1
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Ahsin A, Ejaz I, Sarfaraz S, Ayub K, Ma H. Polaron Formation in Conducting Polymers: A Novel Approach to Designing Materials with a Larger NLO Response. ACS OMEGA 2024; 9:14043-14053. [PMID: 38559943 PMCID: PMC10976349 DOI: 10.1021/acsomega.3c09468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/27/2023] [Revised: 01/25/2024] [Accepted: 03/07/2024] [Indexed: 04/04/2024]
Abstract
Substantial efforts have been made to design and investigate new approaches for high-performance nonlinear optical (NLO) materials. Herein, we report polaron formation in conducting polymers as a new approach to designing materials with a large NLO response. A comparative study of polypyrrole and polypyrrole-based polaron (nPy+ where n = 1, 3, 5, 7, and 9) is carried out for optoelectronic and NLO properties. The studied polarons (PPy+) show excellent electronic properties and have reduced ionization potential (IP) as compared to neutral PPy, and a monotonic decrease is observed with increased chain lengths (1Py to 9Py). Interesting trends of global reactivity descriptors can be seen; the softness (S) increases with an increase in the chain length of PPy, while the hardness (η) decreases in the same fashion. The EH-L gaps for the PPy+ polaronic state are significantly lower than their corresponding neutral PPy. In the polaronic model (PPy+), radicals decisively reduce the crucial excitation energy, reminiscent of excess electrons (alkali metals). The performed TDOS spectral analysis further justifies the better conductive and electronic properties of polarons (PPy+) with increased chain lengths (conjugation). The static hyperpolarizability response (βo) is recorded up to 1.3 × 102 au for 9Py, while for polaron 9Py+, it has increased up to 3.2 × 104 au. The static hyperpolarizability of the 9Py+ polaronic state is 246 times higher than that of the corresponding neutral analogue, 9Py. It is observed that the values of βo obtained at the CAM-B3LYP/6-311+G(d,p) level of theory are comparable to those obtained at the LC-BLYP and ωB97XD functionals. The βvec values show a strong correlation with the total hyperpolarizability (βo). Furthermore, the calculated second harmonic generation (SHG) values are up to 4.0 × 106 au at 532 nm, whereas electro-optic Pockel's effect (EOPE) is much more pronounced at the smaller dispersion frequency (1064 nm). The TD-DFT study reveal the red-shifted absorption maxima (λmax) with an increased length of PPy+. A significant reduction in excitation energy (ΔE) is observed with increased length of PPy and PPy+, which also favors the improved NLO response. Hence, the studied thermally conducting polypyrrole-based polarons (PPy+) are new entries into NLO materials with better electrical and optical features.
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Affiliation(s)
- Atazaz Ahsin
- Beijing
National Laboratory for Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
- School
of Chemical Sciences, University of Chinese
Academy of Sciences, Beijing 100049, China
| | - Iqra Ejaz
- Department
of Chemistry, COMSATS University Islamabad, Abbottabad Campus, Abbottabad KPK, 22060, Pakistan
| | - Sehrish Sarfaraz
- Department
of Chemistry, COMSATS University Islamabad, Abbottabad Campus, Abbottabad KPK, 22060, Pakistan
| | - Khurshid Ayub
- Department
of Chemistry, COMSATS University Islamabad, Abbottabad Campus, Abbottabad KPK, 22060, Pakistan
| | - Haitao Ma
- Beijing
National Laboratory for Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
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2
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Malinge A, Kumar S, Chen D, Zysman-Colman E, Kéna-Cohen S. Heavy Atom Effect in Halogenated mCP and Its Influence on the Efficiency of the Thermally Activated Delayed Fluorescence of Dopant Molecules. THE JOURNAL OF PHYSICAL CHEMISTRY. C, NANOMATERIALS AND INTERFACES 2024; 128:1122-1130. [PMID: 38293694 PMCID: PMC10823469 DOI: 10.1021/acs.jpcc.3c05567] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Revised: 12/14/2023] [Accepted: 12/15/2023] [Indexed: 02/01/2024]
Abstract
In this study, we explore the impact of halogen functionalization on the photophysical properties of the commonly used organic light-emitting diode (OLED) host material, 1,3-bis(N-carbazolyl)benzene (mCP). Derivatives with different numbers and types of halogen substituents on mCP were synthesized. By measuring steady-state and transient photoluminescence at 6 K, we study the impact of the type, number, and position of the halogens on the intersystem crossing and phosphorescence rates of the compounds. In particular, the functionalization of mCP with 5 bromine atoms results in a significant increase of the intersystem crossing rate by a factor of 300 to a value of (1.5 ± 0.1) × 1010 s-1, and the phosphorescence rate increases by 2 orders of magnitude. We find that the singlet radiative decay rate is not significantly modified in any of the studied compounds. In the second part of the paper, we describe the influence of these compounds on the reverse intersystem crossing of the 7,10-bis(4-(diphenylamino)phenyl)-2,3-dicyanopyrazino-phenanthrene (TPA-DCPP), a TADF guest, via the external heavy atom effect. Their use results in an increase of the reverse intersystem crossing (RISC) rate from (8.1 ± 0.8) × 103 s-1 for mCP to (2.7 ± 0.1) × 104 s-1 for mCP with 5 bromine atoms. The effect is even more pronounced for the mCP analogue containing a single iodine atom, which gives a RISC rate of (3.3 ± 0.1) × 104 s-1. Time-dependent DFT calculations reveal the importance of the use of long-range corrected functionals to predict the effect of halogenation on the optical properties of the mCP, and the relativistic approximation (ZORA) is used to provide insight into the strength of the spin-orbit coupling matrix element between the lowest-lying excited singlet and triplet states in the different mCP compounds.
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Affiliation(s)
- Alexandre Malinge
- Department
of Engineering Physics, École Polytechnique
de Montréal, PO Box 6079, succ. Centre-Ville, Montreal QC H3C 3A7, Canada
| | - Shiv Kumar
- Organic
Semiconductor Centre, EaStCHEM, School of Chemistry, University of St Andrews, St Andrews, Fife KY16 9ST, United Kingdom
| | - Dongyang Chen
- Organic
Semiconductor Centre, EaStCHEM, School of Chemistry, University of St Andrews, St Andrews, Fife KY16 9ST, United Kingdom
| | - Eli Zysman-Colman
- Organic
Semiconductor Centre, EaStCHEM, School of Chemistry, University of St Andrews, St Andrews, Fife KY16 9ST, United Kingdom
| | - Stéphane Kéna-Cohen
- Department
of Engineering Physics, École Polytechnique
de Montréal, PO Box 6079, succ. Centre-Ville, Montreal QC H3C 3A7, Canada
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3
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Fu L, Huang H, Zuo Z, Peng Y. A Single Organic Fluorescent Probe for the Discrimination of Dual Spontaneous ROS in Living Organisms: Theoretical Approach. Molecules 2023; 28:6983. [PMID: 37836826 PMCID: PMC10574373 DOI: 10.3390/molecules28196983] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2023] [Revised: 09/19/2023] [Accepted: 10/02/2023] [Indexed: 10/15/2023] Open
Abstract
Single-organic-molecule fluorescent probes with double-lock or even multi-lock response modes have attracted the attention of a wide range of researchers. The number of corresponding reports has rapidly increased in recent years. The effective application of the multi-lock response mode single-molecule fluorescent probe has improved the comprehensive understanding of the related targets' functions or influences in pathologic processes. Building a highly efficient functional single-molecule fluorescent probe would benefit the diagnosis and treatment of corresponding diseases. Here, we conducted a theoretical analysis of the synthesizing and sensing mechanism of this kind of functional single-molecule fluorescent probe, thereby guiding the design and building of new efficient probes. In this work, we discuss in detail the electronic structure, electron excitation, and fluorescent character of a recently developed single-molecule fluorescent probe, which could achieve the discrimination and profiling of spontaneous reactive oxygen species (ROS, •OH, and HClO) simultaneously. The theoretical results provide insights that will help develop new tools for fluorescent diagnosis in biological and medical fields.
