1
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Van Nguyen H, Ha NX, Nguyen DP, Pham TH, Nguyen MT, Thi Nguyen HM. A theoretical screening of phytochemical constituents from Millettia brandisiana as inhibitors against acetylcholinesterase. Phys Chem Chem Phys 2024; 26:16898-16909. [PMID: 38833268 DOI: 10.1039/d3cp05350d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2024]
Abstract
Alzheimer's disease is one of the causes associated with the early stages of dementia. Nowadays, the main treatment available is to inhibit the actions of the acetylcholinesterase (AChE) enzyme, which has been identified as responsible for the disease. In this study, computational methods were used to examine the structure and therapeutic ability of chemical compounds extracted from Millettia brandisiana natural products against AChE. This plant is commonly known as a traditional medicine in Vietnam and Thailand for the treatment of several diseases. Furthermore, machine learning helped us narrow down the choice of 85 substances for further studies by molecular docking and molecular dynamics simulations to gain deeper insights into the interactions between inhibitors and disease proteins. Of the five top-choice substances, γ-dimethylallyloxy-5,7,2,5-tetramethoxyisoflavone emerges as a promising substance due to its large free binding energy to AChE and the high thermodynamic stability of the resulting complex.
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Affiliation(s)
- Hue Van Nguyen
- Faculty of Chemistry and Center for Computational Science, Hanoi National University of Education, Hanoi, Vietnam.
| | - Nguyen Xuan Ha
- Institute of Natural Products Chemistry, Vietnam Academy of Science and Technology, Hanoi, Vietnam
| | - Duy Phuong Nguyen
- Faculty of Chemistry and Center for Computational Science, Hanoi National University of Education, Hanoi, Vietnam.
| | - Tho Hoan Pham
- Faculty of Information Technology and Center for Computational Science, Hanoi National University of Education, Hanoi, Vietnam
| | - Minh Tho Nguyen
- Laboratory for Chemical Computation and Modeling, Institute for Computational Science and Artificial Intelligence, Van Lang University, Ho Chi Minh City, Vietnam
- Faculty of Applied Technology, School of Technology, Van Lang University, Ho Chi Minh City, Vietnam
| | - Hue Minh Thi Nguyen
- Faculty of Chemistry and Center for Computational Science, Hanoi National University of Education, Hanoi, Vietnam.
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2
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Potkin V, Pushkarchuk A, Zamaro A, Zhou H, Kilin S, Petkevich S, Kolesnik I, Michels DL, Lyakhov DA, Kulchitsky VA. Effect of the isotiazole adjuvants in combination with cisplatin in chemotherapy of neuroepithelial tumors: experimental results and modeling. Sci Rep 2023; 13:13624. [PMID: 37604841 PMCID: PMC10442360 DOI: 10.1038/s41598-023-40094-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Accepted: 08/04/2023] [Indexed: 08/23/2023] Open
Abstract
Chemotherapy is one of the main treatment options for cancer, but it is usually accompanied with negative side effects. The classical drugs combination with synergistic adjuvants can be the solution to this problem, allowing reducing therapeutic dose. Elucidating the mechanism of adjuvant action is of key importance for the selection of the optimal agent. Here we examine the system drug-adjuvant to explain the observed effect in practice. We used the first line drug cisplatin. Morpholinium and 4-methylpiperazinium 4,5-dichloro isothiazol-3-carboxylates were selected as adjuvants. The study of the cisplatin-adjuvant system was carried out by quantum chemical modeling using DFT. It turned out that adjuvants form conjugates with cisplatin that lead to the relocation of frontier molecular orbitals as well as increase of conjugate's dipole moment. It resulted in change of the interaction character with DNA and increase of the bioactivity of the system. The data obtained are the basis for expanding the studies to include other drugs and adjuvants. Oncologists will have opportunity to use "classical" chemotherapy drugs in combination with synergists for those patients who have not been previously recommended to such a treatment because of pronounced toxic side effects.
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Affiliation(s)
- Vladimir Potkin
- Laboratory of the Chemistry of Heterocyclic Compounds, Institute of Physical Organic Chemistry, National Academy of Sciences of Belarus, 13 Surganov Str., 220072, Minsk, Belarus.
