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Bozkaya U, Ermiş B. Linear-Scaling Systematic Molecular Fragmentation Approach for Perturbation Theory and Coupled-Cluster Methods. J Chem Theory Comput 2022; 18:5349-5359. [PMID: 35972734 PMCID: PMC9476663 DOI: 10.1021/acs.jctc.2c00587] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
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The coupled-cluster (CC) singles and doubles with perturbative
triples [CCSD(T)] method is frequently referred to as the “gold
standard” of modern computational chemistry. However, the high
computational cost of CCSD(T) [O(N7)], where N is the number of basis functions,
limits its applications to small-sized chemical systems. To address
this problem, efficient implementations of linear-scaling coupled-cluster
methods, which employ the systematic molecular fragmentation (SMF)
approach, are reported. In this study, we aim to do the following:
(1) To achieve exact linear scaling and to obtain a pure ab
initio approach, we revise the handling of nonbonded interactions
in the SMF approach, denoted by LSSMF. (2) A new fragmentation algorithm,
which yields smaller-sized fragments, that better fits high-level
CC methods is introduced. (3) A modified nonbonded fragmentation scheme
is proposed to enhance the existent algorithm. Performances of the
LSSMF-CC approaches, such as LSSMF-CCSD(T), are compared with their
canonical versions for a set of alkane molecules, CnH2n+2 (n = 6–10),
which includes 142 molecules. Our results demonstrate that the LSSMF
approach introduces negligible errors compared with the canonical
methods; mean absolute errors (MAEs) are between 0.20 and 0.59 kcal
mol–1 for LSSMF(3,1)-CCSD(T). For a larger alkanes
set (L12), CnH2n+2 (n = 50–70), the performance of
LSSMF for the second-order perturbation theory (MP2) is investigated.
For the L12 set, various bonded and nonbonded levels are considered.
Our results demonstrate that the combination of bonded level 6 with
nonbonded level 2, LSSMF(6,2), provides very accurate results for
the MP2 method with a MAE value of 0.32 kcal mol–1. The LSSMF(6,2) approach yields more than a 26-fold reduction in
errors compared with LSSMF(3,1). Hence, we obtain substantial improvements
over the original SMF approach. To illustrate the efficiency and applicability
of the LSSMF-CCSD(T) approach, we consider an alkane molecule with
10,004 atoms. For this molecule, the LSSMF(3,1)-CCSD(T)/cc-pVTZ energy
computation, on a Linux cluster with 100 nodes, 4 cores, and 5 GB
of memory provided to each node, is performed just in ∼24 h.
As a second test, we consider a biomolecular complex (PDB code: 1GLA), which includes
10,488 atoms, to assess the efficiency of the LSSMF approach. The
LSSMF(3,1)-FNO–CCSD(T)/cc-pVTZ energy computation is completed
in ∼7 days for the biomolecular complex. Hence, our results
demonstrate that the LSSMF-CC approaches are very efficient. Overall,
we conclude the following: (1) The LSSMF(m, n)-CCSD(T) methods can be reliably used for large-scale
chemical systems, where the canonical methods are not computationally
affordable. (2) The accuracy of bonded level 3 is not satisfactory
for large chemical systems. (3) For high-accuracy studies, bonded
level 5 (or higher) and nonbonded level 2 should be employed.
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Affiliation(s)
- Uğur Bozkaya
- Department of Chemistry, Hacettepe University, Ankara 06800, Turkey
| | - Betül Ermiş
- Department of Chemistry, Hacettepe University, Ankara 06800, Turkey
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2
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Li Y, Wang D, Fu F, Xia Q, Li W, Li S. Structures and properties of ionic crystals and condensed phase ionic liquids predicted with the generalized energy-based fragmentation method. J Comput Chem 2022; 43:704-716. [PMID: 35213748 DOI: 10.1002/jcc.26828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Revised: 01/20/2022] [Accepted: 01/21/2022] [Indexed: 11/11/2022]
Abstract
The generalized energy-based fragmentation (GEBF) approach is extended to facilitate ab initio investigations of structures, lattice energies, vibrational spectra and 1 H NMR chemical shifts of ionic crystals and condensed-phase ionic liquids (ILs) with the periodic boundary conditions (PBC). For selected periodic systems, our results demonstrate that the so-called PBC-GEBF approach can provide satisfactory descriptions on ground-state energies, structures, and vibrational spectra of ionic crystals and IL crystals. The PBC-GEBF approach is then applied to three realistic condensed phase systems. For three ionic crystals (LiCl, NaCl, and KCl), we apply the PBC-GEBF approach with MP2 theory as well as some popular DFT methods to investigate their crystal structures and lattice energies. Our calculations indicate that the crystal structures obtained with PBC-GEBF-MP2/6-311 + G** are very close to the corresponding X-ray structures, while PBC-GEBF-ωB97X-D/6-311 + G** provides satisfactory prediction for crystal structures and lattice energies. For two polymorphs of [n-C4 mim][Cl] crystals, we find that the PBC-GEBF approach at the M06-2X/6-311 + G** level can give a satisfactory descriptions on structures and Raman spectra of these two crystals. Furthermore, for [C2 mim][BF4 ] ILs, we demonstrate that their 1 H NMR chemical shifts can be estimated from averaging over 5 typical snapshots (extracted from MD simulations) with the PBC-GEBF approach at the B97-2/pcSseg-2 level. The calculated results account for the observed experimental data quite well. Therefore, we expect that the PBC-GEBF approach, combined with various quantum chemistry methods, will become an effective tool in predicting structures and properties of ionic crystals and condensed-phase ILs.
