1
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Cho Y, Kulik HJ. Improving gas adsorption modeling for MOFs by local calibration of Hubbard U parameters. J Chem Phys 2024; 160:154101. [PMID: 38624114 DOI: 10.1063/5.0201934] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2024] [Accepted: 03/31/2024] [Indexed: 04/17/2024] Open
Abstract
While computational screening with density functional theory (DFT) is frequently employed for the screening of metal-organic frameworks (MOFs) for gas separation and storage, commonly applied generalized gradient approximations (GGAs) exhibit self-interaction errors, which hinder the predictions of adsorption energies. We investigate the Hubbard U parameter to augment DFT calculations for full periodic MOFs, targeting a more precise modeling of gas molecule-MOF interactions, specifically for N2, CO2, and O2. We introduce a calibration scheme for the U parameter, which is tailored for each MOF, by leveraging higher-level calculations on the secondary building unit (SBU) of the MOF. When applied to the full periodic MOF, the U parameter calibrated against hybrid HSE06 calculations of SBUs successfully reproduces hybrid-quality calculations of the adsorption energy of the periodic MOF. The mean absolute deviation of adsorption energies reduces from 0.13 eV for a standard GGA treatment to 0.06 eV with the calibrated U, demonstrating the utility of the calibration procedure when applied to the full MOF structure. Furthermore, attempting to use coupled cluster singles and doubles with perturbative triples calculations of isolated SBUs for this calibration procedure shows varying degrees of success in predicting the experimental heat of adsorption. It improves accuracy for N2 adsorption for cases of overbinding, whereas its impact on CO2 is minimal, and ambiguities in spin state assignment hinder consistent improvements of O2 adsorption. Our findings emphasize the limitations of cluster models and advocate the use of full periodic MOF systems with a calibrated U parameter, providing a more comprehensive understanding of gas adsorption in MOFs.
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Affiliation(s)
- Yeongsu Cho
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - Heather J Kulik
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
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2
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Pathirage PDVS, Phillips JT, Vogiatzis KD. Exploration of the Two-Electron Excitation Space with Data-Driven Coupled Cluster. J Phys Chem A 2024. [PMID: 38422511 DOI: 10.1021/acs.jpca.3c06600] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2024]
Abstract
Computational cost limits the applicability of post-Hartree-Fock methods such as coupled-cluster on larger molecular systems. The data-driven coupled-cluster (DDCC) method applies machine learning to predict the coupled-cluster two-electron amplitudes (t2) using data from second-order perturbation theory (MP2). One major limitation of the DDCC models is the size of training sets that increases exponentially with the system size. Effective sampling of the amplitude space can resolve this issue. Five different amplitude selection techniques that reduce the amount of data used for training were evaluated, an approach that also prevents model overfitting and increases the portability of data-driven coupled-cluster singles and doubles to more complex molecules or larger basis sets. In combination with a localized orbital formalism to predict the CCSD t2 amplitudes, we have achieved a 10-fold error reduction for energy calculations.
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Affiliation(s)
- P D Varuna S Pathirage
- Department of Chemistry, University of Tennessee, Knoxville, Tennessee 37996-1600, United States
| | - Justin T Phillips
- Department of Chemistry, University of Tennessee, Knoxville, Tennessee 37996-1600, United States
| | - Konstantinos D Vogiatzis
- Department of Chemistry, University of Tennessee, Knoxville, Tennessee 37996-1600, United States
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3
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Ditte M, Barborini M, Medrano Sandonas L, Tkatchenko A. Molecules in Environments: Toward Systematic Quantum Embedding of Electrons and Drude Oscillators. PHYSICAL REVIEW LETTERS 2023; 131:228001. [PMID: 38101380 DOI: 10.1103/physrevlett.131.228001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Revised: 07/26/2023] [Accepted: 10/20/2023] [Indexed: 12/17/2023]
Abstract
We develop a quantum embedding method that enables accurate and efficient treatment of interactions between molecules and an environment, while explicitly including many-body correlations. The molecule is composed of classical nuclei and quantum electrons, whereas the environment is modeled via charged quantum harmonic oscillators. We construct a general Hamiltonian and introduce a variational Ansatz for the correlated ground state of the fully interacting molecule-environment system. This wave function is optimized via the variational Monte Carlo method and the ground state energy is subsequently estimated through the diffusion Monte Carlo method. The proposed scheme allows an explicit many-body treatment of electrostatic, polarization, and dispersion interactions between the molecule and the environment. We study solvation energies and excitation energies of benzene derivatives, obtaining excellent agreement with explicit ab initio calculations and experiments.