| | - Aliaxandr Pushkarchuk
- Laboratory of the Chemistry of Heterocyclic Compounds, Institute of Physical Organic Chemistry, National Academy of Sciences of Belarus, 13 Surganov Str., 220072, Minsk, Belarus
| | - Alexandra Zamaro
- Brain Centre, Institute of Physiology, National Academy of Sciences of Belarus, 28 Akademicheskaya Str., 220072, Minsk, Belarus
| | - Hongwei Zhou
- College of Biological, Chemical Sciences and Engineering, Jiaxing University, 1 Jiahang Road, Jiaxing, 314001, Zhejiang, China
| | - Sergey Kilin
- Center "Quantum Optics and Quantum Informatics", B.I. Stepanov Institute of Physics, National Academy of Sciences of Belarus, 68 Nezavisimosti Ave., 220072, Minsk, Belarus
| | - Sergey Petkevich
- Laboratory of the Chemistry of Heterocyclic Compounds, Institute of Physical Organic Chemistry, National Academy of Sciences of Belarus, 13 Surganov Str., 220072, Minsk, Belarus
| | - Irina Kolesnik
- Laboratory of the Chemistry of Heterocyclic Compounds, Institute of Physical Organic Chemistry, National Academy of Sciences of Belarus, 13 Surganov Str., 220072, Minsk, Belarus
| | - Dominik L Michels
- Computer, Electrical and Mathematical Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, 23955-6900, Kingdom of Saudi Arabia
| | - Dmitry A Lyakhov
- Computer, Electrical and Mathematical Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, 23955-6900, Kingdom of Saudi Arabia
| | - Vladimir A Kulchitsky
- Brain Centre, Institute of Physiology, National Academy of Sciences of Belarus, 28 Akademicheskaya Str., 220072, Minsk, Belarus
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3
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Lockhart JPA, Bodipati B, Rizvi S. Investigating the Association Reactions of HOCH 2CO and HOCHCHO with O 2: A Quantum Computational and Master Equation Study. J Phys Chem A 2023; 127:4302-4316. [PMID: 37146175 DOI: 10.1021/acs.jpca.2c08163] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Glycolaldehyde, HOCH2CHO, is an important multifunctional atmospheric trace gas formed in the oxidation of ethylene and isoprene and emitted directly from burning biomass. The initial step in the atmospheric photooxidation of HOCH2CHO yields HOCH2CO and HOCHCHO radicals; both of these radicals react rapidly with O2 in the troposphere. This study presents a comprehensive theoretical investigation of the HOCH2CO + O2 and HOCHCHO + O2 reactions using high-level quantum chemical calculations and energy-grained master equation simulations. The HOCH2CO + O2 reaction results in the formation of a HOCH2C(O)O2 radical, while the HOCHCHO + O2 reaction yields (HCO)2 + HO2. Density functional theory calculations have identified two open unimolecular pathways associated with the HOCH2C(O)O2 radical that yield HCOCOOH + OH or HCHO + CO2 + OH products; the former novel bimolecular product pathway has not been previously reported in the literature. Master equation simulations based on the potential energy surface calculated here for the HOCH2CO + O2 recombination reaction support experimental product yield data from the literature and indicate that, even at total pressures of 1 atm, the HOCH2CO + O2 reaction yields ∼11% OH at 298 K.
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Affiliation(s)
- J P A Lockhart
- Department of Chemistry, Adelphi University, One South Avenue, Garden City, New York 11530, United States
| | - B Bodipati
- Department of Chemistry, Adelphi University, One South Avenue, Garden City, New York 11530, United States
| | - S Rizvi
- Department of Chemistry, Adelphi University, One South Avenue, Garden City, New York 11530, United States
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4
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Haritha M, Suresh CH. Hydrogen bonds of
OC
NH
motif in rings in drugs: A molecular electrostatic potential analysis. J Comput Chem 2023; 44:1550-1559. [DOI: 10.1002/jcc.27107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2023] [Revised: 03/03/2023] [Accepted: 03/06/2023] [Indexed: 03/29/2023]
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5
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Cuellar J, Parada-Díaz L, Garza J, Mejía SM. A Theoretical Analysis of Interaction Energies and Intermolecular Interactions between Amphotericin B and Potential Bioconjugates Used in the Modification of Nanocarriers for Drug Delivery. Molecules 2023; 28:molecules28062674. [PMID: 36985646 PMCID: PMC10055876 DOI: 10.3390/molecules28062674] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 02/06/2023] [Accepted: 02/07/2023] [Indexed: 03/18/2023] Open
Abstract
Amphotericin B (AmB) is an antibiotic with a wide spectrum of action and low multidrug resistance, although it exhibits self-aggregation, low specificity, and solubility in aqueous media. An alternative for its oral administration is its encapsulation in polymers modified with bioconjugates. The aim of the present computational research is to determine the affinity between AmB and six bioconjugates to define which one could be more suitable. The CAM-B3LYP-D3/6-31+G(d,p) method was used for all computational calculations. The dimerization enthalpy of the most stable and abundant systems at pH = 7 allows obtaining this affinity order: AmB_1,2-distearoyl-sn-glycerol-3-phosphorylethanolamine (DSPE) > AmB_γ-cyclodextrin > AmB_DSPEc > AmB_retinol > AmB_cholesterol > AmB_dodecanol, where DSPEc is a DSPE analog. Quantum theory of atoms in molecules, the non-covalent interactions index, and natural bond orbital analysis revealed the highest abundance of noncovalent interactions for AmB-DSPE (51), about twice the number of interactions of the other dimers. Depending on the interactions’ strength and abundance of the AmB-DSPE dimer, these are classified as strong: O-H---O (2), N-H---O (3) and weak: C-H---O (25), H---H (18), C-H---C (3). Although the C-H---O hydrogen bond is weak, the number of interactions involved in all dimers cannot be underestimated. Thus, non-covalent interactions drive the stabilization of copolymers, and from our analysis, the most promising candidates for encapsulating are DSPE and γ-cyclodextrin.
