1
|
Karthika AM, Thomas T, Augustine C. Computational studies on a selection of phosphite esters as antioxidants for polymeric materials. J Mol Model 2024; 30:244. [PMID: 38958769 DOI: 10.1007/s00894-024-06045-5] [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: 05/17/2024] [Accepted: 06/24/2024] [Indexed: 07/04/2024]
Abstract
CONTEXT Phosphite esters, a class of organo-phosphorus compounds, are widely used as non-discolouring antioxidants in many polymeric products. Apart from normal radical scavenging, they prevent the splitting of hydroperoxides (ROOH), one of the initial products of autoxidation, from forming extremely reactive free radicals such as alkoxy (RO.) and hydroxy (.OH) radicals. The inherent molecular properties of antioxidants and the chemistry of their action are essential for researchers working in this field of science. Four organo-phosphorous compounds well-known for their antioxidant activity are selected here for theoretical analysis: Tri(m-methylphenyl) phosphite (m-TMPP), Tri(4-methyl-2,6-di-tert-butylphenyl) phosphite (TMdtBPP), Tri(allylphenyl) phosphite (TAPP) and Tri(mercaptobenzothiazoyl) thiophosphate (TMBTTP). The antioxidant activity exhibited by these compounds is theoretically verified, and the results are consistent with the available experimental data. Such theoretical predictions offer advantages in scientific research, particularly when researchers need to select certain molecules as antioxidants for experiments from a pool of molecular systems. METHODS The chemical computations presented in this report are done in Gaussian 16 program package. The procedure of density functional theory (DFT) with the model chemistry B3LYP/6-31G(d,p) is used to generate computational data. Global reactivity indices, thermochemical data, Fukui functions, molecular electrostatic potential and NMR spectra are computed for the chosen molecular systems from their optimized geometries.
Collapse
Affiliation(s)
- A M Karthika
- Department of Chemistry, St. Berchmans College (Autonomous), Mahatma Gandhi University, Kottayam, India
| | - Tiju Thomas
- Department of Metallurgical and Materials Engineering, Indian Institute of Technology Madras, Chennai, India
| | - Cyril Augustine
- Department of Chemistry, St. Berchmans College (Autonomous), Mahatma Gandhi University, Kottayam, India.
- Department of Metallurgical and Materials Engineering, Indian Institute of Technology Madras, Chennai, India.
| |
Collapse
|
2
|
Das A, Rajkhowa S, Sinha S, Zaki MEA. Unveiling potential repurposed drug candidates for Plasmodium falciparum through in silico evaluation: A synergy of structure-based approaches, structure prediction, and molecular dynamics simulations. Comput Biol Chem 2024; 110:108048. [PMID: 38471353 DOI: 10.1016/j.compbiolchem.2024.108048] [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: 11/16/2023] [Revised: 02/28/2024] [Accepted: 02/29/2024] [Indexed: 03/14/2024]
Abstract
The rise of drug resistance in Plasmodium falciparum, rendering current treatments ineffective, has hindered efforts to eliminate malaria. To address this issue, the study employed a combination of Systems Biology approach and a structure-based pharmacophore method to identify a target against P. falciparum. Through text mining, 448 genes were extracted, and it was discovered that plasmepsins, found in the Plasmodium genus, play a crucial role in the parasite's survival. The metabolic pathways of these proteins were determined using the PlasmoDB genomic database and recreated using CellDesigner 4.4.2. To identify a potent target, Plasmepsin V (PF13_0133) was selected and examined for protein-protein interactions (PPIs) using the STRING Database. Topological analysis and global-based methods identified PF13_0133 as having the highest centrality. Moreover, the static protein knockout PPIs demonstrated the essentiality of PF13_0133 in the modeled network. Due to the unavailability of the protein's crystal structure, it was modeled and subjected to a molecular dynamics simulation study. The structure-based pharmacophore modeling utilized the modeled PF13_0133 (PfPMV), generating 10 pharmacophore hypotheses with a library of active and inactive compounds against PfPMV. Through virtual screening, two potential candidates, hesperidin and rutin, were identified as potential drugs which may be repurposed as potential anti-malarial agents.