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Affiliation(s)
- Matej Ditte
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg City, Luxembourg
| | - Matteo Barborini
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg City, Luxembourg
| | - Leonardo Medrano Sandonas
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg City, Luxembourg
| | - Alexandre Tkatchenko
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg City, Luxembourg
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4
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Cho Y, Nandy A, Duan C, Kulik HJ. DFT-Based Multireference Diagnostics in the Solid State: Application to Metal-Organic Frameworks. J Chem Theory Comput 2023; 19:190-197. [PMID: 36548116 DOI: 10.1021/acs.jctc.2c01033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
When a many-body wave function of a system cannot be captured by a single determinant, high-level multireference (MR) methods are required to properly explain its electronic structure. MR diagnostics to estimate the magnitude of such static correlation have been primarily developed for molecular systems and range from low in computational cost to as costly as the full MR calculation itself. We report the first application of low-cost MR diagnostics based on the fractional occupation number calculated with finite-temperature DFT to solid-state systems. To compare the behavior of the diagnostics on solids and molecules, we select metal-organic frameworks (MOFs) as model materials because their reticular nature provides an intuitive way to identify molecular derivatives. On a series of closed-shell MOFs, we demonstrate that the DFT-based MR diagnostics are equally applicable to solids as to their molecular derivatives. The magnitude and spatial distribution of the MR character of a MOF are found to have a good correlation with those of its molecular derivatives, which can be calculated much more affordably in comparison to those of the full MOF. The additivity of MR character discussed here suggests the set of molecular derivatives to be a good representation of a MOF for both MR detection and ultimately for MR corrections, facilitating accurate and efficient high-throughput screening of MOFs and other porous solids.
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Affiliation(s)
- Yeongsu Cho
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Aditya Nandy
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States.,Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Chenru Duan
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States.,Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Heather J Kulik
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States.,Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
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5
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Prasad VK, Otero-de-la-Roza A, DiLabio GA. Small-Basis Set Density-Functional Theory Methods Corrected with Atom-Centered Potentials. J Chem Theory Comput 2022; 18:2913-2930. [PMID: 35412817 DOI: 10.1021/acs.jctc.2c00036] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Density functional theory (DFT) is currently the most popular method for modeling noncovalent interactions and thermochemistry. The accurate calculation of noncovalent interaction energies, reaction energies, and barrier heights requires choosing an appropriate functional and, typically, a relatively large basis set. Deficiencies of the density-functional approximation and the use of a limited basis set are the leading sources of error in the calculation of noncovalent and thermochemical properties in molecular systems. In this article, we present three new DFT methods based on the BLYP, M06-2X, and CAM-B3LYP functionals in combination with the 6-31G* basis set and corrected with atom-centered potentials (ACPs). ACPs are one-electron potentials that have the same form as effective-core potentials, except they do not replace any electrons. The ACPs developed in this work are used to generate energy corrections to the underlying DFT/basis-set method such that the errors in predicted chemical properties are minimized while maintaining the low computational cost of the parent methods. ACPs were developed for the elements H, B, C, N, O, F, Si, P, S, and Cl. The ACP parameters were determined using an extensive training set of 118655 data points, mostly of complete basis set coupled-cluster level quality. The target molecular properties for the ACP-corrected methods include noncovalent interaction energies, molecular conformational energies, reaction energies, barrier heights, and bond separation energies. The ACPs were tested first on the training set and then on a validation set of 42567 additional data points. We show that the ACP-corrected methods can predict the target molecular properties with accuracy close to complete basis set wavefunction theory methods, but at a computational cost of double-ζ DFT methods. This makes the new BLYP/6-31G*-ACP, M06-2X/6-31G*-ACP, and CAM-B3LYP/6-31G*-ACP methods uniquely suited to the calculation of noncovalent, thermochemical, and kinetic properties in large molecular systems.
