51
|
Weaver MN, Merz KM, Ma D, Kim HJ, Gagliardi L. Calculation of Heats of Formation for Zn Complexes: Comparison of Density Functional Theory, Second Order Perturbation Theory, Coupled-Cluster and Complete Active Space Methods. J Chem Theory Comput 2013; 9:10.1021/ct400856g. [PMID: 24409106 PMCID: PMC3881291 DOI: 10.1021/ct400856g] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Heats of formation were predicted for nine ZnX complexes (X= Zn, H, O, F2, S, Cl, Cl2, CH3, (CH3)2) using fourteen density functionals, MP2 calculations and the CCSD and CCSD(T) coupled-cluster methods. Calculations utilized the correlation consistent cc-pVTZ and aug-cc-pVTZ basis sets. Heats of formation were most accurately predicted by the TPSSTPSS and TPSSKCIS density functionals, and the BLYP, B3LYP, MP2, CCSD and CCSD(T) levels were among the poorest performing methods based on accuracy. A wide range of Zn2 equilibrium bond distances were predicted, indicating that many of the studied levels of theory may be unable to adequately describe this transition metal dimer. To further benchmark the accuracy of the density functional methods, high-level CASSCF and CASPT2 calculations were performed to estimate bond dissociation energies, equilibrium bond lengths and heats of formation for the diatomic Zn complexes and the latter two quantities were compared with the results of DFT, MP2 and coupled-cluster calculations as well as experimental values.
Collapse
Affiliation(s)
- Michael N. Weaver
- Department of Chemistry, Quantum Theory Project, 2328 New Physics Building, University of Florida, Gainesville, FL 32611-8435
| | - Kenneth M. Merz
- Department of Chemistry, Quantum Theory Project, 2328 New Physics Building, University of Florida, Gainesville, FL 32611-8435
- Department of Chemistry, Department of Biochemistry and Molecular Biology, Michigan State University, 578 S. Shaw Lane, East Lansing, MI 48824-1322, 517-355-9715
| | | | | | | |
Collapse
|
52
|
Navrátil V, Klusák V, Rulíšek L. Theoretical Aspects of Hydrolysis of Peptide Bonds by Zinc Metalloenzymes. Chemistry 2013; 19:16634-45. [DOI: 10.1002/chem.201302663] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2013] [Revised: 08/08/2013] [Indexed: 12/11/2022]
Affiliation(s)
- Václav Navrátil
- Institute of Organic Chemistry and Biochemistry, Gilead Sciences & IOCB Research Center, Academy of Sciences of the Czech Republic, Flemingovo náměstí 2, 166 10 Praha 6 (Czech Republic)
- Charles University in Prague, Faculty of Science, Department of Biochemistry, Hlavova 2030, 128 43 Praha 2 (Czech Republic)
| | - Vojtěch Klusák
- Institute of Organic Chemistry and Biochemistry, Gilead Sciences & IOCB Research Center, Academy of Sciences of the Czech Republic, Flemingovo náměstí 2, 166 10 Praha 6 (Czech Republic)
| | - Lubomír Rulíšek
- Institute of Organic Chemistry and Biochemistry, Gilead Sciences & IOCB Research Center, Academy of Sciences of the Czech Republic, Flemingovo náměstí 2, 166 10 Praha 6 (Czech Republic)
| |
Collapse
|
53
|
Sun Y, Chen H. Performance of Density Functionals for Activation Energies of Zr-Mediated Reactions. J Chem Theory Comput 2013; 9:4735-43. [DOI: 10.1021/ct400432x] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Yuanyuan Sun
- Beijing National
Laboratory for Molecular Sciences (BNLMS), CAS Key Laboratory of Photochemistry,
Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, China
| | - Hui Chen
- Beijing National
Laboratory for Molecular Sciences (BNLMS), CAS Key Laboratory of Photochemistry,
Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, China
| |
Collapse
|
54
|
Laury ML, Wilson AK. Performance of Density Functional Theory for Second Row (4d) Transition Metal Thermochemistry. J Chem Theory Comput 2013; 9:3939-46. [DOI: 10.1021/ct400379z] [Citation(s) in RCA: 66] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Marie L. Laury
- Center
for Advanced Scientific Computing and Modeling (CASCaM), Department of Chemistry, University of North Texas, Denton, Texas 76203-5017, United States
| | - Angela K. Wilson
- Center
for Advanced Scientific Computing and Modeling (CASCaM), Department of Chemistry, University of North Texas, Denton, Texas 76203-5017, United States
| |
Collapse
|
55
|
Liu C, Peterson C, Wilson AK. C–O Bond Cleavage of Dimethyl Ether by Transition Metal Ions: A Systematic Study on Catalytic Properties of Metals and Performance of DFT Functionals. J Phys Chem A 2013; 117:5140-8. [DOI: 10.1021/jp312690e] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Cong Liu
- Department of Chemistry and
Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Denton, Texas 76203-5017,
United States
| | - Charles Peterson
- Department of Chemistry and
Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Denton, Texas 76203-5017,
United States
| | - Angela K. Wilson
- Department of Chemistry and
Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Denton, Texas 76203-5017,
United States
| |
Collapse
|
56
|
Narendrapurapu BS, Richardson NA, Copan AV, Estep ML, Yang Z, Schaefer HF. Investigating the Effects of Basis Set on Metal–Metal and Metal–Ligand Bond Distances in Stable Transition Metal Carbonyls: Performance of Correlation Consistent Basis Sets with 35 Density Functionals. J Chem Theory Comput 2013; 9:2930-8. [DOI: 10.1021/ct4002398] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
| | - Nancy A. Richardson
- Center for
Computational Quantum Chemistry, University of Georgia, Athens, Georgia
| | - Andreas V. Copan
- Center for
Computational Quantum Chemistry, University of Georgia, Athens, Georgia
| | - Marissa L. Estep
- Center for
Computational Quantum Chemistry, University of Georgia, Athens, Georgia
| | - Zheyue Yang
- Center for
Computational Quantum Chemistry, University of Georgia, Athens, Georgia
| | - Henry F. Schaefer
- Center for
Computational Quantum Chemistry, University of Georgia, Athens, Georgia
| |
Collapse
|
57
|
Chan B, Ball GE. A Benchmark Ab Initio and DFT Study of the Structure and Binding of Methane in the σ-Alkane Complex CpRe(CO)2(CH4). J Chem Theory Comput 2013; 9:2199-208. [PMID: 26583714 DOI: 10.1021/ct400013p] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Ab initio molecular orbital theory and density functional theory (DFT) procedures have been used to study the binding of methane in CpRe(CO)2(CH4), the simplest σ-alkane complex in the experimentally widely studied CpRe(CO)2(alkane) family. We find the optimal Re···C, Re···H and C···H distances to be 2.60, 1.92, and 1.15 Å, respectively, on the composite-CCSD(T)/def2-QZVPP (CCSD(T)/def2-TZVP with supplement for the larger def2-QZVPP basis set at the second-order Møller-Plesset perturbation theory level) potential energy surface which has been mapped out at this level of theory. The enthalpy of binding at 298 K was determined to be 62.0 kJ mol(-1) at the composite-CCSD(T)/CBS//B3-PW91/aug-cc-pVTZ-PP level. Benchmarks on the various DFT procedures show that some functionals give good geometries but underestimate binding energies, while others yield poor geometries but give closer agreements with the composite-CCSD(T) binding energy. On the other hand, the ωB97X-D functional gives fair agreements with composite-CCSD(T) for both geometry optimization as well as binding energy. Thus, it appears to be a reliable, easily implemented, and cost-effective means for studying Re-alkane complexes. Good binding energies are also obtained with several common functionals when D3 dispersion corrections are applied. Selected dispersion-corrected DFT methods (B3PW91-D3, TPSSh-D3, and B98-D3) were found to be quite accurate for the calculation of binding energies of several other model metal-CH4 complexes containing a range of metal centers (Rh, Pd, W, Ir, Pt). We also note that, for single-point energy calculation of the Re-CH4 binding, the PWP-B95-D3 double-hybrid DFT procedure provides an excellent agreement with the benchmark energy at only a slightly higher computational requirement.
Collapse
Affiliation(s)
- Bun Chan
- School of Chemistry and ARC Center of Excellence for Free Radical Chemistry and Biotechnology, University of Sydney , NSW 2006, Australia
| | - Graham E Ball
- School of Chemistry, University of New South Wales , NSW 2052, Australia
| |
Collapse
|
58
|
Jiang W, Laury ML, Powell M, Wilson AK. Comparative Study of Single and Double Hybrid Density Functionals for the Prediction of 3d Transition Metal Thermochemistry. J Chem Theory Comput 2012; 8:4102-11. [PMID: 26605577 DOI: 10.1021/ct300455e] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The performance of 13 density functionals, including hybrid-GGA, hybrid-meta-GGA, and double-hybrid functionals, in combination with the correlation consistent basis sets, has been evaluated for the prediction of gas phase enthalpies of formation for a large set of 3d transition-metal-containing molecules with versatile bonding features. Of the methods studied, the hybrid B97-1 functional and the double hybrid functional mPW2-PLYP exhibit the best overall performance with mean absolute deviations (MAD) from experimental data of 7.2 and 7.3 kcal mol(-1), respectively. For single reference molecules, where dynamic correlation predominates, the results of the hybrid functionals B97-1, B98, and ωB97X and the double hybrid functionals B2-PLYP, B2GP-PLYP, and mPW2-PLYP yield the smallest deviations from the experimental enthalpies of formation. For the prediction of thermodynamic properties of coordination complexes including metal carbonyls, B97-1 and mPW2-PLYP are the most promising functionals of those investigated. When the size of the molecule is considered, B97-1 and B98 outperform mPW2-PLYP for diatomics and triatomics, while mPW2-PLYP yields the lowest MAD for larger molecules.