Collapse
Affiliation(s)
- Abhichandan Das
- Centre for Biotechnology and Bioinformatics, Dibrugarh University, Dibrugarh, Assam 786004, India
| | - Sanchaita Rajkhowa
- Centre for Biotechnology and Bioinformatics, Dibrugarh University, Dibrugarh, Assam 786004, India.
| | - Subrata Sinha
- Department of Computational Sciences, Brainware University, Barasat, Kolkata, West Bengal 700125, India
| | - Magdi E A Zaki
- Department of Chemistry, Imam Mohammad Ibn Saud Islamic University (IMSIU), Riyadh, Saudi Arabia
| |
Collapse
|
3
|
De Gaetano F, Pastorello M, Pistarà V, Rescifina A, Margani F, Barbera V, Ventura CA, Marino A. Rutin/Sulfobutylether-β-Cyclodextrin as a Promising Therapeutic Formulation for Ocular Infection. Pharmaceutics 2024; 16:233. [PMID: 38399286 PMCID: PMC10892075 DOI: 10.3390/pharmaceutics16020233] [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: 01/11/2024] [Revised: 01/26/2024] [Accepted: 01/30/2024] [Indexed: 02/25/2024] Open
Abstract
Ocular pathologies present significant challenges to achieving effective therapeutic results due to various anatomical and physiological barriers. Natural products such as flavonoids, alone or in association with allopathic drugs, present many therapeutic actions including anticancer, anti-inflammatory, and antibacterial action. However, their clinical employment is challenging for scientists due to their low water solubility. In this study, we designed a liquid formulation based on rutin/sulfobutylether-β-cyclodextrin (RTN/SBE-β-CD) inclusion complex for treating ocular infections. The correct stoichiometry and the accurate binding constant were determined by employing SupraFit software (2.5.120) in the UV-vis titration experiment. A deep physical-chemical characterization of the RTN/SBE-β-CD inclusion complex was also performed; it confirmed the predominant formation of a stable complex (Kc, 9660 M-1) in a 1:1 molar ratio, with high water solubility that was 20 times (2.5 mg/mL) higher than the free molecule (0.125 mg/mL), permitting the dissolution of the solid complex within 30 min. NMR studies revealed the involvement of the bicyclic flavonoid moiety in the complexation, which was also confirmed by molecular modeling studies. In vitro, the antibacterial and antibiofilm activity of the formulation was assayed against Staphylococcus aureus and Pseudomonas aeruginosa strains. The results demonstrated a significant activity of the formulation than that of the free molecules.
Collapse
Affiliation(s)
- Federica De Gaetano
- Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, University of Messina, Viale Ferdinando Stagno d’Alcontres 31, 98166 Messina, Italy; (F.D.G.); (M.P.)
| | - Martina Pastorello
- Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, University of Messina, Viale Ferdinando Stagno d’Alcontres 31, 98166 Messina, Italy; (F.D.G.); (M.P.)
| | - Venerando Pistarà
- Department of Pharmaceutical and Health Sciences, University of Catania, Viale Andrea Doria 6, 95125 Catania, Italy; (V.P.); (A.R.)
| | - Antonio Rescifina
- Department of Pharmaceutical and Health Sciences, University of Catania, Viale Andrea Doria 6, 95125 Catania, Italy; (V.P.); (A.R.)
| | - Fatima Margani
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, Via Mancinelli 7, 20131 Milano, Italy; (F.M.); (V.B.)
| | - Vincenzina Barbera
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, Via Mancinelli 7, 20131 Milano, Italy; (F.M.); (V.B.)
| | - Cinzia Anna Ventura
- Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, University of Messina, Viale Ferdinando Stagno d’Alcontres 31, 98166 Messina, Italy; (F.D.G.); (M.P.)
| | - Andreana Marino
- Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, University of Messina, Viale Ferdinando Stagno d’Alcontres 31, 98166 Messina, Italy; (F.D.G.); (M.P.)
| |
Collapse
|
4
|
Fisetin and Robinetin antiradical activity under solvent effect: density functional theory study. J Mol Model 2022; 28:240. [PMID: 35913682 DOI: 10.1007/s00894-022-05223-7] [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: 12/21/2021] [Accepted: 07/13/2022] [Indexed: 10/16/2022]
Abstract
The structural and antioxidant activity of two flavonols, namely, Fisetin and Robinetin, have been investigated employing the density functional theory (DFT) using B3LYP functional and 6-311++G (d, p) basis set. The calculations were performed in the gas phase and under the solvent effect of water, dimethylsulfoxide (DMSO), methanol, and benzene. The Hydrogen-Atom Transfer (HAT), single Electron Transfer Followed by Proton Transfer (SET-PT), and sequential Proton Loss Electron Transfer (SPLET) mechanisms were investigated to rationalize the radical scavenging capacities and to identify the favored antioxidant mechanism. Hence, the bond dissociation enthalpies (BDE) ionization potential (IP), IE, proton dissociation enthalpy (PDE), proton affinity (PA), and electron Transfer enthalpy (ETE) related to each mechanism were reported and discussed in function of the solvent effect. For both flavonols, the results showed that 4'-OH hydroxyl is the preferred active site following the trend 4'-OH > 3'-OH > 3-OH > (5'-OH) > 7-OH. Besides, the HAT mechanism is energetically the most favored pathway. The energetically favored solvents follow the trends water > DMSO > benzene > methanol and benzene > DMSO > methanol > water, for Fisetin and Robinetin, respectively.
