Journal of Molecular Structure最新文献

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Computational investigation and antimicrobial activity prediction of potential antiviral drug 潜在抗病毒药物的计算研究和抗菌活性预测
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-10 DOI: 10.1016/j.molstruc.2024.140711
Vaithilingam Sasikala , Vadivelu Balachandran , Natarajan Elangovan , Natarajan Arumugam , Abdulrahman I. Almansour
{"title":"Computational investigation and antimicrobial activity prediction of potential antiviral drug","authors":"Vaithilingam Sasikala ,&nbsp;Vadivelu Balachandran ,&nbsp;Natarajan Elangovan ,&nbsp;Natarajan Arumugam ,&nbsp;Abdulrahman I. Almansour","doi":"10.1016/j.molstruc.2024.140711","DOIUrl":"10.1016/j.molstruc.2024.140711","url":null,"abstract":"<div><div>The ethyl 2-amino-4,5,6,7-tetrahydrobenzo[b]thiophene-3-carboxylate (S1) was chosen for this investigation due to its important biological and pharmacological activities. Detailed infrared and Raman spectra have been investigated in both theoretical and experimental. Frontier molecular orbitals and the electronic properties of the S1 are explained. The titled compound S1 calculated HOMO-LUMO energy gap is 4.60 eV In molecular electrostatic potential (MEP) map the NO<sub>2</sub> group exhibits a blue color, indicating the presence of nucleophilic sites. The density of state (DOS), non-covalent interaction (NCI), electron localized function (ELF), localized orbital locator (LOL), Mulliken atomic charges, and reactive sites have been investigated. The anti-bacterial, antifungal, antitoxin, antiviral, and antimycobacterial studies have been investigated. The molecular docking investigations of the compound were also conducted. Using the Auto-dock program, the compound S1 molecular docking study has been conducted. The molecular docking study's lowest binding energy is -7.91, -5.62, -6.92, and -5.85 kcal/mol for 4XGK, 4ATO, 3U9 G, and 2DP4 respectively.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1323 ","pages":"Article 140711"},"PeriodicalIF":4.0,"publicationDate":"2024-11-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142651625","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Metal-free synthesis, single crystal analysis and photophysical behavior of p-terphenyls 对三联苯的无金属合成、单晶分析和光物理行为
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140608
Sathish Kumar J, Fateh V. Singh
{"title":"Metal-free synthesis, single crystal analysis and photophysical behavior of p-terphenyls","authors":"Sathish Kumar J,&nbsp;Fateh V. Singh","doi":"10.1016/j.molstruc.2024.140608","DOIUrl":"10.1016/j.molstruc.2024.140608","url":null,"abstract":"<div><div>A simple and convenient metal-free approach for synthesizing <em>p</em>-terphenyls <strong>7a–f</strong> is presented through a carbanion-induced ring transformation reaction involving 6-biphenyl-2<em>H</em>-pyran-2-ones <strong>5</strong> with pyruvic acetyl dimethyl aldehyde <strong>6</strong>. Further the prepared dimethoxy <em>p</em>-terphenyls <strong>7b-c,f</strong> were converted into diethoxy <em>p</em>-terphenyls <strong>8a-c</strong>. The base-mediated ring transformation reactions proceeded smoothly under mild reaction conditions, resulting the formation of ring transformation products <strong>7a-f</strong> and <strong>8a-c</strong> in good to excellent yields. This synthetic approach allows the incorporation of both electron-withdrawing and electron-donating functionalities into <em>p</em>-terphenyl framework. Moreover, the structure of compound <strong>7a</strong> was confirmed by its single crystal X-ray analysis. Additionally, the photophysical properties of synthesized <em>p</em>-terphenyls were analysed using UV-visible and fluorescence spectroscopy. Interestingly, the synthesized <em>p</em>-terphenyls <strong>7a–f</strong> showed blue fluorescence in chloroform. The solvatochromic behaviour and concentration studies of compound <strong>7d</strong> was also perforemd. Additionally, the thermal stability characteristics of compound <strong>7d</strong> was also studied using TG and DTA analysis.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1322 ","pages":"Article 140608"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142659571","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Syntheses, crystal structures, and anticancer activities of organotin carboxylates based on Alrestatin 基于阿司他丁的有机锡羧酸盐的合成、晶体结构和抗癌活性