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Affiliation(s)
- Yunzhi Li
- School of Chemistry and Chemical Engineering, Linyi University, Linyi, China.,School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational Chemistry, Nanjing University, Nanjing, China
| | - Dong Wang
- School of Chemistry and Chemical Engineering, Linyi University, Linyi, China
| | - Fangjia Fu
- School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational Chemistry, Nanjing University, Nanjing, China
| | - Qiying Xia
- School of Chemistry and Chemical Engineering, Linyi University, Linyi, China
| | - Wei Li
- School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational Chemistry, Nanjing University, Nanjing, China
| | - Shuhua Li
- School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational Chemistry, Nanjing University, Nanjing, China
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3
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Bozkaya U, Ermiş B, Alagöz Y, Ünal A, Uyar AK. MacroQC 1.0: An electronic structure theory software for large-scale applications. J Chem Phys 2022; 156:044801. [DOI: 10.1063/5.0077823] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Uğur Bozkaya
- Department of Chemistry, Hacettepe University, Ankara 06800, Turkey
| | - Betül Ermiş
- Department of Chemistry, Hacettepe University, Ankara 06800, Turkey
| | - Yavuz Alagöz
- Department of Chemistry, Hacettepe University, Ankara 06800, Turkey
| | - Aslı Ünal
- Department of Chemistry, Hacettepe University, Ankara 06800, Turkey
| | - Ali Kaan Uyar
- Department of Chemistry, Hacettepe University, Ankara 06800, Turkey
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4
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Li W, Dong H, Ma J, Li S. Structures and Spectroscopic Properties of Large Molecules and Condensed-Phase Systems Predicted by Generalized Energy-Based Fragmentation Approach. Acc Chem Res 2021; 54:169-181. [PMID: 33350806 DOI: 10.1021/acs.accounts.0c00580] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
ConspectusThe structures and spectroscopic properties of molecules and condensed-phase systems are usually experimentally characterized by X-ray, infrared (IR), Raman, nuclear magnetic resonance (NMR), and electronic absorption/emission spectra. Quantum mechanics (QM) calculations are critical in quantitatively understanding the relationship between the structure and physicochemical properties of various chemical systems. However, it is very challenging to apply traditional QM methods to large molecules and condensed-phase systems with large unit cells due to their steep computational scaling with the system size. To overcome this difficulty, theoretical chemists have developed various linear (or low) scaling QM methods, among which energy-based fragmentation methods have achieved great success for large molecules or clusters. One of the most popular energy-based fragmentation methods is the generalized energy-based fragmentation (GEBF) approach developed by us.In this approach, the ground-state energy of a large molecule can be evaluated from the ground-state energies of a series of embedded subsystems. In this Account, we focus on the recent developments and applicability of the GEBF approach for the structures and spectroscopic properties of complicated large molecules and condensed-phase systems. With new fragmentation schemes, the GEBF approach can now describe ionic liquid clusters and metal-containing supramolecular systems accurately and can provide accurate binding energies for host-guest complexes. In addition, the GEBF approach is now available for describing the localized excited states of large systems including a chromophore. More importantly, the GEBF approach under periodic boundary conditions (PBC-GEBF) has been developed to deal with periodic molecular crystals and liquids. Then, the ground-state energy (or property) per unit cell of a periodic condensed phase system can be predicted with QM calculations on nonperiodic embedded subsystems. This feature enables accurate electron correlation calculations on molecular crystals and liquids to be feasible on ordinary workstations. The PBC-GEBF approach has been applied to predict the crystal structures, lattice energies, and spectroscopic properties of some typical molecular crystals and solutions. By combining the GEBF method and machine learning (ML) method, a GEBF-ML force field has been developed for long normal alkanes, and the IR spectra of long alkanes can be obtained from the GEBF-ML molecular dynamics (MD) simulations. The GEBF and its periodic variant are expected to play increasingly important roles in investigating real-life chemical systems of broad interests at the ab initio levels.