Collapse
Affiliation(s)
- Wanyi Jiang
- Department of Chemistry and Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Denton, Texas 76203-5017, United States
| | - Marie L Laury
- Department of Chemistry and Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Denton, Texas 76203-5017, United States
| | - Mitchell Powell
- Department of Chemistry and Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Denton, Texas 76203-5017, United States
| | - Angela K Wilson
- Department of Chemistry and Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Denton, Texas 76203-5017, United States
| |
Collapse
|
59
|
|
60
|
Xu X, Truhlar DG. Performance of Effective Core Potentials for Density Functional Calculations on 3d Transition Metals. J Chem Theory Comput 2011; 8:80-90. [DOI: 10.1021/ct200558j] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xuefei Xu
- Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Donald G. Truhlar
- Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| |
Collapse
|
61
|
Jiang W, DeYonker NJ, Determan JJ, Wilson AK. Toward accurate theoretical thermochemistry of first row transition metal complexes. J Phys Chem A 2011; 116:870-85. [PMID: 22107449 DOI: 10.1021/jp205710e] [Citation(s) in RCA: 113] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The recently developed correlation consistent Composite Approach for transition metals (ccCA-TM) was utilized to compute the thermochemical properties for a collection of 225 inorganic molecules containing first row (3d) transition metals, ranging from the monohydrides to larger organometallics such as Sc(C(5)H(5))(3) and clusters such as (CrO(3))(3). Ostentatiously large deviations of ccCA-TM predictions stem mainly from aging and unreliable experimental data. For a subset of 70 molecules with reported experimental uncertainties less than or equal to 2.0 kcal mol(-1), regardless of the presence of moderate multireference character in some molecules, ccCA-TM achieves transition metal chemical accuracy of ±3.0 kcal mol(-1) as defined in our earlier work [J. Phys. Chem. A2007, 111, 11269-11277] by giving a mean absolute deviation of 2.90 kcal mol(-1) and a root-mean-square deviation of 3.91 kcal mol(-1). As subsets are constructed with decreasing upper limits of reported experimental uncertainties (5.0, 4.0, 3.0, 2.0, and 1.0 kcal mol(-1)), the ccCA-TM mean absolute deviations were observed to monotonically drop off from 4.35 to 2.37 kcal mol(-1). In contrast, such a trend is missing for DFT methods as exemplified by B3LYP and M06 with mean absolute deviations in the range 12.9-14.1 and 10.5-11.0 kcal mol(-1), respectively. Salient multireference character, as demonstrated by the T(1)/D(1) diagnostics and the weights (C(0)(2)) of leading electron configuration in the complete active self-consistent field wave function, was found in a significant amount of molecules, which can still be accurately described by the single reference ccCA-TM. The ccCA-TM algorithm has been demonstrated as an accurate, robust, and widely applicable model chemistry for 3d transition metal-containing species with versatile bonding features.