Collapse
|
5
|
Roquete Amparo T, Cherem Peixoto Silva A, Brandão Seibert J, dos Santos da Silva D, Martins Rebello dos Santos V, Melo de Abreu Vieira P, Célio Brandão G, Henrique Bianco de Souza G, Aloise Maneira Corrêa Santos B. In vitro and in silico investigation of the photoprotective and antioxidant potential of Protium spruceanum leaves and its main flavonoids. J Photochem Photobiol A Chem 2022. [DOI: 10.1016/j.jphotochem.2022.114037] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
6
|
Zhang Z, Guo S, Chen C, Lin J, Chen L, Wang D, Hu J, Chen X, Yang J, Li Y, Wang X. Optimization of extraction and bioactivity detection of celery leaf flavonoids using BP neural network combined with genetic algorithm and response. Prep Biochem Biotechnol 2021; 52:648-656. [PMID: 34694209 DOI: 10.1080/10826068.2021.1983832] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
In the present study, ultrasound-assisted extraction was employed to extract the general flavone from celery leaves using response surface methodology and BP neural network model with a genetic algorithm (GA). The effects of temperature, time, solid-liquid ratio, and ethanol concentration on the extraction results were assessed by Box-Behnken design. Further optimization of the process was performed by GA-BP. Our results showed that the optimal conditions were an ethanol concentration of 70.31%, a temperature of 67.2 °C and an extraction time of 26.6 min. In addition, significant antioxidant activity and in vitro bacteriostasis were observed. We found that the total flavonoids of the celery leaves exerted a strong inhibitory effect on Escherichia coli, Staphylococcus aureus, and Bacillus subtilis. Additionally, considerable DPPH· and ·OH scavenging effects were exerted by flavonoids. Therefore, flavonoids from celery leaves can be considered natural antioxidants and bacterial inhibitors.
Collapse
Affiliation(s)
- Zhen Zhang
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Shancai Guo
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Chuanding Chen
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Jianyuan Lin
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Leyuan Chen
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Danni Wang
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Jinjing Hu
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Xinrui Chen
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Jingyi Yang
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Yingying Li
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| | - Xinxuan Wang
- College of Biomedical and Environmental Science, Zhejiang Wanli University, Ningbo, China
| |
Collapse
|
7
|
de Souza
Farias SA, da Costa KS, Martins JB. Analysis of Conformational, Structural, Magnetic, and Electronic Properties Related to Antioxidant Activity: Revisiting Flavan, Anthocyanidin, Flavanone, Flavonol, Isoflavone, Flavone, and Flavan-3-ol. ACS OMEGA 2021; 6:8908-8918. [PMID: 33842761 PMCID: PMC8028018 DOI: 10.1021/acsomega.0c06156] [Citation(s) in RCA: 41] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Accepted: 03/01/2021] [Indexed: 06/03/2023]
Abstract
Understanding the antioxidant activity of flavonoids is important to investigate their biological activities as well as to design novel molecules with low toxicity and high activity. Aromaticity is a chemical property found in cyclic structures that plays an important role in their stability and reactivity, and its investigation can help us to understand the antioxidant activity of some heterocyclic compounds. In the present study, we applied the density functional theory (DFT) to investigate the properties of seven flavonoid structures with well-reported antioxidant activity: flavan, anthocyanidin, flavanone, flavonol, isoflavone, flavone, and flavan-3-ol. Conformational, structural, magnetic, and electronic analyses were performed using nuclear magnetic resonance, ionization potentials, electron affinity, bond dissociation energy, proton affinity, frontier molecular orbitals (highest occupied molecular orbital (HOMO)/lowest unoccupied molecular orbital (LUMO)), and aromaticity through nucleus-independent chemical shifts to analyze these seven flavonoid structures. We revised the influence of hydroxyl groups on the properties of flavonoids and also investigated the influence of the aromaticity of these seven flavonoids on the antioxidant activity.