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Affiliation(s)
- Jennifer Cuellar
- Línea de Investigación en Química Computacional, Grupo de Investigación GIFUJ, Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogota 110231, Colombia
| | - Lorena Parada-Díaz
- Línea de Investigación en Química Computacional, Grupo de Investigación GIFUJ, Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogota 110231, Colombia
| | - Jorge Garza
- Departamento de Química, Universidad Autonoma Metropolitana-Iztapalapa, San Rafael Atlixco 186, Col. Vicentina, Iztapalapa, Ciudad de Mexico 09340, Mexico
| | - Sol M. Mejía
- Línea de Investigación en Química Computacional, Grupo de Investigación GIFUJ, Departamento de Química, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogota 110231, Colombia
- Correspondence:
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6
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Patla A, Subramanian R. Thermodynamic and optical properties of HCOOH(H 2O) n and HCOOH(NH 3)(H 2O) (n-1) clusters at various temperatures and pressures: a computational study. Phys Chem Chem Phys 2023; 25:7869-7880. [PMID: 36857704 DOI: 10.1039/d2cp03908g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/12/2023]
Abstract
Density functional theory has been used to compute the gas-phase geometries, binding energies, ZPE-corrected binding energies, BSSE-corrected binding energies, binding enthalpies, and binding free energies of HCOOH(H2O)n and HCOOH(NH3)(H2O)(n-1) clusters with n = 1-8, 10, 12, 14, 16, 18, and 20. Enthalpies and free energies are calculated for a range of atmospherically relevant temperatures (T) and pressures (P) (from T = 298.15 K, P = 1013.25 hPa to T = 216.65 K, P = 226.32 hPa). The optical properties of those clusters have been studied at the CAM-B3LYP/aug-cc-pVDZ level of theory.
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Affiliation(s)
- Arnab Patla
- Department of Chemistry, Indian Institute of Technology Patna, 801103, India.
| | - Ranga Subramanian
- Department of Chemistry, Indian Institute of Technology Patna, 801103, India.
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7
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Intermolecular interactions in ethanol solution of OABA: Raman, FTIR, DFT, M062X, MEP, NBO, FMO, AIM, NCI, RDG analysis. J Mol Liq 2023. [DOI: 10.1016/j.molliq.2023.121552] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/06/2023]
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8
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Zhou G, Cheng X, Yang J, Zhu Y, Li H. Computational and experimental studies on the micellar morphology and emission mechanisms of AIE and H-bonding fluorescent composites. RSC Adv 2023; 13:4612-4622. [PMID: 36760310 PMCID: PMC9900601 DOI: 10.1039/d2ra07900c] [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: 12/11/2022] [Accepted: 01/24/2023] [Indexed: 02/08/2023] Open
Abstract
In this work, we use density functional theory (DFT) calculated competitive hydrogen bonds and dissipative particle dynamics (DPD) simulated micellar structural information to uncover the CO2-expanded liquid (CXL)-aided self-assembled structure and emission mechanisms of the self-assembled fluorescent composites (SAFCs). Herein, the SAFCs are formed through the self assembly between diblock copolymer polystyrene-b-poly(4-vinylpyridine) (PS-b-P4VP) blend and the dye molecule 4-(9-(2-(4-hydroxyphenyl)ethynyl)-7,10-diphenylfluoranthen-8-yl)phenol (4) in CO2-expanded toluene at 313.2 K and varied pressures. Firstly, from DPD simulation, we have demonstrated that the addition of CO2 to toluene favors both the expansion of the solvophobic P4VP phase and contraction of solvophilic PS chains, which facilitates the continuous morphological transitions of SAFCs from spherical micelles (3.0 MPa) through wormlike plus spherical micelles (4.0-4.8 MPa) to large vesicles (6.0-6.5 MPa) with pressure rise. Secondly, the DFT calculated bonding energies and IR spectra of the competitive hydrogen bonds help us to clarify the major type of hydrogen bonds determining the fluorescence (FL) performance of the SAFCs. Furthermore, we have revealed the SAFC emission mechanism via the pressure-tunable changes in the aggregation degrees and amount of hydrogen bonds involving 4 and P4VP chains. This work provides a good understanding for the morphology-property control of the self-assembled polymer composites in both microscopic and mesoscopic scales.