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Affiliation(s)
- Viki Kumar Prasad
- Department of Chemistry, University of British Columbia, Okanagan, 3247 University Way, Kelowna, British Columbia V1V 1V7, Canada
| | - Alberto Otero-de-la-Roza
- Departamento de Química Física y Analítica, Facultad de Química, Universidad de Oviedo, MALTA Consolider Team, Oviedo E-33006, Spain
| | - Gino A DiLabio
- Department of Chemistry, University of British Columbia, Okanagan, 3247 University Way, Kelowna, British Columbia V1V 1V7, Canada
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6
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Prasad VK, Otero-de-la-Roza A, DiLabio GA. Fast and Accurate Quantum Mechanical Modeling of Large Molecular Systems Using Small Basis Set Hartree-Fock Methods Corrected with Atom-Centered Potentials. J Chem Theory Comput 2022; 18:2208-2232. [PMID: 35313106 DOI: 10.1021/acs.jctc.1c01128] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
There has been significant interest in developing fast and accurate quantum mechanical methods for modeling large molecular systems. In this work, by utilizing a machine learning regression technique, we have developed new low-cost quantum mechanical approaches to model large molecular systems. The developed approaches rely on using one-electron Gaussian-type functions called atom-centered potentials (ACPs) to correct for the basis set incompleteness and the lack of correlation effects in the underlying minimal or small basis set Hartree-Fock (HF) methods. In particular, ACPs are proposed for ten elements common in organic and bioorganic chemistry (H, B, C, N, O, F, Si, P, S, and Cl) and four different base methods: two minimal basis sets (MINIs and MINIX) plus a double-ζ basis set (6-31G*) in combination with dispersion-corrected HF (HF-D3/MINIs, HF-D3/MINIX, HF-D3/6-31G*) and the HF-3c method. The new ACPs are trained on a very large set (73 832 data points) of noncovalent properties (interaction and conformational energies) and validated additionally on a set of 32 048 data points. All reference data are of complete basis set coupled-cluster quality, mostly CCSD(T)/CBS. The proposed ACP-corrected methods are shown to give errors in the tenths of a kcal/mol range for noncovalent interaction energies and up to 2 kcal/mol for molecular conformational energies. More importantly, the average errors are similar in the training and validation sets, confirming the robustness and applicability of these methods outside the boundaries of the training set. In addition, the performance of the new ACP-corrected methods is similar to complete basis set density functional theory (DFT) but at a cost that is orders of magnitude lower, and the proposed ACPs can be used in any computational chemistry program that supports effective-core potentials without modification. It is also shown that ACPs improve the description of covalent and noncovalent bond geometries of the underlying methods and that the improvement brought about by the application of the ACPs is directly related to the number of atoms to which they are applied, allowing the treatment of systems containing some atoms for which ACPs are not available. Overall, the ACP-corrected methods proposed in this work constitute an alternative accurate, economical, and reliable quantum mechanical approach to describe the geometries, interaction energies, and conformational energies of systems with hundreds to thousands of atoms.
