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Synthesis, crystal structure, Hirshfeld surface, computational and biological studies of spiro-oxindole derivatives as MDM2-p53 inhibitors. 作为 MDM2-p53 抑制剂的螺吲哚衍生物的合成、晶体结构、Hirshfeld 表面、计算和生物学研究。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-29 DOI: 10.1007/s11030-024-10974-x
Monisha Sivanandhan, Sutha Ragupathy, Arumugam Thangamani, Amutha Parasuraman

The spiro-oxindole derivatives were synthesized via a 1,3-dipolar cycloaddition approach and characterized by FT-IR, 1H, 13C NMR and mass spectral techniques. The single crystal XRD of 6d further validates the formation of compounds. DFT calculations indicated the reactive nature of compound 6d. Docking studies with 5LAW disclosed the minimum binding energy of - 10.83 kcal/mol for 6d. Furthermore, safe oral bioavailability was ensured by the physicochemical, pharmacokinetic, and toxicity predictions. The anticancer analysis of synthesized compounds showed substantial activity against A549 cells, notably with an IC50 value of 8.13 ± 0.66 µM for 6d compared to standard doxorubicin. 6d was also evaluated for cytotoxicity against L929 healthy cells and A549, showing selectivity towards A549 than healthy cells. AO/EB staining method showed early apoptotic cellular death in the A549 cell line in a dose-dependent manner.

这些螺吲哚衍生物是通过 1,3-二极环加成法合成的,并通过傅立叶变换红外光谱、1H、13C NMR 和质谱技术进行了表征。6d 的单晶 XRD 进一步验证了化合物的形成。DFT 计算表明化合物 6d 具有反应性。与 5LAW 的对接研究表明,6d 的最小结合能为 - 10.83 kcal/mol。此外,通过物理化学、药代动力学和毒性预测,确保了安全的口服生物利用度。对合成化合物的抗癌分析表明,与标准多柔比星相比,6d 对 A549 细胞具有很强的活性,IC50 值为 8.13 ± 0.66 µM。还评估了 6d 对 L929 健康细胞和 A549 细胞的细胞毒性,结果显示 6d 对 A549 细胞的选择性高于健康细胞。AO/EB 染色法显示,A549 细胞系的细胞早期凋亡与剂量有关。
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引用次数: 0
Celastrol-Ligustrazine compound proven to be a novel drug candidate for idiopathic pulmonary fibrosis by intervening in the TGF-β1 mediated pathways-an experimental in vitro and vivo study. Celastrol-Ligustrazine 复合物通过干预 TGF-β1 介导的途径被证明是治疗特发性肺纤维化的新型候选药物--一项体外和体内实验研究。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-29 DOI: 10.1007/s11030-024-10970-1
Lu Gao, Ying Bai, Chao Liang, Tao Han, Yafeng Liu, Jiawei Zhou, Jianqiang Guo, Jing Wu, Dong Hu

Idiopathic Pulmonary Fibrosis (IPF) is a disease characterized by pulmonary interstitial fibrosis and collagen proliferation, currently lacking effective therapeutic options. The combined use of Celastrol and Ligustrazine has been proved to synergistically improve the pathological processes of inflammation and fibrosis. In earlier studies, we designed and synthesized a Celastrol-Ligustrazine compound CL-001, though its role in IPF remains unclear. Here, the effects and mechanisms of CL-001 in bleomycin (BLM)-induced IPF were investigated. In vivo, CL-001 significantly improved lung function, reduced pulmonary inflammation, and decreased collagen deposition, thereby preventing the progression of IPF. In vitro, CL-001 concurrently inhibited both Smad-dependent and Smad-independent pathways, thereby suppressing TGF-β1-induced epithelial-mesenchymal transition (EMT) and epithelial cell migration. This inhibitory effect was superior to that of Celastrol or Ligustrazine administered alone. Additionally, CL-001 significantly increased the level of apoptosis and promoted the expression of apoptosis-related proteins (Caspase-8 and PARP), ultimately leading to widespread apoptosis in activated lung epithelial cells. In summary, CL-001 exhibits excellent anti-IPF effects both in vitro and in vivo, suggesting its potential as a novel candidate drug for IPF, warranting further development.

