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Mohamed SK, Ahsin A, Rehman HM, Mohammed HH, Mague JT, Al-Salahi R, El Bakri Y, Hussein BRM. XRD/DFT, Hirshfeld surface analysis and molecular modelling simulations for unfolding reactivity of newly synthesized vanillin derivatives: excellent optical, NLO and protein binding efficiency. J Biomol Struct Dyn 2024:1-19. [PMID: 38305762 DOI: 10.1080/07391102.2024.2308774] [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: 08/27/2023] [Accepted: 01/14/2024] [Indexed: 02/03/2024]
Abstract
New vanillin derivatives, namely, ethyl (4-formyl-2-methoxyphenoxy)acetate (2a) and 2-(4-formyl-2-methoxyphenoxy)-N-phenylacetamide (2b), respectively, were synthesized and characterized by NMR (1H and 13C), IR, mass spectra and confirmed by single-crystal X-ray analysis. Hirshfeld surface (HS) analysis was performed to probe intra- and intermolecular interactions and surface reactivity. 2D fingerprint plots (FP) were used to study the nature and percentage contribution of intermolecular interactions leading to the formation of the crystal unit. Density functional theory (DFT) simulations were used to obtain the electronic structure and reactivity of the new molecules. Natural population analysis (NPA) and frontier molecular orbital (FMO) calculations reveal significant charge transfer and a reduced HOMO-LUMO gap up to 4.34 eV for 2b. Bader's quantum theory of atoms in molecules (QTAIM) study is utilized to understand the surface topological and bonding nature of 2a and 2b. The performed molecular electrostatic potential (MESP) and density of states (DOS) study further suggest sites likely to be attractive to incoming reagents. At the same time, hyperpolarizability (βo) is used to characterize the nonlinear optical properties, and TD-DFT study shows the excitation energy and absorption behavior. In silico studies were performed, including docking, binding free energies (MMBGSA) and molecular dynamics simulations. Compounds 2a and 2b were docked with RdRp of SARS-Cov-2, and the MMBGSA for 2a and 2b were -30.70 and -28.47 kcal/mol, respectively, while MD simulation showed the stability of protein-ligand complexes.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Shaaban K Mohamed
- Chemistry and Environmental Division, Manchester Metropolitan University, Manchester, UK
| | - Atazaz Ahsin
- Beijing National Laboratory for Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Beijing, China
- School of Chemical Sciences, University of Chinese Academy of Sciences, Beijing, China
| | | | - Hayam H Mohammed
- Department of Chemistry, Faculty of Science, Sohag University, Sohag, Egypt
| | - Joel T Mague
- Department of Chemistry, Tulane University, New Orleans, LA, USA
| | - Rashad Al-Salahi
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, Riyadh, Saudi Arabia
| | - Youness El Bakri
- Department of Theoretical and Applied Chemistry, South Ural State University, Chelyabinsk, Russian Federation
| | - Bahgat R M Hussein
- Department of Chemistry, Faculty of Science, Sohag University, Sohag, Egypt
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Rodrigues Gazolla PA, Lima WP, de Aguiar AR, Gonçalves Borsodi MP, Costa AV, de Oliveira FM, de Oliveira OV, Andreazza Costa MC, Castro Ferreira MM, do Nascimento CJ, Junker J, Vaz BG, Teixeira RR. Leishmanicidal activity and 4D quantitative structure-activity relationship and molecular docking studies of vanillin-containing 1,2,3-triazole derivatives. Future Med Chem 2024; 16:139-155. [PMID: 38131191 DOI: 10.4155/fmc-2023-0246] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2023] [Accepted: 11/27/2023] [Indexed: 12/23/2023] Open
Abstract
Aim: The assessment of the antileishmanial potential of 22 vanillin-containing 1,2,3-triazole derivatives against Leishmania braziliensis is reported. Materials & methods: Initial screening was performed against the parasite promastigote form. The most active compound, 4b, targeted parasites within amastigotes (IC50 = 4.2 ± 1.0 μmol l-1), presenting low cytotoxicity and a selective index value of 39. 4D quantitative structure-activity relationship and molecular docking studies provided insights into structure-activity and biological effects. Conclusion: A vanillin derivative with significant antileishmanial activity was identified. Enhanced activity was linked to increased electrostatic and Van der Waals interactions near the benzyl ring of the derivatives. Molecular docking indicated the inhibition of the Leishmania amazonensis sterol 14α-demethylase, using Leishmania infantum sterol 14α-demethylase as a model, without affecting the human isoform. Inhibition was active site competition with lanosterol.
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Affiliation(s)
- Poliana Aparecida Rodrigues Gazolla
- Grupo de Pesquisa e Síntese de Compostos Bioativos (GSPCB), Departamento de Química, Universidade Federal de Viçosa, Viçosa-MG, 36570-900, Brazil
| | - Wallace Pacienza Lima
- Escola de Ciências da Saúde, Universidade do Grande Rio, Rio de Janeiro-RJ, 22775-003, Brazil
| | - Alex Ramos de Aguiar
- Grupo de Pesquisa e Síntese de Compostos Bioativos (GSPCB), Departamento de Química, Universidade Federal de Viçosa, Viçosa-MG, 36570-900, Brazil
| | - Maria Paula Gonçalves Borsodi
- Instituto de Biofísica Carlos Chagas Filho, Universidade Federal do Rio de Janeiro, Rio de Janeiro, 21941-902, Brazil
| | - Adilson Vidal Costa
- Departamento de Química e Física, Universidade Federal do Espírito Santo, Alegre-ES, 29500-000, Brazil
| | | | | | | | | | - Cláudia Jorge do Nascimento
- Departamento de Ciências Naturais, Instituto de Biociências, Universidade Federal do Estado do Rio de Janeiro (UNIRIO), Rio de Janeiro-RJ, 22290-240, Brazil
| | - Jochen Junker
- Centro de Desenvolvimento Tecnológico em Saúde, Fundação Oswaldo Cruz, Rio de Janeiro-RJ, 21040-361, Brazil
| | - Boniek Gontijo Vaz
- Instituto de Química, Universidade Federal de Goiás, Goiânia-GO, 74001-970, Brazil
| | - Róbson Ricardo Teixeira
- Grupo de Pesquisa e Síntese de Compostos Bioativos (GSPCB), Departamento de Química, Universidade Federal de Viçosa, Viçosa-MG, 36570-900, Brazil
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