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Affiliation(s)
| | | | | | - Yongjin Peng
- Modern Industry School of Health Management, Jinzhou Medical University, Jinzhou 121001, China
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4
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Rajapakse RMG, Horrocks BR, Malikaramage AU, Gunarathna HMNP, Egodawele MGSAMEWDDK, Jayasinghe JMS, Ranatunga U, Herath WHMRNK, Sandakelum L, Wylie S, Abewardana PGPR, Seneviratne VN, Perera LLK, Velauthapillai D. Berberine isolation from Coscinium fenestratum: optical, electrochemical, and computational studies. RSC Adv 2023; 13:17062-17073. [PMID: 37293467 PMCID: PMC10245225 DOI: 10.1039/d3ra01769a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Accepted: 05/22/2023] [Indexed: 06/10/2023] Open
Abstract
Berberine was extracted from Coscinium fenestratum (tree turmeric) and purified by column chromatography. The UV-Vis absorption spectroscopy of berberine was studied in acetonitrile and aqueous media. TD-DFT calculations employing the B3LYP functional were found to reproduce the general features of the absorption and emission spectra correctly. The electronic transitions to the first and second excited singlet states involve a transfer of electron density from the electron donating methylenedioxy phenyl ring to the electron accepting isoquinolium moiety. An estimate of the electrochemical gap (2.64 V) was obtained from microelectrode voltammetry and good agreement was found with quantum chemical calculations using the cc-pVTZ basis set and the B3LYP, CAM-B3LYP and wB97XD functionals. The calculations indicate spin density of the radical dication is delocalised over the molecule. These basic data are useful for assessment of the synthesis of donor-acceptor polymeric materials employing oxidative polymerization or co-polymerisation of berberine.
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Affiliation(s)
- R M Gamini Rajapakse
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - Benjamin R Horrocks
- School of Natural and Environmental Sciences, Newcastle University Newcastle Upon Tyne NE1 4LB UK
| | - A U Malikaramage
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - H M N P Gunarathna
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | | | - J M Susanthi Jayasinghe
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - Udayana Ranatunga
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - W H M R N K Herath
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - Lahiru Sandakelum
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - Shane Wylie
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - P G P R Abewardana
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - V N Seneviratne
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - L L K Perera
- Department of Chemistry, Faculty of Science, University of Peradeniya Peradeniya 20400 Sri Lanka
| | - D Velauthapillai
- Advanced Nanomaterials for Clean Energy and Health Applications, Faculty of Engineering and Science, Western Norway University of Applied Sciences Campus Bergen, Kronstad Bergen D412 Norway
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5
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Reza-González FA, Villatoro E, Reza MM, Jara-Cortés J, García-Ortega H, Blanco-Acuña EF, López-Cortés JG, Esturau-Escofet N, Aguirre-Soto A, Peon J. Two-photon isomerization properties of donor-acceptor Stenhouse adducts. Chem Sci 2023; 14:5783-5794. [PMID: 37265740 PMCID: PMC10231324 DOI: 10.1039/d3sc01223a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Accepted: 04/21/2023] [Indexed: 06/03/2023] Open
Abstract
Donor-acceptor Stenhouse adducts (DASAs) are important photo-responsive molecules that undergo electrocyclic reactions after light absorption. From these properties, DASAs have received extensive attention as photo-switches with negative photochromism. Meanwhile, several photochemical applications require isomerization events to take place in highly localized volumes at variable depths. Such focused photoreactions can be achieved if the electronic excitation is induced through a non-linear optical process. In this contribution we describe DASAs substituted with extended donor groups which provide them with significant two-photon absorption properties. We characterized the photo-induced transformation of these DASAs from the open polymethinic form to their cyclopentenic isomer with the use of 800 nm femtosecond pulses. These studies verified that the biphotonic excitation produces equivalent photoreactions as linear absorbance. We also determined these DASAs' two-photon absorption cross sections from measurements of their photoconverted yield after biphotonic excitation. As we show, specific donor sections provide these systems with important biphotonic cross-sections as high as 615 GM units. Such properties make these DASAs among the most non-linearly active photo-switchable molecules. Calculations at the TDDFT level with the optimally tuned range-separated functional OT-CAM-B3LYP, together with quadratic response methods indicate that the non-linear photochemical properties in these molecules involve higher lying electronic states above the first excited singlet. This result is consistent with the observed relation between their two-photon chemistry and the onset of their short wavelength absorption features around 400 nm. This is the first report of the non-linear photochemistry of DASAs. The two-photon isomerization properties of DASAs extend their applications to 3D-photocontrol, non-linear lithography, variable depth birefringence, and localized drug delivery schemes.
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Affiliation(s)
| | - Emmanuel Villatoro
- Instituto de Química, Universidad Nacional Autónoma de México Ciudad de México Mexico
| | - Mariana M Reza
- Instituto de Química, Universidad Nacional Autónoma de México Ciudad de México Mexico
| | - Jesús Jara-Cortés
- Unidad Académica de Ciencias Básicas e Ingenierías, Universidad Autónoma de Nayarit Tepic 63155 Mexico
| | - Héctor García-Ortega
- Facultad de Química, Universidad Nacional Autónoma de México Ciudad de México Mexico
| | - Edgard F Blanco-Acuña
- Facultad de Química, Universidad Nacional Autónoma de México Ciudad de México Mexico
| | - José G López-Cortés
- Instituto de Química, Universidad Nacional Autónoma de México Ciudad de México Mexico
| | - Nuria Esturau-Escofet
- Instituto de Química, Universidad Nacional Autónoma de México Ciudad de México Mexico
| | - Alan Aguirre-Soto
- School of Engineering and Sciences, Tecnologico de Monterrey Monterey Nuevo Leon Mexico
| | - Jorge Peon
- Instituto de Química, Universidad Nacional Autónoma de México Ciudad de México Mexico
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6
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Han J, Cui H, Du B, Zheng Y, Feng G, Ye J. Liquid-solid phase regulating excited-state intramolecular proton transfer process of HBT-d-NO 2: A QM/MM study. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 298:122804. [PMID: 37167801 DOI: 10.1016/j.saa.2023.122804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Revised: 04/10/2023] [Accepted: 04/26/2023] [Indexed: 05/13/2023]
Abstract
The excited-state intramolecular proton transfer process of 2-(1,3-benzothiazol-2-yl)-4-[2-(4-nitrophenyl)ethynyl]phenol (HBT-d-NO2) in the different surrounding environment is investigated using density functional theory (DFT) and time-dependent density functional theory (TDDFT). The optimized molecular structure provides convincing evidence that the intramolecular hydrogen bond is strengthened in the first excited (S1) state. The frontier molecular orbitals observed the HBT-d-NO2 exists obvious intramolecular charge translate phenomenon. The results of the potential energy curve show that HBT-d-NO2 is difficult to undergo proton transfer in the ground (S0) state due to the high energy barrier, while it becomes easier in the S1 state in both liquid and solid phases. By comparison, the energy barrier of ESIPT in the solid phase is higher than that in the liquid phase. We can conclude that the solid phase effectively hinders the ESIPT process compared with that the liquid phase. In this work, we illustrate the influence of liquid and solid phases on the intramolecular proton transfer process, which could promote further developments in biomedical and fluorophore applications.
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Affiliation(s)
- Jianhui Han
- State Key Laboratory of Laser Propulsion & Application, Department of Aerospace Science Technology, Space Engineering University, Beijing 101416, China.
| | - Haichao Cui
- State Key Laboratory of Laser Propulsion & Application, Department of Aerospace Science Technology, Space Engineering University, Beijing 101416, China
| | - Baosheng Du
- State Key Laboratory of Laser Propulsion & Application, Department of Aerospace Science Technology, Space Engineering University, Beijing 101416, China
| | - Yongzan Zheng
- State Key Laboratory of Laser Propulsion & Application, Department of Aerospace Science Technology, Space Engineering University, Beijing 101416, China
| | - Gaoping Feng
- State Key Laboratory of Laser Propulsion & Application, Department of Aerospace Science Technology, Space Engineering University, Beijing 101416, China
| | - Jifei Ye
- State Key Laboratory of Laser Propulsion & Application, Department of Aerospace Science Technology, Space Engineering University, Beijing 101416, China
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7
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Schrader T, Perlt E, Fritz T, Sierka M. Performance of Common Density Functionals for Excited States of Tetraphenyldibenzoperiflanthene. J Phys Chem A 2023; 127:3265-3273. [PMID: 37037005 DOI: 10.1021/acs.jpca.2c06715] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
Abstract
Time-dependent density functional theory is the method of choice to efficiently calculate excitation spectra with the functional and basis set choice allowing one to compromise between accuracy and computational cost. In this work, the performance of different functionals as well as the second-order approximate coupled cluster singles and doubles model CC2 is evaluated by comparing the results to experimental results of the example molecule tetraphenyldibenzoperiflanthene (DBP). The choice of the functional has a significant impact on the calculated spectrum of DBP. The performance of a number of different functionals was evaluated, quantified, and, where possible, discussed. The best functional, tuned-CAM-B3LYP, is used to investigate DBP on a surface of hexagonal boron nitride (h-BN). The resulting spectrum shows excellent agreement with experimental results for a monolayer of DBP on h-BN.