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Affiliation(s)
- Guangying Zhou
- Green Catalysis Center, College of Chemistry, Zhengzhou University Zhengzhou Henan 450001 China
| | - Xiaomeng Cheng
- Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Colloid and Interface and Thermodynamics, Institute of Chemistry, Chinese Academy of Sciences Beijing 100190 P. R. China
- School of Chemistry and Chemical Engineering, University of Chinese Academy of Sciences Beijing 100049 China
| | - Jian Yang
- Green Catalysis Center, College of Chemistry, Zhengzhou University Zhengzhou Henan 450001 China
| | - Yanyan Zhu
- Green Catalysis Center, College of Chemistry, Zhengzhou University Zhengzhou Henan 450001 China
| | - Hongping Li
- Green Catalysis Center, College of Chemistry, Zhengzhou University Zhengzhou Henan 450001 China
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9
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Cherneva TD, Todorova MM, Bakalska RI, Horkel E, Delchev VB. Non-radiative deactivation of excited cytosine: probing of different DFT functionals and basis sets in solvents with different polarity. J Mol Model 2022; 28:306. [PMID: 36085333 DOI: 10.1007/s00894-022-05313-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Accepted: 08/30/2022] [Indexed: 11/28/2022]
Abstract
The vertical excitation and emission energies of the cytosine oxo-amino form were calculated at the TD DFT level of theory with several functionals, basis sets, and solvents with different polarity (PCM). They were compared with the experimental UV absorption and fluorescence maxima, revealing that the minimal deviation of the vertical excitation energies from the of UV absorption maxima can be achieved when the hybrid functional B3LYP is applied within the calculations. Regular correlations like curves with saturation between the vertical excitation/emission energies and the dielectric constants were registered. The relaxation of the 1ππ* excited state through an ethylene-like conical intersection S0/S1 should occur through decrease of the decay rate (commented qualitatively here) with the rise of the solvent polarity.
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Affiliation(s)
- T D Cherneva
- Faculty of Chemistry, University of Plovdiv, Tzar Assen 24 Str, Plovdiv, Bulgaria
| | - M M Todorova
- Faculty of Chemistry, University of Plovdiv, Tzar Assen 24 Str, Plovdiv, Bulgaria
| | - R I Bakalska
- Faculty of Chemistry, University of Plovdiv, Tzar Assen 24 Str, Plovdiv, Bulgaria
| | - E Horkel
- Inst. Applied Synthetic Chemistry, TU Wien, Getreidemarkt 9, 1060, Vienna, Austria
| | - V B Delchev
- Faculty of Chemistry, University of Plovdiv, Tzar Assen 24 Str, Plovdiv, Bulgaria.
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10
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Synthesis of benzidine-based conjugated organic materials bearing donor-acceptor groups: DFT studies and photovoltaic applications. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131939] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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11
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Saha B, Chandel D, Rath SP. Hydrogen-Bonding Interactions Trigger Induction of Chirality via Formation of a Cyclic Dimer. Inorg Chem 2022; 61:2154-2166. [PMID: 35040641 DOI: 10.1021/acs.inorgchem.1c03362] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
A rationalization for the chirality transfer mechanism in the supramolecular host-guest assemblies of an achiral Zn(II) porphyrin dimer (host) and a series of chiral diamines and diamino esters (substrates) via cyclic dimer formation has been reported for the first time. Stepwise formations of 2:2 host-guest cyclic dimers and 1:2 host-guest monomeric complexes have been observed via intermolecular assembling and disassembling processes. A large bisignate CD couplet was observed for the cyclic dimer, whereas the monomeric complexes exhibited negligible CD intensity. Crystallographic characterizations demonstrate that the strong intermolecular H bonding in cyclic dimers is responsible for their stability over the linear chain, which thereby display high-intensity bisignate CD couplets. In order to minimize the steric crowding within the host-guest assembly, the cyclic dimer switches its helicity toward the conformer having less steric hindrance. The cyclic scaffold is oriented according to the pre-existing chirality of the substrate in both the solid and solution phases: the substrates having R chirality display a negative CD couplet, whereas the substrates with S chirality display a positive couplet. Opposite signs for the CD couplets between R and S substrates suggest that the stereographic projection at the chiral centers solely dictates the overall helicity of the cyclic dimer. DFT studies further support the experimental observations.
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Affiliation(s)
- Bapan Saha
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Dolly Chandel
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Sankar Prasad Rath
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
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12
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Designing benzothiadiazole based highly efficient non-fullerene acceptor molecules for organic solar cells. POLYMER 2022. [DOI: 10.1016/j.polymer.2021.124405] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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13
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Savoo N, Rhyman L, Ramasami P. Theoretical study of a derivative of chlorophosphine with aliphatic and aromatic Grignard reagents: S N2@P or the novel S N2@Cl followed by S N2@C? RSC Adv 2022; 12:9130-9138. [PMID: 35424871 PMCID: PMC8985194 DOI: 10.1039/d2ra00258b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2022] [Accepted: 03/15/2022] [Indexed: 11/21/2022] Open
Abstract
The proposed SN2 reactions of a hindered organophosphorus reactant with aliphatic and aromatic nucleophiles [Ye et al., Org. Lett., 2017, 19, 5384–5387] were studied theoretically in order to explain the observed stereochemistry of the products.
