Molecular interactions

分子相互作用
  • 文章类型: Journal Article
    香茅醛(CIT)也被称为红衣主教,是一种天然存在的单萜醛,明显存在于Cymbopon物种的蒸馏油中。它传统上用于空气清新剂,清洁剂,地板抛光,除臭剂,除臭剂,香料成分,保湿手/身体乳液,香水,和粘合剂由于其柠檬特有的香味和治疗的好处。本研究旨在总结CIT对不同疾病的药理活性和潜在机制。以及它的毒理学特征。通过搜索不同的学术搜索引擎,从各种可靠和真实的文献中收集数据,包括PubMed,SpringerLink,Scopus,Wiley在线,WebofScience,ScienceDirect,谷歌学者。研究结果表明,CIT在各种临床前和药理实验系统中具有多种药理作用。结果表明,CIT具有抗氧化能力,抗炎,抗菌,抗真菌药,驱虫,以及在神经和心血管疾病中具有有益作用的抗癌作用。我们的发现还表明了植物化学物质的毒性水平。总之,有人提出CIT有能力作为一种有希望的治疗剂,因此,需要进一步广泛的临床研究来开发它作为一种可靠的药物。
    Citronellal (CIT) also known as rhodinal, is a naturally occurring monoterpenoid aldehyde distinctly found in the distilled oils of Cymbopogon species. It is traditionally used in air freshener, cleaner, floor polishing, deodorants, deodorizer, fragrance component, moisturizing hand/body lotion, perfumes, and adhesives due to its lemon characteristic fragrance and therapeutic benefits. This study aimed to summarize the pharmacological activities and underlying mechanisms of CIT against different diseases, as well as its toxicological profile. The data was collected from various reliable and authentic literatures by searching different academic search engines, including PubMed, Springer Link, Scopus, Wiley Online, Web of Science, ScienceDirect, and Google Scholar. The findings imply that CIT possesses several pharmacological effects in various preclinical and pharmacological experimental systems. The results indicated that CIT demonstrated antioxidant, anti-inflammatory, antibacterial, antifungal, anthelminthic, and anticancer effects with beneficial effects in neurological and cardiovascular diseases. Our findings also indicated the toxic level of the phytochemical. In conclusion, it has been proposed that CIT has the capability to serve as a hopeful therapeutic agent, so further extensive clinical research is necessary to develop it as a reliable drug.
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  • 文章类型: Journal Article
    分子印迹聚合物(MIP)是聚合物化学中日益增长的亮点。它们是化学和热稳定的,可以在各种环境中使用,并实现广泛的应用。MIP的计算机辅助研究通常涉及使用计算技术进行设计,分析,并优化MIP的生产。关于肾上腺素(EPI)MIP与其靶分子之间相互作用的计算研究的信息有限。在这项研究中进行了EPI-MIP制备的合理设计。首先,密度泛函理论(DFT)和分子动力学(MD)模拟用于筛选适合在交联剂和溶剂环境下设计EPIMIP的功能单体。在测试的功能单体中,丙烯酸(AA)是最适合EPI-MIP配方的单体。对所评估的六个DFT官能化中的五个观察到的趋势证实AA是合适的单体。在乙二醇二甲基丙烯酸酯(EGDMA)和乙腈存在下,理论上的最佳摩尔比为1:4EPI:AA。在EPI:AA的比率下分析了温度对均方位移的影响,X射线衍射,密度分布,特定体积,回转半径,和平衡能量。对于所有这些参数观察到的稳定性要好得多,该温度可以确定使用AA作为功能单体的EPI-MIP显影的加工和操作温度范围。为了成本效益和减少在实验室准备MIP的时间,这些结果可以作为设计和开发EPI-MIP的有用模板。
    Molecularly imprinted polymers (MIPs) are a growing highlight in polymer chemistry. They are chemically and thermally stable, may be used in a variety of environments, and fulfill a wide range of applications. Computer-aided studies of MIPs often involve the use of computational techniques to design, analyze, and optimize the production of MIPs. Limited information is available on the computational study of interactions between the epinephrine (EPI) MIP and its target molecule. A rational design for EPI-MIP preparation was performed in this study. First, density functional theory (DFT) and molecular dynamic (MD) simulation were used for the screening of functional monomers suitable for the design of MIPs of EPI in the presence of a crosslinker and a solvent environment. Among the tested functional monomers, acrylic acid (AA) was the most appropriate monomer for EPI-MIP formulation. The trends observed for five out of six DFT functionals assessed confirmed AA as the suitable monomer. The theoretical optimal molar ratio was 1:4 EPI:AA in the presence of ethylene glycol dimethacrylate (EGDMA) and acetonitrile. The effect of temperature was analyzed at this ratio of EPI:AA on mean square displacement, X-ray diffraction, density distribution, specific volume, radius of gyration, and equilibrium energies. The stability observed for all these parameters is much better, ranging from 338 to 353 K. This temperature may determine the processing and operating temperature range of EPI-MIP development using AA as a functional monomer. For cost-effectiveness and to reduce time used to prepare MIPs in the laboratory, these results could serve as a useful template for designing and developing EPI-MIPs.