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140697
Yuxing Tan , Zhijian Zhang , Jiazi Liu , Yujun Tan , Wujiu Jiang
{"title":"Syntheses, crystal structures, and anticancer activities of organotin carboxylates based on Alrestatin","authors":"Yuxing Tan ,&nbsp;Zhijian Zhang ,&nbsp;Jiazi Liu ,&nbsp;Yujun Tan ,&nbsp;Wujiu Jiang","doi":"10.1016/j.molstruc.2024.140697","DOIUrl":"10.1016/j.molstruc.2024.140697","url":null,"abstract":"<div><div>Six organotin carboxylates based on the Alrestatin ligand (<strong>HL</strong>) were synthesized and characterized using elemental analysis, IR spectroscopy, NMR spectroscopy, and TGA techniques. The molecular structure of complexes <strong>a-f</strong> was confirmed through single-crystal X-ray crystallography. Alrestatin demonstrated a tendency to adopt various coordination modes, leading to the formation of diverse molecular configurations in the organotin carboxylates. Hirshfeld surface analysis indicated that the six complexes exhibited similar contributions of different contacts to the Hirshfeld surfaces, with reciprocal H···H/C/O contacts dominating over 91 % of the total Hirshfeld surface. The <em>in vitro</em> anticancer activities of all the complexes were evaluated by a CCK8 assay against three human cancer cell lines (NCI-H460, HepG2, and MCF7). The anticancer activity of Alrestatin was effectively increased by introducing the butyl tin group, and exhibited excellent anticancer activity <em>in vitro</em>, significantly superior to cisplatin. The DNA binding of complex <strong>d</strong> was studied by UV–visible absorption spectrometry and fluorescence competitive assays.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1322 ","pages":"Article 140697"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142659607","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Design and synthesis of novel hydrazinyl thiazoles from biomass derived furfurals: Their molecular docking, anti-cancer, anti-oxidant, and anti-bacterial study 从生物质衍生的呋喃中设计和合成新型肼基噻唑:分子对接、抗癌、抗氧化和抗菌研究
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140541
Akshay Gurav , Rutikesh Gurav , Prakash N. Chavan , Nisha Nerlekar , Padma Dandge , Sandeep Sankpal , Shankar Hangirgekar
{"title":"Design and synthesis of novel hydrazinyl thiazoles from biomass derived furfurals: Their molecular docking, anti-cancer, anti-oxidant, and anti-bacterial study","authors":"Akshay Gurav ,&nbsp;Rutikesh Gurav ,&nbsp;Prakash N. Chavan ,&nbsp;Nisha Nerlekar ,&nbsp;Padma Dandge ,&nbsp;Sandeep Sankpal ,&nbsp;Shankar Hangirgekar","doi":"10.1016/j.molstruc.2024.140541","DOIUrl":"10.1016/j.molstruc.2024.140541","url":null,"abstract":"<div><div>This report presents an application of simple and convenient grindstone chemistry to construct a library of pharmaceutically valuable hydrazinyl thiazole moieties using biomass-derived furfurals as key synthons. Significantly, the current green process avoids the use of catalysts and solvents for the desired conversion, achieving good to excellent product yields in a short reaction time. The synthesized compounds were evaluated for their anti-cancer activity against the human breast cancer cell line (MCF-7) using an <em>in vitro</em> MTT assay, which revealed significant antiproliferative activity of compounds 4d and 4e, with IC<sub>50</sub> values of 41.06±0.06 and 38.39±0.90 μg/mL, respectively.</div><div>Further, the <em>in vitro</em> antibacterial activity of the newly synthesized thiazole derivatives and reference drugs was assessed against both gram-negative bacteria, including Escherichia coli, and gram-positive bacteria such as Bacillus subtilis. The current research demonstrates that compounds 4d and 4e exhibit significantly enhanced antibacterial efficacy against pathogenic bacteria, with MIC values &gt;25 μg/mL and &gt;6.25 μg/mL for E. coli, and &gt;25 μg/mL for Bacillus subtilis for both compounds. The DPPH assay revealed that compounds 4a, 4d, and 4e were the most significant, displaying comparatively higher IC<sub>50</sub> values of 41.58±1.28, 42.36±0.45 and 42.31±0.73 μg/mL respectively.</div><div>Furthermore, the synthesized compounds were investigated through molecular docking studies, which were consistent with the <em>in vitro</em> results. The findings were further supported by a structure-activity relationship (SAR) study.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1323 ","pages":"Article 140541"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142651782","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Quaternary ammonium salt-derived carbon dots for antibacterial efficacy and tetracycline sensing 用于抗菌功效和四环素传感的季铵盐衍生碳点
