1
|
Dresler E, Wróblewska A, Jasiński R. Energetic Aspects and Molecular Mechanism of 3-Nitro-substituted 2-Isoxazolines Formation via Nitrile N-Oxide [3+2] Cycloaddition: An MEDT Computational Study. Molecules 2024; 29:3042. [PMID: 38998997 PMCID: PMC11243562 DOI: 10.3390/molecules29133042] [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: 06/04/2024] [Revised: 06/21/2024] [Accepted: 06/24/2024] [Indexed: 07/14/2024] Open
Abstract
Regioselectivity and the molecular mechanism of the [3+2] cycloaddition reaction between nitro-substituted formonitrile N-oxide 1 and electron-rich alkenes were explored on the basis of the wb97xd/6-311+G(d) (PCM) quantum chemical calculations. It was established that the thermodynamic factors allow for the formation of stable cycloadducts along all considered models. The analysis of the kinetic parameters of the main processes show that all [3+2] cycloadditions should be realized with full regioselectivity. In all cases, the formation of 5-substituted 3-nitro-2-isoxazolidines is clearly preferred. It is interesting that regiodirection is not determined by the local electrophile/nucleophile interactions but by steric effects. From a mechanistic point of view, all considered reactions should be treated as polar, one-step reactions. All attempts to locate the hypothetical zwitterionic intermediates along the cycloaddition paths were, however, not successful.
Collapse
Affiliation(s)
- Ewa Dresler
- Łukasiewicz Research Network-Institute of Heavy Organic Synthesis "Blachownia", Energetyków 9, 47-225 Kędzierzyn-Koźle, Poland
| | - Aneta Wróblewska
- Department of Organic Chemistry, University of Lodz, Tamka 12, 91-403 Łódź, Poland
| | - Radomir Jasiński
- Institute of Organic Chemistry and Technology, Cracow University of Technology, Warszawska 24, 31-155 Cracow, Poland
| |
Collapse
|
2
|
Kim H, Ryu CH, Hong M, Lee KM, Jo U, Kang Y. Blue Phosphorescent Pt(II) Compound Based on Tetradentate Carbazole/2,3'-Bipyridine Ligand and Its Application in Organic Light-Emitting Diodes. Molecules 2024; 29:2929. [PMID: 38930994 PMCID: PMC11206379 DOI: 10.3390/molecules29122929] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2024] [Revised: 06/17/2024] [Accepted: 06/17/2024] [Indexed: 06/28/2024] Open
Abstract
The tetradentate ligand, merging a carbazole unit with high triplet energy and dimethoxy bipyridine, renowned for its exceptional quantum efficiency in coordination with metals like Pt, is expected to demonstrate remarkable luminescent properties. However, instances of tetradentate ligands such as bipyridine-based pyridylcarbazole derivatives remain exceptionally scarce in the current literature. In this study, we developed a tetradentate ligand based on carbazole and 2,3'-bipyridine and successfully complexed it with Pt(II) ions. This novel compound (1) serves as a sky-blue phosphorescent material for use in light-emitting diodes. Based on single-crystal X-ray analysis, compound 1 has a distorted square-planar geometry with a 5/6/6 backbone around the Pt(II) core. Bright sky-blue emissions were observed at 488 and 516 nm with photoluminescent quantum yields of 34% and a luminescent lifetime of 2.6 μs. TD-DFT calculations for 1 revealed that the electronic transition was mostly attributed to the ligand-centered (LC) charge transfer transition with a small contribution from the metal-to-ligand charge transfer transition (MLCT, ~14%). A phosphorescent organic light-emitting device was successfully fabricated using this material as a dopant, along with 3'-di(9H-carbazol-9-yl)-1,1'-biphenyl (mCBP) and 9-(3'-carbazol-9-yl-5-cyano-biphenyl-3-yl)-9H-carbazole-3-carbonitrile (CNmCBPCN) as mixed hosts. A maximum quantum efficiency of 5.2% and a current efficiency of 15.5 cd/A were obtained at a doping level of 5%.