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Affiliation(s)
- Tim Schrader
- Otto Schott Institute of Materials Research, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Eva Perlt
- Otto Schott Institute of Materials Research, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Torsten Fritz
- Institute of Solid State Physics, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Marek Sierka
- Otto Schott Institute of Materials Research, Friedrich Schiller University Jena, 07743 Jena, Germany
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8
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Geometric, Electronic, and Optoelectronic Properties of Carbon-Based Polynuclear C 3O[C(CN) 2] 2M 3 (where M = Li, Na, and K) Clusters: A DFT Study. Molecules 2023; 28:molecules28041827. [PMID: 36838816 PMCID: PMC9965956 DOI: 10.3390/molecules28041827] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 02/05/2023] [Accepted: 02/06/2023] [Indexed: 02/17/2023] Open
Abstract
Carbon-based polynuclear clusters are designed and investigated for geometric, electronic, and nonlinear optical (NLO) properties at the CAM-B3LYP/6-311++G(d,p) level of theory. Significant binding energies per atom (ranging from -162.4 to -160.0 kcal mol-1) indicate excellent thermodynamic stabilities of these polynuclear clusters. The frontier molecular orbital (FMOs) analysis indicates excess electron nature of the clusters with low ionization potential, suggesting that they are alkali-like. The decreased energy gaps (EH-L) with increased alkali metals size revael the improved electrical conductivity (σ). The total density of state (TDOS) study reveals the alkali metals' size-dependent electronic and conductive properties. The significant first and second hyperpolarizabilities are observed up to 5.78 × 103 and 5.55 × 106 au, respectively. The βo response shows dependence on the size of alkali metals. Furthermore, the absorption study shows transparency of these clusters in the deep-UV, and absorptions are observed at longer wavelengths (redshifted). The optical gaps from TD-DFT are considerably smaller than those of HOMO-LUMO gaps. The significant scattering hyperpolarizability (βHRS) value (1.62 × 104) is calculated for the C3 cluster, where octupolar contribution to βHRS is 92%. The dynamic first hyperpolarizability β(ω) is more pronounced for the EOPE effect at 532 nm, whereas SHG has notable values for second hyperpolarizability γ(ω).
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9
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Hussain A, Hadia N, Hessien M, Khera RA, Zahid S, Shehzad RA, Ayub AR, Ayub K, Iqbal J. DFT study of super-halogen (Al7) doped carbon nitride (C2N) and its nonlinear optical properties. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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10
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Synthesis, experimental antimicrobial activity, theoretical vibrational analysis, quantum chemical modeling and molecular docking studies of (E)-4-(benzylideneamino)benzenesulfonamide. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133187] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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11
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Tučková L, Straka M, Valiev RR, Sundholm D. On the origin of the inverted singlet-triplet gap of the 5th generation light-emitting molecules. Phys Chem Chem Phys 2022; 24:18713-18721. [PMID: 35899835 DOI: 10.1039/d2cp02364d] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Excitation energies of the lowest singlet and triplet state of molecules whose first excited singlet state lies energetically below the first triplet state have been studied computationally at (time-dependent) density functional theory, coupled-cluster, and second-order multiconfiguration perturbation theory levels. The calculations at the ab initio levels show that the singlet-triplet gap is inverted as compared to the one expected from Hund's rule, whereas all density functionals yield the triplet state as the lowest excited state. Double excitations responsible for the inverted singlet-triplet gap have been identified. Employing the spin-flip and ΔSCF methods, singlet-triplet inversion was obtained at the density functional theory level for some of the studied molecules.
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Affiliation(s)
- Lucie Tučková
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo nám. 2, CZ-16610 Prague, Czech Republic.
| | - Michal Straka
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo nám. 2, CZ-16610 Prague, Czech Republic.
| | - Rashid R Valiev
- Department of Chemistry, Faculty of Science, University of Helsinki, A. I. Virtanens plats 1, P.O. Box 55, FI-00014 Helsinki, Finland.
| | - Dage Sundholm
- Department of Chemistry, Faculty of Science, University of Helsinki, A. I. Virtanens plats 1, P.O. Box 55, FI-00014 Helsinki, Finland.
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12
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Pooventhiran T, Gangadharappa BS, Abu Ali OA, Thomas R, Saleh DI. Study of the structural features and solvent effects using ab initio molecular dynamics and energy decomposition analysis of atogepant in water and ammonia. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.118672] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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13
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ZHU ZHE, Higashi M, Saito S. Excited states of chlorophyll a and b in solution by time-dependent density functional theory. J Chem Phys 2022; 156:124111. [DOI: 10.1063/5.0083395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The ground state and excited state electronic properties of chlorophyll (Chl) a and Chl b in diethyl ether, acetone, and ethanol solutions are investigated using quantum mechanical and molecular mechanical calculations with density functional theory (DFT) and time-dependent DFT (TDDFT). Although the DFT/TDDFT methods are widely used, the electronic structures of molecules, especially large molecules, calculated with these methods are known to be strongly dependent on the functionals and the parameters used in functionals. Here, we optimize the range-separated parameter, µ, of the CAM-B3LYP functional of Chl a and Chl b to reproduce the experimental excitation energy differences of these Chl molecules in solution. The optimal values of µ for Chl a and Chl b are smaller than the default value of µ and that for bacteriochlorophyll a, indicating the change in electronic distribution, i.e., an increase in electron delocalization, within the molecule. We find that the electronic distribution of Chl b with an extra formyl group is different from that of Chl a. We also find that the polarity of solution and hydrogen bond cause the decrease in the excitation energies and the increase in the widths of excitation energy distributions of Chl a and Chl b. The present results are expected to be useful for understanding the electronic properties of each pigment molecule in a local heterogeneous environment, which will play an important role in the excitation energy transfer in light-harvesting complex II.
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Affiliation(s)
| | - Masahiro Higashi
- Department of Molecular Engineering, Kyoto University - Katsura Campus, Japan
| | - Shinji Saito
- Department of Theoretical and Computational Molecular Science, Institute for Molecular Science, Japan
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14
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Sowrirajan S, Elangovan N, Ajithkumar G, Manoj KP. (E)-4-((4-Bromobenzylidene) Amino)-N-(Pyrimidin-2-yl) Benzenesulfonamide from 4-Bromobenzaldehyde and Sulfadiazine, Synthesis, Spectral (FTIR, UV–Vis), Computational (DFT, HOMO–LUMO, MEP, NBO, NPA, ELF, LOL, RDG) and Molecular Docking Studies. Polycycl Aromat Compd 2022. [DOI: 10.1080/10406638.2021.2006245] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- S. Sowrirajan
- Department of Chemistry, King Fahd University of Petroleum and Minerals, Kingdom of Saudi Arabia
| | - N. Elangovan
- Department of Chemistry, Arignar Anna Government Arts College (Affiliated to Bharathidasan University), Musiri, Tiruchirappalli, Tamil Nadu, India
| | - G. Ajithkumar
- Department of Chemistry, Arignar Anna Government Arts College (Affiliated to Bharathidasan University), Musiri, Tiruchirappalli, Tamil Nadu, India
| | - K. P. Manoj
- Department of Chemistry, Arignar Anna Government Arts College (Affiliated to Bharathidasan University), Musiri, Tiruchirappalli, Tamil Nadu, India
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15
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Optical Spectra of Oligofurans: A Theoretical Approach to the Transition Energies, Reorganization Energies, and the Vibronic Activity. Molecules 2021; 26:molecules26237163. [PMID: 34885747 PMCID: PMC8659192 DOI: 10.3390/molecules26237163] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2021] [Revised: 11/18/2021] [Accepted: 11/22/2021] [Indexed: 11/17/2022] Open
Abstract
There is experimental evidence of high vibronic activity that accompanies the allowed transition between the ground state and the lowest electronic singlet excited state of oligofurans that contain two, three, and four furan rings. The absorption and emission spectra of the three lowest oligofurans measured at liquid nitrogen temperature show distinct fine structures that are reproduced using the projection-based model of vibronic coupling (with Dushinsky rotation included) parameterized utilizing either Density Functional Theory (DFT, with several different exchange-correlation functionals) or ab initio (CC2) quantum chemistry calculations. Using as a reference the experimental data concerning the electronic absorption and fluorescence for the eight lowest oligofurans, we first analyzed the performance of the exchange-correlation functionals for the electronic transition energies and the reorganization energies. Subsequently, we used the best functionals alongside with the CC2 method to explore how the reorganization energies are distributed among the totally symmetric vibrations, identify the normal modes that dominate in the fine structures present in the absorption and emission bands, and trace their evolution with the increasing number of rings in the oligofuran series. Confrontation of the simulated spectra with the experiment allows for the verification of the performance of the selected DFT functionals and the CC2 method.