Collapse
Affiliation(s)
- Sergio Antônio de Souza
Farias
- Laboratory
of Molecular Modeling, Institute of Educational Sciences, Federal University of Western Pará, 68040-255 Santarém, Pará, Brazil
| | - Kauê Santana da Costa
- Institute
of Biodiversity, Federal University of Western
Pará, 68040-255 Santarém, Pará, Brazil
| | - João B.
L. Martins
- Laboratory
of Computational Chemistry, Institute of Chemistry, University of Brasilia, 4478 Brasília, Distrito
Federal, Brazil
| |
Collapse
|
8
|
Niquini FM, Tenorio JC, da Silva MF, Ribeiro AB, Wanderley A, Ellena J, Corrêa RS. On the conformation, molecular interactions and electron density of a natural flavonoid derivative. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128632] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
9
|
Liu Y, Zhao X, Zhang Q, Wang L, Li Y, Li Y. Characterization and Evaluation of the Solubility and Oral Bioavailability of Rutin-Ethanolate Solvate. AAPS PharmSciTech 2020; 21:241. [PMID: 32839899 DOI: 10.1208/s12249-020-01779-w] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2020] [Accepted: 08/06/2020] [Indexed: 01/17/2023] Open
Abstract
Rutin has many biological activities, but poor solubility and absorption limit its oral application. This study aimed to investigate the characterization of metastable rutin-ethanolate and its solubility and oral bioavailability. In this research, a soluble rutin/CH3CH2OH solvate (Form Π) was prepared by solvent crystallization. High-performance liquid chromatography, gas chromatograph, and 1H-NMR showed that Form Π was formed by rutin and ethanol in a molar ratio of 1:1. The changes of Fourier transform infrared spectroscopy and 1H-NMR spectrum and the density functional theory (DFT) calculation predicted hydrogen bond formation between 4'-O of rutin and -OH of ethanol. The results of morphology, solid state CP/MAS 13C-NMR, X-ray diffraction, and differential scanning calorimetry (DSC) revealed that Form Π is a novel polymorph that differs from Form Ι (rutin trihydrate). Form Π can be stored for a long time under sealed and dry conditions at 40°C but would gradually transform into Form Ι under humid conditions. Although Form Π is a new metastable polymorph relative to Form Ι, Form Π has better solubility and faster dissolution rate. Moreover, the bioavailability of Form Π was 2.04 times higher than that of Form Ι. This outcome implied that Form Π would be a prospective raw material of oral preparation.
Collapse
|
10
|
Elsayed RH, Kamel EM, Mahmoud AM, El-Bassuony AA, Bin-Jumah M, Lamsabhi AM, Ahmed SA. Rumex dentatus L. phenolics ameliorate hyperglycemia by modulating hepatic key enzymes of carbohydrate metabolism, oxidative stress and PPARγ in diabetic rats. Food Chem Toxicol 2020; 138:111202. [DOI: 10.1016/j.fct.2020.111202] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2020] [Revised: 02/12/2020] [Accepted: 02/13/2020] [Indexed: 01/13/2023]
|
11
|
Thuy PT, Van Trang N, Son NT. Antioxidation of 2-phenylbenzofuran derivatives: structural-electronic effects and mechanisms. RSC Adv 2020; 10:6315-6332. [PMID: 35496026 PMCID: PMC9049690 DOI: 10.1039/c9ra10835a] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2019] [Accepted: 02/06/2020] [Indexed: 01/20/2023] Open
Abstract
Stilbenoid-type 2-phenylbenzofuran derivatives, which are widely distributed in nature, are now promising antioxidant agents. In the present study, a quantum computational approach principally based on the DFT/B3LYP method with the 6-311++G(d,p) basis set was used to shed light on free radical scavenging for the isolated compounds stemofurans A-K and S-W. On the basis of the findings and from a thermodynamic perspective, the antioxidant activity of all studied compounds in the gaseous phase was mostly controlled by the O-H bond dissociation enthalpy (BDE), consistent with the hydrogen atom transfer (HAT) mechanism. The solvent effect was investigated, and the hydroxyl radicals of these studied compounds possessed the lowest proton affinity (PA) enthalpy and the sequential proton loss electron transfer (SPLET) pathway occurred in water, methanol and acetone. The studied compounds interacted with DPPH radicals, which is kinetic evidence of the involvement of two intermediates and one transition state. From both thermodynamics and kinetics perspectives, it can be proposed that stemofuran U is likely to be a leader compound in antioxidant drug development due to the presence of a 4'-OH moiety. Regarding the structure-bioactivity relationship, methylation can lead to a decrease in BDE.