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140620
Siqi Shen , Haiyan Qi , Tonghui Yi , Tao Jing , Jun Li , Yang Gao , Qingxin Zeng , Hongxu Zhao
{"title":"Quaternary ammonium salt-derived carbon dots for antibacterial efficacy and tetracycline sensing","authors":"Siqi Shen ,&nbsp;Haiyan Qi ,&nbsp;Tonghui Yi ,&nbsp;Tao Jing ,&nbsp;Jun Li ,&nbsp;Yang Gao ,&nbsp;Qingxin Zeng ,&nbsp;Hongxu Zhao","doi":"10.1016/j.molstruc.2024.140620","DOIUrl":"10.1016/j.molstruc.2024.140620","url":null,"abstract":"<div><div>Bacterial infections pose a significant threat to global health, necessitating the development of novel antibacterial materials. Tetracycline antibiotics (CTC, OTC, TC) are low-cost and widely abused in recent years. However, they were easily absorbed by the human body and long-term exposure to tetracycline could contribute to some adverse reactions and diseases. So there is a need for novel antimicrobial agents and a rapid, sensitive detection method of tetracycline antibiotics. In this study, we synthesized three carbon dots (CDs1, CDs2, CDs3) from quaternary ammonium salts via a hydrothermal method. Antibacterial assays against <em>Staphylococcus aureus</em> and <em>Escherichia coli</em> demonstrated their potent antibacterial activity with minimum inhibitory concentrations(MIC) determined as 39 μg/mL, 78 μg/mL, and 9.8 μg/mL, respectively. Notably, CDs3 exhibited the highest antibacterial effectiveness, attributed to its smaller size and higher chlorine content compared to CDs1 and CDs2. Additionally, CDs1, characterized by its high fluorescence quantum yield and stability, demonstrated remarkable specificity and robust anti-interference capabilities in detecting tetracycline antibiotics, including chlortetracycline (CTC), oxytetracycline (OTC), and tetracycline (TC). Leveraging the internal filtration effect mechanism, CDs1 exhibited detection limits of 0.18 μmol/L for CTC, 0.15 μmol/L for OTC, and 0.13 μmol/L for TC, respectively. The effectiveness of this detection method was further confirmed through validation in real milk samples, confirming the practical utility of CDs1 in food safety testing. The low toxicity of carbon dots were synthesized using a simple one-step hydrothermal method, which was fast, cost-effective, and easy to achieve large-scale production. Our findings underscore the potential of CDs derived from quaternary ammonium salts, demonstrating promising performance in antibacterial applications and providing insights into food safety testing methodologies.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1322 ","pages":"Article 140620"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142659576","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Application of the flexible polyethylene polyamine-based covalent organic frameworks for fluorescence sensing nitrophenols and iodide ions 基于柔性聚乙烯多胺的共价有机框架在荧光传感硝基苯酚和碘离子中的应用
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140695
Ya-Chen Wang, Feng Zhu, Jun Pan, Tong-Mou Geng
{"title":"Application of the flexible polyethylene polyamine-based covalent organic frameworks for fluorescence sensing nitrophenols and iodide ions","authors":"Ya-Chen Wang,&nbsp;Feng Zhu,&nbsp;Jun Pan,&nbsp;Tong-Mou Geng","doi":"10.1016/j.molstruc.2024.140695","DOIUrl":"10.1016/j.molstruc.2024.140695","url":null,"abstract":"<div><div>Recently, flexible covalent organic frameworks (COFs) prepared with nitrogen-rich building units have become targets for selective detection of pollutants to serve a clean environment. To meet the requirements of the practical applications, a series of novel flexible covalent organic frameworks containing polyethylene polyamine units (the flexible PEPA-based COFs, remember as TEDA, TDETA, TTETA, TTEPA, and TPEHA) were designed and developed to create fluorescence sensors. The flexible PEPA-based COFs were found to be excellently fluorescent properties in presence of