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Allan L, Zuehlsdorff TJ. Taming the third order cumulant approximation to linear optical spectroscopy. J Chem Phys 2024; 160:074108. [PMID: 38380749 DOI: 10.1063/5.0182745] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Accepted: 01/23/2024] [Indexed: 02/22/2024] Open
Abstract
The second order cumulant method offers a promising pathway to predicting optical properties in condensed phase systems. It allows for the computation of linear absorption spectra from excitation energy fluctuations sampled along molecular dynamics (MD) trajectories, fully accounting for vibronic effects, direct solute-solvent interactions, and environmental polarization effects. However, the second order cumulant approximation only guarantees accurate line shapes for energy gap fluctuations obeying Gaussian statistics. A third order correction has recently been derived but often yields unphysical spectra or divergent line shapes for moderately non-Gaussian fluctuations due to the neglect of higher order terms in the cumulant expansion. In this work, we develop a corrected cumulant approach, where the collective effect of neglected higher order contributions is approximately accounted for through a dampening factor applied to the third order cumulant term. We show that this dampening factor can be expressed as a function of the skewness and kurtosis of energy gap fluctuations and can be parameterized from a large set of randomly sampled model Hamiltonians for which exact spectral line shapes are known. This approach is shown to systematically remove unphysical contributions in the form of negative absorbances from cumulant spectra in both model Hamiltonians and condensed phase systems sampled from MD and dramatically improves over the second order cumulant method in describing systems exhibiting Duschinsky mode mixing effects. We successfully apply the approach to the coumarin-153 dye in toluene, obtaining excellent agreement with experiment.
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Affiliation(s)
- Lucas Allan
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, USA
| | - Tim J Zuehlsdorff
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, USA
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2
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Wiethorn ZR, Hunter KE, Zuehlsdorff TJ, Montoya-Castillo A. Beyond the Condon limit: Condensed phase optical spectra from atomistic simulations. J Chem Phys 2023; 159:244114. [PMID: 38153146 DOI: 10.1063/5.0180405] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Accepted: 12/06/2023] [Indexed: 12/29/2023] Open
Abstract
While dark transitions made bright by molecular motions determine the optoelectronic properties of many materials, simulating such non-Condon effects in condensed phase spectroscopy remains a fundamental challenge. We derive a Gaussian theory to predict and analyze condensed phase optical spectra beyond the Condon limit. Our theory introduces novel quantities that encode how nuclear motions modulate the energy gap and transition dipole of electronic transitions in the form of spectral densities. By formulating the theory through a statistical framework of thermal averages and fluctuations, we circumvent the limitations of widely used microscopically harmonic theories, allowing us to tackle systems with generally anharmonic atomistic interactions and non-Condon fluctuations of arbitrary strength. We show how to calculate these spectral densities using first-principles simulations, capturing realistic molecular interactions and incorporating finite-temperature, disorder, and dynamical effects. Our theory accurately predicts the spectra of systems known to exhibit strong non-Condon effects (phenolate in various solvents) and reveals distinct mechanisms for electronic peak splitting: timescale separation of modes that tune non-Condon effects and spectral interference from correlated energy gap and transition dipole fluctuations. We further introduce analysis tools to identify how intramolecular vibrations, solute-solvent interactions, and environmental polarization effects impact dark transitions. Moreover, we prove an upper bound on the strength of cross correlated energy gap and transition dipole fluctuations, thereby elucidating a simple condition that a system must follow for our theory to accurately predict its spectrum.