Collapse
Affiliation(s)
- Phan Thi Thuy
- School of Natural Sciences Education, Vinh University Vietnam
| | - Nguyen Van Trang
- Institute for Tropical Technology, Vietnam Academy of Science and Technology (VAST) 18 Hoang Quoc Viet, Caugiay Hanoi Vietnam +84-985-538-722
- Graduate University of Science and Technology, Vietnam Academy of Science and Technology (VAST) 18 Hoang Quoc Viet, Caugiay Hanoi Vietnam
| | - Ninh The Son
- Institute of Chemistry, Vietnam Academy of Science and Technology (VAST) 18 Hoang Quoc Viet, Caugiay Hanoi Vietnam +84-968-929-304
| |
Collapse
|
12
|
A new cerebroside from the entomopathogenic fungus Ophiocordyceps longiissima: Structural-electronic and antioxidant relations. Experimental and DFT calculated studies. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2019.127061] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
|
13
|
Son NT, Mai Thanh DT, Van Trang N. Flavone norartocarpetin and isoflavone 2′-hydroxygenistein: A spectroscopic study for structure, electronic property and antioxidant potential using DFT (Density functional theory). J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2019.05.016] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
14
|
Isoflavones and Isoflavone Glycosides: Structural-Electronic Properties and Antioxidant Relations—A Case of DFT Study. J CHEM-NY 2019. [DOI: 10.1155/2019/4360175] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
Isoflavonoids and isoflavonoid glycosides have drawn much attention because of their antioxidant radical-scavenging capacity. Based on computational methods, we now present the antioxidant potential results of genistein (1), biochanin A (2), ambocin (3), and tectorigenin 7-O-[β-D-apiofuranosyl-(1-6)-β-D-glucopyranoside] (4). The optimized structures of the neutral and radical forms have been determined by the DFT-B3LYP method with the 6-311G(d) basis set. From the findings and thermodynamic point of view, the ring B system of isoflavones is considered as an active center in facilitating antioxidant reactions. Antioxidant activities are mostly driven by O-H bond dissociation enthalpy (BDE) following hydrogen atom transfer (HAT) mechanism. Antioxidant ability can be arranged in the following order: compounds (4) > (3) > (2) > (1). Of comprehensive structural analysis, flavonoids with 4′-methylation and 6-methoxylation, especially 7-glycosylation would claim responsibility for antioxidant enhancement.
Collapse
|
15
|
Augustine C. Unravelling the Competence of Leucocyanidin in Free Radical Scavenging: A Theoretical Approach Based on Electronic Structure Calculations. J STRUCT CHEM+ 2019. [DOI: 10.1134/s0022476619020045] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
|
16
|
Sagandykova GN, Pomastowski PP, Kaliszan R, Buszewski B. Modern analytical methods for consideration of natural biological activity. Trends Analyt Chem 2018. [DOI: 10.1016/j.trac.2018.10.012] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
17
|
De Souza LA, Da Silva HC, De Almeida WB. Structural Determination of Antioxidant and Anticancer Flavonoid Rutin in Solution through DFT Calculations of 1H NMR Chemical Shifts. ChemistryOpen 2018; 7:902-913. [PMID: 30460171 PMCID: PMC6234759 DOI: 10.1002/open.201800209] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Indexed: 11/28/2022] Open
Abstract
As the knowledge of the predominant molecular structure of antioxidant and anticancer flavonoid rutin in solution is very important for understanding the mechanism of action, a quantum chemical investigation of plausible rutin structures including solvent effects is of relevance. In this work, DFT calculations were performed to find possible minimum energy structures for the rutin molecule. 1H NMR chemical shift DFT calculations were carried out in DMSO solution using the polarizable continuum model (PCM) to simulate the solvent effect. Analysis of the experimental and theoretical 1H NMR chemical shift profiles offers a powerful fingerprint criterion to determine the predominant molecular structure in solution. Therefore, our aim is to find the best match between experimental (in DMSO‐d) and theoretical (PCM–DMSO) 1H NMR spectrum profiles. Among 34 optimized structures located on the potential energy surface, we found that structure 32, with a B‐ring deviated 30° from a planar configuration (geometry usually assumed for polyphenols), showed an almost perfect agreement with experimental the 1H NMR pattern when compared to the corresponding fully optimized planar geometry. This structure is also predicted as the global minimum based on room‐temperature Gibbs free energy calculations in solution and, therefore, should be experimentally observed. This is new and valuable structural information regarding structure–activity relationship studies, and such information is hard to obtain by experimentalists without the aid of the X‐ray diffraction technique.