Collapse
Affiliation(s)
- Hakjo Kim
- Division of Science Education, Department of Chemistry, Kangwon National University, Chuncheon 24341, Republic of Korea
| | - Chan-Hee Ryu
- Division of Science Education, Department of Chemistry, Kangwon National University, Chuncheon 24341, Republic of Korea
| | - Miso Hong
- Division of Science Education, Department of Chemistry, Kangwon National University, Chuncheon 24341, Republic of Korea
| | - Kang Mun Lee
- Division of Science Education, Department of Chemistry, Kangwon National University, Chuncheon 24341, Republic of Korea
| | - Unhyeok Jo
- School of Chemical Engineering, Sungkyunkwan University, 2066 Seobu-ro, Jangan-gu, Suwon 16419, Republic of Korea
| | - Youngjin Kang
- Division of Science Education, Department of Chemistry, Kangwon National University, Chuncheon 24341, Republic of Korea
| |
Collapse
|
3
|
Napiórkowska E, Milcarz K, Szeleszczuk Ł. Review of Applications of Density Functional Theory (DFT) Quantum Mechanical Calculations to Study the High-Pressure Polymorphs of Organic Crystalline Materials. Int J Mol Sci 2023; 24:14155. [PMID: 37762459 PMCID: PMC10532210 DOI: 10.3390/ijms241814155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2023] [Revised: 09/05/2023] [Accepted: 09/11/2023] [Indexed: 09/29/2023] Open
Abstract
Since its inception, chemistry has been predominated by the use of temperature to generate or change materials, but applications of pressure of more than a few tens of atmospheres for such purposes have been rarely observed. However, pressure is a very effective thermodynamic variable that is increasingly used to generate new materials or alter the properties of existing ones. As computational approaches designed to simulate the solid state are normally tuned using structural data at ambient pressure, applying them to high-pressure issues is a highly challenging test of their validity from a computational standpoint. However, the use of quantum chemical calculations, typically at the level of density functional theory (DFT), has repeatedly been shown to be a great tool that can be used to both predict properties that can be later confirmed by experimenters and to explain, at the molecular level, the observations of high-pressure experiments. This article's main goal is to compile, analyze, and synthesize the findings of works addressing the use of DFT in the context of molecular crystals subjected to high-pressure conditions in order to give a general overview of the possibilities offered by these state-of-the-art calculations.
Collapse
Affiliation(s)
| | | | - Łukasz Szeleszczuk
- Department of Organic and Physical Chemistry, Faculty of Pharmacy, Medical University of Warsaw, Banacha 1, 02-093 Warsaw, Poland; (E.N.); (K.M.)
| |
Collapse
|
4
|
Ortega DE, Cortés-Arriagada D, Araya-Hermosilla R. Computational Insights on the Chemical Reactivity of Functionalized and Crosslinked Polyketones to Cu 2+ Ion for Wastewater Treatment. Polymers (Basel) 2023; 15:3157. [PMID: 37571051 PMCID: PMC10420987 DOI: 10.3390/polym15153157] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 07/20/2023] [Accepted: 07/21/2023] [Indexed: 08/13/2023] Open
Abstract
Today, the high concentrations of copper found in water resources result in an urgent problem to solve since human health and aquatic ecosystems have been affected. Functionalized crosslinked polyketone resins (XLPK) have demonstrated high performance for the uptake of heavy metals in water solutions. In addition, its green chemical synthesis makes these resins very attractive as sorbents for metal ions contained in wastewater. XLPK are not soluble in aqueous media and do not require any catalyst, solvent, or harsh conditions to carry out the uptake process. In this paper, a series of functionalized XLPK with pending amino-derivatives namely; butylamine (BA), amino 2-propanol (A2P), 4-(aminomethyl) benzoic acid (HAMC), 