特发性肺纤维化(IPF)是一种以肺间质纤维化和胶原增生为特征的疾病,目前缺乏有效的治疗方案。事实证明,联合使用 Celastrol 和 Ligustrazine 可协同改善炎症和纤维化的病理过程。在早期的研究中,我们设计并合成了一种塞拉斯特罗-女贞嗪化合物 CL-001,但其在 IPF 中的作用仍不清楚。在此,我们研究了CL-001在博莱霉素(BLM)诱导的IPF中的作用和机制。在体内,CL-001能显著改善肺功能,减轻肺部炎症,减少胶原沉积,从而阻止IPF的恶化。在体外,CL-001同时抑制了依赖Smad和不依赖Smad的通路,从而抑制了TGF-β1诱导的上皮-间质转化(EMT)和上皮细胞迁移。这种抑制作用优于单独使用塞拉司琼或利格列汀。此外,CL-001 还能显著提高细胞凋亡水平,促进凋亡相关蛋白(Caspase-8 和 PARP)的表达,最终导致活化的肺上皮细胞广泛凋亡。总之,CL-001 在体外和体内都表现出卓越的抗 IPF 效果,表明它有潜力成为治疗 IPF 的新型候选药物,值得进一步开发。
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引用次数: 0
Design, synthesis, biological evaluation and in silico study of N-(Pyrimidin-2-yl)alkyl/arylamide derivatives as quorum sensing inhibitors against Pseudomonas aeruginosa. N-(嘧啶-2-基)烷基/芳基酰胺衍生物作为铜绿假单胞菌法定量感应抑制剂的设计、合成、生物学评价和硅学研究。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-23 DOI: 10.1007/s11030-024-10955-0
Nikki, Abhinetra Jagdish Bhopale, Kusum Kharga, Nanaji Yerramsetti, Rajnish Kumar, Lokender Kumar, Ashok Kumar Yadav

The emergence of bacterial resistance to antimicrobial agents poses a serious threat to the effectiveness of treating bacterial illnesses. A major factor contributing to antimicrobial resistance is biofilm formation, driven by quorum sensing (QS). QS suppression inhibits the QS signaling pathway, obstructing cell-to-cell communication. This study focuses on N-(pyrimidin-2-yl)alkyl/arylamide derivatives, which were designed, synthesized, and characterized for their QS inhibitory effects. Among the synthesized compounds (3a-j), compounds 3b, 3d, and 3h exhibited the highest QS inhibitory activity, with inhibition zones of 17.66 ± 6.17, 14.00 ± 6.24, and 17.33 ± 0.66 mm, respectively. Further, molecular docking studies revealed binding affinities between - 8.4 and - 6.3 kcal/mol, indicating strong interactions with the target proteins. Moreover, molecular dynamic simulations confirmed the stability of the protein-ligand complexes for compounds 3b and 3 h. Additionally, in-silico methods were employed to predict the physicochemical properties of these molecules. Overall, these findings underscore the potential of N-(pyrimidin-2-yl)alkyl/arylamide derivatives as QS inhibitors, offering a new perspective for developing alternative antimicrobial therapies.

细菌对抗菌剂产生的抗药性严重威胁着细菌疾病的治疗效果。造成抗菌药耐药性的一个主要因素是由法定量感应(QS)驱动的生物膜形成。抑制 QS 可抑制 QS 信号通路,阻碍细胞间的交流。本研究重点研究了 N-(嘧啶-2-基)烷基/芳酰胺衍生物,设计、合成并表征了它们的 QS 抑制作用。在合成的化合物(3a-j)中,化合物 3b、3d 和 3h 的 QS 抑制活性最高,抑制区分别为 17.66 ± 6.17、14.00 ± 6.24 和 17.33 ± 0.66 mm。此外,分子对接研究显示,它们的结合亲和力介于 - 8.4 和 - 6.3 kcal/mol 之间,表明它们与目标蛋白质之间存在很强的相互作用。此外,分子动力学模拟证实了化合物 3b 和 3 h 蛋白配体复合物的稳定性。总之,这些发现强调了 N-(嘧啶-2-基)烷基/芳酰胺衍生物作为 QS 抑制剂的潜力,为开发替代抗菌疗法提供了新的视角。
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引用次数: 0
One pot multi-component synthesis of novel functionalized pyrazolo furan-2(5H)-one derivatives: in vitro, DFT, molecular docking, and pharmacophore studies, as coronavirus inhibitors. 一锅多组分合成新型功能化吡唑呋喃-2(5H)-酮衍生物:作为冠状病毒抑制剂的体外、DFT、分子对接和药效学研究。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-22 DOI: 10.1007/s11030-024-10885-x
Doaa M Elsisi, Ashraf M Mohamed, Mohamed G Seadawy, Aya Ahmed, Eman S Abou-Amra