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Affiliation(s)
- Nandini Savoo
- Computational Chemistry Group, Department of Chemistry, Faculty of Science, University of Mauritius, Réduit 80837, Mauritius
| | - Lydia Rhyman
- Computational Chemistry Group, Department of Chemistry, Faculty of Science, University of Mauritius, Réduit 80837, Mauritius
- Centre for Natural Product Research, Department of Chemical Sciences, University of Johannesburg, Doornfontein Campus, Johannesburg 2028, South Africa
| | - Ponnadurai Ramasami
- Computational Chemistry Group, Department of Chemistry, Faculty of Science, University of Mauritius, Réduit 80837, Mauritius
- Centre for Natural Product Research, Department of Chemical Sciences, University of Johannesburg, Doornfontein Campus, Johannesburg 2028, South Africa
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14
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Andrade-Filho T, Silva T, Belo E, Raiol A, de Oliveira RV, Marinho PS, Bitencourt HR, Marinho AM, da Cunha AR, Gester R. Insights and modelling on the nonlinear optical response, reactivity, and structure of chalcones and dihydrochalcones. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2021.131182] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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15
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Asadi S, Masoodi HR, Mehrabi H. Theoretical insights of solvent effect on tautomerism, stability, and electronic properties of 6‐ketomethylphenanthridine. J PHYS ORG CHEM 2021. [DOI: 10.1002/poc.4294] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Sara Asadi
- Department of Chemistry, Faculty of Science Vali‐e‐Asr University of Rafsanjan Rafsanjan Iran
| | - Hamid Reza Masoodi
- Department of Chemistry, Faculty of Science Vali‐e‐Asr University of Rafsanjan Rafsanjan Iran
| | - Hossein Mehrabi
- Department of Chemistry, Faculty of Science Vali‐e‐Asr University of Rafsanjan Rafsanjan Iran
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16
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Bisong EA, Louis H, Unimuke TO, Bassey VM, Agwupuye JA, Peter LI, Ekpen FO, Adeleye AT. Theoretical investigation of the stability, reactivity, and the interaction of methyl-substituted peridinium-based ionic liquids. PHYSICAL SCIENCES REVIEWS 2021. [DOI: 10.1515/psr-2020-0137] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
This research work focuses on the reactivity, stability, and electronic interaction of pyridinium hydrogen nitrate (PHN)-based ionic liquids and the influence of methyl substituent on this class of ionic liquids: Ortho- (O-MPHN), meta- (M-MPHN), and para- (P-MPHN) substitution. Natural bond orbital (NBO) calculations were performed at the density functional theory (DFT) with Becke’s Lee Yang and Parr functional (B3LYP) methods and DFT/B3LYP/6-311++G(d,p) as basis set using GAUSSIAN 09W and GAUSSVIEW 6.0 software and the most important interaction between donor (Filled Lewis-type NBO’s) and the acceptor (vacant non-Lewis NBOs) were observed. From our natural bond orbital (NBO) result, it could be deduced that the higher the stabilization energy value, the greater the interaction between the donor and acceptor NBOs. The stability of the studied compounds is said to follow the order from O-MPHN > PHN > P-MPHN > M-MPHN based on the hyperconjugative interaction (stabilization energy) of the most significant interaction. The result of the highest occupied molecular orbital (HOMO), shows that PHN has the highest HOMO while the substituted derivatives have similar HOMO values between −7.70 and −7.98 eV thus PHN complex is the best electron donor while the substituted derivatives act as electron acceptors due to the presence of methyl group substituent which is observed to be electron deficient as a result of its withdrawal effect from the aromatic ring. Furthermore, the electron density, real space functions such as energy density and Laplacian of electron density at bond critical point (BCP) of the hydrogen bond interaction of the studied compounds were analyzed using Multifunctional Wavefunction analyzer software version 3.7 and it was observed that the hydrogen at position 6 and oxygen at position 11 (H6–O11) of M-methyl pyridinium nitrate with bond distance of 4.59 (Å) gave binding energy with the strongest electrostatic interaction between the cation and anion of the compounds under investigation. We also observed from our results that, substitution at the ortho position enhances the stability and strengthen the extent of charge transfer. This therefore implies that substitution at ortho position is more favorable for inter- and intramolecular interactions resulting to stabilization of the studied molecules.