6-aminohexanoic acid (PAMBA), and 1,2 diamino propane (DAP) directly attached to the pyrrole backbone of the polymers and crosslinked by di-amine derivatives was investigated using Density Functional Theory (DFT) calculations. Our computational analysis revealed that dipole-dipole interactions played a crucial role in enhancing the adsorption of Cu2+ ions onto XLPKs. The negatively charged ketone moieties and functional groups within XLPKs were identified as key adsorption sites for the selective binding of Cu2+ ions. Additionally, we found that XLPKs exhibited strong electrostatic interactions primarily through the -NH2 and -C=O groups. Evaluation of the adsorption energies in XLPK-Cu(II) complexes showed that the DAP-Cu(II) complex exhibited the highest stability, attributed to strong Cu(II)-N binding facilitated by the amino moiety (-NH2). The remaining XLPKs displayed binding modes involving oxygen atoms (Cu(II)-O) within the ketone moieties in the polymer backbone. Furthermore, the complexation and thermochemical analysis emphasized the role of the coordinator atom (N or O) and the coordinating environment, in which higher entropic effects involved in the adsorption of Cu2+ ions onto XLPKs describes a lower spontaneity of the adsorption process. The adsorption reactions were favored at lower temperatures and higher pressures. These findings provide valuable insights into the reactivity and adsorption mechanisms of functionalized and crosslinked polyketones for Cu2+ uptake, facilitating the design of high-performance polymeric resins for water treatment applications.
Collapse
Affiliation(s)
- Daniela E. Ortega
- Centro Integrativo de Biología y Química Aplicada (CIBQA), Facultad de Salud, Universidad Bernardo O’Higgins, General Gana 1702, Santiago 8370854, Chile
| | - Diego Cortés-Arriagada
- Programa Institucional de Fomento a la Investigación, Desarrollo e Innovación (PIDi), Universidad Tecnológica Metropolitana, Ignacio Valdivieso 2409, San Joaquín, Santiago 8940577, Chile; (D.C.-A.); (R.A.-H.)
| | - Rodrigo Araya-Hermosilla
- Programa Institucional de Fomento a la Investigación, Desarrollo e Innovación (PIDi), Universidad Tecnológica Metropolitana, Ignacio Valdivieso 2409, San Joaquín, Santiago 8940577, Chile; (D.C.-A.); (R.A.-H.)
| |
Collapse
|
5
|
Meng Y, Liu Q. New Insights into Adsorption Properties of the Tubular Au 26 from AIMD Simulations and Electronic Interactions. Molecules 2023; 28:molecules28072916. [PMID: 37049681 PMCID: PMC10096096 DOI: 10.3390/molecules28072916] [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: 03/02/2023] [Revised: 03/20/2023] [Accepted: 03/22/2023] [Indexed: 04/14/2023] Open
Abstract
Recently, we revealed the electronic nature of the tubular Au26 based on spherical aromaticity. The peculiar structure of the Au26 could be an ideal catalyst model for studying the adsorptions of the Au nanotubes. However, through Google Scholar, we found that no one has reported connections between the structure and reactivity properties of Au26. Here, three kinds of molecules are selected to study the fundamental adsorption behaviors that occur on the surface of Au26. When one CO molecule is adsorbed on the Au26, the σ-hole adsorption structure is quickly identified as belonging to a ground state energy, and it still maintains integrity at a temperature of 500 K, where σ donations and π-back donations take place; however, two CO molecules make the structure of Au26 appear with distortions or collapse. When one H2 is adsorbed on the Au26, the H-H bond length is slightly elongated due to charge transfers to the anti-bonding σ* orbital of H2. The Au26-H2 can maintain integrity within 100 fs at 300 K and the H2 molecule starts moving away from the Au26 after 200 fs. Moreover, the Au26 can act as a Lewis base to stabilize the electron-deficient BH3 molecule, and frontier molecular orbitals overlap between the Au26 and BH3.