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Synthesis of three quasi liquid Schiff bases between hexanal and adenine, cytosine, and l-leucine, structural interpretation, quantum mechanical studies and biological activity prediction. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.117305] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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17
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Elangovan N, Thomas R, Sowrirajan S, Manoj KP, Irfan A. Synthesis, Spectral Characterization, Electronic Structure and Biological Activity Screening of the Schiff Base 4-((4-Hydroxy-3-Methoxy-5-Nitrobenzylidene)Amino)-N-(Pyrimidin-2-yl)Benzene Sulfonamide from 5-Nitrovaniline and Sulphadiazene. Polycycl Aromat Compd 2021. [DOI: 10.1080/10406638.2021.1991392] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- N. Elangovan
- Department of Chemistry, Arignar Anna Government Arts College, Tiruchirappalli, Tamilnadu, India
| | - Renjith Thomas
- Department of Chemistry, St Berchmans College (Autonomous), Changanassery, Kerala, India
| | - S. Sowrirajan
- Department of Chemistry, King Fahd University of Petroleum and Minerals, Dhahran, Saudi Arabia
| | - K. P. Manoj
- Department of Chemistry, Arignar Anna Government Arts College, Tiruchirappalli, Tamilnadu, India
| | - Ahmad Irfan
- Research Center for Advanced Materials Science (RCAMS), King Khalid University, Abha, Saudi Arabia
- Department of Chemistry, Faculty of Science, King Khalid University, Abha, Saudi Arabia
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Elangovan N, Sowrirajan S, Manoj K, Kumar AM. Synthesis, structural investigation, computational study, antimicrobial activity and molecular docking studies of novel synthesized (E)-4-((pyridine-4-ylmethylene)amino)-N-(pyrimidin-2-yl)benzenesulfonamide from pyridine-4-carboxaldehyde and sulfadiazine. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2021.130544] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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Visually detecting cyanide ion in aqueous solution sensitively and selectively using a merocyanine salt with the help of a smartphone. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2021.130757] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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20
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Ahsin A, Ayub K. Extremely large static and dynamic nonlinear optical response of small superalkali clusters NM 3M' (M, M'=Li, Na, K). J Mol Graph Model 2021; 109:108031. [PMID: 34536836 DOI: 10.1016/j.jmgm.2021.108031] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2021] [Revised: 08/14/2021] [Accepted: 09/05/2021] [Indexed: 10/20/2022]
Abstract
Exploring novel nonlinear optical (NLO) materials with excess electron properties is essential for advancing the use of excess electron compounds in optics. The studied superalkali clusters NM3M' (M, M' = Li, Na, K) are thermodynamically stable and their binding energies range from -27.10 to -53.84 kcal mol-1. The observed significant values for VIPs suggest their electronic stabilities. Being excess electron candidate these clusters show significant βo value (3.9 × 107 au), which nicely correlates the hyperpolarizability reported by a two-level model (βtl). Furthermore, these clusters exhibit a remarkable static second hyperpolarizability (γo) value of 1.1 × 1010 au for the NK4 superalkali cluster. The hyper Rayleigh scattering (βHRS) is also computed where the highest value of 2.9 × 107 is recorded for NNa3K superalkali. The obtained values of βvec values (projection of hyperpolarizability on dipole moment vector) also signify the excellent nonlinearity of clusters. Besides, the calculated electro-optica pockel's effect β(-ω; ω,0) and second harmonic generation β(-2ω; ω, ω) values are much pronounced at larger dispersion frequency ω = 1064 nm. Moreover, the frequency-dependent second hyperpolarizability γ(ω) with dc-Kerr effect γ(-ω; ω,0,0) and electric field induced second harmonic generation γ(-2ω; ω,ω,0) show larger values at ω = 1064 nm. Thus the highest value of the dc-Kerr constant increases up to 1.0 × 1011 au which also signifies the larger nonlinear refractive index of the studied cluster. We hope this work could open up new possibilities using superalkali clusters as NLO materials for optoelectronics, laser, second harmonic generation and as frequency doubler.
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Affiliation(s)
- Atazaz Ahsin
- Department of Chemistry, COMSATS University Islamabad, Abbottabad Campus, Abbottabad, KPK, 22060, Pakistan
| | - Khurshid Ayub
- Department of Chemistry, COMSATS University Islamabad, Abbottabad Campus, Abbottabad, KPK, 22060, Pakistan.
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Wong ZC, Ungur L. Exploring vibronic coupling in the benzene radical cation and anion with different levels of the GW approximation. Phys Chem Chem Phys 2021; 23:19054-19070. [PMID: 34612443 DOI: 10.1039/d1cp02795f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The linear vibronic coupling constants of the benzene radical cation and anion have been obtained with different levels of the GW approximation, including G0W0, eigenvalue self-consistent GW, and quasiparticle self-consistent GW, as well as DFT with the following exchange-correlation functionals: BLYP, B3LYP, CAM-B3LYP, tuned CAM-B3LYP, and an IP-tuned CAM-B3LYP functional. The vibronic coupling constants were calculated numerically using the gradients of the eigenvalues of the degenerate HOMOs and LUMOs of the neutral benzene molecule for DFT, while the numerical gradients of the quasiparticle energies were used in the case of GW. The results were evaluated against those of high level wave function methods in the literature, and the approximate self-consistent GW methods and G0W0 with long-range corrected functionals were found to yield the best results on the whole.
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Affiliation(s)
- Zi Cheng Wong
- Department of Chemistry, National University of Singapore, Block S8 Level 3, 3 Science Drive 3, 117543, Singapore.
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Elangovan N, Sowrirajan S. Synthesis, single crystal (XRD), Hirshfeld surface analysis, computational study (DFT) and molecular docking studies of (E)-4-((2-hydroxy-3,5-diiodobenzylidene)amino)-N-(pyrimidine)-2-yl) benzenesulfonamide. Heliyon 2021; 7:e07724. [PMID: 34458601 PMCID: PMC8379672 DOI: 10.1016/j.heliyon.2021.e07724] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2021] [Revised: 07/14/2021] [Accepted: 08/03/2021] [Indexed: 12/15/2022] Open
Abstract
The Schiff base (E)-4-((2-hydroxy-3,5-diiodobenzylidene)amino)-N-(pyrimidine)-2-yl) benzene sulfonamide (DIDA) compound was synthesis with condensation of 3,5-diiodosalicylaldehyde and sulfadiazine. The compound characterized with FTIR, X-ray crystallography and electronic spectra. The titled compound associated with experimental and theoretical method, DFT used for the theoretical method. The IR was calculated from DFT mode with B3LYP/GENSEP basic set. The electronic spectra computed from TD-DFT method with CAM-B3LYP functional, with IEFPCM solvation model and DMSO used as the solvent. Wave function based properties like localized orbital locator, electron localization function and non-covalent interactions have been studied extensively. The ADMET properties of the compound DIDA indicated that the compound has excellent drug likeness properties and PASS studies showed that it has anti-infective properties, which is confirmed by a docking score of -7.4 kcal/mol.
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Affiliation(s)
- N Elangovan
- Department of Chemistry, Arignar Anna Government Arts College, Musiri 621211, Bharathidasan University, Tiruchirappalli, Tamilnadu, India
| | - S Sowrirajan
- Department of Chemistry, King Fahd University of Petroleum and Minerals, Dhahran 31261, Saudi Arabia
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"On-The-Fly" Non-Adiabatic Dynamics Simulations on Photoinduced Ring-Closing Reaction of a Nucleoside-Based Diarylethene Photoswitch. Molecules 2021; 26:molecules26092724. [PMID: 34066431 PMCID: PMC8125013 DOI: 10.3390/molecules26092724] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2021] [Revised: 04/29/2021] [Accepted: 05/03/2021] [Indexed: 11/17/2022] Open
Abstract
Nucleoside-based diarylethenes are emerging as an especial class of photochromic compounds that have potential applications in regulating biological systems using noninvasive light with high spatio-temporal resolution. However, relevant microscopic photochromic mechanisms at atomic level of these novel diarylethenes remain to be explored. Herein, we have employed static electronic structure calculations (MS-CASPT2//M06-2X, MS-CASPT2//SA-CASSCF) in combination with non-adiabatic dynamics simulations to explore the related photoinduced ring-closing reaction of a typical nucleoside-based diarylethene photoswitch, namely, PS-IV. Upon excitation with UV light, the open form PS-IV can be excited to a spectroscopically bright S1 state. After that, the molecule relaxes to the conical intersection region within 150 fs according to the barrierless relaxed scan of the C1–C6 bond, which is followed by an immediate deactivation to the ground state. The conical intersection structure is very similar to the ground state transition state structure which connects the open and closed forms of PS-IV, and therefore plays a crucial role in the photochromism of PS-IV. Besides, after analyzing the hopping structures, we conclude that the ring closing reaction cannot complete in the S1 state alone since all the C1–C6 distances of the hopping structures are larger than 2.00 Å. Once hopping to the ground state, the molecules either return to the original open form of PS-IV or produce the closed form of PS-IV within 100 fs, and the ring closing quantum yield is estimated to be 56%. Our present work not only elucidates the ultrafast photoinduced pericyclic reaction of the nucleoside-based diarylethene PS-IV, but can also be helpful for the future design of novel nucleoside-based diarylethenes with better performance.