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Affiliation(s)
- Wei Li
- Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People’s Republic of China
| | - Hao Dong
- Kuang Yaming Honors School and Institute for Brain Sciences, Nanjing University, Nanjing 210023, People’s Republic of China
| | - Jing Ma
- Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People’s Republic of China
| | - Shuhua Li
- Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People’s Republic of China
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5
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Mihm TN, McIsaac AR, Shepherd JJ. An optimized twist angle to find the twist-averaged correlation energy applied to the uniform electron gas. J Chem Phys 2019; 150:191101. [PMID: 31117769 DOI: 10.1063/1.5091445] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023] Open
Abstract
We explore an alternative to twist averaging in order to obtain more cost-effective and accurate extrapolations to the thermodynamic limit (TDL) for coupled cluster doubles (CCD) calculations. We seek a single twist angle to perform calculations at, instead of integrating over many random points or a grid. We introduce the concept of connectivity, a quantity derived from the nonzero four-index integrals in an MP2 calculation. This allows us to find a special twist angle that provides appropriate connectivity in the energy equation, which yields results comparable to full twist averaging. This special twist angle effectively makes the finite electron number CCD calculation represent the TDL more accurately, reducing the cost of twist-averaged CCD over Ns twist angles from Ns CCD calculations to Ns MP2 calculations plus one CCD calculation.
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Affiliation(s)
- Tina N Mihm
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242-1002, USA
| | - Alexandra R McIsaac
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - James J Shepherd
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242-1002, USA
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6
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Rebolini E, Baardsen G, Hansen AS, Leikanger KR, Pedersen TB. Divide-Expand-Consolidate Second-Order Møller-Plesset Theory with Periodic Boundary Conditions. J Chem Theory Comput 2018; 14:2427-2438. [PMID: 29554431 DOI: 10.1021/acs.jctc.8b00021] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We present a generalization of the divide-expand-consolidate (DEC) framework for local coupled-cluster calculations to periodic systems and test it at the second-order Møller-Plesset (MP2) level of theory. For simple model systems with periodicity in one, two, and three dimensions, comparisons with extrapolated molecular calculations and the local MP2 implementation in the Cryscor program show that the correlation energy errors of the extended DEC (X-DEC) algorithm can be controlled through a single parameter, the fragment optimization threshold. Two computational bottlenecks are identified: the size of the virtual orbital spaces and the number of pair fragments required to achieve a given accuracy of the correlation energy. For the latter, we propose an affordable algorithm based on cubic splines interpolation of a limited number of pair-fragment interaction energies to determine a pair cutoff distance in accordance with the specified fragment optimization threshold.