Collapse
Affiliation(s)
- Ying Meng
- School of Chemistry and Materials Engineering, Huainan Normal University, Huainan 232000, China
| | - Qiman Liu
- School of Chemistry and Materials Engineering, Huainan Normal University, Huainan 232000, China
- Anhui Province Key Laboratory of Low Temperature Co-Fired Materials, Huainan 232000, China
| |
Collapse
|
6
|
Xu Y, Lu L, Wang J, Zhong W, Chi X, Muddassir M, Sakiyama H, Singh A. Construction of a 1D Cu(I)-based coordination polymer as a luminescent sensor for antibiotics and a photocatalyst for dye degradation. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133990] [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]
|
7
|
Syntheses, structures and mechanisms of interactions with DNA of two new 20-core silver(I) complexes with different ligands. Inorganica Chim Acta 2022. [DOI: 10.1016/j.ica.2022.121297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
|
8
|
Wang GL, Lu Y, Wang R, Srivastava D, Kumar A, Sakiyama H, Muddassir M, Guo J, Jin JC. A highly stable 2D Zn-based coordination polymer exhibiting efficiently luminescent sensing towards sulfasalazine. Polyhedron 2022. [DOI: 10.1016/j.poly.2022.116141] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
9
|
Wang K, He X, Rong C, Zhong A, Liu S, Zhao D. On the origin and nature of internal methyl rotation barriers: an information-theoretic approach study. Theor Chem Acc 2022. [DOI: 10.1007/s00214-022-02910-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
|
10
|
New Cu(II)-based three dimensional supramolecular coordination polymer as photocatalyst for the degradation of methylene blue. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133533] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
|
11
|
Fabrication of a one‐dimensional copper(I) cyanide bearing 4,4′‐bis(imidazoly)biphenyl) polymer as a recyclable luminescent sensing material for sensitive detection of nitrofurazone. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
|
12
|
Zhong XL, Wang J, Shi C, Lu L, Srivastava D, Kumar A, Afzal M, Alarifi A. Photocatalytic applications of a new 3D Mn(II)-based MOF with mab topology. Inorganica Chim Acta 2022. [DOI: 10.1016/j.ica.2022.121063] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
|
13
|
3,5-Dibromosalicylaldehyde nicotinoylhydrazone and 4,4′-bipyridine appended new Zn(II) Coordination Polymer: Secnidazole sensing and Rhodamine B photocatalytic degradation properties. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133304] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
|
14
|
Shi CC, Zhao L, Jia-Jia X, Lu L, Singh A, Prakash O, Kumar A. New Three-dimensional Supramolecular Cd(II)-Coordination Polymer as a Luminescent Sensor for Sulfamethazine Detection. J Inorg Organomet Polym Mater 2022. [DOI: 10.1007/s10904-022-02464-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
15
|
Sensing and photocatalytic properties of a new 1D Zn(II)-based coordination polymer derived from the 3,5-dibromosalicylaldehyde nicotinoylhydrazone ligand. Polyhedron 2022. [DOI: 10.1016/j.poly.2022.115900] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
|
16
|
The Synergetic and Multifaceted Nature of Carbon‐Carbon Rotation Reveals the Origin of Conformational Barrier Heights with Bulky Alkane Groups. J PHYS ORG CHEM 2022. [DOI: 10.1002/poc.4352] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
|
17
|
Xiong M, Wu J, Lu L, Wang J, Zhang W, Guo J, Singh A, Kumar A, Muddassir M. Construction strategies to modulate the photocatalytic efficiency of Cd( ii) MOFs to photodegrade organic dyes. CrystEngComm 2022. [DOI: 10.1039/d2ce01281b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Two new tuned 3D Cd(ii) MOFs were synthesized and used as photocatalysts for dye degradation.