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Affiliation(s)
- Zachary R Wiethorn
- Department of Chemistry, University of Colorado Boulder, Boulder, Colorado 80309, USA
| | - Kye E Hunter
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, USA
| | - Tim J Zuehlsdorff
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, USA
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3
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Nguyen Thi Minh N, König C. Tailored anharmonic-harmonic vibrational profiles for fluorescent biomarkers. Phys Chem Chem Phys 2022; 24:14825-14835. [PMID: 35695163 DOI: 10.1039/d2cp01486f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We propose a hybrid anharmonic-harmonic scheme for vibrational broadenings, which embeds a reduced-space vibrational configuration interaction (VCI) anharmonic wave function treatment in the independent-mode displaced harmonic oscillator (IMDHO) model. The resulting systematically-improvable VCI-in-IMDHO model allows including the vibronic effects of all vibrational degrees of freedom, while focusing the effort on the important degrees of freedom with minimal extra computational effort compared to a reduced-space VCI treatment. We show for oligothiophene examples that the VCI-in-IMDHO approach can yield accurate vibrational profiles employing smaller vibrational spaces in the VCI part than the reduced-space VCI approach. By this, the VCI-in-IMDHO model enables accurate calculation of vibrational profiles of common fluorescent dyes with more than 100 vibrational degrees of freedom. We illustrate this for three examples of fluorescent biomarkers of current interest. These are the oligothiophene-based fluorescent dye called HS84, 1,4-diphenylbutadiene, and an anthracene diimide. For all examples, we assess the impact of the anharmonic treatment on the vibrational broadening, which we find to be more pronounced for the intensities than for the peak positions.
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Affiliation(s)
- Nghia Nguyen Thi Minh
- Institut für Physikalische Chemie und Elektrochemie, Leibniz Universität Hannover, Callinstr. 3A, 30167 Hannover, Germany.
| | - Carolin König
- Institut für Physikalische Chemie und Elektrochemie, Leibniz Universität Hannover, Callinstr. 3A, 30167 Hannover, Germany.
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4
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Zuehlsdorff TJ, Hong H, Shi L, Isborn CM. Nonlinear spectroscopy in the condensed phase: The role of Duschinsky rotations and third order cumulant contributions. J Chem Phys 2020; 153:044127. [PMID: 32752702 DOI: 10.1063/5.0013739] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
First-principles modeling of nonlinear optical spectra in the condensed phase is highly challenging because both environment and vibronic interactions can play a large role in determining spectral shapes and excited state dynamics. Here, we compute two dimensional electronic spectroscopy (2DES) signals based on a cumulant expansion of the energy gap fluctuation operator, with specific focus on analyzing mode mixing effects introduced by the Duschinsky rotation and the role of the third order term in the cumulant expansion for both model and realistic condensed phase systems. We show that for a harmonic model system, the third order cumulant correction captures effects introduced by a mismatch in curvatures of ground and excited state potential energy surfaces, as well as effects of mode mixing. We also demonstrate that 2DES signals can be accurately reconstructed from purely classical correlation functions using quantum correction factors. We then compute nonlinear optical spectra for the Nile red and methylene blue chromophores in solution, assessing the third order cumulant contribution for realistic systems. We show that the third order cumulant correction is strongly dependent on the treatment of the solvent environment, revealing the interplay between environmental polarization and the electronic-vibrational coupling.
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Affiliation(s)
- Tim J Zuehlsdorff
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
| | - Hanbo Hong
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
| | - Liang Shi
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
| | - Christine M Isborn
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
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5
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Green JA, Improta R. Vibrations of the guanine-cytosine pair in chloroform: an anharmonic computational study. Phys Chem Chem Phys 2020; 22:5509-5522. [PMID: 32104818 DOI: 10.1039/c9cp06373k] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
We compute at the anharmonic level the vibrational spectra of the Watson-Crick dimer formed by guanosine (G) and cytidine (C) in chloroform, together with those of G, C and the most populated GG dimer. The spectra for deuterated and partially deuterated GC are also computed. We use DFT calculations, with B3LYP and CAM-B3LYP as reference functionals. Solvent effects from chloroform are included via the Polarizable Continuum Model (PCM), and by performing tests on models including up two chloroform molecules. Both B3LYP and CAM-B3LYP calculations reproduce the shape of the experimental spectra well in the fingerprint region (1500-1700 cm-1) and in the N-H stretching region (2800-3600 cm-1), with B3LYP providing better quantitative agreement with experiments. According to our calculations, the N-H amido streching mode of G falls at ∼2900 cm-1, while the N-H amino of G and C falls at ∼3100 cm-1 when hydrogen-bonded, or ∼3500 cm-1 when free. Overtone and combination bands strongly contribute to the absorption band at ∼3300 cm-1. Inclusion of bulk solvent effects significantly increases the accuracy of the computed spectra, while solute-solvent interactions have a smaller, though still noticeable, effect. Some key aspects of the anharmonic treatment of strongly vibrationally coupled supermolecular systems and the related methodological issues are also discussed.
