1
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Zulueta B, Keith JA. Vibrational Partition Functions from Bond Order and Populations Relationships. Chemphyschem 2025:e2500085. [PMID: 40261804 DOI: 10.1002/cphc.202500085] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2025] [Revised: 04/21/2025] [Accepted: 04/22/2025] [Indexed: 04/24/2025]
Abstract
A novel method is presented that computes harmonic vibrational partition functions from bond orders and population relationships (QBOP). The QBOP model first computes zero-point energies (ZPEs) and net vibrational bond energies from our earlier zero-point energies from bond orders and populations (ZPE-BOP) model and then maps these variables to calculate the harmonic vibrational partition function. Combined with traditional rotational, translational, and electronic partition function approximations, the method allows the approximate calculation of finite temperature thermal effects without a Hessian calculation. The method uses a total of 12 parameters that have been fitted to B3LYP/cc-pVTZ+1 d data for first-row elements: H, Li, Be, B, C, N, O, and F. The model is benchmarked to traditional semiempirical models (i.e., AM1, PM6, PM7, and XTB-2) and it is found that QBOP-1 provides similar results. This work shows a novel way to obtain useful thermal energy calculations without a costly Hessian calculation, and thereby shifting standard bottlenecks in computational chemistry applications.
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Affiliation(s)
- Barbaro Zulueta
- Department of Chemical and Petroleum Engineering, University of Pittsburgh, Pittsburgh, Pennsylvania, 15213, USA
| | - John A Keith
- Department of Chemical and Petroleum Engineering, University of Pittsburgh, Pittsburgh, Pennsylvania, 15213, USA
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2
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Dasgupta S, Cassone G, Paesani F. Nuclear Quantum Effects and the Grotthuss Mechanism Dictate the pH of Liquid Water. J Phys Chem Lett 2025; 16:2996-3003. [PMID: 40091213 DOI: 10.1021/acs.jpclett.5c00168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/19/2025]
Abstract
Water's ability to autoionize into hydronium (H3O+) and hydroxide (OH-) ions dictates the acidity or basicity of aqueous solutions, influencing the reaction pathways of many chemical and biochemical processes. In this study, we determine the molecular mechanism of the autoionization process by leveraging both the computational efficiency of a deep neural network potential trained on highly accurate data calculated within density-corrected density functional theory and the ability of enhanced sampling techniques to ensure a comprehensive exploration of the underlying multidimensional free-energy landscape. By properly accounting for nuclear quantum effects, our simulations provide an accurate estimate of the autoionization constant of liquid water (pKw = 13.71 ± 0.16), offering a realistic molecular-level picture of the autoionization process and emphasizing its quantum-mechanical nature. Importantly, our simulations highlight the central role played by the Grotthuss mechanism in stabilizing solvent-separated ion pair configurations, revealing its profound impact on acid-base equilibria in aqueous environments.
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Affiliation(s)
- Saswata Dasgupta
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, United States
| | - Giuseppe Cassone
- Institute for Chemical-Physical Processes, National Research Council of Italy (IPCF-CNR), 98158 Messina, Italy
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, United States
- Materials Science and Engineering, University of California, San Diego, La Jolla, California 92093, United States
- Halicioǧlu Data Science Institute, University of California San Diego, La Jolla, California 92093, United States
- San Diego Supercomputer Center, University of California, San Diego, La Jolla, California 92093, United States
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3
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Broderick DR, Herbert JM. Untangling Sources of Error in the Density-Functional Many-Body Expansion. J Phys Chem Lett 2025; 16:2793-2799. [PMID: 40055007 DOI: 10.1021/acs.jpclett.4c03619] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/21/2025]
Abstract
The many-body expansion provides a framework for data-driven applications of electronic structure theory, including parametrization of classical force fields and machine learning. However, we demonstrate that its use significantly amplifies quadrature grid errors when modern density-functional approximations are employed. Standard grids that work well in conventional density-functional calculations result in runaway error accumulation when used with the many-body expansion. At the same time, delocalization error is also exacerbated, leading to exaggerated estimates of nonadditive n-body interactions. This is illustrated for anion-water clusters using the SCAN, r2SCAN, ωB97X-V and ωB97M-V functionals. By employing dense quadrature grids, the inherent self-interaction error is exposed, which can then be mitigated using a variety of other strategies.
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Affiliation(s)
- Dustin R Broderick
- Department of Chemistry & Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - John M Herbert
- Department of Chemistry & Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
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4
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Broderick DR, Herbert JM. Delocalization error poisons the density-functional many-body expansion. Chem Sci 2024; 15:19893-19906. [PMID: 39568898 PMCID: PMC11575576 DOI: 10.1039/d4sc05955g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2024] [Accepted: 10/22/2024] [Indexed: 11/22/2024] Open
Abstract
The many-body expansion is a fragment-based approach to large-scale quantum chemistry that partitions a single monolithic calculation into manageable subsystems. This technique is increasingly being used as a basis for fitting classical force fields to electronic structure data, especially for water and aqueous ions, and for machine learning. Here, we show that the many-body expansion based on semilocal density functional theory affords wild oscillations and runaway error accumulation for ion-water interactions, typified by F-(H2O) N with N ≳ 15. We attribute these oscillations to self-interaction error in the density-functional approximation. The effect is minor or negligible in small water clusters, explaining why it has not been noticed previously, but grows to catastrophic proportion in clusters that are only moderately larger. This behavior can be counteracted with hybrid functionals but only if the fraction of exact exchange is ≳50%, whereas modern meta-generalized gradient approximations including ωB97X-V, SCAN, and SCAN0 are insufficient to eliminate divergent behavior. Other mitigation strategies including counterpoise correction, density correction (i.e., exchange-correlation functionals evaluated atop Hartree-Fock densities), and dielectric continuum boundary conditions do little to curtail the problematic oscillations. In contrast, energy-based screening to cull unimportant subsystems can successfully forestall divergent behavior. These results suggest that extreme caution is warranted when the many-body expansion is combined with density functional theory.