New and facile one-pot approach for the syntheses of 12 derivatives of 3,5-disubstituted furane-2(5H)-one (4a-l) from easily available starting materials. The suitable synthetic procedures for selective synthesis of diverse furane-2(5H)-one derivatives were achieved via multi-component condensation of 1,3-diphenyl-1H-pyrazole-4-carbaldehyde (1), pyruvic acid and different aromatic amines 3a-l in good to high yields and short reaction time by refluxing in acetic acid as well as obtained by another method (method B) when unsaturated arylidene pyruvic acid 6 was refluxed with different aromatic amines in acetic acid but in smaller yield than method A. Structures of the prepared compounds were elucidated by elemental analysis and spectral data as mass, IR, 1H-NMR and 13C-NMR spectroscopy. The antiviral efficacy of compounds 4a-l against SARS-CoV-2 was evaluated using the MTT assay. It was demonstrated that synthetic compounds 4c-e and 4h-j have a potent and selective inhibitory effect on SARS-CoV-2, a strain obtained from Egyptian patients. We utilized density-functional theory (DFT) analyses to deduce the molecular structures and topologies of the more energetic molecules. Molecular docking studies were performed against the SARS-CoV-2 main protease (PDB ID: 6Y84) and the SARS-CoV-2 Nsp9 RNA binding protein (PDB ID: 6W4B) to study the binding mechanism, non-bonding interactions, and binding affinity. Lastly, a hypothetical pharmacophore model was constructed by applying the Molecular Operating Environment (MOE) tool and eleven pharmaceuticals with proven antiviral activity.

以易于获得的起始材料为原料,采用新颖简便的一锅法合成 12 种 3,5-二取代呋喃-2(5H)-酮 (4a-l) 衍生物。通过 1,3-二苯基-1H-吡唑-4-甲醛 (1)、丙酮酸和不同的芳香胺 3a-l 的多组分缩合,在乙酸中回流,实现了选择性合成各种呋喃-2(5H)-酮衍生物的合适合成程序,产率高且反应时间短;通过另一种方法(方法 B),即不饱和芳基丙酮酸 6 与不同的芳香胺在乙酸中回流,也实现了选择性合成各种呋喃-2(5H)-酮衍生物,但产率低于方法 A。所制备化合物的结构通过元素分析以及质量、红外、1H-NMR 和 13C-NMR 光谱等光谱数据得以阐明。利用 MTT 试验评估了 4a-l 化合物对 SARS-CoV-2 的抗病毒效果。结果表明,合成化合物 4c-e 和 4h-j 对 SARS-CoV-2 (一种从埃及病人身上获得的病毒株)具有有效的选择性抑制作用。我们利用密度泛函理论(DFT)分析推导出了高能分子的分子结构和拓扑结构。我们还针对 SARS-CoV-2 主蛋白酶(PDB ID:6Y84)和 SARS-CoV-2 Nsp9 RNA 结合蛋白(PDB ID:6W4B)进行了分子对接研究,以研究其结合机制、非成键相互作用和结合亲和力。最后,通过应用分子操作环境(MOE)工具和 11 种已证实具有抗病毒活性的药物,构建了一个假设药效模型。
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引用次数: 0
Novel molecular inhibitor design for Plasmodium falciparum Lactate dehydrogenase enzyme using machine learning generated library of diverse compounds 利用机器学习生成的多样化化合物库设计恶性疟原虫乳酸脱氢酶的新型分子抑制剂。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-20 DOI: 10.1007/s11030-024-10960-3
Jitendra Kuldeep, Neeraj Chaturvedi, Dinesh Gupta

Generative machine learning models offer a novel strategy for chemogenomics and de novo drug design, allowing researchers to streamline their exploration of the chemical space and concentrate on specific regions of interest. In cases with limited inhibitor data available for the target of interest, de novo drug design plays a crucial role. In this study, we utilized a package called 'mollib,' trained on ChEMBL data containing approximately 365,000 bioactive molecules. By leveraging transfer learning techniques with this package, we generated a series of compounds, starting from five initial compounds, which are potential Plasmodium falciparum (Pf) Lactate dehydrogenase inhibitors. The resulting compounds exhibit structural diversity and hold promise as potential novel Pf Lactate dehydrogenase inhibitors.

