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Temüz M, Çankaya N, Korcan SE, Yalçin Azarkan S, Kahraman T. First In Vitro- In Silico Analysis for the Determination of Antimicrobial and Antioxidant Properties of 2-(4-Methoxyphenylamino)-2-oxoethyl Methacrylate and p-Acetamide. ACS OMEGA 2024; 9:7910-7922. [PMID: 38405536 PMCID: PMC10882695 DOI: 10.1021/acsomega.3c07836] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/08/2023] [Revised: 12/29/2023] [Accepted: 01/05/2024] [Indexed: 02/27/2024]
Abstract
The antibacterial, antifungal, and antioxidant activities of 2-chloro-N-(4-methoxyphenyl)acetamide (p-acetamide) and 2-(4-methoxyphenylamino)-2-oxoethyl methacrylate (MPAEMA) were investigated by in vitro experiments and in silico analyses. MPAEMA has an antibacterial effect only against Gram-positive Staphylococcus aureus. It was determined that this did not affect any other bacteria and Candida glabrata yeast. On the other hand, p-acetamide showed antimicrobial activity against S. aureus ATCC 25923, C. glabrata ATCC 90030, Bacillus subtilis NRRL 744, Enterococcus faecalis ATCC 551289, Escherichia coli ATCC 25922, Klebsiella pneumoniae NRLLB4420, Pseudomonas aeruginosa ATCC 27853, and Listeria monocytogenes ATCC 1911. p-Acetamide showed the greatest antifungal effect by inhibiting the colony growth of Trichoderma longibrachiatum (98%). This was followed by Mucor plumbeus with 83% and Fusarium solani with 21%. MPAEMA inhibited colony growth of T. longibrachiatum by 95% and that of M. plumbeus by 91%. Also, p-acetamide and MPAEMA had a scavenging effect on free radicals. According to results of the in silico analysis, the antimicrobial effect of these compounds is due to their effect on DNA ligase. Based on drug-likeness analysis, they were found to be consistent with the Lipinski, Veber, or Ghose rule. p-Acetamide and MPAEMA may be used as drugs.
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Affiliation(s)
- Mehmet
Mürşit Temüz
- Department
of Chemistry, Firat University, Faculty
of Science, Elazığ 23119, Turkey
| | - Nevin Çankaya
- Vocational
School of Health Services, Usak University, Usak 64200, Turkey
| | - Safiye Elif Korcan
- Vocational
School of Health Services, Usak University, Usak 64200, Turkey
| | - Serap Yalçin Azarkan
- Department
of Medical Pharmacology, Kırsehir
Ahi Evran University, Faculty of Medicine, Kırşehir 40100, Turkey
| | - Tuğba Kahraman
- Department
of Biology, Ege University, Faculty of Sciences, İzmir 35100, Turkey
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Jóźwiak K, Jezierska A, Panek JJ, Kochel A, Filarowski A. Inter- vs. Intra-Molecular Hydrogen Bond in Complexes of Nitrophthalic Acids with Pyridine. Int J Mol Sci 2023; 24:ijms24065248. [PMID: 36982321 PMCID: PMC10048863 DOI: 10.3390/ijms24065248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Accepted: 03/07/2023] [Indexed: 03/12/2023] Open
Abstract
This study covers the analysis of isomeric forms of nitrophthalic acids with pyridine. This work dwells on the complementary experimental (X-ray, IR and Raman) and theoretical (Car-Parrinello Molecular Dynamics (CPMD) and Density Functional Theory (DFT)) studies of the obtained complexes. The conducted studies showed that steric repulsion between the nitro group in ortho-position and the carboxyl group causes significant isomeric changes. Modeling of the nitrophthalic acid—pyridine complex yielded a short strong intramolecular hydrogen bond (SSHB). The transition energy from the isomeric form with an intermolecular hydrogen bond to the isomeric form with an intramolecular hydrogen bond was estimated.
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Shenderovich IG, Denisov GS. Modeling of the Response of Hydrogen Bond Properties on an External Electric Field: Geometry, NMR Chemical Shift, Spin-Spin Scalar Coupling. Molecules 2021; 26:molecules26164967. [PMID: 34443575 PMCID: PMC8399935 DOI: 10.3390/molecules26164967] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2021] [Revised: 08/10/2021] [Accepted: 08/16/2021] [Indexed: 12/15/2022] Open
Abstract
The response of the geometric and NMR properties of molecular systems to an external electric field has been studied theoretically in a wide field range. It has been shown that this adduct under field approach can be used to model the geometric and spectral changes experienced by molecular systems in polar media if the system in question has one and only one bond, the polarizability of which significantly exceeds the polarizability of other bonds. If this requirement is met, then it becomes possible to model even extreme cases, for example, proton dissociation in hydrogen halides. This requirement is fulfilled for many complexes with one hydrogen bond. For such complexes, this approach can be used to facilitate a detailed analysis of spectral changes associated with geometric changes in the hydrogen bond. For example, in hydrogen-bonded complexes of isocyanide C≡15N-1H⋯X, 1J(15N1H) depends exclusively on the N-H distance, while δ(15N) is also slightly influenced by the nature of X.