Collapse
Affiliation(s)
- Wanyi Jiang
- Center for Advanced Scientific Computing and Modeling (CASCaM), Department of Chemistry, University of North Texas, Denton, Texas 76203-5070, USA
| | | | | | | |
Collapse
|
62
|
Laury ML, DeYonker NJ, Jiang W, Wilson AK. A pseudopotential-based composite method: The relativistic pseudopotential correlation consistent composite approach for molecules containing 4d transition metals (Y–Cd). J Chem Phys 2011; 135:214103. [DOI: 10.1063/1.3662415] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023] Open
|
63
|
Karlický F, Otyepka M. First Step in the Reaction of Zerovalent Iron with Water. J Chem Theory Comput 2011; 7:2876-85. [DOI: 10.1021/ct200372y] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- František Karlický
- Regional Centre of Advanced Technologies and Materials, Department of Physical Chemistry, Faculty of Science, Palacky University Olomouc, tr. 17 listopadu 12, 771 46 Olomouc, Czech Republic
| | - Michal Otyepka
- Regional Centre of Advanced Technologies and Materials, Department of Physical Chemistry, Faculty of Science, Palacky University Olomouc, tr. 17 listopadu 12, 771 46 Olomouc, Czech Republic
| |
Collapse
|
64
|
Faza ON, Rodríguez RÁ, López CS. Performance of density functional theory on homogeneous gold catalysis. Theor Chem Acc 2010. [DOI: 10.1007/s00214-010-0843-2] [Citation(s) in RCA: 69] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/03/2023]
|
65
|
Chen S, Raugei S, Rousseau R, Dupuis M, Bullock RM. Homogeneous Ni Catalysts for H2 Oxidation and Production: An Assessment of Theoretical Methods, from Density Functional Theory to Post Hartree−Fock Correlated Wave-Function Theory. J Phys Chem A 2010; 114:12716-24. [DOI: 10.1021/jp106800n] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Shentan Chen
- Center for Molecular Electrocatalysis, Chemical and Materials Sciences Division Pacific Northwest National Laboratory, Richland WA
| | - Simone Raugei
- Center for Molecular Electrocatalysis, Chemical and Materials Sciences Division Pacific Northwest National Laboratory, Richland WA
| | - Roger Rousseau
- Center for Molecular Electrocatalysis, Chemical and Materials Sciences Division Pacific Northwest National Laboratory, Richland WA
| | - Michel Dupuis
- Center for Molecular Electrocatalysis, Chemical and Materials Sciences Division Pacific Northwest National Laboratory, Richland WA
| | - R. Morris Bullock
- Center for Molecular Electrocatalysis, Chemical and Materials Sciences Division Pacific Northwest National Laboratory, Richland WA
| |
Collapse
|
66
|
Gervasio G, Marabello D, Bianchi R, Forni A. Detection of Weak Intramolecular Interactions in Ru3(CO)12 by Topological Analysis of Charge Density Distributions. J Phys Chem A 2010; 114:9368-73. [DOI: 10.1021/jp105130z] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Giuliana Gervasio
- Dipartimento di Chimica I.F.M. and Centro Interdipartimentale di Ricerca per lo Sviluppo della Crystallografia Diffrattometrica (CrisDi), University of Torino, Torino, Italy, and CNR-ISTM, Istituto CNR di Scienze e Tecnologie Molecolari and Università degli Studi di Milano, via Golgi 19, 20133 Milano, Italy
| | - Domenica Marabello
- Dipartimento di Chimica I.F.M. and Centro Interdipartimentale di Ricerca per lo Sviluppo della Crystallografia Diffrattometrica (CrisDi), University of Torino, Torino, Italy, and CNR-ISTM, Istituto CNR di Scienze e Tecnologie Molecolari and Università degli Studi di Milano, via Golgi 19, 20133 Milano, Italy
| | - Riccardo Bianchi
- Dipartimento di Chimica I.F.M. and Centro Interdipartimentale di Ricerca per lo Sviluppo della Crystallografia Diffrattometrica (CrisDi), University of Torino, Torino, Italy, and CNR-ISTM, Istituto CNR di Scienze e Tecnologie Molecolari and Università degli Studi di Milano, via Golgi 19, 20133 Milano, Italy
| | - Alessandra Forni
- Dipartimento di Chimica I.F.M. and Centro Interdipartimentale di Ricerca per lo Sviluppo della Crystallografia Diffrattometrica (CrisDi), University of Torino, Torino, Italy, and CNR-ISTM, Istituto CNR di Scienze e Tecnologie Molecolari and Università degli Studi di Milano, via Golgi 19, 20133 Milano, Italy
| |
Collapse
|
67
|
Wang F, Steimle TC. Hyperfine interaction and Stark effect in the b Π3-X ∑1+(0,0) band of copper monofluoride, CuF. J Chem Phys 2010; 132:054301. [DOI: 10.1063/1.3292606] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
|
68
|
Tekarli SM, Williams TG, Cundari TR. Activation of Carbon−Hydrogen and Hydrogen−Hydrogen Bonds by Copper−Nitrenes: A Comparison of Density Functional Theory with Single- and Multireference Correlation Consistent Composite Approaches. J Chem Theory Comput 2009; 5:2959-66. [DOI: 10.1021/ct900277m] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Sammer M. Tekarli
- Department of Chemistry, Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Box 305070, Denton, Texas 76203-5070
| | - T. Gavin Williams
- Department of Chemistry, Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Box 305070, Denton, Texas 76203-5070
| | - Thomas R. Cundari
- Department of Chemistry, Center for Advanced Scientific Computing and Modeling (CASCaM), University of North Texas, Box 305070, Denton, Texas 76203-5070
| |
Collapse
|