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Affiliation(s)
- Elisa Rebolini
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry , University of Oslo , P.O. Box 1033 Blindern, N-0315 Oslo , Norway
| | - Gustav Baardsen
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry , University of Oslo , P.O. Box 1033 Blindern, N-0315 Oslo , Norway
| | - Audun Skau Hansen
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry , University of Oslo , P.O. Box 1033 Blindern, N-0315 Oslo , Norway
| | - Karl R Leikanger
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry , University of Oslo , P.O. Box 1033 Blindern, N-0315 Oslo , Norway
| | - Thomas Bondo Pedersen
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry , University of Oslo , P.O. Box 1033 Blindern, N-0315 Oslo , Norway
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7
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McClain J, Sun Q, Chan GKL, Berkelbach TC. Gaussian-Based Coupled-Cluster Theory for the Ground-State and Band Structure of Solids. J Chem Theory Comput 2017; 13:1209-1218. [DOI: 10.1021/acs.jctc.7b00049] [Citation(s) in RCA: 130] [Impact Index Per Article: 18.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- James McClain
- Department
of Chemistry, Princeton University, Princeton, New Jersey 08544, United States
| | - Qiming Sun
- Division
of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | - Garnet Kin-Lic Chan
- Division
of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | - Timothy C. Berkelbach
- Department
of Chemistry and James Franck Institute, University of Chicago, Chicago, Illinois 60637, United States
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8
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Fang T, Li Y, Li S. Generalized energy‐based fragmentation approach for modeling condensed phase systems. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2017. [DOI: 10.1002/wcms.1297] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Tao Fang
- School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational ChemistryNanjing University Nanjing P. R. China
| | - Yunzhi Li
- School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational ChemistryNanjing University Nanjing P. R. China
| | - Shuhua Li
- School of Chemistry and Chemical Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational ChemistryNanjing University Nanjing P. R. China
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9
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Collins MA. Can Systematic Molecular Fragmentation Be Applied to Direct Ab Initio Molecular Dynamics? J Phys Chem A 2016; 120:9281-9291. [DOI: 10.1021/acs.jpca.6b08739] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Michael A. Collins
- Research School of Chemistry, Australian National University, Canberra, ACT 0200, Australia
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10
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Fang T, Jia J, Li S. Vibrational Spectra of Molecular Crystals with the Generalized Energy-Based Fragmentation Approach. J Phys Chem A 2016; 120:2700-11. [DOI: 10.1021/acs.jpca.5b10927] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Tao Fang
- School of Chemistry and Chemical
Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of
Education, Institute of Theoretical and Computational Chemistry, Nanjing University, Nanjing 210093, People’s Republic of China
| | - Junteng Jia
- School of Chemistry and Chemical
Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of
Education, Institute of Theoretical and Computational Chemistry, Nanjing University, Nanjing 210093, People’s Republic of China
| | - Shuhua Li
- School of Chemistry and Chemical
Engineering, Key Laboratory of Mesoscopic Chemistry of Ministry of
Education, Institute of Theoretical and Computational Chemistry, Nanjing University, Nanjing 210093, People’s Republic of China
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11
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D'Arcy JH, Jordan MJT, Frankcombe TJ, Collins MA. H2 Adsorption in a Porous Crystal: Accurate First-Principles Quantum Simulation. J Phys Chem A 2015; 119:12166-81. [PMID: 26322374 DOI: 10.1021/acs.jpca.5b06074] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A general method is presented for constructing, from ab initio quantum chemistry calculations, the potential energy surface (PES) for H2 absorbed in a porous crystalline material. The method is illustrated for the metal-organic framework material MOF-5. Rigid body quantum diffusion Monte Carlo simulations are used in the construction of the PES and to evaluate the quantum ground state of H2 in MOF-5, the zero-point energy, and the enthalpy of adsorption at 0 K.
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Affiliation(s)
- Jordan H D'Arcy
- School of Chemistry, The University of Sydney , Sydney NSW 2006, Australia
| | | | - Terry J Frankcombe
- Research School of Chemistry, Australian National University , Canberra ACT 0200, Australia
| | - Michael A Collins
- Research School of Chemistry, Australian National University , Canberra ACT 0200, Australia
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12
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Akimov AV, Prezhdo OV. Large-Scale Computations in Chemistry: A Bird’s Eye View of a Vibrant Field. Chem Rev 2015; 115:5797-890. [DOI: 10.1021/cr500524c] [Citation(s) in RCA: 159] [Impact Index Per Article: 17.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Alexey V. Akimov
- Department
of Chemistry, University of South California, Los Angeles, California 90089, United States
| | - Oleg V. Prezhdo
- Department
of Chemistry, University of South California, Los Angeles, California 90089, United States
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13
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Affiliation(s)
- Michael A Collins
- †Research School of Chemistry, Australian National University, Canberra, ACT 0200, Australia
| | - Ryan P A Bettens
- ‡Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
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14
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Collins MA, Cvitkovic MW, Bettens RPA. The combined fragmentation and systematic molecular fragmentation methods. Acc Chem Res 2014; 47:2776-85. [PMID: 24972052 DOI: 10.1021/ar500088d] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Conspectus Chemistry, particularly organic chemistry, is mostly concerned with functional groups: amines, amides, alcohols, ketones, and so forth. This is because the reactivity of molecules can be categorized in terms of the reactions of these functional groups, and by the influence of other adjacent groups in the molecule. These simple truths ought to be reflected in the electronic structure and electronic energy of molecules, as reactivity is determined by electronic structure. However, sophisticated ab initio quantum calculations of the molecular electronic energy usually do not make these truths apparent. In recent years, several computational chemistry groups have discovered methods for estimating the electronic energy as a sum of the energies of small molecular fragments, or small sets of groups. By decomposing molecules into such fragments of adjacent functional groups, researchers can estimate the electronic energy to chemical accuracy; not just qualitative trends, but accurate enough to understand reactivity. In addition, this has the benefit of cutting down on both computational time and cost, as the necessary calculation time increases rapidly with an increasing number of electrons. Even with steady advances in computer technology, progress in the study of large molecules is slow. In this Account, we describe two related "fragmentation" methods for treating molecules, the combined fragmentation method (CFM) and systematic molecular fragmentation (SMF). In addition, we show how we can use the SMF approach to estimate the energy and properties of nonconducting crystals, by fragmenting the periodic crystal structure into relatively small pieces. A large part of this Account is devoted to simple overviews of how the methods work. We also discuss the application of these approaches to calculating reactivity and other useful properties, such as the NMR and vibrational spectra of molecules and crystals. These applications rely on the ability of these fragmentation methods to accurately estimate derivatives of the molecular and crystal energies. Finally, to provide some common applications of CFM and SMF, we present some specific examples of energy calculations for moderately large molecules. For computational chemists, this fragmentation approach represents an important practical advance. It reduces the computer time required to estimate the energies of molecules so dramatically, that accurate calculations of the energies and reactivity of very large organic and biological molecules become feasible.