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Affiliation(s)
- James A Green
- Istituto di Biostrutture e Bioimmagini-CNR, Via Mezzocannone 16, I-80134 Napoli, Italy.
| | - Roberto Improta
- Istituto di Biostrutture e Bioimmagini-CNR, Via Mezzocannone 16, I-80134 Napoli, Italy.
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6
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Zuehlsdorff TJ, Montoya-Castillo A, Napoli JA, Markland TE, Isborn CM. Optical spectra in the condensed phase: Capturing anharmonic and vibronic features using dynamic and static approaches. J Chem Phys 2019; 151:074111. [PMID: 31438704 DOI: 10.1063/1.5114818] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
Abstract
Simulating optical spectra in the condensed phase remains a challenge for theory due to the need to capture spectral signatures arising from anharmonicity and dynamical effects, such as vibronic progressions and asymmetry. As such, numerous simulation methods have been developed that invoke different approximations and vary in their ability to capture different physical regimes. Here, we use several models of chromophores in the condensed phase and ab initio molecular dynamics simulations to rigorously assess the applicability of methods to simulate optical absorption spectra. Specifically, we focus on the ensemble scheme, which can address anharmonic potential energy surfaces but relies on the applicability of extreme nuclear-electronic time scale separation; the Franck-Condon method, which includes dynamical effects but generally only at the harmonic level; and the recently introduced ensemble zero-temperature Franck-Condon approach, which straddles these limits. We also devote particular attention to the performance of methods derived from a cumulant expansion of the energy gap fluctuations and test the ability to approximate the requisite time correlation functions using classical dynamics with quantum correction factors. These results provide insights as to when these methods are applicable and able to capture the features of condensed phase spectra qualitatively and, in some cases, quantitatively across a range of regimes.
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Affiliation(s)
- Tim J Zuehlsdorff
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
| | | | - Joseph A Napoli
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Thomas E Markland
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Christine M Isborn
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
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7
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Madsen D, Christiansen O, Norman P, König C. Vibrationally resolved emission spectra of luminescent conjugated oligothiophenes from anharmonic calculations. Phys Chem Chem Phys 2019; 21:17410-17422. [PMID: 31359017 DOI: 10.1039/c9cp03039e] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We report on accurate and efficient calculations of vibrationally resolved emission spectra for oligothiophenes from anharmonic vibrational configuration interaction wave-function calculations in reduced vibrational spaces. These reduced spaces are chosen based on the independent mode displaced harmonic oscillator model. Good agreement with experiment is obtained for all-trans oligothiophenes with two to five rings also when employing only a few active modes. Vibrational modes incorporating inter-ring carbon-carbon stretches and a ring breathing mode are found to be the main players in the vibrational progression for the emission from the first excited electronic state for all investigated oligothiophene derivatives. The presented framework is here illustrated for oligothiophenes, but we have made no underlying system-dependent assumptions and believe it to become a valuable tool for the rational design of fluorescence biomarkers.
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Affiliation(s)
- Diana Madsen
- Department of Chemistry, Aarhus University, Langelandsgade 140, 8000 Aarhus C, Denmark
| | - Ove Christiansen
- Department of Chemistry, Aarhus University, Langelandsgade 140, 8000 Aarhus C, Denmark
| | - Patrick Norman
- Division of Theoretical Chemistry & Biology, Royal Institute of Technology, Roslagstullsbacken 15, Stockholm, Sweden
| | - Carolin König
- Institute of Physical Chemistry, Christian-Albrechts-University Kiel, Max-Eyth-Straße 1, D-24118 Kiel, Germany.