Collapse
Affiliation(s)
- Leonardo A. De Souza
- Departamento de Química InorgânicaInstituto de Química, Universidade Federal Fluminense (UFF), Outeiro de São João Batista s/n, Campus do Valonguinho24020-141, CentroNiteróiRJBrazil
| | - Haroldo C. Da Silva
- Departamento de Química InorgânicaInstituto de Química, Universidade Federal Fluminense (UFF), Outeiro de São João Batista s/n, Campus do Valonguinho24020-141, CentroNiteróiRJBrazil
| | - Wagner B. De Almeida
- Departamento de Química InorgânicaInstituto de Química, Universidade Federal Fluminense (UFF), Outeiro de São João Batista s/n, Campus do Valonguinho24020-141, CentroNiteróiRJBrazil
| |
Collapse
|
18
|
Costa RA, Oliveira KM, Costa EV, Pinheiro ML. Vibrational, structural and electronic properties investigation by DFT calculations and molecular docking studies with DNA topoisomerase II of strychnobrasiline type alkaloids: A theoretical approach for potentially bioactive molecules. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2017.05.087] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
|
19
|
Quantum chemical properties investigation and molecular docking analysis with DNA topoisomerase II of β-carboline indole alkaloids from Simaba guianensis: a combined experimental and theoretical DFT study. Struct Chem 2017. [DOI: 10.1007/s11224-017-1029-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
20
|
Zheng YZ, Deng G, Chen DF, Liang Q, Guo R, Fu ZM. Theoretical studies on the antioxidant activity of pinobanksin and its ester derivatives: Effects of the chain length and solvent. Food Chem 2017; 240:323-329. [PMID: 28946279 DOI: 10.1016/j.foodchem.2017.07.133] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2017] [Revised: 07/18/2017] [Accepted: 07/25/2017] [Indexed: 11/25/2022]
Abstract
The effects of the ester group and solvent on the structure and antioxidant activity of pinobanksin were carried out using DFT calculation. First, the properties of the intramolecular hydrogen-bonds in the investigated compounds were studied. Second, the antioxidant capacities of the investigated compounds were analyzed by HAT, SET-PT and SPLET mechanisms from thermodynamic point. The conclusions are: (1) HAT mechanism is most favorable in the gas and CCl4 phases, while SPLET mechanism is more favored in the CH3CN and H2O phases. In the CHCl3 phase, the thermodynamically preferred mechanism is HAT for the 3-OH and 5-OH groups. While, HAT and SPLET mechanisms may run simultaneously for the 7-OH group. (2) Replacing the 3-OH group by ester group with different alkyl chains does not change much of the antioxidant activity of pinobanksin. (3) Besides, the 7-OH group contributes mainly to the antioxidant activities of the investigated compounds.
Collapse
Affiliation(s)
- Yan-Zhen Zheng
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou 350002, PR China
| | - Geng Deng
- Key Laboratory of Bioorganic Phosphorous Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry, Tsinghua University, Beijing 100084, PR China
| | - Da-Fu Chen
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou 350002, PR China.
| | - Qin Liang
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou 350002, PR China
| | - Rui Guo
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou 350002, PR China
| | - Zhong-Min Fu
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou 350002, PR China
| |
Collapse
|
21
|
Abstract
For more than half a century free radical-induced alterations at cellular and organ levels have
been investigated as a probable underlying mechanism of a number of adverse health conditions. Consequently,
significant research efforts have been spent for discovering more effective and potent antioxidants /
free radical scavengers for treatment of these adverse conditions. Being by far the most used antioxidants
among natural and synthetic compounds, mono- and polyphenols have been the focus of both experimental
and computational research on mechanisms of free radical scavenging. Quantum chemical studies have provided
a significant amount of data on mechanisms of reactions between phenolic compounds and free radicals outlining a
number of properties with a key role for the radical scavenging activity and capacity of phenolics. The obtained quantum
chemical parameters together with other molecular descriptors have been used in quantitative structure-activity relationship
(QSAR) analyses for the design of new more effective phenolic antioxidants and for identification of the most useful
natural antioxidant phenolics. This review aims at presenting the state of the art in quantum chemical and QSAR studies
of phenolic antioxidants and at analysing the trends observed in the field in the last decade.