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Affiliation(s)
- Dustin R Broderick
- Department of Chemistry & Biochemistry, The Ohio State University 151 W. Woodruff Ave. Columbus Ohio 43210 USA
| | - John M Herbert
- Department of Chemistry & Biochemistry, The Ohio State University 151 W. Woodruff Ave. Columbus Ohio 43210 USA
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5
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Lee M, Kim B, Sim M, Sogal M, Kim Y, Yu H, Burke K, Sim E. Correcting Dispersion Corrections with Density-Corrected DFT. J Chem Theory Comput 2024. [PMID: 39120872 DOI: 10.1021/acs.jctc.4c00689] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/10/2024]
Abstract
Almost all empirical parametrizations of dispersion corrections in DFT use only energy errors, thereby mixing functional and density-driven errors. We introduce density and dispersion-corrected DFT (D2C-DFT), a dual-calibration approach that accounts for density delocalization errors when parametrizing dispersion interactions. We simply exclude density-sensitive reactions from the training data. We find a significant reduction in both errors and variation among several semilocal functionals and their global hybrids when tailored dispersion corrections are employed with Hartree-Fock densities.
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Affiliation(s)
- Minhyeok Lee
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Byeongjae Kim
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Mingyu Sim
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Mihira Sogal
- Department of Chemistry, University of California, Irvine, California 92697, United States
| | - Youngsam Kim
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Hayoung Yu
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Kieron Burke
- Department of Chemistry, University of California, Irvine, California 92697, United States
| | - Eunji Sim
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
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6
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Kaplan AD, Shahi C, Sah RK, Bhetwal P, Kanungo B, Gavini V, Perdew JP. How Does HF-DFT Achieve Chemical Accuracy for Water Clusters? J Chem Theory Comput 2024; 20:5517-5527. [PMID: 38937987 DOI: 10.1021/acs.jctc.4c00560] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/29/2024]
Abstract
Bolstered by recent calculations of exact functional-driven errors (FEs) and density-driven errors (DEs) of semilocal density functionals in the water dimer binding energy [Kanungo, B. J. Phys. Chem. Lett. 2024, 15, 323-328], we investigate approximate FEs and DEs in neutral water clusters containing up to 20 monomers, charged water clusters, and alkali- and halide-water clusters. Our proxy for the exact density is r2SCAN 50, a 50% global hybrid of exact exchange with r2SCAN, which may be less correct than r2SCAN for the compact water monomer but importantly more correct for long-range electron transfers in the noncompact water clusters. We show that SCAN makes substantially larger FEs for neutral water clusters than r2SCAN, while both make essentially the same DEs. Unlike the case for barrier heights, these FEs are small in a relative sense and become large in an absolute sense only due to an increase in cluster size. SCAN@HF, short for SCAN evaluated on the Hartree-Fock (HF) density, produces a cancellation of errors that makes it chemically accurate for predicting the absolute binding energies of water clusters. Likewise, adding a long-range dispersion correction to r2SCAN@HF, as in the composite method HF-r2SCAN-DC4, makes its FE more negative than in r2SCAN@HF, permitting a near-perfect cancellation of FE and DE. r2SCAN by itself (and even more so, r2SCAN evaluated on the r2SCAN 50 density), is almost perfect for the energy differences between water hexamers, and thus probably also for liquid water away from the boiling point. Thus, the accuracy of composite methods like SCAN@HF and HF-r2SCAN-DC4 is not due to the HF density being closer to the exact density, but to a compensation of errors from its greater degree of localization. We also give an argument for the approximate reliability of this unconventional error cancellation for diverse molecular properties. Finally, we confirm this unconventional error cancellation for the SCAN description of the water trimer via Kohn-Sham inversion of the CCSD(T) density.
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Affiliation(s)
- Aaron D Kaplan
- Materials Science Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Chandra Shahi
- Department of Physics and Engineering Physics, Tulane University, New Orleans, Louisiana 70118, United States
| | - Raj K Sah
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, United States
| | - Pradeep Bhetwal
- Department of Chemistry, Temple University, Philadelphia, Pennsylvania 19122, United States
| | - Bikash Kanungo
- Department of Mechanical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Vikram Gavini
- Department of Mechanical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
- Department of Materials Science and Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - John P Perdew
- Department of Physics and Engineering Physics, Tulane University, New Orleans, Louisiana 70118, United States
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, United States
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7
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O’Neill N, Shi BX, Fong K, Michaelides A, Schran C. To Pair or not to Pair? Machine-Learned Explicitly-Correlated Electronic Structure for NaCl in Water. J Phys Chem Lett 2024; 15:6081-6091. [PMID: 38820256 PMCID: PMC11181334 DOI: 10.1021/acs.jpclett.4c01030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2024] [Revised: 05/23/2024] [Accepted: 05/24/2024] [Indexed: 06/02/2024]
Abstract
The extent of ion pairing in solution is an important phenomenon to rationalize transport and thermodynamic properties of electrolytes. A fundamental measure of this pairing is the potential of mean force (PMF) between solvated ions. The relative stabilities of the paired and solvent shared states in the PMF and the barrier between them are highly sensitive to the underlying potential energy surface. However, direct application of accurate electronic structure methods is challenging, since long simulations are required. We develop wave function based machine learning potentials with the random phase approximation (RPA) and second order Møller-Plesset (MP2) perturbation theory for the prototypical system of Na and Cl ions in water. We show both methods in agreement, predicting the paired and solvent shared states to have similar energies (within 0.2 kcal/mol). We also provide the same benchmarks for different DFT functionals as well as insight into the PMF based on simple analyses of the interactions in the system.