Graphical Abstract

生成式机器学习模型为化学基因组学和新药设计提供了一种新策略,使研究人员能够简化对化学空间的探索,并专注于感兴趣的特定区域。在感兴趣靶点的抑制剂数据有限的情况下,新药设计起着至关重要的作用。在这项研究中,我们使用了一个名为 "mollib "的软件包,该软件包在包含约 365,000 个生物活性分子的 ChEMBL 数据上进行了训练。通过利用该软件包的迁移学习技术,我们从五个初始化合物开始生成了一系列化合物,这些化合物是潜在的恶性疟原虫(Pf)乳酸脱氢酶抑制剂。这些化合物具有结构多样性,有望成为新型恶性疟原虫乳酸脱氢酶抑制剂。
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引用次数: 0
A comprehensive review of synthetic and semisynthetic xanthine oxidase inhibitors: identification of potential leads based on in-silico computed ADME characteristics. 对合成和半合成黄嘌呤氧化酶抑制剂的全面回顾:根据硅内计算的 ADME 特征确定潜在线索。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-20 DOI: 10.1007/s11030-024-10962-1
Rupali Rana, Anchal Sharma, Nitish Kumar, Aanchal Khanna, Jyoti, Muskan Dhir, Harmandeep Kaur Gulati, Jatinder Vir Singh, Preet Mohinder Singh Bedi

Xanthine oxidase (XO) inhibitors, both synthetic and semisynthetic, have been developed extensively over the past few decades. The increased level of XO is not only the major cause of gout but is also responsible for various conditions associated with hyperuricemia, such as cardiovascular disorders, chronic kidney disorders, diabetes, Alzheimer's disease and chronic wounds. Marketed available XO inhibitors (allopurinol, febuxostat, and topiroxostat) are used to treat hyperuricemia but they are associated with fatal side effects, which pose serious problems for the healthcare system, rising the need for new, more potent, safer compounds. This review summarizes recent findings on XO and describes their design, synthesis, biological significance in the development of anti-hyperuricemic drugs with ADME profile, structure activity relationship (SAR) and molecular docking studies. The results might help medicinal chemists to develop more efficacious XO inhibitors.

过去几十年来,合成和半合成的黄嘌呤氧化酶(XO)抑制剂得到了广泛开发。XO 水平升高不仅是痛风的主要原因,也是各种与高尿酸血症有关的疾病的罪魁祸首,如心血管疾病、慢性肾脏疾病、糖尿病、老年痴呆症和慢性伤口。市场上现有的 XO 抑制剂(别嘌醇、非布司他和托吡罗司他)可用于治疗高尿酸血症,但它们会产生致命的副作用,给医疗保健系统带来严重问题,因此需要更强效、更安全的新化合物。本综述总结了有关 XO 的最新研究成果,介绍了它们的设计、合成、在开发抗高尿酸血症药物中的生物学意义、ADME 特征、结构-活性关系(SAR)和分子对接研究。这些结果可能有助于药物化学家开发出更有效的 XO 抑制剂。
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引用次数: 0
Synthesis, biological activities and mechanistic studies of C20-ketone pachysandra alkaloids as anti-hepatocellular carcinoma agents. 作为抗肝细胞癌药物的C20-酮柏子仁生物碱的合成、生物活性和机理研究。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-19 DOI: 10.1007/s11030-024-10961-2
JinFeng Zhao, Jing Bai, Xiang Yu, WenWen Zhang, ChenLiang Zhao, JiangHai Ye, Peng Wei, Kang He, Juan Zou