Collapse
Affiliation(s)
- Min Xiong
- School of Chemistry and Environmental Engineering, Sichuan University of Science & Engineering, Zigong, 643000, PR China
| | - Jian Wu
- Key Laboratory of Chemistry and Engineering of Forest Products, State Ethnic Affairs Commission, Guangxi Key Laboratory of Chemistry and Engineering of Forest Products, Guangxi Collaborative Innovation Center for Chemistry and Engineering of Forest Products, Guangxi Minzu University, Nanning, Guangxi 530006, PR China
| | - Lu Lu
- School of Chemistry and Environmental Engineering, Sichuan University of Science & Engineering, Zigong, 643000, PR China
| | - Jun Wang
- School of Chemistry and Environmental Engineering, Sichuan University of Science & Engineering, Zigong, 643000, PR China
| | - Wei Zhang
- Chongqing Institute of Green and Intelligent Technology, Chinese Academy of Sciences, Chongqing 400714, PR China
| | - Jian Guo
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, Innovative Drug Research Center, School of Pharmaceutical Sciences, Chongqing University, Chongqing 401331, PR China
| | - Amita Singh
- Department of Chemistry, Dr. Ram Manohar Lohiya Awadh University, Ayodhya, 224 001, India
| | - Abhinav Kumar
- Department of Chemistry, Faculty of Science, University of Lucknow, Lucknow 226 007, India
| | - Mohd. Muddassir
- Department of Chemistry, College of Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| |
Collapse
|
18
|
Wang J, Zhou L, Yan J, Chi X, Kumar A, Srivastava D, Afzal M, Alarifi AA. Efficient photodegradation of dyes by a new 3D Cd(II) MOF with rare fsh topology. CrystEngComm 2022. [DOI: 10.1039/d2ce00590e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Metal–organic frameworks (MOFs) can be regarded as 3D coordination polymers that adopt ordered porous structures and possess abundant active sites, which make them promising photocatalysts for the degradation of organic...
Collapse
|
19
|
Ding Y, Sun C, Guo X, Mu J. Insight into generalized local softness based on
ABEEM
‐σπ method: Electrophilic additions to alkenes. J CHIN CHEM SOC-TAIP 2021. [DOI: 10.1002/jccs.202100392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Yan‐Li Ding
- College of Science Shenyang University of Chemical Technology Shenyang People's Republic of China
| | - Chang‐Liang Sun
- Center of Physical Chemistry Test Shenyang University of Chemical Technology Shenyang People's Republic of China
| | - Xiao‐Jiao Guo
- College of Science Shenyang University of Chemical Technology Shenyang People's Republic of China
| | - Ji‐Rong Mu
- College of Science Shenyang University of Chemical Technology Shenyang People's Republic of China
| |
Collapse
|
20
|
Zhao D, He X, Li M, Wang B, Guo C, Rong C, Chattaraj PK, Liu S. Density functional theory studies of boron clusters with exotic properties in bonding, aromaticity and reactivity. Phys Chem Chem Phys 2021; 23:24118-24124. [PMID: 34730137 DOI: 10.1039/d1cp02516c] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Atomic clusters are unique in many perspectives because of their size and structure features and are continuously being applied for different purposes. To unveil their unconventional properties, in this work, using neutral tetraboron clusters as illustrative examples, we study their exotic behaviors in bonding, aromaticity, and reactivity. We show that both double and triple bonds can be formed, ring current patterns can be totally different, and both electrophilic and nucleophilic reactivities can coexist simultaneously. These features are often in contrast with our conventional chemical wisdom and could enrich the possibility for their potential applications. The methodologies employed in this work can be readily applied to other systems. Our studies should help us better appreciate atomic clusters with many atypical properties and henceforth yield novel applications.
Collapse
Affiliation(s)
- Dongbo Zhao
- Institute of Biomedical Research, Yunnan University, Chenggong District, Kunming 650500, Yunnan, P. R. China.
| | - Xin He
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Meng Li
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Bin Wang
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Chunna Guo
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Pratim K Chattaraj
- Department of Chemistry, Indian Institute of Technology, Kharagpur 721302, India.