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Affiliation(s)
- Ilya G. Shenderovich
- Institute of Organic Chemistry, University of Regensburg, Universitaetstrasse 31, 93053 Regensburg, Germany
- Department of Physics, St. Petersburg State University, 198504 St. Petersburg, Russia;
- Correspondence:
| | - Gleb S. Denisov
- Department of Physics, St. Petersburg State University, 198504 St. Petersburg, Russia;
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Farrokhzadeh A, Modarresi-Alam AR, Akher FB, Kleinpeter E, Kelling A, Schilde U. Investigation of the unusually high rotational energy barrier about the C-N bond in 5-(2-x-phenyl)-N,N-dimethyl-2H-tetrazole-2-carboxamides: Insights from dynamic 1H-NMR and DFT calculations. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129363] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
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Abstract
A review of intramolecular hydrogen bonding in ortho-hydroxyaryl Schiff bases, ortho-hydroxyaryl Mannich bases, dipyrrins, ortho-hydroxyaryl ketones, ortho-hydroxyaryl amides, and 4-Bora-3a,4a-diaza-s-indacene (BODIPY) dyes with tautomeric sensors as substituents is presented in this paper. Ortho-hydroxy Schiff and Mannich base derivatives are known as model molecules for analysing the properties of intramolecular hydrogen bonding. The compounds under discussion possess physicochemical features modulated by the presence of strong intramolecular hydrogen bonds. The equilibrium between intra- and inter-molecular hydrogen bonds in BODIPY is discussed. Therefore, the summary can serve as a knowledge compendium of the influence of the hydrogen bond on the molecular properties of aromatic compounds.
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Shu S, Huang M, Jiang J, Qu LB, Liu Y, Ke Z. Catalyzed or non-catalyzed: chemoselectivity of Ru-catalyzed acceptorless dehydrogenative coupling of alcohols and amines via metal–ligand bond cooperation and (de)aromatization. Catal Sci Technol 2019. [DOI: 10.1039/c9cy00243j] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The mechanistic origin of the chemoselectivity for Ru-catalyzed acceptorless coupling of amines and alcohols.
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Affiliation(s)
- Siwei Shu
- School of Chemical Engineering and Light Industry
- Guangdong University of Technology
- Guangzhou 510006
- P. R. China
| | - Meijie Huang
- School of Chemical Engineering and Light Industry
- Guangdong University of Technology
- Guangzhou 510006
- P. R. China
| | - Jingxing Jiang
- School of Materials Science and Engineering
- PCFM Lab
- Sun Yat-sen University
- Guangzhou 510275
- P. R. China
| | - Ling-Bo Qu
- College of Chemistry and Molecular Engineering
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
| | - Yan Liu
- School of Chemical Engineering and Light Industry
- Guangdong University of Technology
- Guangzhou 510006
- P. R. China
| | - Zhuofeng Ke
- School of Materials Science and Engineering
- PCFM Lab
- Sun Yat-sen University
- Guangzhou 510275
- P. R. China
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Mıhçıokur Ö, Özpozan T. Molecular structure, vibrational spectroscopic analysis (IR & Raman), HOMO-LUMO and NBO analysis of anti-cancer drug sunitinib using DFT method. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2017.07.064] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Movahedifar F, Modarresi-Alam AR, Kleinpeter E, Schilde U. Dynamic 1H-NMR study of unusually high barrier to rotation about the partial C N double bond in N,N-dimethyl carbamoyl 5-aryloxytetrazoles. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2016.12.010] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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Gamov G, Aleksandriiskii V, Sharnin V. Inhibited rotation of amide group around C N bond of nicotinamide in different solvents by 1 H NMR data. J Mol Liq 2017. [DOI: 10.1016/j.molliq.2017.01.078] [Citation(s) in RCA: 2] [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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Caneschi CA, Almeida AMD, Martins FJ, Hyaric ML, Oliveira MME, Macedo GC, Almeida MVD, Raposo NRB. In vitro antifungal activity of organic compounds derived from amino alcohols against onychomycosis. Braz J Microbiol 2017; 48:476-482. [PMID: 28237676 PMCID: PMC5498441 DOI: 10.1016/j.bjm.2016.12.008] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2016] [Accepted: 12/07/2016] [Indexed: 02/08/2023] Open