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Affiliation(s)
- Viki Kumar Prasad
- Department of Chemistry, University of British Columbia, Okanagan, 3247 University Way, Kelowna, British Columbia, Canada V1V 1V7
| | - Alberto Otero-de-la-Roza
- MALTA Consolider Team, Departamento de Química Física y Analítica, Facultad de Química, Universidad de Oviedo, E-33006 Oviedo, Spain
| | - Gino A DiLabio
- Department of Chemistry, University of British Columbia, Okanagan, 3247 University Way, Kelowna, British Columbia, Canada V1V 1V7
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7
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McCarver GA, Rajeshkumar T, Vogiatzis KD. Computational catalysis for metal-organic frameworks: An overview. Coord Chem Rev 2021. [DOI: 10.1016/j.ccr.2021.213777] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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8
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Yin J, Fu W, Zhang J, Ran H, Lv N, Chao Y, Li H, Zhu W, Liu H, Li H. Unraveling the mechanism of CO 2 capture and separation by porous liquids. RSC Adv 2020; 10:42706-42717. [PMID: 35514891 PMCID: PMC9057989 DOI: 10.1039/d0ra08039j] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2020] [Accepted: 11/16/2020] [Indexed: 12/30/2022] Open
Abstract
Carbon dioxide (CO2) emissions intensify the greenhouse effect so much that its capture and separation are needed. Porous liquids, possessing both the porous properties of solids and the fluidity of liquids, exhibit a wide range of applications in absorbing CO2, but the mechanism of gas capture and separation demands in-depth understanding. To this end, we provide a molecular perspective of gas absorption in a porous liquid composed of porous organic cages dissolved in a size-excluded solvent, hexachloropropene, by density functional theory for the first time. In this work, different conformations were considered comprehensively for three representative porous organic cages and molecules. Results show that chloroform, compared to CO2, tends to enter the cage due to stronger C–H⋯π interaction and the optimal capacity of each cage to absorb CO2 through hydrogen bonding and π–π interaction is 4, 2 and 4 equivalents, respectively. We hope that these discoveries will promote the synthesis of similar porous liquids that are used to capture and separate gases. A POC-type porous liquid has the ability to absorb CO2 and the cage provides a cavity for absorption. The dominant interaction between CO2 and the cage is π–π interaction. The optimal capacities of the three porous organic cages are 4, 2 and 4 eq.![]()
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Affiliation(s)
- Jie Yin
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Wendi Fu
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Jinrui Zhang
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Hongshun Ran
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Naixia Lv
- College of Biology and Chemistry, Xingyi Normal University for Nationalities Xingyi 562400 P. R. China
| | - Yanhong Chao
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Hongping Li
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Wenshuai Zhu
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Hui Liu
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
| | - Huaming Li
- Institute for Energy Research, School of Chemistry and Chemical Engineering, Jiangsu University Zhenjiang 212013 P. R. China
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9
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Jones LO, Mosquera MA, Schatz GC, Ratner MA. Embedding Methods for Quantum Chemistry: Applications from Materials to Life Sciences. J Am Chem Soc 2020; 142:3281-3295. [PMID: 31986877 DOI: 10.1021/jacs.9b10780] [Citation(s) in RCA: 58] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Quantum mechanical embedding methods hold the promise to transform not just the way calculations are performed, but to significantly reduce computational costs and improve scaling for macro-molecular systems containing hundreds if not thousands of atoms. The field of embedding has grown increasingly broad with many approaches of different intersecting flavors. In this perspective, we lay out the methods into two streams: QM:MM and QM:QM, showcasing the advantages and disadvantages of both. We provide a review of the literature, the underpinning theories including our contributions, and we highlight current applications with select examples spanning both materials and life sciences. We conclude with prospects and future outlook on embedding, and our view on the use of universal test case scenarios for cross-comparisons of the many available (and future) embedding theories.
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Affiliation(s)
- Leighton O Jones
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States
| | - Martín A Mosquera
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States
| | - George C Schatz
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States
| | - Mark A Ratner
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States
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10
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Hymel JH, Townsend J, Vogiatzis KD. CO 2 Capture on Functionalized Calixarenes: A Computational Study. J Phys Chem A 2019; 123:10116-10122. [PMID: 31670513 DOI: 10.1021/acs.jpca.9b08670] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
High carbon emissions have shown a strong correlation with rising global temperatures as the world's climate undergoes a dramatic shift. Work to mitigate the potential damage using materials such as metal-organic frameworks (MOFs), covalent organic frameworks (COFs), and polymer membranes (PMs) has proven successful in small-scale approaches; however, research is still being performed to enhance the capabilities of these materials for use at an industrial scale. One strategy for increasing performance is to embed these materials with CO2-philic molecules, which enhance selective binding over other gases. Calixarenes are promising candidates due to their large chalice shape, which allows for the possibility to bind multiple CO2 molecules per site. In this study, a dataset including 40 functionalized calixarene structures and one unfunctionalized (bare) calixarene was constructed with an automated, high-throughput structure generation through directed modifications to a molecular scaffold. A conformational search based on molecular mechanics allowed the faster determination of optimal binding energies for a vast array of chemical functional groups with less computational effort. Density functional theory and symmetry-adapted perturbation theory calculations were performed for the exploration of their interactions with CO2. Our work has identified new organic cages with increased CO2-philicity. In four cases, CO2 binding is stronger than 9.0 kcal/mol and very close to the targets set by previous studies. The nature of the noncovalent interactions for these cases is analyzed and discussed. Conclusions from this study can aid synthetic efforts for the next generation of functional materials.