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Affiliation(s)
- Emmanuel A. Bisong
- Department of Pure and Applied Chemistry , Computational and Bio-Simulation Research Group, Faculty of Physical Sciences, University of Calabar , Calabar , Cross River State , Nigeria
| | - Hitler Louis
- Department of Pure and Applied Chemistry , Computational and Bio-Simulation Research Group, Faculty of Physical Sciences, University of Calabar , Calabar , Cross River State , Nigeria
| | - Tomsmith O. Unimuke
- Department of Pure and Applied Chemistry , Computational and Bio-Simulation Research Group, Faculty of Physical Sciences, University of Calabar , Calabar , Cross River State , Nigeria
| | - Victoria M. Bassey
- Department of Pure and Applied Chemistry , Computational and Bio-Simulation Research Group, Faculty of Physical Sciences, University of Calabar , Calabar , Cross River State , Nigeria
| | - John A. Agwupuye
- Department of Pure and Applied Chemistry , Computational and Bio-Simulation Research Group, Faculty of Physical Sciences, University of Calabar , Calabar , Cross River State , Nigeria
| | - Linda I. Peter
- Department of Pure and Applied Chemistry , Computational and Bio-Simulation Research Group, Faculty of Physical Sciences, University of Calabar , Calabar , Cross River State , Nigeria
| | - Francis O. Ekpen
- Department of Science Education , Faculty of Education, University of Calabar , Calabar , Cross River State , Nigeria
| | - Aderemi T. Adeleye
- Dalian Institute of Chemical Physics, University of Chinese Academy of Sciences , Dalian , P. R. China
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17
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Castillo A, Ceballos P, Santos P, Cerón M, Venkatesan P, Pérez-Gutiérrez E, Sosa-Rivadeneyra M, Thamotharan S, Siegler MA, Percino MJ. Solution and Solid-State Photophysical Properties of Positional Isomeric Acrylonitrile Derivatives with Core Pyridine and Phenyl Moieties: Experimental and DFT Studies. Molecules 2021; 26:1500. [PMID: 33801942 PMCID: PMC8001298 DOI: 10.3390/molecules26061500] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2021] [Revised: 02/26/2021] [Accepted: 03/04/2021] [Indexed: 11/17/2022] Open
Abstract
The compounds I (Z)-2-(phenyl)-3-(2,4,5-trimethoxyphenyl)acrylonitrile with one side (2,4,5-MeO-), one symmetrical (2Z,2'Z)-2,2'-(1,4-phenylene)bis(3-(2,4,5-trimethoxyphenyl)acrylonitrile), II (both sides with (2,4,5-MeO-), and three positional isomers with pyridine (Z)-2-(pyridin-2- 3, or 4-yl)-3-(2,4,5-trimethoxyphenyl)acrylonitrile, III-V were synthetized and characterized by UV-Vis, fluorescence, IR, H1-NMR, and EI mass spectrometry as well as single crystal X-ray diffraction (SCXRD). The optical properties were strongly influenced by the solvent (hyperchromic and hypochromic shift), which were compared with the solid state. According to the solvatochromism theory, the excited-state (μe) and ground-state (μg) dipole moments were calculated based on the variation of Stokes shift with the solvent's relative permittivity, refractive index, and polarity parameters. SCXRD analyses revealed that the compounds I and II crystallized in the monoclinic system with the space group, P21/n and P21/c, respectively, and with Z = 4 and 2. III, IV, and V crystallized in space groups: orthorhombic, Pbca; triclinic, P-1; and monoclinic, P21 with Z = 1, 2, and 2, respectively. The intermolecular interactions for compounds I-V were investigated using the CCDC Mercury software and their energies were quantified using PIXEL. The density of states (DOS), molecular electrostatic potential surfaces (MEPS), and natural bond orbitals (NBO) of the compounds were determined to evaluate the photophysical properties.
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Affiliation(s)
- Armando Castillo
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo, Independencia O2 Sur 50, San Pedro Zacachimalpa 72960, Mexico; (A.C.); (P.C.); (P.S.); (M.C.); (P.V.); (E.P.-G.)
| | - Paulina Ceballos
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo, Independencia O2 Sur 50, San Pedro Zacachimalpa 72960, Mexico; (A.C.); (P.C.); (P.S.); (M.C.); (P.V.); (E.P.-G.)
| | - Pilar Santos
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo, Independencia O2 Sur 50, San Pedro Zacachimalpa 72960, Mexico; (A.C.); (P.C.); (P.S.); (M.C.); (P.V.); (E.P.-G.)
| | - Margarita Cerón
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo, Independencia O2 Sur 50, San Pedro Zacachimalpa 72960, Mexico; (A.C.); (P.C.); (P.S.); (M.C.); (P.V.); (E.P.-G.)
| | - Perumal Venkatesan
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo, Independencia O2 Sur 50, San Pedro Zacachimalpa 72960, Mexico; (A.C.); (P.C.); (P.S.); (M.C.); (P.V.); (E.P.-G.)
| | - Enrique Pérez-Gutiérrez
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo, Independencia O2 Sur 50, San Pedro Zacachimalpa 72960, Mexico; (A.C.); (P.C.); (P.S.); (M.C.); (P.V.); (E.P.-G.)
| | - Martha Sosa-Rivadeneyra
- Facultad de Ciencias Químicas, Benemérita Universidad Autónoma de Puebla (BUAP), 14 Sur Esquina San Claudio, San Manuel, Puebla 72570, Mexico;
| | - Subbiah Thamotharan
- Biomolecular Crystallography Laboratory, School of Chemical & Biotechnology, Department of Bioinformatics, SASTRA Deemed University, Thanjavur 613401, India;
| | - Maxime A. Siegler
- Department of Chemistry, Johns Hopkins University, New Chemistry Building, 3400 N. Charles St., Baltimore, MD 21218, USA;
| | - María Judith Percino
- Unidad de Polímeros y Electrónica Orgánica, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Val3-Ecocampus Valsequillo, Independencia O2 Sur 50, San Pedro Zacachimalpa 72960, Mexico; (A.C.); (P.C.); (P.S.); (M.C.); (P.V.); (E.P.-G.)