Abstract
Onychomycosis is a fungal infection of the nail caused by high densities of filamentous fungi and yeasts. Treatment for this illness is long-term, and recurrences are frequently detected. This study evaluated in vitro antifungal activities of 12 organic compounds derived from amino alcohols against standard fungal strains, such as Trichophyton rubrum CCT 5507 URM 1666, Trichophyton mentagrophytes ATCC 11481, and Candida albicans ATCC 10231. The antifungal compounds were synthesized from p-hydroxybenzaldehyde (4a–4f) and p-hydroxybenzoic acid (9a–9f). Minimum inhibitory concentrations and minimum fungicidal concentrations were determined according to Clinical and Laboratory Standards Institute protocols M38-A2, M27-A3, and M27-S4. The amine series 4b–4e, mainly 4c and 4e compounds, were effective against filamentous fungi and yeast (MIC from 7.8 to 312 μg/mL). On the other hand, the amide series (9a–9f) did not present inhibitory effect against fungi, except amide 9c, which demonstrated activity only against C. albicans. This allowed us to infer that the presence of amine group and intermediate carbon number (8C–11C) in its aliphatic side chain seems to be important for antifungal activity. Although these compounds present cytotoxic activity on macrophages J774, our results suggest that these aromatic compounds might constitute potential as leader molecules in the development of more effective and less toxic analogs that could have considerable implications for future therapies of onychomycosis.
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Affiliation(s)
- César Augusto Caneschi
- Universidade Federal de Juiz de Fora, Faculdade de Farmácia, Núcleo de Pesquisa e Inovação em Ciências da Saúde (NUPICS), Juiz de Fora, MG, Brazil
| | - Angelina Maria de Almeida
- Universidade Federal de Juiz de Fora, Instituto de Ciências Exatas, Departamento de Química, Juiz de Fora, MG, Brazil
| | - Francislene Juliana Martins
- Universidade Federal de Juiz de Fora, Faculdade de Farmácia, Núcleo de Pesquisa e Inovação em Ciências da Saúde (NUPICS), Juiz de Fora, MG, Brazil
| | - Mireille Le Hyaric
- Universidade Federal de Juiz de Fora, Instituto de Ciências Exatas, Departamento de Química, Juiz de Fora, MG, Brazil
| | | | - Gilson Costa Macedo
- Universidade Federal de Juiz de Fora, Instituto de Ciências Biológicas, Departamento de Parasitologia, Microbiologia e Imunologia, Juiz de Fora, MG, Brazil
| | - Mauro Vieira de Almeida
- Universidade Federal de Juiz de Fora, Instituto de Ciências Exatas, Departamento de Química, Juiz de Fora, MG, Brazil
| | - Nádia Rezende Barbosa Raposo
- Universidade Federal de Juiz de Fora, Faculdade de Farmácia, Núcleo de Pesquisa e Inovação em Ciências da Saúde (NUPICS), Juiz de Fora, MG, Brazil.
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Sobczyk L, Chudoba D, Tolstoy PM, Filarowski A. Some Brief Notes on Theoretical and Experimental Investigations of Intramolecular Hydrogen Bonding. Molecules 2016; 21:E1657. [PMID: 27918442 PMCID: PMC6273268 DOI: 10.3390/molecules21121657] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2016] [Revised: 11/18/2016] [Accepted: 11/28/2016] [Indexed: 11/16/2022] Open
Abstract
A review of selected literature data related to intramolecular hydrogen bonding in ortho-hydroxyaryl Schiff bases, ortho-hydroxyaryl ketones, ortho-hydroxyaryl amides, proton sponges and ortho-hydroxyaryl Mannich bases is presented. The paper reports on the application of experimental spectroscopic measurements (IR and NMR) and quantum-mechanical calculations for investigations of the proton transfer processes, the potential energy curves, tautomeric equilibrium, aromaticity etc. Finally, the equilibrium between the intra- and inter-molecular hydrogen bonds in amides is discussed.
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Affiliation(s)
- Lucjan Sobczyk
- Faculty of Chemistry, University of Wrocław, 14 F. Joliot-Curie Str., 50-383 Wrocław, Poland.
| | - Dorota Chudoba
- Faculty of Physics, A. Mickiewicz University, Umultowska 85, 61-614 Poznan, Poland.
- Frank Laboratory of Neutron Physics, Joint Institute for Nuclear Research, 141980 Dubna, Russia.
| | - Peter M Tolstoy
- Center for Magnetic Resonance, St. Petersburg State University, St. Petersburg 198504, Russia.
| | - Aleksander Filarowski
- Faculty of Chemistry, University of Wrocław, 14 F. Joliot-Curie Str., 50-383 Wrocław, Poland.