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Affiliation(s)
- Niamh O’Neill
- Yusuf
Hamied Department of Chemistry, University
of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
- Cavendish
Laboratory, Department of Physics, University
of Cambridge, Cambridge CB3 0HE, United
Kingdom
- Lennard-Jones
Centre, University of Cambridge, Trinity Ln, Cambridge CB2 1TN, United Kingdom
| | - Benjamin X. Shi
- Yusuf
Hamied Department of Chemistry, University
of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
- Lennard-Jones
Centre, University of Cambridge, Trinity Ln, Cambridge CB2 1TN, United Kingdom
| | - Kara Fong
- Yusuf
Hamied Department of Chemistry, University
of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
- Lennard-Jones
Centre, University of Cambridge, Trinity Ln, Cambridge CB2 1TN, United Kingdom
| | - Angelos Michaelides
- Yusuf
Hamied Department of Chemistry, University
of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
- Lennard-Jones
Centre, University of Cambridge, Trinity Ln, Cambridge CB2 1TN, United Kingdom
| | - Christoph Schran
- Cavendish
Laboratory, Department of Physics, University
of Cambridge, Cambridge CB3 0HE, United
Kingdom
- Lennard-Jones
Centre, University of Cambridge, Trinity Ln, Cambridge CB2 1TN, United Kingdom
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8
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Chen X, Cifuentes-Lopez A, Shao X, Lin L, Prokopchuk D, Pavanello M. Unraveling the Hydration Shell Structure and Dynamics of Group 10 Aqua Ions. J Phys Chem Lett 2024; 15:5517-5528. [PMID: 38749061 DOI: 10.1021/acs.jpclett.4c00464] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/24/2024]
Abstract
We present ab initio simulations based on subsystem DFT of group 10 aqua ions accurately compared against experimental data on hydration structure. Our simulations provide insights into the molecular structures and dynamics of hydration shells, offering recalibrated interpretations of experimental results. We observe a soft, but distinct second hydration shell in Palladium (Pd) due to a balance between thermal fluctuations, metal-water interactions, and hydrogen bonding. Nickel (Ni) and platinum (Pt) exhibit more rigid hydration shells. Notably, our simulations align with experimental findings for Pd, showing axial hydration marked by a broad peak at about 3 Å in the Pd-O radial distribution function, revising the previously sharp "mesoshell" prediction. We introduce the "hydrogen bond dome" concept to describe a resilient network of hydrogen-bonded water molecules around the metal, which plays a critical role in the axial hydration dynamics.
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Affiliation(s)
- Xin Chen
- Department of Chemistry, Rutgers University, Newark, New Jersey 07102, United States
- Department of Physics, Rutgers University, Newark, New Jersey 07102, United States
| | | | - Xuecheng Shao
- Department of Chemistry, Rutgers University, Newark, New Jersey 07102, United States
| | - Lirong Lin
- Department of Chemistry, Rutgers University, Newark, New Jersey 07102, United States
| | - Demyan Prokopchuk
- Department of Chemistry, Rutgers University, Newark, New Jersey 07102, United States
| | - Michele Pavanello
- Department of Chemistry, Rutgers University, Newark, New Jersey 07102, United States
- Department of Physics, Rutgers University, Newark, New Jersey 07102, United States
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9
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Duignan TT. The Potential of Neural Network Potentials. ACS PHYSICAL CHEMISTRY AU 2024; 4:232-241. [PMID: 38800721 PMCID: PMC11117678 DOI: 10.1021/acsphyschemau.4c00004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Revised: 03/04/2024] [Accepted: 03/05/2024] [Indexed: 05/29/2024]
Abstract
In the next half-century, physical chemistry will likely undergo a profound transformation, driven predominantly by the combination of recent advances in quantum chemistry and machine learning (ML). Specifically, equivariant neural network potentials (NNPs) are a breakthrough new tool that are already enabling us to simulate systems at the molecular scale with unprecedented accuracy and speed, relying on nothing but fundamental physical laws. The continued development of this approach will realize Paul Dirac's 80-year-old vision of using quantum mechanics to unify physics with chemistry and providing invaluable tools for understanding materials science, biology, earth sciences, and beyond. The era of highly accurate and efficient first-principles molecular simulations will provide a wealth of training data that can be used to build automated computational methodologies, using tools such as diffusion models, for the design and optimization of systems at the molecular scale. Large language models (LLMs) will also evolve into increasingly indispensable tools for literature review, coding, idea generation, and scientific writing.