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Affiliation(s)
- Michael A. Collins
- Research
School of Chemistry, Australian National University, Canberra ACT 0200, Australia
| | - Milan W. Cvitkovic
- Department
of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543
| | - Ryan P. A. Bettens
- Department
of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543
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15
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Hirata S, Gilliard K, He X, Li J, Sode O. Ab initio molecular crystal structures, spectra, and phase diagrams. Acc Chem Res 2014; 47:2721-30. [PMID: 24754304 DOI: 10.1021/ar500041m] [Citation(s) in RCA: 68] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Conspectus Molecular crystals are chemists' solids in the sense that their structures and properties can be understood in terms of those of the constituent molecules merely perturbed by a crystalline environment. They form a large and important class of solids including ices of atmospheric species, drugs, explosives, and even some organic optoelectronic materials and supramolecular assemblies. Recently, surprisingly simple yet extremely efficient, versatile, easily implemented, and systematically accurate electronic structure methods for molecular crystals have been developed. The methods, collectively referred to as the embedded-fragment scheme, divide a crystal into monomers and overlapping dimers and apply modern molecular electronic structure methods and software to these fragments of the crystal that are embedded in a self-consistently determined crystalline electrostatic field. They enable facile applications of accurate but otherwise prohibitively expensive ab initio molecular orbital theories such as Møller-Plesset perturbation and coupled-cluster theories to a broad range of properties of solids such as internal energies, enthalpies, structures, equation of state, phonon dispersion curves and density of states, infrared and Raman spectra (including band intensities and sometimes anharmonic effects), inelastic neutron scattering spectra, heat capacities, Gibbs energies, and phase diagrams, while accounting for many-body electrostatic (namely, induction or polarization) effects as well as two-body exchange and dispersion interactions from first principles. They can fundamentally alter the role of computing in the studies of molecular crystals in the same way ab initio molecular orbital theories have transformed research practices in gas-phase physical chemistry and synthetic chemistry in the last half century. In this Account, after a brief summary of formalisms and algorithms, we discuss applications of these methods performed in our group as compelling illustrations of their unprecedented power in addressing some of the outstanding problems of solid-state chemistry, high-pressure chemistry, or geochemistry. They are the structure and spectra of ice Ih, in particular, the origin of two peaks in the hydrogen-bond-stretching region of its inelastic neutron scattering spectra, a solid-solid phase transition from CO2-I to elusive, metastable CO2-III, pressure tuning of Fermi resonance in solid CO2, and the structure and spectra of solid formic acid, all at the level of second-order Møller-Plesset perturbation theory or higher.
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Affiliation(s)
- So Hirata
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Kandis Gilliard
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Xiao He
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Jinjin Li
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Olaseni Sode
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
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16
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Nanda KD, Beran GJO. Prediction of organic molecular crystal geometries from MP2-level fragment quantum mechanical/molecular mechanical calculations. J Chem Phys 2012; 137:174106. [DOI: 10.1063/1.4764063] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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17
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Wen S, Nanda K, Huang Y, Beran GJO. Practical quantum mechanics-based fragment methods for predicting molecular crystal properties. Phys Chem Chem Phys 2012; 14:7578-90. [DOI: 10.1039/c2cp23949c] [Citation(s) in RCA: 100] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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