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8
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Aranda D, Cerezo J, Pescitelli G, Avila Ferrer FJ, Soto J, Santoro F. A computational study of the vibrationally-resolved electronic circular dichroism spectra of single-chain transoid and cisoid oligothiophenes in chiral conformations. Phys Chem Chem Phys 2018; 20:21864-21880. [PMID: 30105334 DOI: 10.1039/c8cp03482f] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We simulate the vibronic profile of the electronic circular dichroism (ECD) spectra of oligothiophenes in cisoid and transoid chiral arrangements. We consider oligomers of different lengths, from two to fifteen units, and investigate extensively how the ECD spectral shapes depend on the inter-ring torsions. In general, the molecular structures we consider are not stationary points of the ground state potential energy surface. Therefore, in order to perform vibronic calculations, we present a new computational protocol able to define reduced-dimensionality models where the effect of the off-equilibrium modes is removed. This is done adopting a description of the vibrational motions in curvilinear internal coordinates, and vertical harmonic models coupled with an iterative application of projectors to define energy Hessians, and therefore effective normal modes, in the space complementary to the one of the off-equilibrium coordinates. Although we consider both Franck-Condon and Herzberg-Teller contributions, the results show that transoid twisted ribbons always give rise to monosignated ECD spectra, while bi-signated and multi-signated spectra are expected for cisoid helices. These findings are explained on the basis of the different transition strengths of the lowest electronic states imparted by the different spatial arrangement, that is almost linear for transoid structures and more globular for cisoid ones. We predicted the chiroptical response of a large number of possible molecular arrangements. These data are employed to critically discuss the experimental ECD of polythiophenes in different experimental conditions, forming either aggregates or host-guest complexes. The method here proposed to perform vibronic calculations in reduced-dimensionality models is of general applicability and its potential interest goes beyond the practical application presented here.
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Affiliation(s)
- Daniel Aranda
- Department of Physical Chemistry, Faculty of Science, University of Málaga, E-29071-Málaga, Spain
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9
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Zuehlsdorff TJ, Isborn CM. Combining the ensemble and Franck-Condon approaches for calculating spectral shapes of molecules in solution. J Chem Phys 2018; 148:024110. [PMID: 29331131 DOI: 10.1063/1.5006043] [Citation(s) in RCA: 55] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The correct treatment of vibronic effects is vital for the modeling of absorption spectra of many solvated dyes. Vibronic spectra for small dyes in solution can be easily computed within the Franck-Condon approximation using an implicit solvent model. However, implicit solvent models neglect specific solute-solvent interactions on the electronic excited state. On the other hand, a straightforward way to account for solute-solvent interactions and temperature-dependent broadening is by computing vertical excitation energies obtained from an ensemble of solute-solvent conformations. Ensemble approaches usually do not account for vibronic transitions and thus often produce spectral shapes in poor agreement with experiment. We address these shortcomings by combining zero-temperature vibronic fine structure with vertical excitations computed for a room-temperature ensemble of solute-solvent configurations. In this combined approach, all temperature-dependent broadening is treated classically through the sampling of configurations and quantum mechanical vibronic contributions are included as a zero-temperature correction to each vertical transition. In our calculation of the vertical excitations, significant regions of the solvent environment are treated fully quantum mechanically to account for solute-solvent polarization and charge-transfer. For the Franck-Condon calculations, a small amount of frozen explicit solvent is considered in order to capture solvent effects on the vibronic shape function. We test the proposed method by comparing calculated and experimental absorption spectra of Nile red and the green fluorescent protein chromophore in polar and non-polar solvents. For systems with strong solute-solvent interactions, the combined approach yields significant improvements over the ensemble approach. For systems with weak to moderate solute-solvent interactions, both the high-energy vibronic tail and the width of the spectra are in excellent agreement with experiments.