Collapse
Affiliation(s)
- Petko Alov
- Department of QSAR and Molecular Modelling, Institute of Biophysics and Biomedical Engineering, Bulgarian Academy of Sciences. 105 Acad. G. Bonchev St., 1113 Sofia, Bulgaria.
| | | | | |
Collapse
|
22
|
Antiradical potential of phenolic compounds fingerprints of propolis extracts: DFT approach. COMPUT THEOR CHEM 2015. [DOI: 10.1016/j.comptc.2015.05.003] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
|
23
|
Reza HM, Gias ZT, Islam P, Sabnam S, Jain P, Hossain MH, Alam MA. HPLC-DAD System-Based Phenolic Content Analysis and In Vitro
Antioxidant Activities of Rice Bran Obtained from Aush Dhan (O
ryza Sativa
) of Bangladesh. J Food Biochem 2015. [DOI: 10.1111/jfbc.12154] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Hasan Mahmud Reza
- Department of Pharmaceutical Sciences; North South University; Dhaka-1229 Bangladesh
| | - Zarin Tasnim Gias
- Department of Pharmaceutical Sciences; North South University; Dhaka-1229 Bangladesh
| | - Priota Islam
- Department of Pharmaceutical Sciences; North South University; Dhaka-1229 Bangladesh
| | - Sadia Sabnam
- Department of Pharmaceutical Sciences; North South University; Dhaka-1229 Bangladesh
| | - Preeti Jain
- Department of Pharmaceutical Sciences; North South University; Dhaka-1229 Bangladesh
| | - Md Hemayet Hossain
- BCSIR Laboratories; Bangladesh Council of Scientific and Industrial Research (BCSIR); Dhaka-1205 Bangladesh
| | - Md Ashraful Alam
- Department of Pharmaceutical Sciences; North South University; Dhaka-1229 Bangladesh
| |
Collapse
|
24
|
Vargas-Sánchez R, Mendoza-Wilson A, Balandrán-Quintana R, Torrescano-Urrutia G, Sánchez-Escalante A. Study of the molecular structure and chemical reactivity of pinocembrin by DFT calculations. COMPUT THEOR CHEM 2015. [DOI: 10.1016/j.comptc.2015.01.014] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
25
|
Olalekan TE, Adejoro IA, VanBrecht B, Watkins GM. Crystal structures, spectroscopic and theoretical study of novel Schiff bases of 2-(methylthiomethyl)anilines. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 139:385-395. [PMID: 25576935 DOI: 10.1016/j.saa.2014.12.018] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2014] [Revised: 11/21/2014] [Accepted: 12/10/2014] [Indexed: 06/04/2023]
Abstract
New Schiff bases derived from p-methoxysalicylaldehyde and 2-(methylthiomethyl)anilines (substituted with methyl, methoxy, nitro) were synthesized and characterized by elemental analyses, FT-IR, NMR, electronic spectra and quantum chemical calculations. X-ray crystallography of two compounds showed the solid structures are stabilized by intramolecular and intermolecular H-bonds. The effect of OH⋯N interaction between the phenolic hydrogen and imine nitrogen on the proton and carbon NMR shifts, and the role of CH⋯O and CH⋯S contacts are discussed. The bond lengths and angles, (1)H and (13)C NMR data, E(LUMO-HOMO), dipole moments and polarizability of the compounds were predicted by density functional theory, DFT (B3LYP/6-31G∗∗) method. The experimental geometric parameters and the NMR shifts were compared with the calculated values, which gave good correlations. The electronic effects of aryl ring substituents (methyl, methoxy and nitro) on the properties of the resulting compounds, such as the color, NMR shifts, electronic spectra and the calculated energy band gaps, dipole moments and polarizability are discussed. Increase in electron density shifted the phenolic proton resonance to lower fields. The methoxy-substituted compound has a small dipole moment and subsequent large polarizability value. Highest polarity was indicated by the nitro compound which also showed high polarizability due to its larger size. The energy gaps obtained from E(LUMO-HOMO) calculations suggest these compounds may have applications as organic semiconducting materials.
Collapse
Affiliation(s)
- Temitope E Olalekan
- Department of Chemistry and Centre for Chemico- and Biomedicinal Research, Rhodes University, Grahamstown 6140, South Africa.
