همایش ملی بیوانفورماتیک ایران

صفحه اصلی / 4th international edition and 13th Iranian Conference on Bioinformatics

Structural and Hydrogen Bonding Characteristics of Natural Deep Eutectic Solvent Choline Chloride/Citric Acid: A Molecular Dynamics Simulation Study

نویسندگان :

Faezeh Saadatnia¹ Delara Mohammadaghaie² Fatemeh Mohammadpour³ Samane Boromand⁴

1- Department of Chemistry, Shiraz University of Technology, Shiraz, Iran 2- Department of Chemistry, Shiraz University of Technology, Shiraz, Iran 3- Department of Physics Education, Farhangian University, P.O. Box 14665-889, Tehran, Iran 4- Department of Chemistry, Shiraz University of Technology, Shiraz, Iran

کلمات کلیدی :

Molecular Dynamics Simulation،Choline Chloride،Deep Eutectic Solvents،Hydrogen Bonding،Pharmaceutical Applications

چکیده :

Deep eutectic solvents (DES) were first introduced in 2001 as sustainable alternatives to ionic liquids and volatile organic compounds (Abbott and Capper, 2001). These solvents consist of hydrogen bond donors and acceptors mixed in specific molar ratios, offering unique properties such as non-volatility, low toxicity, high biodegradability, cost-effectiveness, and antifreeze capabilities (Rozas and Zamora, 2023). Their versatility has garnered significant attention in scientific and industrial applications, particularly in the pharmaceutical industry, where they enhance drug solubility, permeability, and absorption. Moreover, their biological activities, including antioxidant, anticancer, and antimicrobial properties, make them promising candidates for diverse biomedical applications (Trombino and Siciliano, 2022). In this study, the structural and physical properties of a natural deep eutectic solvent (NADES) composed of choline chloride and citric acid were investigated through molecular dynamics simulations. Simulations were conducted using GROMACS software and the OPLS force field, (Albertini and Bertoni, 2023) with a 1:1 molar ratio comprising 1500 ion pairs of choline chloride and 1500 molecules of citric acid. The simulation spanned 50 nanoseconds, and the calculated density of the solvent closely matched experimental data, validating the reliability of the computational model. (Savjani and Gajjar, 2012) To understand the structural stability and role of hydrogen bonds in this solvent, combined radial and angular distribution functions (CDF) were employed. This analysis revealed that strong hydrogen bonds are predominantly formed between electron-donor hydrogen atoms and electron-acceptor oxygen atoms, particularly those associated with oxygen atoms 1 and 3 in citric acid. These hydrogen bonds, characterized by distances of 2–3 angstroms and bond angles of 150–180 degrees, play a critical role in stabilizing the solvent’s structure. Further analysis using the TRAVIS tool allowed precise characterization of hydrogen bond positions and angles, reinforcing the simulation’s findings. The results confirm that the hydrogen bonding network significantly contributes to the unique properties of the choline chloride/citric acid NADES. This structural stability makes the solvent suitable for applications in drug delivery and other industrial processes. In conclusion, this research demonstrates the effectiveness of molecular dynamics simulations in accurately modeling the physical properties and hydrogen bonding characteristics of natural deep eutectic solvents. The findings highlight the pivotal role of citric acid’s oxygen atoms in forming stable hydrogen bonds, which enhance the solvent’s structural integrity and functional properties. These insights pave the way for the design and optimization of DESs tailored for pharmaceutical and industrial applications.

لیست مقالات

لیست مقالات بایگانی شده

In Silico Design of DNA G-Quadruplex Aptamers Targeting Lipopolysaccharide Core and Capsular Polysaccharide in Multidrug-Resistant Klebsiella pneumoniae

Aida Arezoumandchafi - Maryam Azimzadeh Irani - Hamidreza Mollasalehi

Exploring the interaction between hsa-miR-122-5p and CDC25A gene in Breast carcinoma progression via computational analysis

Sara Seyed Shazileh

Comparative Analysis of Enzybiotic Gene Abundance Across Environmental Microbiomes with Varied Plastic Pollution Levels

Arad Ariaeenejad - Arman Hasannejad - Donya Afshar Jahanshahi - Mohammad Reza Zabihi - Shohreh Ariaeenejad - Kaveh Kavousi

Comprehensive integrated single-cell RNA sequencing analysis of brain metastasis and glioma microenvironment: Contrasting heterogeneity landscapes

Seyedeh Fatemeh Sajjadi - Najmeh Salehi - Mehdi Sadeghi

Tailoring Stability of Keratinocyte Growth Factor Variants for Effective Wound Healing in Acidic Conditions

Mansoureh Shahbazi Dastjerdeh - Mohammadtaghi Borjian Boroujeni

Identifying mRNAs and miRNAs in extracellular vesicles through comparative transcriptome analyses of healthy and mastitic bovine milk

Farzad Ghafouri - Seyed Midia Pirkhezranian - Mostafa Sadeghi - Seyed Reza Miraei-Ashtiani - John P. Kastelic - Herman W. Barkema - Vahid Razban - Masoud Shirali

Bioinformatics investigation of the structure and function of photoprotein mnemiopsin2 following Glutamine 23 substitutions using a site-directed mutagenesis

Zahra Karimi Takaromi - Vahab Jafarian - Amir Dehghani - Khosrow Khalifeh - Fateme Khatami

Leveraging Machine Learning Models for Virtual Screening of ZINC Database to Identify JAK1 Inhibitors

Negar Abdolmaleki - Hamid Mahdiuni

ATIC as a Theranostic Biomarker in Gastrointestinal Cancers: Insights from Autophagy Pathway Analysis

Pooya Jalali - Maryam Eghbali - Zahra Eghabli - Yasaman Gholinezhad - Zahra Salehi

Diagnosis of Diabetic Retinopathy with Fuzzy Technique and Deep Learning

Samaneh Noroozi - Sajad Haghzad Klidbary

بیشتر

ثمین همایش، سامانه مدیریت کنفرانس ها و جشنواره ها - نگارش 42.7.0