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Kumar A, Kumar R, Kumar S. Cyanide‐Ion‐Induced J‐Aggregation of Merocyanine Dye for Paper‐Based Colorimetric Detection in Water. ChemistrySelect 2021. [DOI: 10.1002/slct.202100147] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Arvind Kumar
- Department of Chemistry, St. Stephen's College (University of Delhi) University Enclave Delhi 110007 India
| | - Rajesh Kumar
- Defence Laboratory Jodhpur Jodhpur 342011 Rajasthan India
| | - Satish Kumar
- Department of Chemistry, St. Stephen's College (University of Delhi) University Enclave Delhi 110007 India
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Alharthi FA, Al-Zaqri N, Alsalme A, Al-Taleb A, Pooventhiran T, Thomas R, Rao DJ. Excited-state electronic properties, structural studies, noncovalent interactions, and inhibition of the novel severe acute respiratory syndrome coronavirus 2 proteins in Ripretinib by first-principle simulations. J Mol Liq 2021; 324:115134. [PMID: 33390634 PMCID: PMC7765765 DOI: 10.1016/j.molliq.2020.115134] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2020] [Revised: 12/16/2020] [Accepted: 12/18/2020] [Indexed: 12/02/2022]
Abstract
Ripretinib is a recently developed drug for the treatment of adults with advanced gastrointestinal stromal tumors. This paper reports an attempt to study this molecule by electronic modeling and molecular mechanics to determine its composition and other specific chemical features via the density-functional theory (DFT), thereby affording sufficient information on the electronic properties and descriptors that can enable the estimation of its molecular bioactivity. We explored most of the physico-chemical properties of the molecule, as well as its stabilization, via the studies of the natural bond orbitals and noncovalent interactions. The electronic excitation, which is a time-dependent process, was examined by the time-dependent DFT with a CAM-B3LYP functional. The molecular docking study indicated that Ripretinib strongly docks with three known novel severe acute respiratory syndrome coronavirus 2 (SARS-n-CoV-2) proteins with a reasonably good docking score.
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Affiliation(s)
- Fahad A Alharthi
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Nabil Al-Zaqri
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Ali Alsalme
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Afnan Al-Taleb
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - T Pooventhiran
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
| | - Renjith Thomas
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
| | - D Jagadeeswara Rao
- Department of Physics, Dr. Lankapalli Bullayya College, Visakhapatnam, Andhra Pradesh, India
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26
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Al-Zaqri N, Pooventhiran T, Alsalme A, Rao DJ, Rao SS, Sankar A, Thomas R. First-Principle Studies of Istradefylline with Emphasis on the Stability, Reactivity, Interactions and Wavefunction-Dependent Properties. Polycycl Aromat Compd 2020. [DOI: 10.1080/10406638.2020.1857273] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Nabil Al-Zaqri
- Department of Chemistry, College of Science, King Saud University, Riyadh, Saudi Arabia
- Department of Chemistry, College of Science, Ibb University, Ibb, Yemen
| | - T. Pooventhiran
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
| | - Ali Alsalme
- Department of Chemistry, College of Science, King Saud University, Riyadh, Saudi Arabia
| | - D. Jagadeeswara Rao
- Department of Physics, Dr Lankapalli Bullayya College, Visakhapatnam, Andhra Pradesh, India
| | | | - A. Sankar
- Department of Chemistry, Kandaswami Kandar's College, Namakkal, Tamil Nadu, India
| | - Renjith Thomas
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
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27
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Alkaline earth metals serving as source of excess electron for alkaline earth metals to impart large second and third order nonlinear optical response; a DFT study. J Mol Graph Model 2020; 101:107759. [DOI: 10.1016/j.jmgm.2020.107759] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2020] [Revised: 09/15/2020] [Accepted: 09/16/2020] [Indexed: 11/20/2022]
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Alsalme A, Pooventhiran T, Al-Zaqri N, Rao DJ, Rao SS, Thomas R. Modelling the structural and reactivity landscapes of tucatinib with special reference to its wavefunction-dependent properties and screening for potential antiviral activity. J Mol Model 2020; 26:341. [PMID: 33200284 PMCID: PMC7668570 DOI: 10.1007/s00894-020-04603-1] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2020] [Accepted: 11/08/2020] [Indexed: 02/07/2023]
Abstract
HER-2 type breast cancer is one of the most aggressive malignancies found in women. Tucatinib is recently developed and approved as a potential medicine to fight this disease. In this manuscript, we present the gross structural features of this compound and its reactivity and wave function properties using computational simulations. Density functional theory was used to optimise the ground state geometry of the molecule and molecular docking was used to predict biological activity. As the electrons interact with electromagnetic radiations, electronic excitations between different energy levels are analysed in detail using time-dependent density functional theory. Various intermolecular and intermolecular interactions are analysed and reaction sites for attacking electrophiles and nucleophiles identified. Information entropy calculations show that the compound is inherently stable. Docking with COVID-19 proteins show docking score of - 9.42, - 8.93, - 8.45 and - 8.32 kcal/mol respectively indicating high interaction between the drug and proteins. Hence, this is an ideal candidate to study repurposing of existing drugs to combat the pandemic.
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Affiliation(s)
- Ali Alsalme
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh, 11451, Saudi Arabia
| | - T Pooventhiran
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
| | - Nabil Al-Zaqri
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh, 11451, Saudi Arabia
| | - D Jagadeeswara Rao
- Department of Physics, Dr. Lankapalli Bullayya College, Visakhapatnam, Andhra Pradesh, India
| | | | - Renjith Thomas
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India.
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29
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Al-Zaqri N, Pooventhiran T, Alharthi FA, Bhattacharyya U, Thomas R. Structural investigations, quantum mechanical studies on proton and metal affinity and biological activity predictions of selpercatinib. J Mol Liq 2020; 325:114765. [PMID: 33746318 PMCID: PMC7957184 DOI: 10.1016/j.molliq.2020.114765] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Revised: 10/23/2020] [Accepted: 11/10/2020] [Indexed: 02/07/2023]
Abstract
Cancer of the lungs and thyroid is particularly difficult to manage and treat. Notably, selpercatinib has recently been suggested as an effective drug to combat these diseases. The entire world is currently tackling the pandemic caused by the SARS-CoV-19 virus. Numerous pharmaceuticals have been evaluated for the management of the disease caused by SARS-CoV-19 (i.e., COVID-19). In this study, selpercatinib was proposed as a potential inhibitor of different SARS-CoV-19 proteins. Several intriguing effects of the molecule were found during the conducted computational investigations. Selpercatinib could effectively act as a proton sponge and exhibited high proton affinity in solution. Moreover, it was able to form complexes with metal ions in aqueous solutions. Specifically, the compound displayed high affinity towards zinc ions, which are important for the prevention of virus multiplication inside human cells. However, due to their charge, zinc ions are not able to pass the lipid bilayer and enter the cell. Thus, it was determined that selpercatinib could act as an ionophore, effectively transporting active zinc ions into cells. Furthermore, various quantum mechanical analyses, including energy studies, evaluation of the reactivity parameters, examination of the electron localisation and delocalisation properties, as well as assessment of the nonlinear optical (NLO) properties and information entropy, were conducted herein. The performed docking studies (docking scores -9.3169, -9.1002, -8.1853 and -8.1222 kcal mol-1) demonstrated that selpercatinib strongly bound with four isolated SARS-CoV-2 proteins.