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Affiliation(s)
- T J Zuehlsdorff
- School of Natural Sciences, University of California Merced, N. Lake Road, Merced, California 95344, USA
| | - C M Isborn
- School of Natural Sciences, University of California Merced, N. Lake Road, Merced, California 95344, USA
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10
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Cerezo J, Aranda D, Avila Ferrer FJ, Prampolini G, Mazzeo G, Longhi G, Abbate S, Santoro F. Toward a general mixed quantum/classical method for the calculation of the vibronic ECD of a flexible dye molecule with different stable conformers: Revisiting the case of 2,2,2-trifluoro-anthrylethanol. Chirality 2018; 30:730-743. [DOI: 10.1002/chir.22853] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2018] [Revised: 02/19/2018] [Accepted: 02/20/2018] [Indexed: 12/30/2022]
Affiliation(s)
- Javier Cerezo
- Departamento de Química Física; Universidad de Murcia; Murcia Spain
| | - Daniel Aranda
- Consiglio Nazionale delle Ricerche-Istituto di Chimica dei Composti Organometallici (ICCOM-CNR); Pisa Italy
- Departamento de Química Física; Universidad de Málaga; Málaga Spain
| | | | - Giacomo Prampolini
- Consiglio Nazionale delle Ricerche-Istituto di Chimica dei Composti Organometallici (ICCOM-CNR); Pisa Italy
| | - Giuseppe Mazzeo
- Dipartimento di Medicina Molecolare e Traslazionale; Università di Brescia; Brescia Italy
| | - Giovanna Longhi
- Dipartimento di Medicina Molecolare e Traslazionale; Università di Brescia; Brescia Italy
| | - Sergio Abbate
- Dipartimento di Medicina Molecolare e Traslazionale; Università di Brescia; Brescia Italy
| | - Fabrizio Santoro
- Consiglio Nazionale delle Ricerche-Istituto di Chimica dei Composti Organometallici (ICCOM-CNR); Pisa Italy
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11
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Sahu H, Shukla R, Goswami J, Gaur P, Panda AN. Alternating phenylene and furan/pyrrole/thiophene units-based oligomers: A computational study of the structures and optoelectronic properties. Chem Phys Lett 2018. [DOI: 10.1016/j.cplett.2017.12.034] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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12
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13
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Cerezo J, Santoro F. Revisiting Vertical Models To Simulate the Line Shape of Electronic Spectra Adopting Cartesian and Internal Coordinates. J Chem Theory Comput 2016; 12:4970-4985. [PMID: 27586086 DOI: 10.1021/acs.jctc.6b00442] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
Vertical models for the simulation of spectroscopic line shapes expand the potential energy surface (PES) of the final state around the equilibrium geometry of the initial state. These models provide, in principle, a better approximation of the region of the band maximum. At variance, adiabatic models expand each PES around its own minimum. In the harmonic approximation, when the minimum energy structures of the two electronic states are connected by large structural displacements, adiabatic models can breakdown and are outperformed by vertical models. However, the practical application of vertical models faces the issues related to the necessity to perform a frequency analysis at a nonstationary point. In this contribution we revisit vertical models in harmonic approximation adopting both Cartesian (x) and valence internal curvilinear coordinates (s). We show that when x coordinates are used, the vibrational analysis at nonstationary points leads to a deficient description of low-frequency modes, for which spurious imaginary frequencies may even appear. This issue is solved when s coordinates are adopted. It is however necessary to account for the second derivative of s with respect to x, which here we compute analytically. We compare the performance of the vertical model in the s-frame with respect to adiabatic models and previously proposed vertical models in x- or Q1-frame, where Q1 are the normal coordinates of the initial state computed as combination of Cartesian coordinates. We show that for rigid molecules the vertical approach in the s-frame provides a description of the final state very close to the adiabatic picture. For sizable displacements it is a solid alternative to adiabatic models, and it is not affected by the issues of vertical models in x- and Q1-frames, which mainly arise when temperature effects are included. In principle the G matrix depends on s, and this creates nonorthogonality problems of the Duschinsky matrix connecting the normal modes of initial and final states in adiabatic approaches. We highlight that such a dependence of G on s is also an issue in vertical models, due to the necessity to approximate the kinetic term in the Hamiltonian when setting up the so-called GF problem. When large structural differences exist between the initial and the final-state minima, the changes in the G matrix can become too large to be disregarded.