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Affiliation(s)
- John H Hymel
- Department of Chemistry , University of Tennessee , Knoxville , Tennessee 37996-1600 , United States
| | - Jacob Townsend
- Department of Chemistry , University of Tennessee , Knoxville , Tennessee 37996-1600 , United States
| | - Konstantinos D Vogiatzis
- Department of Chemistry , University of Tennessee , Knoxville , Tennessee 37996-1600 , United States
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11
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Townsend J, Vogiatzis KD. Data-Driven Acceleration of the Coupled-Cluster Singles and Doubles Iterative Solver. J Phys Chem Lett 2019; 10:4129-4135. [PMID: 31290671 DOI: 10.1021/acs.jpclett.9b01442] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Solving the coupled-cluster (CC) equations is a cost-prohibitive process that exhibits poor scaling with system size. These equations are solved by determining the set of amplitudes (t) that minimize the system energy with respect to the coupled-cluster equations at the selected level of truncation. Here, a novel approach to predict the converged coupled-cluster singles and doubles (CCSD) amplitudes, thus the coupled-cluster wave function, is explored by using machine learning and electronic structure properties inherent to the MP2 level. Features are collected from quantum chemical data, such as orbital energies, one-electron Hamiltonian, Coulomb, and exchange terms. The data-driven CCSD (DDCCSD) is not an alchemical method because the actual iterative coupled-cluster equations are solved. However, accurate energetics can also be obtained by bypassing solving the CC equations entirely. Our preliminary data show that it is possible to achieve remarkable speedups in solving the CCSD equations, especially when the correct physics are encoded and used for training of machine learning models.
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Affiliation(s)
- Jacob Townsend
- Department of Chemistry , University of Tennessee , Knoxville , Tennessee 37996 , United States
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12
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Vogiatzis KD, Polynski MV, Kirkland JK, Townsend J, Hashemi A, Liu C, Pidko EA. Computational Approach to Molecular Catalysis by 3d Transition Metals: Challenges and Opportunities. Chem Rev 2019; 119:2453-2523. [PMID: 30376310 PMCID: PMC6396130 DOI: 10.1021/acs.chemrev.8b00361] [Citation(s) in RCA: 207] [Impact Index Per Article: 41.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2018] [Indexed: 12/28/2022]
Abstract
Computational chemistry provides a versatile toolbox for studying mechanistic details of catalytic reactions and holds promise to deliver practical strategies to enable the rational in silico catalyst design. The versatile reactivity and nontrivial electronic structure effects, common for systems based on 3d transition metals, introduce additional complexity that may represent a particular challenge to the standard computational strategies. In this review, we discuss the challenges and capabilities of modern electronic structure methods for studying the reaction mechanisms promoted by 3d transition metal molecular catalysts. Particular focus will be placed on the ways of addressing the multiconfigurational problem in electronic structure calculations and the role of expert bias in the practical utilization of the available methods. The development of density functionals designed to address transition metals is also discussed. Special emphasis is placed on the methods that account for solvation effects and the multicomponent nature of practical catalytic systems. This is followed by an overview of recent computational studies addressing the mechanistic complexity of catalytic processes by molecular catalysts based on 3d metals. Cases that involve noninnocent ligands, multicomponent reaction systems, metal-ligand and metal-metal cooperativity, as well as modeling complex catalytic systems such as metal-organic frameworks are presented. Conventionally, computational studies on catalytic mechanisms are heavily dependent on the chemical intuition and expert input of the researcher. Recent developments in advanced automated methods for reaction path analysis hold promise for eliminating such human-bias from computational catalysis studies. A brief overview of these approaches is presented in the final section of the review. The paper is closed with general concluding remarks.