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  • 文章类型: Journal Article
    对石墨烯及其氧化物的分子电子结构进行了系统的理论研究,包括它们与不同极性的分子物种的相互作用,进行了。还评价了氧化石墨烯的O/C原子比的影响。进行了量子化学和基于COSMO的统计热力学计算。几何优化表明,石墨烯片在结构上被氧取代变形,尽管它们表现出很高的抗变形能力。此外,在轴向O-C键合下,在氧化石墨烯表面上产生质子供体和质子受体中心,可以获得两性特征。在低氧化石墨烯氧化物中,H键中心与中性高度极化的π电子云共存。深度石墨烯氧化还与准二维H键网络的形成有关。这两种现象是石墨烯氧化物的特殊吸附和催化性能以及潜在的质子传导性的原因。目前的计算表明,极性分子物种与深度氧化石墨烯衍生物的相互作用是热力学有利的,但不是低氧化的。量子化学和COSMO-RS计算对所有这些问题进行建模的能力为选择或设计具有针对特定应用的优化性能的基于石墨烯的材料提供了可能性。此外,它们在选择/设计相对于某些石墨烯衍生物具有良好剥离性能的溶剂方面是有价值的。
    A systematic theoretical study on the molecular electronic structure of graphene and its oxides, including their interactions with molecular species of different polarity, was carried out. The influence of the O/C atomic ratio in the graphene oxides was also evaluated. Quantum chemical and COSMO-based statistical-thermodynamic calculations were performed. Geometry optimizations demonstrated that graphene sheets are structurally distorted by oxygen substitution, although they show high resistance to deformation. Furthermore, under axial O-C bonding, proton-donor and proton-acceptor centers are created on the graphene oxide surface, which could acquire an amphoteric character. In low-oxidized graphene oxides, H-bonding centers coexist with neutral highly polarizable π electron clouds. Deep graphene oxidation is also related to the formation of a quasi-two-dimensional H-bond network. These two phenomena are responsible for the exceptional adsorption and catalytic properties and the potential proton conductivity of graphene oxides. The current calculations demonstrated that the interactions of polar molecular species with deep-oxidized graphene derivatives are thermodynamically favorable, but not with low-oxidized ones. The capacity of the quantum chemical and COSMO-RS calculations to model all these issues opens the possibility of selecting or designing graphene-based materials with optimized properties for specific applications. Also, they are valuable in selecting/designing solvents with good exfoliant properties with respect to certain graphene derivatives.