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Affiliation(s)
- Javier Cerezo
- Istituto di Chimica dei Composti OrganoMetallici, Consiglio Nazionale delle Richerche (ICCOM-CNR) , Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
| | - Fabrizio Santoro
- Istituto di Chimica dei Composti OrganoMetallici, Consiglio Nazionale delle Richerche (ICCOM-CNR) , Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
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14
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Martínez-Fernández L, Pepino AJ, Segarra-Martí J, Banyasz A, Garavelli M, Improta R. Computing the Absorption and Emission Spectra of 5-Methylcytidine in Different Solvents: A Test-Case for Different Solvation Models. J Chem Theory Comput 2016; 12:4430-9. [DOI: 10.1021/acs.jctc.6b00518] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- L. Martínez-Fernández
- Istituto di Biostrutture
e Bioimmagini, CNR, Via Mezzocannone
16, I-80134 Napoli, Italy
| | - A. J. Pepino
- Dipartimento
di Chimica “G. Ciamician”, Università di Bologna, Bologna, Italy
| | - J. Segarra-Martí
- Dipartimento
di Chimica “G. Ciamician”, Università di Bologna, Bologna, Italy
- École
Normale Supérieure de Lyon, CNRS, UMR 5182, Université de Lyon, 46 Allée d’Italie, F-69364 Lyon Cedex 07, France
| | - A. Banyasz
- LIDYL,
CEA, CNRS, Université Paris-Saclay, F-91191 Gif-sur-Yvette, France
| | - M. Garavelli
- Dipartimento
di Chimica “G. Ciamician”, Università di Bologna, Bologna, Italy
- École
Normale Supérieure de Lyon, CNRS, UMR 5182, Université de Lyon, 46 Allée d’Italie, F-69364 Lyon Cedex 07, France
| | - R. Improta
- Istituto di Biostrutture
e Bioimmagini, CNR, Via Mezzocannone
16, I-80134 Napoli, Italy
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15
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Cerezo J, Martínez-Fernández L, Improta R, Santoro F. Vibronic approach to the calculation of the decay rate of the photoexcited charge-transfer state of Guanine–Cytosine stacked dimer in water solution. Theor Chem Acc 2016. [DOI: 10.1007/s00214-016-1955-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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16
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Jaunet-Lahary T, Goupille A, Jacquemin D, Fleury F, Graton J, Laurent AD. A Joint Theoretical and Experimental Study of the Behavior of the DIDS Inhibitor and its Derivatives. Chemphyschem 2016; 17:2434-45. [DOI: 10.1002/cphc.201600107] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2016] [Indexed: 11/08/2022]
Affiliation(s)
- Titouan Jaunet-Lahary
- Laboratoire CEISAM-UMR CNR 6230; Université de Nantes; 2 Rue de la Houssinière, BP 92208 44322 Nantes Cedex 3 France
| | - Anaïs Goupille
- Laboratoire CEISAM-UMR CNR 6230; Université de Nantes; 2 Rue de la Houssinière, BP 92208 44322 Nantes Cedex 3 France
| | - Denis Jacquemin
- Laboratoire CEISAM-UMR CNR 6230; Université de Nantes; 2 Rue de la Houssinière, BP 92208 44322 Nantes Cedex 3 France
- Institut Universitaire de France; 1, rue Descartes 75005 Paris Cedex 05 France
| | - Fabrice Fleury
- Laboratoire UFIP-UMR CNR 6286; Université de Nantes; 2 Rue de la Houssinière, BP 92208 44322 Nantes Cedex 3 France
| | - Jérôme Graton
- Laboratoire CEISAM-UMR CNR 6230; Université de Nantes; 2 Rue de la Houssinière, BP 92208 44322 Nantes Cedex 3 France
| | - Adèle D. Laurent
- Laboratoire CEISAM-UMR CNR 6230; Université de Nantes; 2 Rue de la Houssinière, BP 92208 44322 Nantes Cedex 3 France
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17