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Jayasree EG, Sukumar C. Integrating redox-response in crown ethers by disulfide incorporation: a computational approach. Struct Chem 2021. [DOI: 10.1007/s11224-021-01761-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Wei J, Li Y, Song P, Yang Y, Ma F. Enhancement of one- and two-photon absorption and visualization of intramolecular charge transfer of pyrenyl-contained derivatives. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 245:118897. [PMID: 32937267 DOI: 10.1016/j.saa.2020.118897] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2020] [Revised: 08/09/2020] [Accepted: 08/26/2020] [Indexed: 05/21/2023]
Abstract
To further improve the pyrenyl-contained derivatives two-photon absorption (TPA) and third-order nonlinear optical (NLO) properties, three steps of optimization are employed based on experimental molecule PCVS-B: heteroatomic substitution, exchanging the position of double bonds and adding a branch. The contributions of π electrons to localized orbital locators and Mayer bond orders (LOL-π and IABπ) show that the second step can enhance the chemical interaction between pyrenyl and the branched-chain. Two visual methods of charge density difference (CDD) and transition density matrix (TDM) are combined to intuitively analyze the intramolecular charge transfer (ICT) process of one (two) photon absorption; results show that both following two steps can increase the degree of ICT on the conjugated plane of the pyrenyl. The sum over state (SOS) model was used to find out the dominant two-photon transition process. The difference between the dipole moments obtained by the McRae equation is applied to the three-state model, revealing the inherent law of the second static hyperpolarizability.
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Affiliation(s)
- Jia Wei
- College of Science, Northeast Forestry University, Harbin 150040, Heilongjiang, China
| | - Yuanzuo Li
- College of Science, Northeast Forestry University, Harbin 150040, Heilongjiang, China.
| | - Peng Song
- Department of Physics, Liaoning University, Shenyang 110036, Liaoning, China
| | - Yanhui Yang
- Institute of Advanced Synthesis, School of Chemistry and Molecular Engineering, Jiangsu National Synergetic Innovation Center for Advanced Materials, Nanjing Tech University, Nanjing 211816, Jiangsu, China; School of Chemical and Biomedical Engineering, Nanyang Technological University, Singapore 639798, Singapore
| | - Fengcai Ma
- Department of Physics, Liaoning University, Shenyang 110036, Liaoning, China
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20
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Mesa RL, Villa JEL, Khan S, Peixoto RRA, Morgano MA, Gonçalves LM, Sotomayor MDPT, Picasso G. Rational Design of an Ion-Imprinted Polymer for Aqueous Methylmercury Sorption. NANOMATERIALS (BASEL, SWITZERLAND) 2020; 10:E2541. [PMID: 33348754 PMCID: PMC7766906 DOI: 10.3390/nano10122541] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/28/2020] [Revised: 11/16/2020] [Accepted: 11/23/2020] [Indexed: 02/06/2023]
Abstract
Methylmercury (MeHg+) is a mercury species that is very toxic for humans, and its monitoring and sorption from environmental samples of water are a public health concern. In this work, a combination of theory and experiment was used to rationally synthesize an ion-imprinted polymer (IIP) with the aim of the extraction of MeHg+ from samples of water. Interactions among MeHg+ and possible reaction components in the pre-polymerization stage were studied by computational simulation using density functional theory. Accordingly, 2-mercaptobenzimidazole (MBI) and 2-mercaptobenzothiazole (MBT), acrylic acid (AA) and ethanol were predicted as excellent sulfhydryl ligands, a functional monomer and porogenic solvent, respectively. Characterization studies by scanning electron microscopy (SEM) and Brunauer-Emmett-Teller (BET) revealed the obtention of porous materials with specific surface areas of 11 m2 g-1 (IIP-MBI-AA) and 5.3 m2 g-1 (IIP-MBT-AA). Under optimized conditions, the maximum adsorption capacities were 157 µg g-1 (for IIP-MBI-AA) and 457 µg g-1 (for IIP-MBT-AA). The IIP-MBT-AA was selected for further experiments and application, and the selectivity coefficients were MeHg+/Hg2+ (0.86), MeHg+/Cd2+ (260), MeHg+/Pb2+ (288) and MeHg+/Zn2+ (1510), highlighting the material's high affinity for MeHg+. The IIP was successfully applied to the sorption of MeHg+ in river and tap water samples at environmentally relevant concentrations.
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Affiliation(s)
- Ruddy L. Mesa
- Laboratory of Physical Chemistry Research, Faculty of Sciences, National University of Engineering, Lima 15333, Peru; (R.L.M.M.); (S.K.)
| | - Javier E. L. Villa
- Institute of Chemistry, State University of São Paulo (UNESP), Araraquara, SP 14800-060, Brazil;
- National Institute for Alternative Technologies of Detection, Toxicological Evaluation and Removal of Micropollutants and Radioactives (INCT-DATREM), Araraquara, SP 14800-060, Brazil
| | - Sabir Khan
- Laboratory of Physical Chemistry Research, Faculty of Sciences, National University of Engineering, Lima 15333, Peru; (R.L.M.M.); (S.K.)