some solvents under irradiation with UV light and can sense some nitrophenols with good sensitivity for DNP, o-NP, or TNP by fluorescence quenching with high S-V constants (K<sub>SV</sub>) of 5.01 × 10<sup>4</sup>, 6.92 × 10<sup>3</sup>, 7.42 × 10<sup>4</sup>, 7.37 × 10<sup>3</sup>, and 1.59 × 10<sup>4</sup> L mol<sup>−1</sup>, respectively. Theoretical calculations and experimental studies show that the fluorescence quenching in the presence of nitrophenols is put down to photoinduced electron transfer, energy resonance transfer, and the difference between nitrophenols binding sites to the flexible PEPA-based COFs. In addition, TEDA, TDETA, TTETA, TTEPA, and TPEHA can fluorescently sense iodide ions with high K<sub>SV</sub> of 2.28 × 10<sup>4</sup>, 1.09 × 10<sup>4</sup>, 6.88 × 10<sup>3</sup>, 8.81 × 10<sup>3</sup>, and 1.82 × 10<sup>4</sup> L mol<sup>−1</sup>, which are the most sensitive among POP materials.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1323 ","pages":"Article 140695"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142651780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Photocatalyzed amination of benzylic C(sp3)−H bonds via C−N coupling: Green synthesis and NMR analysis of N-benzylanilines 通过 C-N 偶联对苄基 C(sp3)-H 键进行光催化胺化:N-苄基苯胺的绿色合成与核磁共振分析
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140699
Hong-bo Tan , Chang-qiu Lin , Si-ying Ren , Yu-han Peng , Meng-qi Zhang , Zhi-gang Xu , Dian-yong Tang , Zhong-zhu Chen
{"title":"Photocatalyzed amination of benzylic C(sp3)−H bonds via C−N coupling: Green synthesis and NMR analysis of N-benzylanilines","authors":"Hong-bo Tan ,&nbsp;Chang-qiu Lin ,&nbsp;Si-ying Ren ,&nbsp;Yu-han Peng ,&nbsp;Meng-qi Zhang ,&nbsp;Zhi-gang Xu ,&nbsp;Dian-yong Tang ,&nbsp;Zhong-zhu Chen","doi":"10.1016/j.molstruc.2024.140699","DOIUrl":"10.1016/j.molstruc.2024.140699","url":null,"abstract":"<div><div>A facile, efficient and green photo-catalyzed amination of benzylic C(sp<sup>3</sup>)−H bonds via C−N coupling for the synthesis of novel <em>N</em>-benzylaniline derivatives starting from readily available toluene derivative and aniline derivative under irradiation of UV LEDs (365 nm) with catalyst Fe(III), without using any bases, strong oxidants, complex ligands, or precious metals is reported. The <em>N</em>-benzylaniline products could be obtained under UV LEDs irradiation at room temperature in 12 h with definite compatibilities with functional groups. To discuss the characteristic pattern of armatic protons and carbons, to identify its structure, NMR spectra analysis (1D and 2D-NMR) was carried out in details by the chemical shifts, couplings and correlations. The energy levels of molecular orbitals (HOMO and LUMO) for <em>N</em>-benzylaniline product (<strong>3a</strong>) were investigated.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1322 ","pages":"Article 140699"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142659664","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Visible light-promoted, catalyst-free synthesis of isoniazid azomethines: In vitro antioxidant activity, molecular docking, ADME and toxicity prediction 可见光促进的无催化剂异烟肼氮杂环丁烷合成:体外抗氧化活性、分子对接、ADME 和毒性预测
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140686
Safia Iqbal , Mohd Kamil Hussain , Roohi Ansari , Bhoomika Singh , Farhanaz , Insha Akbar , Mohammad Rehan Zaheer , Mohammad Faheem Khan , Anamika Gupta
{"title":"Visible light-promoted, catalyst-free synthesis of isoniazid azomethines: In vitro antioxidant activity, molecular docking, ADME and toxicity prediction","authors":"Safia Iqbal ,&nbsp;Mohd Kamil Hussain ,&nbsp;Roohi Ansari ,&nbsp;Bhoomika Singh ,&nbsp;Farhanaz ,&nbsp;Insha Akbar ,&nbsp;Mohammad Rehan Zaheer ,&nbsp;Mohammad Faheem Khan ,&nbsp;Anamika Gupta","doi":"10.1016/j.molstruc.2024.140686","DOIUrl":"10.1016/j.molstruc.2024.140686","url":null,"abstract":"<div><div>Green synthesis of biologically active molecules is essential for environmental sustainability, resource efficiency, reduced environmental impact, and compliance with regulations. It ensures a safer working environment, and fosters innovation in sustainable chemistry practices. In this context, we introduce an electron donor-acceptor (EDA)-mediated visible light-promoted, catalyst-free (VLCF) scalable synthesis of isoniazid azomethines. This