- Frank Laboratory of Neutron Physics, Joint Institute for Nuclear Research, 141980 Dubna, Russia.
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Sen I, Kara H, Azizoglu A. Substituent effects on hydrogen bonding of aromatic amide-carboxylate. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2016; 167:50-58. [PMID: 27239947 DOI: 10.1016/j.saa.2016.05.008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2015] [Revised: 04/27/2016] [Accepted: 05/09/2016] [Indexed: 06/05/2023]
Abstract
N-(p-benzoyl)-anthranilic acid (BAA) derivatives have been synthesized with different substituents (X: Br, Cl, OCH3, CH3), and their crystal structures have been analyzed in order to understand the variations in their molecular geometries with respect to the substituents by using (1)H NMR, (13)C NMR, IR and X-ray single-crystal diffraction. The carboxylic acid group forms classic OH⋯O hydrogen bonded dimers in a centrosymmetric R2(2)(8) ring motifs for BAA-Br and BAA-Cl. However, no carboxylic acid group forms classic OH⋯O hydrogen bonded dimers in BAA-OCH3 and BAA-CH3. The asymmetric unit consists of two crystallographically independent molecules in BAA-OCH3. DFT computations show that the interaction energies between monomer and dimer are in the range of 0.5-3.8kcal/mol with the B3LYP/6-31+G*, B3LYP/6-31++G*, B3LYP/6-31++G**, and B3LYP/AUG-cc-pVDZ levels of theory. The presence of different hydrogen bond patterns is also governed by the substrate. For monomeric compounds studied herein, theoretical calculations lead to two low-energy conformers; trans (a) and cis (b). Former one is more stable than latter by about 4kcal/mol.
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Affiliation(s)
- Ibrahim Sen
- Department of Chemistry, Faculty of Arts and Sciences, University of Balikesir, TR 10145 Balikesir, Turkey
| | - Hulya Kara
- Department of Physics, University of Mugla Sitki Kocman, TR48000 Mugla, Turkey; Department of Physics, Faculty of Arts and Sciences, University of Balikesir, TR 10145 Balikesir, Turkey
| | - Akın Azizoglu
- Department of Chemistry, Faculty of Arts and Sciences, University of Balikesir, TR 10145 Balikesir, Turkey; Havran Vocational School, University of Balikesir, TR 10560 Havran, Balikesir, Turkey.
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Sigalov MV, Pylaeva SA, Tolstoy PM. Hydrogen Bonding in Bis(6-amino-1,3-dimethyluracil-5-yl)-methane Derivatives: Dynamic NMR and DFT Evaluation. J Phys Chem A 2016; 120:2737-48. [PMID: 27070193 DOI: 10.1021/acs.jpca.6b02184] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Three bis(6-amino-1,3-dimethyluracil-5-yl)-methane derivatives were studied experimentally by variable-temperature (1)H NMR in polar aprotic solutions (CD2Cl2, C5D5N, C2D2Cl4) and computationally by DFT. The unusual for diarylmethanes coplanar conformation of dimethyluracil rings of each molecule is held by a pair of unequal intramolecular N-H···O hydrogen bonds. We show the presence of two dynamic processes involving breakage/formation of these bonds. First, it is two independent NH2 group rotations, each coupled to nitrogen inversion. Second, it is uracil ring rotations (ring flips). The thermodynamic parameters (ΔH(‡), ΔS(‡), and ΔG(‡)) of both processes were estimated by the full line shape analysis of NMR signals and also by DFT calculations. We demonstrate that, though the ring flips exchange pairs of NH protons, the two processes are not coupled: during the ring flip NH2 groups do not rotate, and during the NH2 rotation the rings do not necessarily rotate. Unlike in many other diarylmethanes, the ring flips in the studied compounds are happening stepwise; i.e., the configuration when both rings are "in flight" at the same time is energetically unfavorable (small degree of "cog wheel effect"). The signs of the ΔS(‡) values indicate that the molecular flexibility increases during the NH2 rotations, but decreases during the ring flips.
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Affiliation(s)
- Mark V Sigalov
- Department of Chemistry, Ben-Gurion University of the Negev , Beer-Sheva 84105, Israel
| | - Svetlana A Pylaeva
- Center for Magnetic Resonance, Saint Petersburg State University , Saint Petersburg 199034, Russia.,Institute of Chemistry, Martin-Luther Universität Halle-Wittenberg 06108 Halle, Germany
| | - Peter M Tolstoy
- Center for Magnetic Resonance, Saint Petersburg State University , Saint Petersburg 199034, Russia
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