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  • 文章类型: Journal Article
    低共熔溶剂(DES)代表了一类有前途的绿色溶剂,在天然化合物如阿魏酸(FA)的新制剂的提取和开发中提供特别的实用性。本研究的实验阶段对FA在DES中的溶解度进行了系统的研究,包含氯化胆碱或甜菜碱作为氢键受体和六种不同的多元醇作为氢键供体。结果表明,基于氯化胆碱的溶剂比基于甜菜碱的溶剂更有效。发现氢键受体与供体的最佳摩尔比为1:2。向DES中添加水导致FA溶解度的显著提高。在测试的多元醇中,三甘醇是最有效的。因此,由氯化胆碱和三甘醇(TEG)(1:2)组成的DES,以0.3摩尔比添加水,被建议作为传统有机溶剂如DMSO的有效替代品。在本报告的第二部分,计算了溶质-溶质和所有溶质-溶剂对在饱和溶液中FA的亲和力。发现FA的自缔合导致C28型的环状结构,常见的羧酸,这是最强的FA亲和力类型。另一方面,在所有杂分子双复合物中,最稳定的是FA-TEG对,这与FA在含TEG的液体中的高溶解度是有趣的一致性。最后,这项工作将COSMO-RS建模与机器学习相结合,以开发预测阿魏酸在各种溶剂中溶解度的模型,不仅包括DES,还包括经典的纯净和二元混合物。机器学习协议开发了一个高度准确的模型来预测FA溶解度,显著优于COSMO-RS方法。根据获得的结果,建议使用支持向量回归器(SVR)筛选新的溶出介质,因为它不仅准确,而且可以很好地推广新系统.
    Deep eutectic solvents (DES) represent a promising class of green solvents, offering particular utility in the extraction and development of new formulations of natural compounds such as ferulic acid (FA). The experimental phase of the study undertook a systematic investigation of the solubility of FA in DES, comprising choline chloride or betaine as hydrogen bond acceptors and six different polyols as hydrogen bond donors. The results demonstrated that solvents based on choline chloride were more effective than those based on betaine. The optimal ratio of hydrogen bond acceptors to donors was found to be 1:2 molar. The addition of water to the DES resulted in a notable enhancement in the solubility of FA. Among the polyols tested, triethylene glycol was the most effective. Hence, DES composed of choline chloride and triethylene glycol (TEG) (1:2) with added water in a 0.3 molar ration is suggested as an efficient alternative to traditional organic solvents like DMSO. In the second part of this report, the affinities of FA in saturated solutions were computed for solute-solute and all solute-solvent pairs. It was found that self-association of FA leads to a cyclic structure of the C28 type, common among carboxylic acids, which is the strongest type of FA affinity. On the other hand, among all hetero-molecular bi-complexes, the most stable is the FA-TEG pair, which is an interesting congruency with the high solubility of FA in TEG containing liquids. Finally, this work combined COSMO-RS modeling with machine learning for the development of a model predicting ferulic acid solubility in a wide range of solvents, including not only DES but also classical neat and binary mixtures. A machine learning protocol developed a highly accurate model for predicting FA solubility, significantly outperforming the COSMO-RS approach. Based on the obtained results, it is recommended to use the support vector regressor (SVR) for screening new dissolution media as it is not only accurate but also has sound generalization to new systems.