The pachysandra alkaloids found in Sarcococca ruscifolia demonstrate notable anti-hepatocellular carcinoma activity. Despite their efficacy, the structural diversity of these compounds remains limited, and their precise antitumor mechanism is still unclear. In pursuit of identifying novel lead compounds with high efficacy and low toxicity for combating hepatocellular carcinoma, twenty-three compounds of C20-ketone pachysandra alkaloid derivatives were designed and synthesized by using 3-dimethylamine pachysandra alkaloids as scaffolds. Subsequent in vitro anticancer activity experiments showed that synthetic pachysandra alkaloids had a stronger effect on HepG2 cells than did their natural counterparts, with low toxicity and high selectivity. The most potent derivative, 6k, had an IC50 value of 0.75 μM, demonstrating 25.7-fold greater anticancer activity than sarcovagine D against HepG2 cells. Through network pharmacology and molecular docking analysis, it was revealed that synthetic pachysandra alkaloids may exert their effects by inhibiting the JAK2/STAT3 pathway, thereby preventing the proliferation of liver cancer cells. Further research through scratch tests, immunofluorescence experiments, and Western blot analysis revealed that compound 6k effectively inhibited the migration of HepG2 cells and induced mitochondria-mediated intrinsic apoptosis of HepG2 cells by regulating the JAK2/STAT3 signaling pathway. The aforementioned results indicate that compound 6k could be developed as a potential candidate for the treatment of hepatocellular carcinoma.

马钱子中发现的马钱子生物碱具有显著的抗肝细胞癌活性。尽管功效显著,但这些化合物的结构多样性仍然有限,其确切的抗肿瘤机制也尚不清楚。为了寻找高效低毒的新型先导化合物来抗击肝细胞癌,研究人员以 3-二甲胺茜草生物碱为支架,设计并合成了 23 个 C20 酮茜草生物碱衍生物。随后的体外抗癌活性实验表明,合成的柏子仁生物碱对 HepG2 细胞的作用强于其天然对应物,且毒性低、选择性高。最有效的衍生物 6k 的 IC50 值为 0.75 μM,对 HepG2 细胞的抗癌活性比石杉碱 D 高出 25.7 倍。通过网络药理学和分子对接分析,发现合成的柏子仁生物碱可能是通过抑制 JAK2/STAT3 通路,从而阻止肝癌细胞的增殖来发挥其作用的。通过划痕试验、免疫荧光实验和 Western 印迹分析等进一步研究发现,化合物 6k 能有效抑制 HepG2 细胞的迁移,并通过调节 JAK2/STAT3 信号通路诱导线粒体介导的 HepG2 细胞内在凋亡。上述结果表明,化合物 6k 可被开发为治疗肝细胞癌的潜在候选药物。
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引用次数: 0
Advancements in targeting tumor suppressor genes (p53 and BRCA 1/2) in breast cancer therapy. 针对肿瘤抑制基因(p53 和 BRCA 1/2)治疗乳腺癌的进展。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-17 DOI: 10.1007/s11030-024-10964-z
Chahat, Nidhi Nainwal, Yogesh Murti, Savita Yadav, Pramod Rawat, Sonia Dhiman, Bhupinder Kumar

Globally, among numerous cancer subtypes, breast cancer (BC) is one of the most prevalent forms of cancer affecting the female population. A female's family history significantly increases her risk of developing breast cancer. BC is caused by aberrant breast cells that proliferate and develop into tumors. It is estimated that 5-10% of breast carcinomas are inherited and involve genetic mutations that ensure the survival and prognosis of breast cancer cells. The most common genetic variations are responsible for hereditary breast cancer but are not limited to p53, BRCA1, and BRCA2. BRCA1 and BRCA2 are involved in genomic recombination, cell cycle monitoring, programmed cell death, and transcriptional regulation. When BRCA1 and 2 genetic variations are present in breast carcinoma, p53 irregularities become more prevalent. Both BRCA1/2 and p53 genes are involved in cell cycle monitoring. The present article discusses the current status of breast cancer research, spotlighting the tumor suppressor genes (BRCA1/2 and p53) along with structural activity relationship studies, FDA-approved drugs, and several therapy modalities for treating BC. Breast cancer drugs, accessible today in the market, have different side effects including anemia, pneumonitis, nausea, lethargy, and vomiting. Thus, the development of novel p53 and BRCA1/2 inhibitors with minimal possible side effects is crucial. We have covered compounds that have been examined subsequently (2020 onwards) in this overview which may be utilized as lead compounds. Further, we have covered mechanistic pathways to showcase the critical druggable targets and clinical and post-clinical drugs targeting them for their utility in BC.