synthesis encompasses the drug salizide and its analogues, which were subsequently evaluated for their antioxidant activities. Isoniazid azomethines 3e demonstrated superior activity compared to salizide and ascorbic acid, with an IC<sub>50</sub> of 0.078 mg/mL in the hydrogen peroxide antioxidant assay. Specifically, 3e exhibited greater antioxidant properties (79.02 %) than isoniazid azomethine 3b (75.82 %), isoniazid azomethine 3d (62.2 %), isoniazid azomethine 3c (59.86 %), and isoniazid azomethine 3a (54.62 %). In the superoxide dismutase antioxidant assay, 3e was also identified as the most active, with a SOD activity level of 650 U/mg of protein, surpassing other compounds (3a-d) with SOD activity levels of 330, 560, 350, and 420 U/mg of protein, respectively. Molecular docking against horseradish peroxidase (1W4Y) showed compound 3e with the best binding energy (-6.561 kcal/mol), forming key hydrogen bonds (Asn135, Pro139) and a π-cation interaction with Arg38. These interactions suggest 3e may effectively inhibit hydrogen peroxide catalysis. The in silico assessment of the physicochemical properties, pharmacokinetics, and toxicology of synthesized compounds suggests that these compounds exhibit promising ADMET characteristics, with no identified toxicological concerns.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1322 ","pages":"Article 140686"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142659604","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Mechanics of poly-arginine adsorption onto cell membrane by GM1 and their cluster forming: Coarse-grained molecular dynamics study GM1在细胞膜上吸附聚精氨酸及其团聚形成的机理:粗粒度分子动力学研究
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-09 DOI: 10.1016/j.molstruc.2024.140690
Yongkang Lyu , Yonglin Cui , Xiaolin Chen , Hao Shen , He Xu , Changzhe Zhang , Qingtian Meng
{"title":"Mechanics of poly-arginine adsorption onto cell membrane by GM1 and their cluster forming: Coarse-grained molecular dynamics study","authors":"Yongkang Lyu ,&nbsp;Yonglin Cui ,&nbsp;Xiaolin Chen ,&nbsp;Hao Shen ,&nbsp;He Xu ,&nbsp;Changzhe Zhang ,&nbsp;Qingtian Meng","doi":"10.1016/j.molstruc.2024.140690","DOIUrl":"10.1016/j.molstruc.2024.140690","url":null,"abstract":"<div><div>Ganglioside GM1 is a crucial glycolipid in neuronal cells, playing significant roles in various biological processes such as pathogen recognition, signal transduction, and protein sorting. Poly-arginine, widely used as a template for cell-penetrating peptides design, is highly valuable for molecular cargo delivery and information transmission. Investigating the interaction mechanisms and physicochemical principles of poly-arginine with GM1-containing cell membranes is essential for understanding the functions of specific cellular components and for developing novel drugs. In this study, we employed coarse-grained molecular dynamics simulations to explore the interaction processes between poly-arginine of varying concentrations and polymerization degrees with model membranes of human brain neuronal cells. Our findings reveal that poly-arginines preferentially adsorb onto GM1 and aggregate into clusters on the membrane, primarily driven by electrostatic interactions, which contributes to membrane stabilization. Additionally, poly-arginine shows a higher affinity for membranes with elevated GM1 concentrations, highlighting its potential for targeting specific membrane compositions. These insights are crucial for designing molecular targets and understanding the biophysical mechanisms in lipidomics using high-performance computational simulation methods.</div></div>","PeriodicalId":16414,"journal":{"name":"Journal of Molecular Structure","volume":"1322 ","pages":"Article 140690"},"PeriodicalIF":4.0,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142659672","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A new 3D Cd(II)-based metal-organic framework as dual-function luminescent sensor to ions and antibiotic: Mechanism and theoretical studies 新型三维镉(II)基金属有机框架作为离子和抗生素的双重功能发光传感器:机理和理论研究
IF 4 2区 化学
Journal of Molecular Structure Pub Date : 2024-11-08 DOI: 10.1016/j.molstruc.2024.140691
Xin Wang , Manaswini Ray , Like Zou , Jing Xu , Lipeeka Rout , Yu Wu , Mohd Afzal , Abdullah Alarifi , Aurobinda Mohanty
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