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  • 文章类型: Journal Article
    负载生物活性分子的基于醇溶蛋白的颗粒由于其在化学上的新颖特性而引起了科学家的广泛关注。物理学,和生物学。在基于生物聚合物的纳米胶囊的自组装过程中,非共价相互作用是将散装材料减少到纳米级和控制生物活性分子释放的主要驱动力。本文回顾了相互作用力的类型,结合强度,结合活性位点,分子取向,以及在制备蛋白质稳定剂颗粒期间影响生物活性分子的释放曲线的结合亲和力。不同的制剂配方,使用不同的生物聚合物,加载的生物活性分子的固有性质,和外部因素(包括pH,生物聚合物浓度,温度,盐,超声处理,和大气冷等离子体处理)导致不同类型和强度的分子内和分子间相互作用。Strategies,如pH值,超声处理,和大气冷等离子体,改变蛋白质构象是提高蛋白质与生物活性物质或稳定剂结合强度的关键。这篇评论为致力于提高装载效率的科学家和技术人员提供了一些指导,延迟释放,增强胶体稳定性,探索蛋白质之间的结合行为,稳定剂,和生物活性分子。
    Prolamin-based particles loaded with bioactive molecules have attracted widespread attention from scientists due to their novel properties in chemistry, physics, and biology. In the self-assembly process of biopolymer-based nanocapsules, noncovalent interactions are the main driving forces for reducing bulk materials to the nanoscale and controlling the release of bioactive molecules. This article reviews the types of interaction forces, binding strength, binding active sites, molecular orientation, and binding affinity that affect the release profile of bioactive molecules during the preparation of protein stabilizer particles. Different preparation formulations, the use of different biopolymers, the inherent nature of the loaded bioactive molecules, and external factors (including pH, biopolymer concentration, temperature, salt, ultrasonication, and atmospheric cold plasma treatment) lead to different types and strengths of intra- and intermolecular interactions. Strategies, such as pH, ultrasonication, and atmospheric cold plasma, to change the protein conformation are key to improving the binding strength between proteins and bioactive substances or stabilizers. This review provides some guidance for scientists and technicians dedicated to improving loading efficiency, delaying release, enhancing colloidal stability, and exploring the binding behavior among proteins, stabilizers, and bioactive molecules.
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  • 文章类型: Journal Article
    调整聚合物的全色发射具有重要的前景。然而,在稀溶液中制备具有颜色可调性的非常规发光聚合物以及理解非共价相互作用与发光行为之间的关系仍然是一个巨大的挑战。我们报告了两个包含四配位硼的发射器(P1和P2)。具有非共轭D-π-A结构的P1,在645nm处表现出红色延迟荧光,聚集体的量子产率为9.15%。值得注意的是,P1的发射波长可以在不同的溶剂下从418到588nm。同样,也可以通过操纵溶剂和荧光团之间的相互作用来调节P2的发射波长。实验表征和理论计算表明,溶剂与荧光团之间的B-N键和电子相互作用显着调节了P1的静电势(ESP)和分子内O···O相互作用的平衡,从而调节了P1的发射波长。此外,这些聚合物在氟离子检测中显示出优异的潜力。这项工作为分子间相互作用对发光特性的复杂影响提供了新的见解。
    Tuning the full-color emission of polymers holds significant promise. However, preparing unconventional luminescence polymers with color-tunability in dilute solution and understanding the relationship between non-covalent interactions and luminescent behavior remains a great challenge. We report two emitters (P1 and P2) incorporating tetracoordinate boron. The P1 with non-conjugated D-π-A structure, exhibited red delayed fluorescence at 645 nm with quantum yield of 9.15% in aggregates. Notably, the emission wavelength of P1 can be tuned from 418 to 588 nm at different solvent. Similarly, the emission wavelength of P2 can also be adjusted by manipulating the interactions between the solvent and fluorophore. Experimental characterization and theoretical calculations indicate that the B←N bond and electronic interactions between solvent and fluorophore significantly regulate the equilibrium the electrostatic potential (ESP) and the intramolecular O···O interactions of P1, thereby modulating its emission wavelength. Additionally, these polymers showed excellent potential in fluoride ions detection. This work provides new insights into the complex effects of intermolecular interactions on luminescent properties.