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10
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Shams Ghamsary M, Ghiasi M, Naghavi SS. Insight into the activation mechanism of carbonic anhydrase(II) through 2-(2-aminoethyl)-pyridine: a promising pathway for enhanced enzymatic activity. Phys Chem Chem Phys 2024; 26:10382-10391. [PMID: 38502117 DOI: 10.1039/d3cp05687b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/20/2024]
Abstract
Activation of human carbonic anhydrase II (hCA II) holds great promise for treating memory loss symptoms associated with Alzheimer's disease. Despite its importance, the activation mechanism of hCA II has been largely overlooked in favor of the well-studied inhibition mechanism. To address this unexplored realm, we use first-principles calculations to tease out the activation mechanism of hCA II using 2-(2-aminoethyl)-pyridine (2-2AEPy), a promising in vitro activator. We explored both stepwise and concerted mechanisms via both available nitrogen sites of 2-2AEPy: (i) aminoethyl group (Nα) and (ii) pyridine ring (Nβ). Our results show that a concerted mechanism via Nα holds the key to hCA II activation. The activation process of the concerted mechanism exhibits the characteristics of an exergonic reaction, wherein the transition state resembles the reactant with a notably low imaginary frequency of 452.4i cm-1 and barrier height of 5.2 kcal mol-1. Such meager transition barriers propel the activation of hCA II at in vivo temperatures. These findings initiate future research into hCA II activation mechanisms and the development of efficient activators, which may lead to promising therapeutic interventions for Alzheimer's disease.
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Affiliation(s)
- Masoumeh Shams Ghamsary
- Department of Physical and Computational Chemistry, Shahid Beheshti University, Tehran 1983969411, Iran.
| | - Mina Ghiasi
- Department of Physical Chemistry and Nano chemistry, Faculty of Chemistry, Alzahra University, 1993893973, Tehran, Iran.
| | - S Shahab Naghavi
- Department of Physical and Computational Chemistry, Shahid Beheshti University, Tehran 1983969411, Iran.
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11
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Frank HO, Paesani F. Molecular driving forces for water adsorption in MOF-808: A comparative analysis with UiO-66. J Chem Phys 2024; 160:094703. [PMID: 38426523 DOI: 10.1063/5.0189569] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Accepted: 02/12/2024] [Indexed: 03/02/2024] Open
Abstract
Metal-organic frameworks (MOFs), with their unique porous structures and versatile functionality, have emerged as promising materials for the adsorption, separation, and storage of diverse molecular species. In this study, we investigate water adsorption in MOF-808, a prototypical MOF that shares the same secondary building unit (SBU) as UiO-66, and elucidate how differences in topology and connectivity between the two MOFs influence the adsorption mechanism. To this end, molecular dynamics simulations were performed to calculate several thermodynamic and dynamical properties of water in MOF-808 as a function of relative humidity (RH), from the initial adsorption step to full pore filling. At low RH, the μ3-OH groups of the SBUs form hydrogen bonds with the initial water molecules entering the pores, which triggers the filling of these pores before the μ3-OH groups in other pores become engaged in hydrogen bonding with water molecules. Our analyses indicate that the pores of MOF-808 become filled by water sequentially as the RH increases. A similar mechanism has been reported for water adsorption in UiO-66. Despite this similarity, our study highlights distinct thermodynamic properties and framework characteristics that influence the adsorption process differently in MOF-808 and UiO-66.
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Affiliation(s)
- Hilliary O Frank
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
- Materials Science and Engineering, University of California, San Diego, La Jolla, California 92093, USA
- Halicioğlu Data Science Institute, University of California, San Diego, La Jolla, California 92093, USA
- San Diego Supercomputer Center, University of California, San Diego, La Jolla, California 92093, USA
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12
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Savoj R, Agnew H, Zhou R, Paesani F. Molecular Insights into the Influence of Ions on the Water Structure. I. Alkali Metal Ions in Solution. J Phys Chem B 2024; 128:1953-1962. [PMID: 38373140 DOI: 10.1021/acs.jpcb.3c08150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/21/2024]
Abstract
In this study, we explore the impact of alkali metal ions (Li+, Na+, K+, Rb+, and Cs+) on the hydration structure of water using molecular dynamics simulations carried out with MB-nrg potential energy functions (PEFs). Our analyses include radial distribution functions, coordination numbers, dipole moments, and infrared spectra of water molecules, calculated as a function of solvation shells. The results collectively indicate a highly local influence of all of the alkali metal ions on the hydrogen-bond network established by the surrounding water molecules, with the smallest and most densely charged Li+ ion exerting the most pronounced effect. Remarkably, the MB-nrg PEFs demonstrate excellent agreement with available experimental data for the position and size of the first solvation shells, underscoring their potential as predictive models for realistic simulations of ionic aqueous solutions across various thermodynamic conditions and environments.
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Affiliation(s)
- Roya Savoj
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
| | - Henry Agnew
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
| | - Ruihan Zhou
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
- Materials Science and Engineering, University of California San Diego, La Jolla, California 92093, United States
- Halicioğlu Data Science Institute, University of California San Diego, La Jolla, California 92093, United States
- San Diego Supercomputer Center, University of California San Diego, La Jolla, California 92093, United States
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13
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Kanungo B, Kaplan AD, Shahi C, Gavini V, Perdew JP. Unconventional Error Cancellation Explains the Success of Hartree-Fock Density Functional Theory for Barrier Heights. J Phys Chem Lett 2024; 15:323-328. [PMID: 38170179 DOI: 10.1021/acs.jpclett.3c03088] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2024]
Abstract
Energy barriers, which control the rates of chemical reactions, are seriously underestimated by computationally efficient semilocal approximations for the exchange-correlation energy. The accuracy of a semilocal density functional approximation is strongly boosted for reaction barrier heights by evaluating that approximation non-self-consistently on Hartree-Fock electron densities, which has been known for ∼30 years. The conventional explanation is that the Hartree-Fock theory yields the more accurate density. This work presents a benchmark Kohn-Sham inversion of accurate coupled-cluster densities for the reaction H2 + F → HHF → H + HF and finds a strong, understandable cancellation between positive (excessively overcorrected) density-driven and large negative functional-driven errors (expected from stretched radical bonds in the transition state) within this Hartree-Fock density functional theory. This confirms earlier conclusions (Kaplan, A. D., et al. J. Chem. Theory Comput. 2023, 19, 532-543) based on 76 barrier heights and three less reliable, but less expensive, fully nonlocal density functional proxies for the exact density.