- Institute of Chemistry, State University of São Paulo (UNESP), Araraquara, SP 14800-060, Brazil;
- National Institute for Alternative Technologies of Detection, Toxicological Evaluation and Removal of Micropollutants and Radioactives (INCT-DATREM), Araraquara, SP 14800-060, Brazil
| | - Rafaella R. Alves Peixoto
- Department of Analytical Chemistry, Fluminense Federal University (UFF), Niterói, RJ 24020-150, Brazil;
| | | | | | - Maria D. P. T. Sotomayor
- Institute of Chemistry, State University of São Paulo (UNESP), Araraquara, SP 14800-060, Brazil;
- National Institute for Alternative Technologies of Detection, Toxicological Evaluation and Removal of Micropollutants and Radioactives (INCT-DATREM), Araraquara, SP 14800-060, Brazil
| | - Gino Picasso
- Laboratory of Physical Chemistry Research, Faculty of Sciences, National University of Engineering, Lima 15333, Peru; (R.L.M.M.); (S.K.)
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Singh I, Al-Wahaibi LH, Srivastava R, Prasad O, Pathak SK, Kumar S, Parveen S, Banerjee M, El-Emam AA, Sinha L. DFT Study on the Electronic Properties, Spectroscopic Profile, and Biological Activity of 2-Amino-5-trifluoromethyl-1,3,4-thiadiazole with Anticancer Properties. ACS OMEGA 2020; 5:30073-30087. [PMID: 33251442 PMCID: PMC7689922 DOI: 10.1021/acsomega.0c04474] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/12/2020] [Accepted: 11/03/2020] [Indexed: 11/29/2022]
Abstract
Extensive investigation on the molecular and electronic structure of 2-amino-5-trifluoromethyl-1,3,4-thiadiazole in the ground state and in the first excited state has been performed. The energy barrier corresponding to the conversion between imino and amino tautomers has been calculated, which indicates the existence of amino tautomer in solid state for the title compound. The FT-Raman and FT-IR spectra were recorded and compared with theoretical vibrational wavenumbers, and a good coherence has been observed. The MESP map, dipole moment, polarizability, and hyperpolarizability have been calculated to comprehend the properties of the title molecule. High polarizability value estimation of the title compound may enhance its bioactivity. Natural bonding orbital analysis has been done on monomer and dimer to investigate the charge delocalization and strength of hydrogen bonding, respectively. Strong hydrogen bonding interaction energies of 17.09/17.49 kcal mol-1 have been calculated at the B3LYP/M06-2X functional. The UV-vis spectrum was recorded and related to the theoretical spectrum. The title compound was biologically examined for anticancer activity by studying the cytotoxic performance against two human cancer cell lines (A549 and HeLa) along with the molecular docking simulation. Both molecular docking and cytotoxic performance against cancer cell lines show positive outcomes, and the title compound appears to be a promising anticancer agent.
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Affiliation(s)
- Isha Singh
- Department of Physics, University of Lucknow, Lucknow 226007, India
| | - Lamya H. Al-Wahaibi
- Department of Chemistry, College of Sciences, Princess Nourah bint Abdulrahman University, Riyadh 11671, Saudi Arabia
| | - Ruchi Srivastava
- Department of Physics, University of Lucknow, Lucknow 226007, India
| | - Onkar Prasad
- Department of Physics, University of Lucknow, Lucknow 226007, India
| | - Shilendra K. Pathak
- Department of Physics, M. M. M. P. G. College, Bhatpar Rani, Deoria 274702, India
| | - Saurabh Kumar
- Molecular & Human Genetics Lab, Department of Zoology, University of Lucknow, Lucknow 226007, India
| | - Shama Parveen
- Molecular & Human Genetics Lab, Department of Zoology, University of Lucknow, Lucknow 226007, India
| | - Monisha Banerjee
- Molecular & Human Genetics Lab, Department of Zoology, University of Lucknow, Lucknow 226007, India
| | - Ali A. El-Emam
- Department of Medicinal Chemistry, Faculty of Pharmacy, University of Mansoura, Mansoura 35516, Egypt
| | - Leena Sinha
- Department of Physics, University of Lucknow, Lucknow 226007, India
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22
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The mechanism for H2S scavenging by 1,3,5-hexahydrotriazines explored by DFT. Tetrahedron 2020. [DOI: 10.1016/j.tet.2020.131112] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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23
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Kumari L, Gupta S, Singh I, Prasad O, Sinha L, Gupta M. Thermodynamic, spectroscopic and DFT studies of binary mixtures of poly(vinylpyrrolidone) (PVP) with ethanol, 1-propanol and 1-butanol. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2019.112237] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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