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Affiliation(s)
- Nabil Al-Zaqri
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia.,Department of Chemistry, College of Science, Ibb University, P. O. Box 70270, Ibb, Yemen
| | - T Pooventhiran
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
| | - Fahad A Alharthi
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Utsab Bhattacharyya
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
| | - Renjith Thomas
- Department of Chemistry, St. Berchmans College (Autonomous), Changanassery, Kerala, India
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Pooventhiran T, Bhattacharyya U, Rao DJ, Chandramohan V, Karunakar P, Irfan A, Mary YS, Thomas R. Detailed spectra, electronic properties, qualitative non-covalent interaction analysis, solvatochromism, docking and molecular dynamics simulations in different solvent atmosphere of cenobamate. Struct Chem 2020. [DOI: 10.1007/s11224-020-01607-8] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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31
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Comprehensive evaluation of the effect of various exchange correlation functionals on the optical properties of oligothiophenes. COMPUT THEOR CHEM 2020. [DOI: 10.1016/j.comptc.2019.112667] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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32
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Liu C, Kloppenburg J, Yao Y, Ren X, Appel H, Kanai Y, Blum V. All-electron ab initio Bethe-Salpeter equation approach to neutral excitations in molecules with numeric atom-centered orbitals. J Chem Phys 2020; 152:044105. [DOI: 10.1063/1.5123290] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Chi Liu
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
| | - Jan Kloppenburg
- Institute of Condensed Matter and Nanoscience, Université Catholique de Louvain, Louvain-la-Neuve 1348, Belgium
| | - Yi Yao
- Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599, USA
- Department of Mechanical Engineering and Materials Science, Duke University, Durham, North Carolina 27708, USA
| | - Xinguo Ren
- CAS Key Laboratory of Quantum Information, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Heiko Appel
- Max Planck Institute for the Structure and Dynamics of Matter, Center for Free Electron Laser Science, 22761 Hamburg, Germany
| | - Yosuke Kanai
- Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599, USA
| | - Volker Blum
- Department of Chemistry, Duke University, Durham, North Carolina 27708, USA
- Department of Mechanical Engineering and Materials Science, Duke University, Durham, North Carolina 27708, USA
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Dokmaisrijan S, Kungwan N. LC-BLYP Calculations of the Structures and Photophysical Properties of [1,3]Thiazolo[4,5- b]pyrazine Derivatives in Cyclohexane and Methanol. J Phys Chem A 2019; 123:10685-10693. [PMID: 31769683 DOI: 10.1021/acs.jpca.9b09074] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Applications of the B3LYP and LC-BLYP functionals with the 6-311+G(d,p) basis set for predicting absorption and fluorescence spectra of benzothiazole and 11 [1,3]thiazolo[4,5-b]pyrazine (TPy) derivatives in implicit solvents (cyclohexane and methanol) were tested and compared with experimental results. The damping parameter of LC-BLYP was tuned for simulating absorption and fluorescence spectra of each compound. For the 11 TPy derivatives, four and seven compounds are small- and medium-sized TPy derivatives, respectively. From this calculation, TD-B3LYP can be used to simulate the absorption spectra of the small-sized compounds in cyclohexane and methanol, but it gives poor results for the fluorescence spectra in cyclohexane and methanol. Contrarily, the LC-BLYP functional with the optimal damping parameter can reproduce the absorption and fluorescence spectra of all compounds in cyclohexane and methanol. The values of the damping parameter of LC-BLYP depend on the types of substituents and solvents. Moreover, the conformations of the compounds do not affect the spectra, and the molecular size and molecular dipole moment do not affect the damping parameter. In addition, types and the number of substitutions attached to the phenyl rings of TPy as well as solvent polarity play the key roles in the long-wavelength fluorescence emission and fluorescence brightness of the compounds. The intramolecular charge transfer of the compounds containing the -NMe2 and -CN groups is predominant in methanol, resulting in a large Stokes shift and oscillator strength.
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Kong LX, Zhang CS, Xia QY, Ju XH. Theoretical study of the effect of π-linkers on triarylamine-based p-type D-π-A sensitiser. MOLECULAR SIMULATION 2019. [DOI: 10.1080/08927022.2019.1679808] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- Li-Xiao Kong
- Key Laboratory of Soft Chemistry and Functional Materials of MOE, School of Chemical Engineering, Nanjing University of Science and Technology, Nanjing, People’s Republic of China
| | - Chang-Shan Zhang
- Key Laboratory of Soft Chemistry and Functional Materials of MOE, School of Chemical Engineering, Nanjing University of Science and Technology, Nanjing, People’s Republic of China
| | - Qi-Ying Xia
- School of Chemistry and Chemical Engineering, Linyi University, Linyi, People’s Republic of China
| | - Xue-Hai Ju
- Key Laboratory of Soft Chemistry and Functional Materials of MOE, School of Chemical Engineering, Nanjing University of Science and Technology, Nanjing, People’s Republic of China
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35
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Nandy T, Mondal S, Singh PC. Solvent organization around the noncanonical part of tyrosine modulates its fluorescence properties. Phys Chem Chem Phys 2019; 21:6042-6050. [DOI: 10.1039/c8cp06410e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Solvent interactions with the fluorocarbon group of noncanonical amino acids are the cause of their diverse fluorescence behaviors, which implies their usefulness as solvent-sensitive environmental sensors in many biological processes.
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Affiliation(s)
- Tonima Nandy
- Department of Spectroscopy
- Indian Association for the Cultivation of Science
- Kolkata
- India
| | - Saptarsi Mondal
- Department of Spectroscopy
- Indian Association for the Cultivation of Science
- Kolkata
- India
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36
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Weng H, Teng Y, Sheng Q, Zhou Z, Huang X, Li Z, Zhang T. Theoretical study of substituent effects on electride characteristics and the nonlinear optical properties of Li@calix[4]pyrrole. RSC Adv 2019; 9:37919-37925. [PMID: 35541767 PMCID: PMC9075788 DOI: 10.1039/c9ra08758c] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Accepted: 11/11/2019] [Indexed: 11/21/2022] Open
Abstract
A relationship between the electride characteristics and the NLO properties is found: the more delocalization the excess electron of the electride experiences, the larger the β0 value is.
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Affiliation(s)
- Hui Weng
- Institute of Theoretical Chemistry
- Jilin University
- Changchun
- People's Republic of China
| | - Yunyang Teng
- Institute of Theoretical Chemistry
- Jilin University
- Changchun
- People's Republic of China
| | - Qi Sheng
- Institute of Theoretical Chemistry
- Jilin University
- Changchun
- People's Republic of China
| | - Zhongjun Zhou
- Institute of Theoretical Chemistry
- Jilin University
- Changchun
- People's Republic of China
- College of Physics
| | - Xuri Huang
- Institute of Theoretical Chemistry
- Jilin University
- Changchun
- People's Republic of China
| | - Zhiru Li
- Institute of Theoretical Chemistry
- Jilin University
- Changchun
- People's Republic of China
| | - Tao Zhang
- College of Physics
- Jilin University
- Changchun
- People's Republic of China
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37
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Malladi S, Yarasi S, Sastry GN. Exploring the potential of iron to replace ruthenium in photosensitizers: a computational study. J Mol Model 2018; 24:341. [PMID: 30460519 DOI: 10.1007/s00894-018-3870-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2018] [Accepted: 10/31/2018] [Indexed: 12/30/2022]
Abstract
In an effort to replace the widely used ruthenium metal complexes with low-cost, earth abundant iron complexes as photosensitizers for dye-sensitized solar cell (DSSC) applications, herein we report the computational design of heteroleptic iron complexes (FC1-3) coordinated with benzimidazole-phenylcarbene (C^N) ligands. DFT and TDDFT calculations predicted the stronger σ-donating and π-accepting nature of phenyl carbene ligands substituted with electron-withdrawing CF3, donating -N(CH3)2, and benzothiazine annulation than the imidazole carbene ligands (FC4); consequently, the metal-ligand bond distances and interactions that influence the ordering of charge transfer states with respect to metal centered states are altered in FC1-3 complexes. Detailed analysis based on energy decomposition analysis, spin density distribution analysis, and ab initio ligand field theory parameters were enabled to understand the nature of heteroleptic ligand interactions with the rest of the metal complex. The results from the study shed light on the judicious choice of ligands, as the same non-innocent ligand that is experimentally proven as favorable for Ru-dyes (TC1) is found to be detrimental for Fe-dyes (FC1). Among the complexes studied, the FC3 complex is a promising sensitizer for DSSC with 1,3MLCT energy level well separated from 3,5MC, thereby preventing the deactivation of MLCT. The outcome of the study is therefore an important step toward the development of photosensitizers based on iron metal. Graphical abstract Potential photosensitzers based on earth-abundant, low cost iron metal have been designed for dye sensitized solar cell applications.