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Affiliation(s)
- Bikash Kanungo
- Department of Mechanical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Aaron D Kaplan
- Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Chandra Shahi
- Department of Physics and Engineering Physics, Tulane University, New Orleans, Louisiana 70118, United States
| | - Vikram Gavini
- Department of Mechanical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - John P Perdew
- Department of Physics and Engineering Physics, Tulane University, New Orleans, Louisiana 70118, United States
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14
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Dasgupta S, Palos E, Pan Y, Paesani F. Balance between Physical Interpretability and Energetic Predictability in Widely Used Dispersion-Corrected Density Functionals. J Chem Theory Comput 2024; 20:49-67. [PMID: 38150541 DOI: 10.1021/acs.jctc.3c00903] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2023]
Abstract
We assess the performance of different dispersion models for several popular density functionals across a diverse set of noncovalent systems, ranging from the benzene dimer to molecular crystals. By analyzing the interaction energies and their individual components, we demonstrate that there exists variability across different systems for empirical dispersion models, which are calibrated for reproducing the interaction energies of specific systems. Thus, parameter fitting may undermine the underlying physics, as dispersion models rely on error compensation among the different components of the interaction energy. Energy decomposition analyses reveal that, the accuracy of revPBE-D3 for some aqueous systems originates from significant compensation between dispersion and charge transfer energies. However, revPBE-D3 is less accurate in describing systems where error compensation is incomplete, such as the benzene dimer. Such cases highlight the propensity for unpredictable behavior in various dispersion-corrected density functionals across a wide range of molecular systems, akin to the behavior of force fields. On the other hand, we find that SCAN-rVV10, a targeted-dispersion approach, affords significant reductions in errors associated with the lattice energies of molecular crystals, while it has limited accuracy in reproducing structural properties. Given the ubiquitous nature of noncovalent interactions and the key role of density functional theory in computational sciences, the future development of dispersion models should prioritize the faithful description of the dispersion energy, a shift that promises greater accuracy in capturing the underlying physics across diverse molecular and extended systems.
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Affiliation(s)
- Saswata Dasgupta
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
| | - Etienne Palos
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
| | - Yuanhui Pan
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, United States
- Materials Science and Engineering, University of California San Diego, La Jolla, California 92093, United States
- San Diego Supercomputer Center, University of California San Diego, La Jolla, California 92093, United States
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15
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Rueda Espinosa KJ, Kananenka AA, Rusakov AA. Novel Computational Chemistry Infrastructure for Simulating Astatide in Water: From Basis Sets to Force Fields Using Particle Swarm Optimization. J Chem Theory Comput 2023; 19:7998-8012. [PMID: 38014419 DOI: 10.1021/acs.jctc.3c00826] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2023]
Abstract
Using the example of astatine, the heaviest naturally occurring halogen whose isotope At-211 has promising medical applications, we propose a new infrastructure for large-scale computational models of heavy elements with strong relativistic effects. In particular, we focus on developing an accurate force field for At- in water based on reliable relativistic density functional theory (DFT) calculations. To ensure the reliability of such calculations, we design novel basis sets for relativistic DFT, via the particle swarm optimization algorithm to optimize the coefficients of the new basis sets and the polarization-consistent basis set idea's extension to heavy elements to eliminate the basis set error from DFT calculations. The resulting basis sets enable the well-grounded evaluation of relativistic DFT against "gold-standard" CCSD(T) results. Accounting for strong relativistic effects, including spin-orbit interaction, via our redesigned infrastructure, we elucidate a noticeable dissimilarity between At- and I- in halide-water force field parameters, radial distribution functions, diffusion coefficients, and hydration energies. This work establishes the framework for the systematic development of polarization-consistent basis sets for relativistic DFT and accurate force fields for molecular dynamics simulations to be used in large-scale models of complex molecular systems with elements from the bottom of the periodic table, including actinides and even superheavy elements.
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Affiliation(s)
- Kennet J Rueda Espinosa
- Department of Physics and Astronomy, University of Delaware, Newark, Delaware 19716, United States
| | - Alexei A Kananenka
- Department of Physics and Astronomy, University of Delaware, Newark, Delaware 19716, United States
| | - Alexander A Rusakov
- Department of Chemistry, Oakland University, Rochester, Michigan 48309, United States
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16
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Gould T. A step toward density benchmarking-The energy-relevant "mean field error". J Chem Phys 2023; 159:204111. [PMID: 38018751 DOI: 10.1063/5.0175925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2023] [Accepted: 11/05/2023] [Indexed: 11/30/2023] Open
Abstract
Since the development of generalized gradient approximations in the 1990s, approximations based on density functional theory have dominated electronic structure theory calculations. Modern approximations can yield energy differences that are precise enough to be predictive in many instances, as validated by large- and small-scale benchmarking efforts. However, assessing the quality of densities has been the subject of far less attention, in part because reliable error measures are difficult to define. To this end, this work introduces the mean-field error, which directly assesses the quality of densities from approximations. The mean-field error is contextualized within existing frameworks of density functional error analysis and understanding and shown to be part of the density-driven error. It is demonstrated in several illustrative examples. Its potential use in future benchmarking protocols is discussed, and some conclusions are drawn.