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Affiliation(s)
| | | | - Justin K. Kirkland
- Department
of Chemistry, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Jacob Townsend
- Department
of Chemistry, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Ali Hashemi
- Inorganic
Systems Engineering group, Department of Chemical Engineering, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, The Netherlands
| | - Chong Liu
- Inorganic
Systems Engineering group, Department of Chemical Engineering, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, The Netherlands
| | - Evgeny A. Pidko
- TheoMAT
group, ITMO University, Lomonosova 9, St. Petersburg 191002, Russia
- Inorganic
Systems Engineering group, Department of Chemical Engineering, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, The Netherlands
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13
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Maroon CR, Townsend J, Gmernicki KR, Harrigan DJ, Sundell BJ, Lawrence JA, Mahurin SM, Vogiatzis KD, Long BK. Elimination of CO2/N2 Langmuir Sorption and Promotion of “N2-Phobicity” within High-Tg Glassy Membranes. Macromolecules 2019. [DOI: 10.1021/acs.macromol.8b02497] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Christopher R. Maroon
- Department of Chemistry, University of Tennessee, Knoxville, Tennessee 37996-1600, United States
| | - Jacob Townsend
- Department of Chemistry, University of Tennessee, Knoxville, Tennessee 37996-1600, United States
| | - Kevin R. Gmernicki
- Department of Chemistry, University of Tennessee, Knoxville, Tennessee 37996-1600, United States
| | - Daniel J. Harrigan
- Aramco
Services
Company: Aramco Research Center, Boston, Massachusetts 02139, United States
| | - Benjamin J. Sundell
- Aramco
Services
Company: Aramco Research Center, Boston, Massachusetts 02139, United States
| | - John A. Lawrence
- Aramco
Services
Company: Aramco Research Center, Boston, Massachusetts 02139, United States
| | - Shannon M. Mahurin
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
| | | | - Brian K. Long
- Department of Chemistry, University of Tennessee, Knoxville, Tennessee 37996-1600, United States
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14
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Kazemi S, Safarifard V. Carbon dioxide capture in MOFs: The effect of ligand functionalization. Polyhedron 2018. [DOI: 10.1016/j.poly.2018.07.042] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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15
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Emerson AJ, Chahine A, Batten SR, Turner DR. Synthetic approaches for the incorporation of free amine functionalities in porous coordination polymers for enhanced CO2 sorption. Coord Chem Rev 2018. [DOI: 10.1016/j.ccr.2018.02.012] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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16
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Fiedler B, Himmel D, Krossing I, Friedrich J. More Stable Template Localization for an Incremental Focal-Point Approach—Implementation and Application to the Intramolecular Decomposition of Tris-perfluoro- tert-butoxyalane. J Chem Theory Comput 2018; 14:557-571. [DOI: 10.1021/acs.jctc.7b00707] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Benjamin Fiedler
- Institut
für Chemie, Technische Universität Chemnitz, 09111 Chemnitz, Germany
| | - Daniel Himmel
- Institut
für Anorganische und Analytische Chemie, Albert-Ludwigs-Universität Freiburg, 79104 Freiburg, Germany
| | - Ingo Krossing
- Institut
für Anorganische und Analytische Chemie, Albert-Ludwigs-Universität Freiburg, 79104 Freiburg, Germany
| | - Joachim Friedrich
- Institut
für Chemie, Technische Universität Chemnitz, 09111 Chemnitz, Germany
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17
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Vitillo JG, Fjermestad T, D’Amore M, Milanesio M, Palin L, Ricchiardi G, Bordiga S. On the structure of superbasic (MgO)n sites solvated in a faujasite zeolite. Phys Chem Chem Phys 2018; 20:18503-18514. [DOI: 10.1039/c8cp01788c] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Theory and experiment reveal the structure of magnesium oxide nanoclusters in a superbasic faujasite zeolite.