在全球众多癌症亚型中,乳腺癌(BC)是影响女性人口的最常见癌症形式之一。女性的家族史会大大增加其罹患乳腺癌的风险。乳腺癌是由异常的乳腺细胞增殖并发展成肿瘤引起的。据估计,5%-10% 的乳腺癌是遗传性的,涉及确保乳腺癌细胞存活和预后的基因突变。遗传性乳腺癌最常见的基因变异包括 p53、BRCA1 和 BRCA2。BRCA1 和 BRCA2 参与基因组重组、细胞周期监测、细胞程序性死亡和转录调控。当乳腺癌中出现 BRCA1 和 BRCA2 基因变异时,p53 的不规则性会变得更加普遍。BRCA1/2 和 p53 基因都参与细胞周期监测。本文讨论了乳腺癌研究的现状,重点介绍了肿瘤抑制基因(BRCA1/2 和 p53)的结构活性关系研究、FDA 批准的药物以及治疗 BC 的几种疗法。目前市场上的乳腺癌药物有不同的副作用,包括贫血、肺炎、恶心、嗜睡和呕吐。因此,开发副作用最小的新型 p53 和 BRCA1/2 抑制剂至关重要。我们在本综述中介绍了随后(2020 年以后)进行研究的化合物,这些化合物可用作先导化合物。此外,我们还介绍了机理途径,以展示关键的可药靶点以及针对这些靶点的临床和临床后药物在巴氏癌中的应用。
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引用次数: 0
Chemical analogue based drug design for cancer treatment targeting PI3K: integrating machine learning and molecular modeling 基于化学类似物的 PI3K 靶向癌症治疗药物设计:机器学习与分子建模的整合。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-17 DOI: 10.1007/s11030-024-10966-x
Mohammed A. Bazuhair, Anwar A. Alghamdi, Othman Baothman, Muhammad Afzal, Sami I. Alzarea, Faisal Imam, Ehssan Moglad, Hisham N. Altayb

Cancer is a generic term for a group of disorders defined by uncontrolled cell growth and the potential to invade or spread to other parts of the body. Gene and epigenetic alterations disrupt normal cellular control, leading to abnormal cell proliferation, resistance to cell death, blood vessel development, and metastasis (spread to other organs). One of the several routes that play an important role in the development and progression of cancer is the phosphoinositide 3-kinase (PI3K) signaling pathway. Moreover, the gene PIK3CG encodes the catalytic subunit gamma (p110γ) of phosphoinositide 3-kinase (PI3Kγ), a member of the PI3K family. Therefore, in this study, PIK3CG was targeted to inhibit cancer by identifying a novel inhibitor through computational methods. The study screened 1015 chemical fragments against PIK3CG using machine learning-based binding estimation and docking to select the potential compounds. Later, the analogues were generated from the selected hits, and 414 analogues were selected, which were further screened, and as most potential candidates, three compounds were obtained: (a) 84,332, 190,213, and 885,387. The protein–ligand complex’s stability and flexibility were then investigated by dynamic modeling. The 100 ns simulation revealed that 885,387 exhibited the steadiest deviation and constant creation of hydrogen bonds. Compared to the other compounds, 885,387 demonstrated a superior binding free energy (ΔG = −18.80 kcal/mol) with the protein when the MM/GBSA technique was used. The study determined that 885,387 showed significant therapeutic potential and justifies further experimental investigation as a possible inhibitor of the PIK3CG target implicated in cancer.