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Affiliation(s)
- Srikanth Malladi
- Center for Molecular Modeling, CSIR-Indian Institute of Chemical Technology, Hyderabad, 500007, India
| | - Soujanya Yarasi
- Center for Molecular Modeling, CSIR-Indian Institute of Chemical Technology, Hyderabad, 500007, India. .,AcSIR - Academy of Scientific and Innovative Research, New Delhi, India.
| | - G Narahari Sastry
- Center for Molecular Modeling, CSIR-Indian Institute of Chemical Technology, Hyderabad, 500007, India. .,AcSIR - Academy of Scientific and Innovative Research, New Delhi, India.
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38
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Mestiri T, Alimi K. DFT and TD-DFT design of small π-conjugated molecules with narrow band gap and high efficiency for organic solar cells. Theor Chem Acc 2018. [DOI: 10.1007/s00214-018-2321-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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39
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Uudsemaa M, Trummal A, de Reguardati S, Callis PR, Rebane A. TD-DFT calculations of one- and two-photon absorption in Coumarin C153 and Prodan: attuning theory to experiment. Phys Chem Chem Phys 2018; 19:28824-28833. [PMID: 29052672 DOI: 10.1039/c7cp04735e] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We use TD-DFT to calculate the one-photon absorption (1PA) and two-photon absorption (2PA) properties of C153 and Prodan in toluene and DMSO, and benchmark different methods relative to accurate experimental data available from the literature on these particular systems. As the first step, we modify the range-separated TD-DFT to provide the best prediction for the peak 1PA wavelength, and then apply the optimized functionals to achieve quantitative predictions of the corresponding two-photon absorption cross section, σ2PA, with an accuracy ∼10-20% in C153 and ∼20-30% in Prodan. To elucidate the origin of residual discrepancies between the theory and experimental observations, we invoked the two essential states model for σ2PA, which allows us to verify not only the transition wavelength and the σ2PA value, but also to quantitatively benchmark the calculation of key molecular parameters such as the transition dipole moment and the change of the permanent dipole moment. Such comprehensive cross-checking indicates that a larger discrepancy in Prodan is most likely caused by a noted failure of DFT to predict the relative intensity and relative ordering of closely lying excited states with different degrees of intramolecular charge transfer, which we further support by analyzing the predictions obtained by high-level coupled-cluster calculations in the gas phase. Our results highlight the utility of benchmarking the calculations not only relative to other theoretical methods, but also in comparison to the experimental measurements, wherever such data are available.
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Affiliation(s)
- Merle Uudsemaa
- Laboratory of Chemical Physics, National Institute of Chemical Physics and Biophysics, 23 Akadeemia tee, Tallinn 12618, Estonia
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40
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He X, Gifford BJ, Hartmann NF, Ihly R, Ma X, Kilina SV, Luo Y, Shayan K, Strauf S, Blackburn JL, Tretiak S, Doorn SK, Htoon H. Low-Temperature Single Carbon Nanotube Spectroscopy of sp 3 Quantum Defects. ACS NANO 2017; 11:10785-10796. [PMID: 28958146 DOI: 10.1021/acsnano.7b03022] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Aiming to unravel the relationship between chemical configuration and electronic structure of sp3 defects of aryl-functionalized (6,5) single-walled carbon nanotubes (SWCNTs), we perform low-temperature single nanotube photoluminescence (PL) spectroscopy studies and correlate our observations with quantum chemistry simulations. We observe sharp emission peaks from individual defect sites that are spread over an extremely broad, 1000-1350 nm, spectral range. Our simulations allow us to attribute this spectral diversity to the occurrence of six chemically and energetically distinct defect states resulting from topological variation in the chemical binding configuration of the monovalent aryl groups. Both PL emission efficiency and spectral line width of the defect states are strongly influenced by the local dielectric environment. Wrapping the SWCNT with a polyfluorene polymer provides the best isolation from the environment and yields the brightest emission with near-resolution limited spectral line width of 270 μeV, as well as spectrally resolved emission wings associated with localized acoustic phonons. Pump-dependent studies further revealed that the defect states are capable of emitting single, sharp, isolated PL peaks over 3 orders of magnitude increase in pump power, a key characteristic of two-level systems and an important prerequisite for single-photon emission with high purity. These findings point to the tremendous potential of sp3 defects in development of room temperature quantum light sources capable of operating at telecommunication wavelengths as the emission of the defect states can readily be extended to this range via use of larger diameter SWCNTs.
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Affiliation(s)
| | - Brendan J Gifford
- Department of Chemistry and Biochemistry, North Dakota State University , Fargo, North Dakota 58108, United States
| | | | - Rachelle Ihly
- Chemical and Materials Science Center, National Renewable Energy Laboratory , 1617 Cole Boulevard, Golden, Colorado 80401, United States
| | | | - Svetlana V Kilina
- Department of Chemistry and Biochemistry, North Dakota State University , Fargo, North Dakota 58108, United States
| | - Yue Luo
- Department of Physics, Stevens Institute of Technology , Hoboken, New Jersey 07030, United States
| | - Kamran Shayan
- Department of Physics, Stevens Institute of Technology , Hoboken, New Jersey 07030, United States
| | - Stefan Strauf
- Department of Physics, Stevens Institute of Technology , Hoboken, New Jersey 07030, United States
| | - Jeffrey L Blackburn
- Chemical and Materials Science Center, National Renewable Energy Laboratory , 1617 Cole Boulevard, Golden, Colorado 80401, United States
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41
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Sotome H, Nagasaka T, Une K, Morikawa S, Katayama T, Kobatake S, Irie M, Miyasaka H. Cycloreversion Reaction of a Diarylethene Derivative at Higher Excited States Attained by Two-Color, Two-Photon Femtosecond Pulsed Excitation. J Am Chem Soc 2017; 139:17159-17167. [DOI: 10.1021/jacs.7b09763] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Hikaru Sotome
- Division
of Frontier Materials Science and Center for Advanced Interdisciplinary
Research, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Tatsuhiro Nagasaka
- Division
of Frontier Materials Science and Center for Advanced Interdisciplinary
Research, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Kanako Une
- Division
of Frontier Materials Science and Center for Advanced Interdisciplinary
Research, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Soichiro Morikawa
- Division
of Frontier Materials Science and Center for Advanced Interdisciplinary
Research, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Tetsuro Katayama
- Division
of Frontier Materials Science and Center for Advanced Interdisciplinary
Research, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Seiya Kobatake
- Department
of Applied Chemistry, Graduate School of Engineering, Osaka City University, Sumiyoshi,
Osaka 558-8585, Japan
| | - Masahiro Irie
- Department
of Chemistry and Research Center for Smart Molecules, Rikkyo University, 3-34-1
Nishi-Ikebukuro, Toshima-ku, Tokyo 171-8501, Japan
| | - Hiroshi Miyasaka
- Division
of Frontier Materials Science and Center for Advanced Interdisciplinary
Research, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
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42
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The extent of charge transfer: A qualitative computational study on electronic transitions of unsymmetrical squarylium dyes. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2017.09.009] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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43
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Dipold J, Batista R, Fonseca R, Silva D, Moura G, dos Anjos J, Simas A, De Boni L, Mendonca C. Synthesis and two-photon absorption spectrum of fluorenone-based molecules. Chem Phys Lett 2016. [DOI: 10.1016/j.cplett.2016.08.068] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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44
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GW in the Gaussian and Plane Waves Scheme with Application to Linear Acenes. J Chem Theory Comput 2016; 12:3623-35. [DOI: 10.1021/acs.jctc.6b00380] [Citation(s) in RCA: 75] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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45
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Theoretical study of chlordecone and surface groups interaction in an activated carbon model under acidic and neutral conditions. J Mol Graph Model 2016; 65:83-93. [PMID: 26945637 DOI: 10.1016/j.jmgm.2016.02.008] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2015] [Revised: 01/27/2016] [Accepted: 02/19/2016] [Indexed: 11/24/2022]
Abstract
Activated carbons (ACs) are widely used in the purification of drinking water without almost any knowledge about the adsorption mechanisms of the persistent organic pollutants. Chlordecone (CLD, Kepone) is an organochlorinated synthetic compound that has been used mainly as agricultural insecticide. CLD has been identified and listed as a persistent organic pollutant by the Stockholm Convention. The selection of the best suited AC for this type of contaminants is mainly an empirical and costly process. A theoretical study of the influence of AC surface groups (SGs) on CLD adsorption is done in order to help understanding the process. This may provide a first selection criteria for the preparation of AC with suitable surface properties. A model of AC consisting of a seven membered ring graphene sheet (coronene) with a functional group on the edge was used to evaluate the influence of the SGs over the adsorption. Multiple Minima Hypersurface methodology (MMH) coupled with PM7 semiempirical Hamiltonian was employed in order to study the interactions of the chlordecone with SGs (hydroxyl and carboxyl) at acidic and neutral pH and different hydration conditions. Selected structures were re-optimized using CAM-B3LYP to achieve a well-defined electron density to characterize the interactions by the Quantum Theory of Atoms in Molecules approach. The deprotonated form of surface carboxyl and hydroxyl groups of AC models show the strongest interactions, suggesting a chemical adsorption. An increase in carboxylic SGs content is proposed to enhance CLD adsorption onto AC at neutral pH conditions.