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Affiliation(s)
- Jenny G. Vitillo
- Department of Chemistry
- Chemical Theory Center, and Minnesota Supercomputing Institute
- University of Minnesota
- Minneapolis
- USA
| | - Torstein Fjermestad
- Department of Chemistry and NIS Interdepartment Centre
- University of Turin
- 10125 Torino
- Italy
| | - Maddalena D’Amore
- Department of Chemistry and NIS Interdepartment Centre
- University of Turin
- 10125 Torino
- Italy
| | | | - Luca Palin
- Nova Res s.r.l
- Novara
- Italy
- Dipartimento di Scienze e Innovazione Tecnologica
- Università del Piemonte Orientale
| | - Gabriele Ricchiardi
- Department of Chemistry and NIS Interdepartment Centre
- University of Turin
- 10125 Torino
- Italy
| | - Silvia Bordiga
- Department of Chemistry and NIS Interdepartment Centre
- University of Turin
- 10125 Torino
- Italy
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18
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Grimme S, Bannwarth C, Shushkov P. A Robust and Accurate Tight-Binding Quantum Chemical Method for Structures, Vibrational Frequencies, and Noncovalent Interactions of Large Molecular Systems Parametrized for All spd-Block Elements (Z = 1–86). J Chem Theory Comput 2017; 13:1989-2009. [DOI: 10.1021/acs.jctc.7b00118] [Citation(s) in RCA: 702] [Impact Index Per Article: 100.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Stefan Grimme
- Mulliken Center for Theoretical
Chemistry, Institut für Physikalische und Theoretische Chemie, Universität Bonn, Beringstr. 4, D-53115 Bonn, Germany
| | - Christoph Bannwarth
- Mulliken Center for Theoretical
Chemistry, Institut für Physikalische und Theoretische Chemie, Universität Bonn, Beringstr. 4, D-53115 Bonn, Germany
| | - Philip Shushkov
- Mulliken Center for Theoretical
Chemistry, Institut für Physikalische und Theoretische Chemie, Universität Bonn, Beringstr. 4, D-53115 Bonn, Germany
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19
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Lennox MJ, Bound M, Henley A, Besley E. The right isotherms for the right reasons? Validation of generic force fields for prediction of methane adsorption in metal-organic frameworks. MOLECULAR SIMULATION 2017. [DOI: 10.1080/08927022.2017.1301665] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Matthew J. Lennox
- Centre for Advanced Separations Engineering, Department of Chemical Engineering, University of Bath, Bath, UK
| | - Michelle Bound
- Computational and Theoretical Chemistry, School of Chemistry, University of Nottingham, Nottingham, UK
| | - Alice Henley
- Computational and Theoretical Chemistry, School of Chemistry, University of Nottingham, Nottingham, UK
| | - Elena Besley
- Computational and Theoretical Chemistry, School of Chemistry, University of Nottingham, Nottingham, UK
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20
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Feng H, Hong T, Mahurin SM, Vogiatzis KD, Gmernicki KR, Long BK, Mays JW, Sokolov AP, Kang NG, Saito T. Gas separation mechanism of CO2 selective amidoxime-poly(1-trimethylsilyl-1-propyne) membranes. Polym Chem 2017. [DOI: 10.1039/c7py00056a] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Amidoxime functionalization on polymer matrix significantly increases CO2/N2 solubility selectivity.