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Stendardo E, Avila Ferrer F, Santoro F, Improta R. The absorption and emission spectra in solution of oligothiophene-based push–pull biomarkers: a PCM/TD-DFT vibronic study. Theor Chem Acc 2016. [DOI: 10.1007/s00214-016-1899-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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18
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Cerezo J, Santoro F, Prampolini G. Comparing classical approaches with empirical or quantum-mechanically derived force fields for the simulation electronic lineshapes: application to coumarin dyes. Theor Chem Acc 2016. [DOI: 10.1007/s00214-016-1888-7] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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19
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Santoro F, Jacquemin D. Going beyond the vertical approximation with time-dependent density functional theory. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2016. [DOI: 10.1002/wcms.1260] [Citation(s) in RCA: 121] [Impact Index Per Article: 15.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Fabrizio Santoro
- CNR-Consiglio Nazionale delle Ricerche; Istituto di Chimica dei Composti OrganoMetallici (ICCOM-CNR); Pisa Italy
| | - Denis Jacquemin
- CEISAM, UMR CNRS 6230; Université de Nantes; Nantes France
- Institut Universitaire de France; Paris France
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20
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Calculation of low bandgap homopolymers: Comparison of TD-DFT methods with experimental oligomer series. Chem Phys Lett 2016. [DOI: 10.1016/j.cplett.2015.12.059] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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21
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Liu Y, Cerezo J, Santoro F, Rizzo A, Lin N, Zhao X. Theoretical investigation of the broad one-photon absorption line-shape of a flexible symmetric carbazole derivative. Phys Chem Chem Phys 2016; 18:22889-905. [DOI: 10.1039/c6cp04162k] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The one-photon absorption spectrum of a carbazole derivative has been studied by employing density functional response theory combined with a mixed quantum/classical approach to simulate the spectral shape.
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Affiliation(s)
- Yanli Liu
- State Key Laboratory of Crystal Materials
- Shandong University
- 250100 Jinan
- P. R. China
- CNR – Consiglio Nazionale delle Ricerche
| | - Javier Cerezo
- CNR – Consiglio Nazionale delle Ricerche
- Istituto di Chimica dei Composti Organo Metallici (ICCOM-CNR)
- I-56124 Pisa
- Italy
| | - Fabrizio Santoro
- CNR – Consiglio Nazionale delle Ricerche
- Istituto di Chimica dei Composti Organo Metallici (ICCOM-CNR)
- I-56124 Pisa
- Italy
| | - Antonio Rizzo
- CNR – Consiglio Nazionale delle Ricerche
- Istituto per i Processi Chimico Fisici (IPCF-CNR)
- I-56124 Pisa
- Italy
| | - Na Lin
- State Key Laboratory of Crystal Materials
- Shandong University
- 250100 Jinan
- P. R. China
| | - Xian Zhao
- State Key Laboratory of Crystal Materials
- Shandong University
- 250100 Jinan
- P. R. China
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22
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Padula D, Santoro F, Pescitelli G. A simple dimeric model accounts for the vibronic ECD spectra of chiral polythiophenes in their aggregated states. RSC Adv 2016. [DOI: 10.1039/c6ra05500a] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Aggregates of chiral polythiophenes (PTs) show exciton-coupled electronic circular dichroism (ECD) spectra with a unique vibronic structure, which can be reproduced by quantum dynamical simulations on the coupled states of small dimeric models.