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46
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Mihailovs I, Kampars V, Turovska B, Rutkis M. Rational computing of energy levels for organic electronics: the case of 2-benzylidene-1,3-indandiones. RSC Adv 2016. [DOI: 10.1039/c6ra16456k] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
To compute ionization potential and electron affinity (HOMO & LUMO levels by tradition), diffuse functions are redundant, while range-separated hybrid DFT is not always better than B3LYP. Solvent modelling is essential and can be cheap with CPCM.
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Affiliation(s)
- Igors Mihailovs
- Institute of Solid State Physics
- University of Latvia
- Riga
- Latvia
- Institute of Applied Chemistry
| | - Valdis Kampars
- Institute of Applied Chemistry
- Riga Technical University
- Riga
- Latvia
| | | | - Martins Rutkis
- Institute of Solid State Physics
- University of Latvia
- Riga
- Latvia
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47
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Chantzis A, Cerezo J, Perrier A, Santoro F, Jacquemin D. Optical Properties of Diarylethenes with TD-DFT: 0-0 Energies, Fluorescence, Stokes Shifts, and Vibronic Shapes. J Chem Theory Comput 2015; 10:3944-57. [PMID: 26588538 DOI: 10.1021/ct500371u] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
This contribution is an investigation of both the structures and optical properties of a set of 14 diverse, recently synthesized diarylethenes using Time-Dependent Density Functional Theory (TD-DFT) at the ωB97X-D/6-31G(d) level of theory. The linear response (LR) and state-specific (SS) versions of the Polarizable Continuum Model (PCM) have been adopted to account for the bulk solvation effects and their relative performances were critically accessed. It is shown, for the first time in the case of nontrivial diarylethenes, that TD-DFT provides good agreement between the experimental absorption-fluorescence crossing points (AFCPs) and their theoretical counterparts when a robust model accounting for both geometrical relaxation and vibrational corrections is used instead of the vertical approximation. On the other hand, the theoretical estimates for the Stokes shifts based on the vertical transition energies were found to be in disagreement with respect to experiment, prompting us to simulate the absorption/emission vibronic band shapes. It is proved that difficulties associated with the breakdown of the harmonic approximation in Cartesian coordinates exist for the investigated system, and we show how they can be at least partially overcome by means of a vertical approach including Duschinsky effects. Our results provide a valuable basis to rationalize the experimental vibronic structure of both emission and absorption bands and are expected to be a significant asset to the understanding of the optical properties of diarylethene derivatives.
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Affiliation(s)
- Agisilaos Chantzis
- Laboratoire CEISAM - UMR CNR 6230, Université de Nantes , 2 Rue de la Houssiniére, BP 92208, 44322 Nantes Cedex 3, France
| | - Javier Cerezo
- Departamento de Química Física, Universidad de Murcia , 30110 Murcia, Spain
| | - Aurélie Perrier
- ITODYS, UMR 7086, Université Paris Diderot, Sorbonne Paris Cité , 15 Rue Jean Antoine de Baif, 75205 Paris Cedex 13, France
| | - 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
| | - Denis Jacquemin
- Laboratoire CEISAM - UMR CNR 6230, Université de Nantes , 2 Rue de la Houssiniére, BP 92208, 44322 Nantes Cedex 3, France.,Institut Universitaire de France, 103, bd Saint-Michel, F-75005 Paris Cedex 05, France
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48
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Bruneval F, Hamed SM, Neaton JB. A systematic benchmark of the ab initio Bethe-Salpeter equation approach for low-lying optical excitations of small organic molecules. J Chem Phys 2015; 142:244101. [PMID: 26133404 DOI: 10.1063/1.4922489] [Citation(s) in RCA: 116] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023] Open
Abstract
The predictive power of the ab initio Bethe-Salpeter equation (BSE) approach, rigorously based on many-body Green's function theory but incorporating information from density functional theory, has already been demonstrated for the optical gaps and spectra of solid-state systems. Interest in photoactive hybrid organic/inorganic systems has recently increased and so has the use of the BSE for computing neutral excitations of organic molecules. However, no systematic benchmarks of the BSE for neutral electronic excitations of organic molecules exist. Here, we study the performance of the BSE for the 28 small molecules in Thiel's widely used time-dependent density functional theory benchmark set [Schreiber et al., J. Chem. Phys. 128, 134110 (2008)]. We observe that the BSE produces results that depend critically on the mean-field starting point employed in the perturbative approach. We find that this starting point dependence is mainly introduced through the quasiparticle energies obtained at the intermediate GW step and that with a judicious choice of starting mean-field, singlet excitation energies obtained from BSE are in excellent quantitative agreement with higher-level wavefunction methods. The quality of the triplet excitations is slightly less satisfactory.
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Affiliation(s)
- Fabien Bruneval
- CEA, DEN, Service de Recherches de Métallurgie Physique, F-91191 Gif-sur-Yvette, France
| | - Samia M Hamed
- Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
| | - Jeffrey B Neaton
- Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
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49
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Wong EWY, Emslie DJH. Cyclometalation and coupling of a rigid 4,5-bis(imino)acridanide pincer ligand on yttrium. Dalton Trans 2015; 44:11601-12. [PMID: 26041684 DOI: 10.1039/c5dt01636c] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An extremely rigid NNN-donor proligand, 4,5-bis{(diphenylmethylene)amino}-2,7,9,9-tetramethylacridan, H[AIm2] was prepared in five steps starting from 5-methyl-2-aminobenzoic acid and 4-bromotoluene. Reaction of intensely orange H[AIm2] with LiCH2SiMe3 formed deep blue Li(x)[AIm2]x (x = 2 in the solid state), while reaction with [Y(CH2SiMe3)3(THF)2] (0.5 equiv.) afforded deep blue [Y(AIm2)(AIm)] (1; AIm = an AIm2 ligand cyclometalated at the ortho-position of one of the phenyl rings). Compound 1 slowly isomerizes to form green-brown 2, which contains a single trianionic, hexadentate ligand that features one amine, two imine, and three amido donors. The acridanide backbone and one imine group in each of the original AIm2 ligands is intact, but the two acridanide backbones are now linked by an isoindoline heterocycle. Yttrium in 2 is coordinated to six nitrogen donors and the ortho carbon of an isoindoline phenyl substituent. The intense colours of H[AIm2], Li(x)[AIm2]x and 1 were shown by TD-DFT calculations to arise from charge transfer transitions from the HOMO, which is localized on the acridanide ligand backbone, to the LUMO and LUMO+1, which are localized on the imine substituents. The conversion of 1 to 2 was studied by UV-Visible absorption spectroscopy and is first-order with a half-life of 7.8 hours at room temperature.
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Affiliation(s)
- Edwin W Y Wong
- Department of Chemistry & Chemical Biology, McMaster University, 1280 Main Street West, Hamilton, Ontario L8S 4M1, Canada.
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50
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Okuno K, Shigeta Y, Kishi R, Nakano M. Theoretical design of solvatochromism switching by photochromic reactions using donor-acceptor disubstituted diarylethene derivatives with oxidized thiophene rings. Phys Chem Chem Phys 2015; 17:6484-94. [PMID: 25655363 DOI: 10.1039/c4cp05946h] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
We have designed several diarylethene derivatives with oxidized thiophene rings and donor-acceptor substituents, which show the solvatochromism switching by photochromic reactions, using a time-dependent density functional theory (TD-DFT) method using the polarizable continuum model (PCM). It is found that in the UV-vis spectral region examined only the open-ring isomers exhibit the solvatochromism, while the closed-ring isomers do not. The mechanism of the solvatochromism behavior and its switching process are clarified from the viewpoint of the charge-transfer (CT) excitation from the donor to the acceptor substituents. We demonstrate that this CT excitation can be controlled by choosing appropriate pairs of the donor and the acceptor substituents on the basis of the orbital correlation diagram between the diarylethene derivatives and the donor-acceptor substituents, which is constructed from the topologies and the orbital energies of the molecular orbitals primarily contributing to the excitations.
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Affiliation(s)
- Katsuki Okuno
- Department of Materials Engineering Science, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan.
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