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  • 文章类型: Journal Article
    焦亡是一种炎性程序性细胞死亡过程,在癌症治疗中起着至关重要的作用。而Gasdermin-D是焦亡执行的关键效应蛋白。这篇综述讨论了Gasdermin-D和一些非编码RNA(lncRNA,miRNA,siRNA)及其在调节焦亡作为抗癌治疗中的潜在应用。相应地,这些ncRNAs与Gasdermin-D表达和功能有关的焦亡途径显著相关。充当竞争内源性RNA(ceRNA),这些ncRNAs可能在分子水平上调节Gasdermin-D,由癌症和肿瘤传播引起的潜在致命细胞死亡。因此,这些相互作用吸引了治疗学,为癌症治疗提供新的途径.它通过讨论ncRNAs作为gasdermin-D调节介质的可能作用来解决这一研究空白。它提出了基于当前研究结果的治疗策略,以确保理想的焦亡和癌细胞死亡之间的互换。
    Pyroptosis is an inflammatory programed cell death process that plays a crucial role in cancer therapeutic, while Gasdermin-D is a critical effector protein for pyroptosis execution. This review discusses the intricate interactions between Gasdermin-D and some non-coding RNAs (lncRNA, miRNA, siRNA) and their potential application in the regulation of pyroptosis as an anticancer therapy. Correspondingly, these ncRNAs significantly implicate in Gasdermin-D expression and function regarding the pyroptosis pathway. Functioning as competing endogenous RNAs (ceRNAs), these ncRNAs might regulate Gasdermin-D at the molecular level, underlying fatal cell death caused by cancer and tumor propagation. Therefore, these interactions appeal to therapeutics, offering new avenues for cancer treatment. It address this research gap by discussing the possible roles of ncRNAs as mediators of gasdermin-D regulation. It suggest therapeutic strategies based on the current research findings to ensure the interchange between the ideal pyroptosis and cancer cell death.
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  • 文章类型: Journal Article
    利用李子籽分离蛋白(PSPI)通过益生菌发酵制备凝胶。评价了发酵时间(0~12h)对PSPI凝胶理化性质的影响。结果表明,PSPI在发酵6小时后开始形成凝胶,pH值从6.6降低到5.2,粒径从10μm增加到40μm,在凝胶过滤高效液相色谱中出现一个保留时间为10分钟的新峰,荧光和扫描电子显微镜观察到聚集和多孔结构的形成。发酵9h的PSPI凝胶显示出最高的粘度(318Pa。s),储能模量(18,000Pa),持水量(37%),和凝胶强度(21.5克),由于更强的分子相互作用,如氢键,静电,疏水相互作用和二硫键。然而,发酵时间超过9小时导致PSPI凝胶的破坏。此外,PSPI约15kDa的亚基在发酵后消失,表明PSPI凝胶的形成是由酸化和部分水解引起的。我们的结果表明,PSPI可以为开发基于植物的凝胶产品提供替代方案。
    The plum seed protein isolates (PSPI) were used to prepare a gel by probiotics fermentation. The effects of fermentation time (from 0 to 12 h) on the physicochemical properties of PSPI gel were evaluated. The results showed that PSPI started to form a gel after 6 h of fermentation, as evidenced by a decrease in pH from 6.6 to 5.2, an increase in particle size from 10 μm to 40 μm, appearance of a new peak with retention time of 10 min in gel filtration high-performance liquid chromatography, and formation of aggregation and porous structure observed by fluorescence and scanning electron microscope. The PSPI gel from 9 h of fermentation exhibited the highest viscosity (318 Pa.s), storage modulus (18,000 Pa), water holding capacity (37 %), and gel strength (21.5 g) due to stronger molecular interactions such as hydrogen bond, electrostatic, hydrophobic interaction and disulfide bond. However, increasing fermentation time over 9 h led to disrupture of PSPI gel. Furthermore, the subunit around 15 kDa of PSPI disappeared after fermentation, indicating that the formation of PSPI gel was induced by both acidification and partial hydrolysis. Our results suggest that PSPI can provide an alternative for developing plant-based gel products.