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, USA. .,Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina, 27599-3290, USA
| |
Collapse
|
21
|
Shang XY, An HY, Zhang T, Lin JH, Hao F, Yu DH, Xiao JC, Li TD. Evaluating and understanding the affinity of metal ions to water and ammonia using density functional theory calculation. Chem Phys Lett 2021. [DOI: 10.1016/j.cplett.2021.138398] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
22
|
Chakraborty D, Chattaraj PK. Conceptual density functional theory based electronic structure principles. Chem Sci 2021; 12:6264-6279. [PMID: 34084424 PMCID: PMC8115084 DOI: 10.1039/d0sc07017c] [Citation(s) in RCA: 61] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2020] [Accepted: 03/10/2021] [Indexed: 12/20/2022] Open
Abstract
In this review article, we intend to highlight the basic electronic structure principles and various reactivity descriptors as defined within the premise of conceptual density functional theory (CDFT). Over the past several decades, CDFT has proven its worth in providing valuable insights into various static as well as time-dependent physicochemical problems. Herein, having briefly outlined the basics of CDFT, we describe various situations where CDFT based reactivity theory could be employed in order to gain insights into the underlying mechanism of several chemical processes.
Collapse
Affiliation(s)
- Debdutta Chakraborty
- Department of Chemistry, KU Leuven Celestijnenlaan 200F-2404 3001 Leuven Belgium
| | - Pratim Kumar Chattaraj
- Department of Chemistry, Indian Institute of Technology Kharagpur 721302 West Bengal India +91 3222 255303 +91 3222 283304
- Department of Chemistry, Indian Institute of Technology Bombay Powai Mumbai 400076 India
| |
Collapse
|
23
|
Pooventhiran T, Al-Zaqri N, Alsalme A, Bhattacharyya U, Thomas R. Structural aspects, conformational preference and other physico-chemical properties of Artesunate and the formation of self-assembly with graphene quantum dots: A first principle analysis and surface enhancement of Raman activity investigation. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2020.114810] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
|
24
|
Li M, He X, Chen J, Wang B, Liu S, Rong C. Density Functional Theory and Information-Theoretic Approach Study on the Origin of Homochirality in Helical Structures. J Phys Chem A 2021; 125:1269-1278. [PMID: 33527833 DOI: 10.1021/acs.jpca.0c10310] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Homochirality of macromolecules such as proteins and DNA is one of the most striking features in nature; yet, there is still no convincing theory to explain its origin. In a recent work by one of the present authors (J. Phys. Chem. Lett. 2020, 11, 8690-8696), a general proposal from the viewpoint of thermodynamics has been put forward. It proposes that it is the handedness of helices ubiquitous in biological macromolecules that plays the decisive role. It also unveiled that there exist strong cooperativity effects dominated by favorable electrostatic interactions in the homochiral conformer. In this work, making use of analytical tools, we recently developed a density functional theory and an information-theoretic approach and through four sets of helical structures we designed for the present study, we examine these systems to provide new insights about these properties. We found that the 310-helix and the α-helix are markedly different in cooperativity from the viewpoint of both the total energy and its three components. The electrostatic dominance of homochiral species is manifested by both the electron charge distribution and information gain. At the atomic level, different elements behave significantly differently because they play different roles in the systems. Our results from this work validate that these analytical tools can be applied to homochiral systems, which can be further extended to others with potential interest in asymmetric synthesis and macromolecular assembly where the Principle of Homochirality Hierarchy comes into play.
Collapse
Affiliation(s)
- Meng Li
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P.R. China
| | - Xin He
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P.R. China
| | - Jie Chen
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P.R. China
| | - Bin Wang
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P.R. China
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, United States
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P.R. China
| |
Collapse
|
25
|
Structural, physico-chemical landscapes, ground state and excited state properties in different solvent atmosphere of Avapritinib and its ultrasensitive detection using SERS/GERS on self-assembly formation with graphene quantum dots. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2020.114555] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
|
26
|
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
| |
Collapse
|
27
|
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.
