Souza Juliana Alves da Costa Ribeiro, Xavier Rafael Martins, Souza Terezinha, Farias Davi
Postgraduate Program in Bioactive Natural and Synthetic Products, Federal University of Paraíba, Joao Pessoa 58051-970, Paraiba, Brazil.
Laboratory for Risk Assessment of Novel Technologies, Department of Molecular Biology, Federal University of Paraiba, Joao Pessoa 58051-900, Paraiba, Brazil.
Int J Mol Sci. 2025 Sep 12;26(18):8873. doi: 10.3390/ijms26188873.
Neurodevelopmental disorders (NDDs) represent significant public health challenges due to their multifactorial etiology and clinical heterogeneity. Current treatments remain limited, highlighting the need for novel therapeutic strategies. This study aimed to identify neuroprotective natural compounds targeting NDD-associated pathways and describe an integrative computational pipeline combining in silico screening, network pharmacology, and molecular docking approaches to accelerate NDD drug discovery. An integrative computational pipeline was developed through sequential phases: (1) systematic screening of the Traditional Chinese Medicine Systems Pharmacology Database (TCMSP) for natural compounds meeting drug-likeness criteria and toxicity thresholds; (2) biological activity prediction; (3) network pharmacology analysis integrating compound targets and NDD-associated genes; (4) protein-protein interaction network construction and functional enrichment; and (5) molecular docking validation of top compounds against prioritized targets. From 2634 initial compounds, 10 met all selection criteria. Network analysis revealed significant interactions between compound targets and NDD-associated genes, with enrichment in neurodevelopment, cognition, and synaptic regulation pathways. Three key targets emerged as hubs: CSNK2B, GRIN1, and MAPK1. Molecular docking demonstrated high-affinity binding of caryophyllene oxide, linoleic acid, and tangeretin, supported by stable interactions with catalytic residues. This study identifies caryophyllene oxide, linoleic acid, and tangeretin as promising multi-target compounds for NDD intervention, with verified interactions against key neurodevelopmental targets. The integrative computational pipeline effectively bridges traditional medicine knowledge with modern drug discovery, offering a strategy to accelerate neurotherapeutic development while reducing experimental costs. These findings warrant further experimental validation of the prioritized compounds.
神经发育障碍(NDDs)因其多因素病因和临床异质性而成为重大的公共卫生挑战。目前的治疗方法仍然有限,这凸显了对新型治疗策略的需求。本研究旨在识别针对NDD相关途径的神经保护天然化合物,并描述一种整合的计算流程,该流程结合了计算机模拟筛选、网络药理学和分子对接方法,以加速NDD药物发现。通过以下连续阶段开发了一种整合的计算流程:(1)对中药系统药理学数据库(TCMSP)进行系统筛选,以寻找符合药物相似性标准和毒性阈值的天然化合物;(2)生物活性预测;(3)整合化合物靶点和NDD相关基因的网络药理学分析;(4)蛋白质-蛋白质相互作用网络构建和功能富集;(5)对排名靠前的化合物针对优先靶点进行分子对接验证。从2634种初始化合物中,有10种符合所有选择标准。网络分析揭示了化合物靶点与NDD相关基因之间的显著相互作用,这些相互作用在神经发育、认知和突触调节途径中富集。三个关键靶点成为枢纽:CSNK2B、GRIN1和MAPK1。分子对接表明氧化石竹烯、亚油酸和橘皮素具有高亲和力结合,与催化残基的稳定相互作用支持了这一点。本研究确定氧化石竹烯、亚油酸和橘皮素是用于NDD干预的有前景的多靶点化合物,它们与关键神经发育靶点的相互作用得到了验证。这种整合的计算流程有效地将传统医学知识与现代药物发现联系起来,提供了一种加速神经治疗药物开发同时降低实验成本的策略。这些发现值得对优先化合物进行进一步的实验验证。