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Affiliation(s)
- Tim Gould
- Qld Micro- and Nanotechnology Centre, Griffith University, Nathan, Qld 4111, Australia
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17
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Palos E, Caruso A, Paesani F. Consistent density functional theory-based description of ion hydration through density-corrected many-body representations. J Chem Phys 2023; 159:181101. [PMID: 37947509 DOI: 10.1063/5.0174577] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Accepted: 10/23/2023] [Indexed: 11/12/2023] Open
Abstract
Delocalization error constrains the accuracy of density functional theory in describing molecular interactions in ion-water systems. Using Na+ and Cl- in water as model systems, we calculate the effects of delocalization error in the SCAN functional for describing ion-water and water-water interactions in hydrated ions, and demonstrate that density-corrected SCAN (DC-SCAN) predicts n-body and interaction energies with an accuracy approaching coupled cluster theory. The performance of DC-SCAN is size-consistent, maintaining an accurate description of molecular interactions well beyond the first solvation shell. Molecular dynamics simulations at ambient conditions with many-body MB-SCAN(DC) potentials, derived from the many-body expansion, predict the solvation structure of Na+ and Cl- in quantitative agreement with reference data, while simultaneously reproducing the structure of liquid water. Beyond rationalizing the accuracy of density-corrected models of ion hydration, our findings suggest that our unified density-corrected MB formalism holds great promise for efficient DFT-based simulations of condensed-phase systems with chemical accuracy.
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Affiliation(s)
- Etienne Palos
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, USA
| | - Alessandro Caruso
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, USA
- Materials Science and Engineering, University of California San Diego, La Jolla, California 92093, USA
- San Diego Supercomputer Center, University of California San Diego, La Jolla, California 92093, USA
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18
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Calegari Andrade M, Car R, Selloni A. Probing the self-ionization of liquid water with ab initio deep potential molecular dynamics. Proc Natl Acad Sci U S A 2023; 120:e2302468120. [PMID: 37931100 PMCID: PMC10655216 DOI: 10.1073/pnas.2302468120] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2023] [Accepted: 09/29/2023] [Indexed: 11/08/2023] Open
Abstract
The chemical equilibrium between self-ionized and molecular water dictates the acid-base chemistry in aqueous solutions, yet understanding the microscopic mechanisms of water self-ionization remains experimentally and computationally challenging. Herein, Density Functional Theory (DFT)-based deep neural network (DNN) potentials are combined with enhanced sampling techniques and a global acid-base collective variable to perform extensive atomistic simulations of water self-ionization for model systems of increasing size. The explicit inclusion of long-range electrostatic interactions in the DNN potential is found to be crucial to accurately reproduce the DFT free energy profile of solvated water ion pairs in small (64 and 128 H2O) cells. The reversible work to separate the hydroxide and hydronium to a distance [Formula: see text] is found to converge for simulation cells containing more than 500 H2O, and a distance of [Formula: see text] 8 Å is the threshold beyond which the work to further separate the two ions becomes approximately zero. The slow convergence of the potential of mean force with system size is related to a restructuring of water and an increase of the local order around the water ions. Calculation of the dissociation equilibrium constant illustrates the key role of long-range electrostatics and entropic effects in the water autoionization process.
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Affiliation(s)
- Marcos Calegari Andrade
- Chemistry Department, Princeton University, Princeton, NJ08544
- Quantum Simulations Group, Materials Science Division, Lawrence Livermore National Laboratory, Livermore, CA94550
| | - Roberto Car
- Chemistry Department, Princeton University, Princeton, NJ08544
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19
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Yu H, Song S, Nam S, Burke K, Sim E. Density-Corrected Density Functional Theory for Open Shells: How to Deal with Spin Contamination. J Phys Chem Lett 2023; 14:9230-9237. [PMID: 37811877 DOI: 10.1021/acs.jpclett.3c02017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/10/2023]
Abstract
Density functional theory (DFT) is usually used self-consistently to predict chemical properties, but the use of the Hartree-Fock (HF) density improves energetics in certain, well-characterized cases. Density-corrected (DC) DFT provides the theory behind this, but unrestricted Hartree-Fock (UHF) densities yield poor energetics in cases of strong spin contamination. Here we compare with restricted open-shell HF (ROHF) across 13 different functionals and two DC-DFT methods. For significant spin contamination, ROHF densities outperform UHF densities by as much as a factor of 3, depending on the energy functional, and ROHF-DFT improves over self-consistent DFT for most of the tested functionals. We refine the DC(HF)-DFT algorithm to use ROHF densities in cases of severe spin contamination.