Graphical Abstract

癌症是一组疾病的统称,其定义是细胞生长失控,并有可能侵入或扩散到身体其他部位。基因和表观遗传学的改变破坏了正常的细胞控制,导致细胞异常增殖、抵抗细胞死亡、血管发育和转移(扩散到其他器官)。磷酸肌酸 3- 激酶(PI3K)信号通路是在癌症发生和发展过程中发挥重要作用的几条途径之一。此外,PIK3CG 基因编码 PI3K 家族成员磷脂酶(PI3Kγ)的催化亚基γ(p110γ)。因此,本研究以 PIK3CG 为靶点,通过计算方法找出一种新型抑制剂来抑制癌症。该研究利用基于机器学习的结合估计和对接筛选出 1015 个针对 PIK3CG 的化学片段,从而选出潜在的化合物。随后,从筛选出的命中化合物中生成类似物,并进一步筛选出 414 种类似物,作为最有潜力的候选化合物,得到了三种化合物:(a) 84 332、190 213 和 885 387。然后通过动态建模研究了蛋白质配体复合物的稳定性和灵活性。100 ns 模拟显示,885,387 表现出最稳定的偏离和氢键的持续产生。与其他化合物相比,在使用 MM/GBSA 技术时,885,387 与蛋白质的结合自由能(ΔG = -18.80 kcal/mol)更优越。研究结果表明,885,387 具有显著的治疗潜力,有理由将其作为一种可能的癌症 PIK3CG 靶点抑制剂进行进一步的实验研究。
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引用次数: 0
(-)-Epicatechin metabolites as a GPER ligands: a theoretical perspective. 作为 GPER 配体的 (-)- 表儿茶素代谢物:理论视角。
IF 3.9 2区 化学 Q2 CHEMISTRY, APPLIED Pub Date : 2024-08-17 DOI: 10.1007/s11030-024-10968-9
Rodolfo Daniel Ávila-Avilés, Erick Bahena-Culhuac, J Manuel Hernández-Hernández

Diet habits and nutrition quality significantly impact health and disease. Here is delve into the intricate relationship between diet habits, nutrition quality, and their direct impact on health and homeostasis. Focusing on (-)-Epicatechin, a natural flavanol found in various foods like green tea and cocoa, known for its positive effects on cardiovascular health and diabetes prevention. The investigation encompasses the absorption, metabolism, and distribution of (-)-Epicatechin in the human body, revealing a diverse array of metabolites in the circulatory system. Notably, (-)-Epicatechin demonstrates an ability to activate nitric oxide synthase (eNOS) through the G protein-coupled estrogen receptor (GPER). While the precise role of GPER and its interaction with classical estrogen receptors (ERs) remains under scrutiny, the study employs computational methods, including density functional theory, molecular docking, and molecular dynamics simulations, to assess the physicochemical properties and binding affinities of key (-)-Epicatechin metabolites with GPER. DFT analysis revealed distinct physicochemical properties among metabolites, influencing their reactivity and stability. Rigid and flexible molecular docking demonstrated varying binding affinities, with some metabolites surpassing (-)-Epicatechin. Molecular dynamics simulations highlighted potential binding pose variations, while MMGBSA analysis provided insights into the energetics of GPER-metabolite interactions. The outcomes elucidate distinct interactions, providing insights into potential molecular mechanisms underlying the effects of (-)-Epicatechin across varied biological contexts.

饮食习惯和营养质量对健康和疾病有着重大影响。下面我们将深入探讨饮食习惯和营养质量之间错综复杂的关系,以及它们对健康和平衡的直接影响。研究重点是(-)-表儿茶素,这是一种存在于绿茶和可可等多种食物中的天然黄烷醇,因其对心血管健康和糖尿病预防的积极作用而闻名。研究涵盖(-)-表儿茶素在人体内的吸收、代谢和分布,揭示了其在循环系统中的多种代谢产物。值得注意的是,(-)-表儿茶素能够通过 G 蛋白偶联雌激素受体(GPER)激活一氧化氮合酶(eNOS)。虽然 GPER 的确切作用及其与经典雌激素受体 (ER) 的相互作用仍在研究之中,但本研究采用了计算方法,包括密度泛函理论、分子对接和分子动力学模拟,来评估 (-)- 表儿茶素主要代谢物的理化性质及其与 GPER 的结合亲和力。DFT 分析揭示了代谢物之间不同的理化性质,影响了它们的反应性和稳定性。刚性和柔性分子对接显示了不同的结合亲和力,一些代谢物的结合亲和力超过了(-)-表儿茶素。分子动力学模拟强调了潜在的结合姿势变化,而 MMGBSA 分析则提供了有关 GPER 与代谢物相互作用能量学的见解。这些结果阐明了不同的相互作用,为了解(-)-表儿茶素在不同生物环境中的潜在分子机制提供了依据。
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Molecular Diversity
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