: 10.1021/jp0120615] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- J. C. Sancho-García
- Departamento de Química Física, Universidad de Alicante, 03080 Alicante, Spain
| | - A. J. Pérez-Jiménez
- Departamento de Química Física, Universidad de Alicante, 03080 Alicante, Spain
| | - F. Moscardó
- Departamento de Química Física, Universidad de Alicante, 03080 Alicante, Spain
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256
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Wu X, Vargas MC, Nayak S, Lotrich V, Scoles G. Towards extending the applicability of density functional theory to weakly bound systems. J Chem Phys 2001. [DOI: 10.1063/1.1412004] [Citation(s) in RCA: 561] [Impact Index Per Article: 24.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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257
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Raugei S, Klein ML. Dynamics of water molecules in the Br(-) solvation shell: an ab initio molecular dynamics study. J Am Chem Soc 2001; 123:9484-5. [PMID: 11562248 DOI: 10.1021/ja011030k] [Citation(s) in RCA: 53] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- S Raugei
- Center for Molecular Modeling and Department of Chemistry, University of Pennsylvania Philadelphia, Pennsylvania 19104-6323, USA
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258
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Grüning M, Gritsenko OV, van Gisbergen SJA, Baerends EJ. The Failure of Generalized Gradient Approximations (GGAs) and Meta-GGAs for the Two-Center Three-Electron Bonds in He2+, (H2O)2+, and (NH3)2+. J Phys Chem A 2001. [DOI: 10.1021/jp011239k] [Citation(s) in RCA: 80] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- M. Grüning
- Scheikundig Laboratorium der Vrije Universiteit, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - O. V. Gritsenko
- Scheikundig Laboratorium der Vrije Universiteit, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - S. J. A. van Gisbergen
- Scheikundig Laboratorium der Vrije Universiteit, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
| | - E. J. Baerends
- Scheikundig Laboratorium der Vrije Universiteit, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands
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Raugei S, Klein ML. Ab Initio Molecular Dynamics Investigation of the Formyl Cation in the Superacid SbF5/HF. J Phys Chem B 2001. [DOI: 10.1021/jp0106855] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Simone Raugei
- Center for Molecular Modeling and Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
| | - Michael L. Klein
- Center for Molecular Modeling and Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323
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261
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Friesner RA, Dunietz BD. Large-scale ab initio quantum chemical calculations on biological systems. Acc Chem Res 2001; 34:351-8. [PMID: 11352713 DOI: 10.1021/ar980111r] [Citation(s) in RCA: 81] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
In this Account we describe recent advances in two ab initio electronic structure methods, localized perturbation approaches and density functional theory, that allow accurate calculations including electron correlation to be carried out for systems with hundreds of atoms. Application of these methods to large-scale modeling of biological systems is discussed. Localized perturbation methods are best suited to computation of conformational energetics and nonbonded interactions: determination of the relative energetics of various conformations of the alanine tetrapetide is presented. Density functional theory is the method of choice for studying reactive chemistry; investigations of the catalytic cycle of the enzyme methane monooxygenase are reviewed.
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Affiliation(s)
- R A Friesner
- Department of Chemistry and Center for Biomolecular Simulation, Columbia University, 3000 Broadway, Mail Code 3110, New York, New York 10027, USA.
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262
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Boese AD, Handy NC. A new parametrization of exchange–correlation generalized gradient approximation functionals. J Chem Phys 2001. [DOI: 10.1063/1.1347371] [Citation(s) in RCA: 611] [Impact Index Per Article: 26.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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263
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Menconi G, Wilson PJ, Tozer DJ. Emphasizing the exchange-correlation potential in functional development. J Chem Phys 2001. [DOI: 10.1063/1.1342776] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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264
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Raugei S, Cardini G, Schettino V. Microsolvation effect on chemical reactivity: The case of the Cl−+CH3Br SN2 reaction. J Chem Phys 2001. [DOI: 10.1063/1.1348023] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023] Open
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265
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Hardy EH, Zygar A, Zeidler MD, Holz M, Sacher FD. Isotope effect on the translational and rotational motion in liquid water and ammonia. J Chem Phys 2001. [DOI: 10.1063/1.1340584] [Citation(s) in RCA: 80] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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266
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Parthiban S, de Oliveira G, Martin JML. Benchmark ab Initio Energy Profiles for the Gas-Phase SN2 Reactions Y- + CH3X → CH3Y + X- (X,Y = F,Cl,Br). Validation of Hybrid DFT Methods. J Phys Chem A 2001. [DOI: 10.1021/jp0031000] [Citation(s) in RCA: 181] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Srinivasan Parthiban
- Department of Organic Chemistry, Kimmelman Building, Room 262, Weizmann Institute of Science, IL-76100 Rechovot, Israel
| | - Glênisson de Oliveira
- Department of Organic Chemistry, Kimmelman Building, Room 262, Weizmann Institute of Science, IL-76100 Rechovot, Israel
| | - Jan M. L. Martin
- Department of Organic Chemistry, Kimmelman Building, Room 262, Weizmann Institute of Science, IL-76100 Rechovot, Israel
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267
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te Velde G, Bickelhaupt FM, Baerends EJ, Fonseca Guerra C, van Gisbergen SJA, Snijders JG, Ziegler T. Chemistry with ADF. J Comput Chem 2001. [DOI: 10.1002/jcc.1056] [Citation(s) in RCA: 7830] [Impact Index Per Article: 340.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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268
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Rauhut G. Recent Advances in Computing Heteroatom-Rich Five- and Six-Membered Ring Systems. ADVANCES IN HETEROCYCLIC CHEMISTRY 2001. [DOI: 10.1016/s0065-2725(01)81010-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/04/2023]
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269
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Williams HL, Chabalowski CF. Using Kohn−Sham Orbitals in Symmetry-Adapted Perturbation Theory to Investigate Intermolecular Interactions. J Phys Chem A 2000. [DOI: 10.1021/jp003883p] [Citation(s) in RCA: 226] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Hayes L. Williams
- Army Research Laboratory, AMSRL-WM-BD, Aberdeen Proving Ground, Maryland 21005-5006
| | - Cary F. Chabalowski
- Army Research Laboratory, AMSRL-WM-BD, Aberdeen Proving Ground, Maryland 21005-5006
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Ahlrichs R, Furche F, Grimme S. Comment on “Assessment of exchange correlation functionals” [A.J. Cohen, N.C. Handy, Chem. Phys. Lett. 316 (2000) 160–166]. Chem Phys Lett 2000. [DOI: 10.1016/s0009-2614(00)00654-0] [Citation(s) in RCA: 63] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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272
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Wright NJ, Benny Gerber R, Tozer DJ. Direct calculation of anharmonic vibrational states of polyatomic molecules using density functional theory: spectroscopic tests of recently developed functionals. Chem Phys Lett 2000. [DOI: 10.1016/s0009-2614(00)00597-2] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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273
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