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Affiliation(s)
- Hayoung Yu
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Suhwan Song
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Seungsoo Nam
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
| | - Kieron Burke
- Department of Chemistry, University of California, Irvine, California 92697, United States
| | - Eunji Sim
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul 03722, Korea
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20
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Belleflamme F, Hutter J. Radicals in aqueous solution: assessment of density-corrected SCAN functional. Phys Chem Chem Phys 2023; 25:20817-20836. [PMID: 37497572 DOI: 10.1039/d3cp02517a] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/28/2023]
Abstract
We study self-interaction effects in solvated and strongly-correlated cationic molecular clusters, with a focus on the solvated hydroxyl radical. To address the self-interaction issue, we apply the DC-r2SCAN method, with the auxiliary density matrix approach. Validating our method through simulations of bulk liquid water, we demonstrate that DC-r2SCAN maintains the structural accuracy of r2SCAN while effectively addressing spin density localization issues. Extending our analysis to solvated cationic molecular clusters, we find that the hemibonded motif in the [CH3S∴CH3SH]+ cluster is disrupted in the DC-r2SCAN simulation, in contrast to r2SCAN that preserves the (three-electron-two-center)-bonded motif. Similarly, for the [SH∴SH2]+ cluster, r2SCAN restores the hemibonded motif through spin leakage, while DC-r2SCAN predicts a weaker hemibond formation influenced by solvent-solute interactions. Our findings demonstrate the potential of DC-r2SCAN combined with the auxiliary density matrix method to improve electronic structure calculations, providing insights into the properties of solvated cationic molecular clusters. This work contributes to the advancement of self-interaction corrected electronic structure theory and offers a computational framework for modeling condensed phase systems with intricate correlation effects.
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Affiliation(s)
| | - Jürg Hutter
- Department of Chemistry, University of Zurich, Zurich, Switzerland.
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21
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Zhai Y, Caruso A, Bore SL, Luo Z, Paesani F. A "short blanket" dilemma for a state-of-the-art neural network potential for water: Reproducing experimental properties or the physics of the underlying many-body interactions? J Chem Phys 2023; 158:084111. [PMID: 36859071 DOI: 10.1063/5.0142843] [Citation(s) in RCA: 33] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
Deep neural network (DNN) potentials have recently gained popularity in computer simulations of a wide range of molecular systems, from liquids to materials. In this study, we explore the possibility of combining the computational efficiency of the DeePMD framework and the demonstrated accuracy of the MB-pol data-driven, many-body potential to train a DNN potential for large-scale simulations of water across its phase diagram. We find that the DNN potential is able to reliably reproduce the MB-pol results for liquid water, but provides a less accurate description of the vapor-liquid equilibrium properties. This shortcoming is traced back to the inability of the DNN potential to correctly represent many-body interactions. An attempt to explicitly include information about many-body effects results in a new DNN potential that exhibits the opposite performance, being able to correctly reproduce the MB-pol vapor-liquid equilibrium properties, but losing accuracy in the description of the liquid properties. These results suggest that DeePMD-based DNN potentials are not able to correctly "learn" and, consequently, represent many-body interactions, which implies that DNN potentials may have limited ability to predict the properties for state points that are not explicitly included in the training process. The computational efficiency of the DeePMD framework can still be exploited to train DNN potentials on data-driven many-body potentials, which can thus enable large-scale, "chemically accurate" simulations of various molecular systems, with the caveat that the target state points must have been adequately sampled by the reference data-driven many-body potential in order to guarantee a faithful representation of the associated properties.
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Affiliation(s)
- Yaoguang Zhai
- Department of Computer Science and Engineering, University of California San Diego, La Jolla, California 92093, USA
| | - Alessandro Caruso
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, USA
| | - Sigbjørn Løland Bore
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, USA
| | - Zhishang Luo
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California 92093, USA
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22
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Song S, Vuckovic S, Kim Y, Yu H, Sim E, Burke K. Extending density functional theory with near chemical accuracy beyond pure water. Nat Commun 2023; 14:799. [PMID: 36781855 PMCID: PMC9925738 DOI: 10.1038/s41467-023-36094-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2022] [Accepted: 01/13/2023] [Indexed: 02/15/2023] Open
Abstract
Density functional simulations of condensed phase water are typically inaccurate, due to the inaccuracies of approximate functionals. A recent breakthrough showed that the SCAN approximation can yield chemical accuracy for pure water in all its phases, but only when its density is corrected. This is a crucial step toward first-principles biosimulations. However, weak dispersion forces are ubiquitous and play a key role in noncovalent interactions among biomolecules, but are not included in the new approach. Moreover, naïve inclusion of dispersion in HF-SCAN ruins its high accuracy for pure water. Here we show that systematic application of the principles of density-corrected DFT yields a functional (HF-r2SCAN-DC4) which recovers and not only improves over HF-SCAN for pure water, but also captures vital noncovalent interactions in biomolecules, making it suitable for simulations of solutions.
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Affiliation(s)
- Suhwan Song
- grid.15444.300000 0004 0470 5454Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul, 03722 Korea ,grid.266093.80000 0001 0668 7243Department of Chemistry, University of California, Irvine, CA 92697 USA
| | - Stefan Vuckovic
- grid.472716.10000 0004 1758 7362Institute for Microelectronics and Microsystems (CNR-IMM), Via Monteroni, Campus Unisalento, 73100 Lecce, Italy ,grid.12380.380000 0004 1754 9227Departments of Chemistry & Pharmaceutical Sciences and Amsterdam Institute of Molecular and Life Sciences (AIMMS), Faculty of Science, Vrije Universiteit, De Boelelaan 1083, 1081HV Amsterdam, The Netherlands
| | - Youngsam Kim
- grid.15444.300000 0004 0470 5454Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul, 03722 Korea
| | - Hayoung Yu
- grid.15444.300000 0004 0470 5454Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul, 03722 Korea
| | - Eunji Sim
- Department of Chemistry, Yonsei University, 50 Yonsei-ro Seodaemun-gu, Seoul, 03722, Korea.