Collapse
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
| |
Collapse
|
28
|
Alipour M, Khorrami M. Pauli energy and information-theoretic approach for evaluating dynamic and nondynamic electron correlation. Theor Chem Acc 2020. [DOI: 10.1007/s00214-020-02689-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
29
|
Matrodi A, Noorizadeh S. N-Derivatives of Shannon entropy density as response functions. Phys Chem Chem Phys 2020; 22:21535-21542. [PMID: 32959037 DOI: 10.1039/d0cp03808c] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
The exact first and second order partial derivatives of Shannon entropy density with respect to the number of electrons at constant external potential are introduced as new descriptors for prediction of the active sites of a molecule. The derivatives, which are a measure of the inhomogeneity of electron density, are calculated both exactly (from analytical forms) and approximately (using the finite difference method) for some molecular systems. According to the maximum entropy principle, the extreme value of the first order derivative on the surface of a given molecule should determine the active sites of the molecule in electrophilic and nucleophilic attack. The second order derivative indicates where the Shannon entropy is more concentrated or depleted during the electron exchange. Although these derivatives on the surfaces of helium and neon atoms are uniform, the corresponding values for argon, krypton and xenon atoms are not. This could explain the greater tendency of heavy noble gas atoms to form stable compounds. A dual descriptor is also defined as the difference between the left and right first order derivatives of Shannon entropy density, which allows one to simultaneously predict the preferable sites for electrophilic and nucleophilic attack over the system at point r. Therefore, the reactivity of an atom in a molecule requires the non-uniformity of the first and second order derivatives of Shannon entropy density on the surface of that atom.
Collapse
Affiliation(s)
- Abdolkarim Matrodi
- Chemistry Department, Faculty of Sciences, Shahid Chamran University of Ahvaz, Ahvaz, Iran.
| | - Siamak Noorizadeh
- Chemistry Department, Faculty of Sciences, Shahid Chamran University of Ahvaz, Ahvaz, Iran.
| |
Collapse
|
30
|
Rong C, Wang B, Zhao D, Liu S. Information‐theoretic approach in density functional theory and its recent applications to chemical problems. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2019. [DOI: 10.1002/wcms.1461] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China) Hunan Normal University Changsha P.R. China
- Department of Chemistry, College of Chemistry and Chemical Engineering Hunan Normal University Changsha P.R. China
| | - Bin Wang
- Department of Chemistry, College of Chemistry and Chemical Engineering Hunan Normal University Changsha P.R. China
| | - Dongbo Zhao
- Department of Chemistry, School of Chemistry and Chemical Engineering Nanjing University Nanjing P.R. China
| | - Shubin Liu
- Research Computing Centre University of North Carolina Chapel Hill North Carolina
| |
Collapse
|
31
|
A comparative study to predict regioselectivity, electrophilicity and nucleophilicity with Fukui function and Hirshfeld charge. Theor Chem Acc 2019. [DOI: 10.1007/s00214-019-2515-1] [Citation(s) in RCA: 74] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
32
|
Liu S. Identity for Kullback-Leibler divergence in density functional reactivity theory. J Chem Phys 2019; 151:141103. [PMID: 31615242 DOI: 10.1063/1.5124244] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Density functional reactivity theory (DFRT) makes use of simple electron density functionals to appreciate chemical reactivity. The Kullback-Leibler divergence, also called information gain or relative Shannon entropy, as a key component of the DFRT framework has entertained a few fascinating applications in the recent literature. For instance, it was employed to rationalize the Hirshfeld stockholder partition of atoms in molecules. It has also been applied to both determine regioselectivity and simultaneously quantify molecular electrophilicity and nucleophilicity, the capability of atoms in molecules to accept and donate electrons. In this work, we examine the local behavior of the Kullback-Leibler divergence and present a novel identity for it. The validity of the identity is subsequently verified by the numerical results of neutral atoms from He to Kr with different choices of the reference density. Analytical properties and local behaviors of the three new functions introduced in the identity are discussed. These new local functions, together with the identity unveiled in this work, should provide new perspectives for us to further develop the DFRT framework with added insights about the local behavior of molecular physiochemical properties.
Collapse
Affiliation(s)
- Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, USA
| |
Collapse
|