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  • 文章类型: Journal Article
    阿尔茨海默病(AD)是最常见的痴呆类型;因此,对针对它的治疗药物有很高的需求。在这种情况下,已经进行了广泛的研究以确定药物的分子靶标。AD通过两个主要的病理征象表现:老年斑和神经原纤维缠结,由β淀粉样蛋白(Aβ)和磷酸化tau的积累引起,分别。因此,有关AD病因的分子机制的研究主要集中在Aβ的产生和tau磷酸化,预期会发现影响这些分子过程的信号通路。在过去的二十年里,不仅使用实验模型系统,而且检查人脑的研究已经积累了零碎的证据,表明REELIN信号通路与AD密切相关。这里,我们探讨了REELIN信号通路及其在脑内记忆功能中的作用,并回顾了研究REELIN信号通路与AD病因之间分子联系的研究.这篇综述旨在了解该途径的操纵(激活)如何改善疾病的病因。
    Alzheimer\'s disease (AD) is the most prevalent type of dementia; therefore, there is a high demand for therapeutic medication targeting it. In this context, extensive research has been conducted to identify molecular targets for drugs. AD manifests through two primary pathological signs: senile plaques and neurofibrillary tangles, caused by accumulations of amyloid-beta (Aβ) and phosphorylated tau, respectively. Thus, studies concerning the molecular mechanisms underlying AD etiology have primarily focused on Aβ generation and tau phosphorylation, with the anticipation of uncovering a signaling pathway impacting these molecular processes. Over the past two decades, studies using not only experimental model systems but also examining human brains have accumulated fragmentary evidences suggesting that REELIN signaling pathway is deeply involved in AD. Here, we explore REELIN signaling pathway and its involvement in memory function within the brain and review studies investigating molecular connections between REELIN signaling pathway and AD etiology. This review aims to understand how the manipulation (activation) of this pathway might ameliorate the disease\'s etiology.
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  • 文章类型: Journal Article
    全氟烷基物质(PFAS)提取方法的现状提出了重大挑战,特别是对于具有不同碳链长度的多个PFAS。这项研究引入了一种能源驱动的战略方法,用于筛选深共晶溶剂(DES),以有效地去除各种PFAS,包括全氟烷基羧酸(PFCA),全氟链烷磺酸(PFSA),和全氟烷基酰胺(FAA),来自污染环境(共13种目标化合物)。利用基于能量的筛选,我们从共晶系统的1234种潜在起始材料中鉴定出对PFAS化合物光谱具有高亲和力的DES候选物。主要发现揭示了三丁基氧化膦/2-甲基哌嗪系统的优异去除效率,在实际环境水样中,具有不同碳链长度的各种PFAS超过99%。此外,我们通过从头算分子动力学(AIMD)模拟阐明了DES和PFAS之间的分子相互作用,为治理移除过程的机制提供有价值的见解。萃取机理涉及氢键网络拓扑和结构组织,DES能够提取PFAS,同时保持靶分子的弱聚集状态,并将对DES固有结构的影响降至最低。拟议的系统形成了一个动态的,互补,以及与PFAS的柔性非共价相互作用网络结构。这项研究推进了对DES作为可设计的理解,有效,以及用于PFAS修复的常规溶剂的可持续替代品,为环境化学和绿色技术做出重大贡献。
    The current landscape of perfluoroalkyl substances (PFAS) extraction methodologies presents significant challenges, particularly for multiple PFAS with different carbon chain lengths. This study introduced an energy-driven strategic approach for screening deep eutectic solvents (DESs) to effectively remove a diverse range of PFAS, including perfluoroalkylcarboxylic acids (PFCAs), perfluoroalkanesulfonic acids (PFSAs), and perfluoroalkyl amides (FAAs), from contaminated environments (total 13 target compounds). Utilizing energy-based screening, we identified DES candidates with high affinity for a spectrum of PFAS compounds from 1234 potential starting materials of eutectic systems. Key findings revealed the superior removal efficiency of tributylphosphineoxide/2-methylpiperazine system, exceeding 99 % for various PFAS with different carbon chain lengths in real environmental water samples. Additionally, we elucidated the molecular interactions between DESs and PFAS through ab initio molecular dynamics (AIMD) simulations, providing valuable insights into the mechanisms governing the removal process. The mechanism of extraction involves hydrogen bond network topology and structural organization, with DESs capable of extracting PFAS while maintaining a weakly aggregated state of target molecules and minimizing the impact on the intrinsic structures of DES. The proposed system forms a dynamic, complementary, and flexible non-covalent interaction network structure with PFAS. The study advances the understanding of DES as a designable, effective, and sustainable alternative to conventional solvents for PFAS remediation, offering a significant contribution to environmental chemistry and green technology.
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