| | - Kieron Burke
- grid.266093.80000 0001 0668 7243Department of Chemistry, University of California, Irvine, CA 92697 USA ,grid.266093.80000 0001 0668 7243Departments of Physics & Astronomy, University of California, Irvine, CA 92697 USA
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23
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Panagiotopoulos AZ, Yue S. Dynamics of Aqueous Electrolyte Solutions: Challenges for Simulations. J Phys Chem B 2023; 127:430-437. [PMID: 36607836 DOI: 10.1021/acs.jpcb.2c07477] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
This Perspective article focuses on recent simulation work on the dynamics of aqueous electrolytes. It is well-established that full-charge, nonpolarizable models for water and ions generally predict solution dynamics that are too slow in comparison to experiments. Models with reduced (scaled) charges do better for solution diffusivities and viscosities but encounter issues describing other dynamic phenomena such as nucleation rates of crystals from solution. Polarizable models show promise, especially when appropriately parametrized, but may still miss important physical effects such as charge transfer. First-principles calculations are starting to emerge for these properties that are in principle able to capture polarization, charge transfer, and chemical transformations in solution. While direct ab initio simulations are still too slow for simulations of large systems over long time scales, machine-learning models trained on appropriate first-principles data show significant promise for accurate and transferable modeling of electrolyte solution dynamics.
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Affiliation(s)
| | - Shuwen Yue
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
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24
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Kaplan AD, Shahi C, Bhetwal P, Sah RK, Perdew JP. Understanding Density-Driven Errors for Reaction Barrier Heights. J Chem Theory Comput 2023; 19:532-543. [PMID: 36599075 DOI: 10.1021/acs.jctc.2c00953] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Delocalization errors, such as charge-transfer and some self-interaction errors, plague computationally efficient and otherwise accurate density functional approximations (DFAs). Evaluating a semilocal DFA non-self-consistently on the Hartree-Fock (HF) density is often recommended as a computationally inexpensive remedy for delocalization errors. For sophisticated meta-GGAs like SCAN, this approach can achieve remarkable accuracy. This HF-DFT (also known as DFA@HF) is often presumed to work, when it significantly improves over the DFA, because the HF density is more accurate than the self-consistent DFA density in those cases. By applying the metrics of density-corrected density functional theory (DFT), we show that HF-DFT works for barrier heights by making a localizing charge-transfer error or density overcorrection, thereby producing a somewhat reliable cancellation of density- and functional-driven errors for the energy. A quantitative analysis of the charge-transfer errors in a few randomly selected transition states confirms this trend. We do not have the exact functional and electron densities that would be needed to evaluate the exact density- and functional-driven errors for the large BH76 database of barrier heights. Instead, we have identified and employed three fully nonlocal proxy functionals (SCAN 50% global hybrid, range-separated hybrid LC-ωPBE, and SCAN-FLOSIC) and their self-consistent proxy densities. These functionals are chosen because they yield reasonably accurate self-consistent barrier heights and because their self-consistent total energies are nearly piecewise linear in fractional electron number─two important points of similarity to the exact functional. We argue that density-driven errors of the energy in a self-consistent density functional calculation are second order in the density error and that large density-driven errors arise primarily from incorrect electron transfers over length scales larger than the diameter of an atom.
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Affiliation(s)
- Aaron D Kaplan
- Department of Physics, Temple University, Philadelphia, Pennsylvania19122, United States
| | - Chandra Shahi
- Department of Physics, Temple University, Philadelphia, Pennsylvania19122, United States
| | - Pradeep Bhetwal
- Department of Physics, Temple University, Philadelphia, Pennsylvania19122, United States
| | - Raj K Sah
- Department of Physics, Temple University, Philadelphia, Pennsylvania19122, United States
| | - John P Perdew
- Department of Physics, Temple University, Philadelphia, Pennsylvania19122, United States
- Department of Chemistry, Temple University, Philadelphia, Pennsylvania19122, United States
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25
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Zhuang D, Riera M, Zhou R, Deary A, Paesani F. Hydration Structure of Na + and K + Ions in Solution Predicted by Data-Driven Many-Body Potentials. J Phys Chem B 2022; 126:9349-9360. [PMID: 36326071 DOI: 10.1021/acs.jpcb.2c05674] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
The hydration structure of Na+ and K+ ions in solution is systematically investigated using a hierarchy of molecular models that progressively include more accurate representations of many-body interactions. We found that a conventional empirical pairwise additive force field that is commonly used in biomolecular simulations is unable to reproduce the extended X-ray absorption fine structure (EXAFS) spectra for both ions. In contrast, progressive inclusion of many-body effects rigorously derived from the many-body expansion of the energy allows the MB-nrg potential energy functions (PEFs) to achieve nearly quantitative agreement with the experimental EXAFS spectra, thus enabling the development of a molecular-level picture of the hydration structure of both Na+ and K+ in solution. Since the MB-nrg PEFs have already been shown to accurately describe isomeric equilibria and vibrational spectra of small ion-water clusters in the gas phase, the present study demonstrates that the MB-nrg PEFs effectively represent the long-sought-after models able to correctly predict the properties of ionic aqueous systems from the gas to the liquid phase, which has so far remained elusive.
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Affiliation(s)
- Debbie Zhuang
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California92093, United States
| | - Marc Riera
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California92093, United States
| | - Ruihan Zhou
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California92093, United States
| | - Alexander Deary
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California92093, United States
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, California92093, United States.,Materials Science and Engineering, University of California San Diego, La Jolla, California92093, United States.,San Diego Supercomputer Center, University of California San Diego, La Jolla, California92093, United States
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