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Affiliation(s)
- Daniele Padula
- Università di Pisa
- Dipartimento di Chimica e Chimica Industriale Via G. Moruzzi 13
- I-56124 Pisa
- Italy
| | - Fabrizio Santoro
- Consiglio Nazionale delle Ricerche – CNR
- Istituto di Chimica dei Composti Organo Metallici (ICCOM-CNR)
- UOS di Pisa
- I-56124 Pisa
- Italy
| | - Gennaro Pescitelli
- Università di Pisa
- Dipartimento di Chimica e Chimica Industriale Via G. Moruzzi 13
- I-56124 Pisa
- Italy
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23
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Cerezo J, Avila Ferrer FJ, Prampolini G, Santoro F. Modeling Solvent Broadening on the Vibronic Spectra of a Series of Coumarin Dyes. From Implicit to Explicit Solvent Models. J Chem Theory Comput 2015; 11:5810-25. [DOI: 10.1021/acs.jctc.5b00870] [Citation(s) in RCA: 56] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Javier Cerezo
- Istituto
di Chimica dei Composti OrganoMetallici, Consiglio Nazionale delle Richerche (ICCOM-CNR), Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
| | - Francisco J. Avila Ferrer
- Istituto
di Chimica dei Composti OrganoMetallici, Consiglio Nazionale delle Richerche (ICCOM-CNR), Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
- Physical
Chemistry, Faculty of Science, University of Málaga, Málaga 29071, Spain
| | - Giacomo Prampolini
- Istituto
di Chimica dei Composti OrganoMetallici, Consiglio Nazionale delle Richerche (ICCOM-CNR), Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
| | - Fabrizio Santoro
- Istituto
di Chimica dei Composti OrganoMetallici, Consiglio Nazionale delle Richerche (ICCOM-CNR), Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
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24
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Petrone A, Cerezo J, Ferrer FJA, Donati G, Improta R, Rega N, Santoro F. Absorption and Emission Spectral Shapes of a Prototype Dye in Water by Combining Classical/Dynamical and Quantum/Static Approaches. J Phys Chem A 2015; 119:5426-38. [DOI: 10.1021/jp510838m] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Alessio Petrone
- Dipartimento di
Scienze Chimiche, Università di Napoli ‘Federico II’, Complesso Universitario di M.S. Angelo, via Cintia, I-80126 Napoli, Italy
| | - Javier Cerezo
- CNR−Consiglio
Nazionale delle Ricerche, Istituto di Chimica dei Composti Organometallici (ICCOM-CNR), UOS di Pisa, Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
| | - Francisco J. Avila Ferrer
- CNR−Consiglio
Nazionale delle Ricerche, Istituto di Chimica dei Composti Organometallici (ICCOM-CNR), UOS di Pisa, Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
- Physical Chemistry, Faculty of Science, University of Málaga, Málaga, 29071, Spain
| | - Greta Donati
- Dipartimento di
Scienze Chimiche, Università di Napoli ‘Federico II’, Complesso Universitario di M.S. Angelo, via Cintia, I-80126 Napoli, Italy
| | - Roberto Improta
- CNR−Consiglio
Nazionale delle Ricerche, Istituto di Biostrutture e Bioimmagini (IBB-CNR), via Mezzocannone 16, I-80136 Napoli, Italy
| | - Nadia Rega
- Dipartimento di
Scienze Chimiche, Università di Napoli ‘Federico II’, Complesso Universitario di M.S. Angelo, via Cintia, I-80126 Napoli, Italy
- Italian Institute
of Technology, IIT@CRIB Center for Advanced Biomaterials for Healthcare, Largo Barsanti e Matteucci, I-80125 Napoli, Italy
| | - Fabrizio Santoro
- CNR−Consiglio
Nazionale delle Ricerche, Istituto di Chimica dei Composti Organometallici (ICCOM-CNR), UOS di Pisa, Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy
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