| | - Isaiah A Adejoro
- Department of Chemistry, University of Ibadan, 200285 Oyo State, Nigeria
| | - Bernardus VanBrecht
- Department of Chemistry, Nelson Mandela Metropolitan University, Port Elizabeth 6001, South Africa
| | - Gareth M Watkins
- Department of Chemistry and Centre for Chemico- and Biomedicinal Research, Rhodes University, Grahamstown 6140, South Africa
| |
Collapse
|
26
|
Alov P, Tsakovska I, Pajeva I. Computational studies of free radical-scavenging properties of phenolic compounds. Curr Top Med Chem 2015; 15:85-104. [PMID: 25547098 PMCID: PMC4462847] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2014] [Revised: 11/16/2014] [Accepted: 11/18/2014] [Indexed: 11/12/2023]
Abstract
For more than half a century free radical-induced alterations at cellular and organ levels have been investigated as a probable underlying mechanism of a number of adverse health conditions. Consequently, significant research efforts have been spent for discovering more effective and potent antioxidants / free radical scavengers for treatment of these adverse conditions. Being by far the most used antioxidants among natural and synthetic compounds, mono- and polyphenols have been the focus of both experimental and computational research on mechanisms of free radical scavenging. Quantum chemical studies have provided a significant amount of data on mechanisms of reactions between phenolic compounds and free radicals outlining a number of properties with a key role for the radical scavenging activity and capacity of phenolics. The obtained quantum chemical parameters together with other molecular descriptors have been used in quantitative structure-activity relationship (QSAR) analyses for the design of new more effective phenolic antioxidants and for identification of the most useful natural antioxidant phenolics. This review aims at presenting the state of the art in quantum chemical and QSAR studies of phenolic antioxidants and at analysing the trends observed in the field in the last decade.
Collapse
Affiliation(s)
- Petko Alov
- Department of QSAR and Molecular Modelling, Institute of Biophysics and Biomedical Engineering, Bulgarian Academy of Sciences. 105 Acad. G. Bonchev St., 1113 Sofia, Bulgaria.
| | | | | |
Collapse
|
27
|
Nikitenko NG, Shestakov AF. Quantum chemical study of C-H bond activation in methane and methanol by Au(I) quercetin complexes under mild conditions. DOKLADY CHEMISTRY 2013. [DOI: 10.1134/s0012500813050066] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
28
|
Nikitenko NG, Shestakov AF. Quantum chemical modeling of the activation and oxidation of light alkanes under mild conditions by Au(I) complexes with bioflavonoids. KINETICS AND CATALYSIS 2013. [DOI: 10.1134/s0023158413020110] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
29
|
Morales J, Günther G, Zanocco AL, Lemp E. Singlet oxygen reactions with flavonoids. A theoretical-experimental study. PLoS One 2012; 7:e40548. [PMID: 22802966 PMCID: PMC3393665 DOI: 10.1371/journal.pone.0040548] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2012] [Accepted: 06/08/2012] [Indexed: 01/13/2023] Open
Abstract
Detection of singlet oxygen emission, λ(max) = 1270 nm, following laser excitation and steady-state methods were employed to measure the total reaction rate constant, k(T), and the reactive reaction rate constant, k(r), for the reaction between singlet oxygen and several flavonoids. Values of k(T) determined in deuterated water, ranging from 2.4×10(7) M(-1) s(-1) to 13.4×10(7) M(-1) s(-1), for rutin and morin, respectively, and the values measured for k(r), ranging from 2.8×10(5) M(-1) s(-1) to 65.7×10(5) M(-1) s(-1) for kaempferol and morin, respectively, being epicatechin and catechin chemically unreactive. These results indicate that all the studied flavonoids are good quenchers of singlet oxygen and could be valuable antioxidants in systems under oxidative stress, in particular if a flavonoid-rich diet was previously consumed. Analysis of the dependence of rate constant values with molecular structure in terms of global descriptors and condensed Fukui functions, resulting from electronic structure calculations, supports the formation of a charge transfer exciplex in all studied reactions. The fraction of exciplex giving reaction products evolves through a hydroperoxide and/or an endoperoxide intermediate produced by singlet oxygen attack on the double bond of the ring C of the flavonoid.
Collapse
Affiliation(s)
- Javier Morales
- Universidad de Chile, Facultad de Ciencias Químicas y Farmacéuticas, Departamento de Ciencias y Tecnología Farmacéuticas, Santiago, Chile
| | - Germán Günther
- Universidad de Chile, Facultad de Ciencias Químicas y Farmacéuticas, Departamento de Química Orgánica y Fisicoquímica, Santiago, Chile
| | - Antonio L. Zanocco
- Universidad de Chile, Facultad de Ciencias Químicas y Farmacéuticas, Departamento de Química Orgánica y Fisicoquímica, Santiago, Chile
| | - Else Lemp
- Universidad de Chile, Facultad de Ciencias Químicas y Farmacéuticas, Departamento de Química Orgánica y Fisicoquímica, Santiago, Chile
| |
Collapse
|
30
|
Affiliation(s)
- Pratim Kumar Chattaraj
- Department of Chemistry, Center for Theoretical Studies, Indian Institute of Technology, Kharagpur, India
| | | | | |
Collapse
|