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Affiliation(s)
- Hongbo Feng
- Department of Chemistry
- University of Tennessee
- Knoxville
- USA
| | - Tao Hong
- Department of Chemistry
- University of Tennessee
- Knoxville
- USA
| | - Shannon M. Mahurin
- Chemical Sciences Division
- Oak Ridge National Laboratory
- Oak Ridge
- USA 37831
| | | | | | - Brian K. Long
- Department of Chemistry
- University of Tennessee
- Knoxville
- USA
| | - Jimmy W. Mays
- Department of Chemistry
- University of Tennessee
- Knoxville
- USA
- Chemical Sciences Division
| | - Alexei P. Sokolov
- Department of Chemistry
- University of Tennessee
- Knoxville
- USA
- Chemical Sciences Division
| | - Nam-Goo Kang
- Department of Chemistry
- University of Tennessee
- Knoxville
- USA
| | - Tomonori Saito
- Chemical Sciences Division
- Oak Ridge National Laboratory
- Oak Ridge
- USA 37831
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21
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Li L, Wang Y, Gu X, Yang Q, Zhao X. Increasing the CO2/N2Selectivity with a Higher Surface Density of Pyridinic Lewis Basic Sites in Porous Carbon Derived from a Pyridyl-Ligand-Based Metal-Organic Framework. Chem Asian J 2016; 11:1913-20. [DOI: 10.1002/asia.201600427] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2016] [Revised: 04/30/2016] [Indexed: 11/07/2022]
Affiliation(s)
- Liangjun Li
- Research Center of New Energy Science and Technology; Unconventional Oil & Gas and Renewable Energy Research Institute; China University of Petroleum (East China); Qingdao 266580 P. R. China
| | - Ying Wang
- Research Center of New Energy Science and Technology; Unconventional Oil & Gas and Renewable Energy Research Institute; China University of Petroleum (East China); Qingdao 266580 P. R. China
| | - Xin Gu
- Research Center of New Energy Science and Technology; Unconventional Oil & Gas and Renewable Energy Research Institute; China University of Petroleum (East China); Qingdao 266580 P. R. China
| | - Qipeng Yang
- School of Environmental and Municipal Engineering; Qingdao Technological University; Qingdao 266580 P. R. China
| | - Xuebo Zhao
- Research Center of New Energy Science and Technology; Unconventional Oil & Gas and Renewable Energy Research Institute; China University of Petroleum (East China); Qingdao 266580 P. R. China
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22
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Anacker T, Hill JG, Friedrich J. Optimized Basis Sets for the Environment in the Domain-Specific Basis Set Approach of the Incremental Scheme. J Phys Chem A 2016; 120:2443-58. [DOI: 10.1021/acs.jpca.6b01097] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Tony Anacker
- Department
of Theoretical Chemistry, Chemnitz University of Technology, Straße
der Nationen 62, D-09111 Chemnitz, Germany
| | - J. Grant Hill
- Department
of Chemistry, University of Sheffield, Sheffield S3 7HF, U.K
| | - Joachim Friedrich
- Department
of Theoretical Chemistry, Chemnitz University of Technology, Straße
der Nationen 62, D-09111 Chemnitz, Germany
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23
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Frey JA, Holzer C, Klopper W, Leutwyler S. Experimental and Theoretical Determination of Dissociation Energies of Dispersion-Dominated Aromatic Molecular Complexes. Chem Rev 2016; 116:5614-41. [DOI: 10.1021/acs.chemrev.5b00652] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jann A. Frey
- Departement
für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
| | - Christof Holzer
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
| | - Wim Klopper
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
| | - Samuel Leutwyler
- Departement
für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3012 Bern, Switzerland
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24
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Anacker T, Tew DP, Friedrich J. First UHF Implementation of the Incremental Scheme for Open-Shell Systems. J Chem Theory Comput 2015; 12:65-78. [PMID: 26605975 DOI: 10.1021/acs.jctc.5b00933] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
The incremental scheme makes it possible to compute CCSD(T) correlation energies to high accuracy for large systems. We present the first extension of this fully automated black-box approach to open-shell systems using an Unrestricted Hartree-Fock (UHF) wave function, extending the efficient domain-specific basis set approach to handle open-shell references. We test our approach on a set of organic and metal organic structures and molecular clusters and demonstrate standard deviations from canonical CCSD(T) values of only 1.35 kJ/mol using a triple ζ basis set. We find that the incremental scheme is significantly more cost-effective than the canonical implementation even for relatively small systems and that the ease of parallelization makes it possible to perform high-level calculations on large systems in a few hours on inexpensive computers. We show that the approximations that make our approach widely applicable are significantly smaller than both the basis set incompleteness error and the intrinsic error of the CCSD(T) method, and we further demonstrate that incremental energies can be reliably used in extrapolation schemes to obtain near complete basis set limit CCSD(T) reaction energies for large systems.
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Affiliation(s)
- Tony Anacker
- Institute for Chemistry, Chemnitz University of Technology , Straße der Nationen 62, D-09111 Chemnitz, Sachsen, Germany
| | - David P Tew
- School of Chemistry, University of Bristol , Bristol BS8 1TS, United Kingdom
| | - Joachim Friedrich
- Institute for Chemistry, Chemnitz University of Technology , Straße der Nationen 62, D-09111 Chemnitz, Sachsen, Germany
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