通过分子动力学模拟和机器学习来探索μ-阿片类受体的偏向激活特征
Jianfang Chen1, Qiaoling Gou1, Xin Chen1
1College of Chemistry, Sichuan University, Chengdu 610064, China. xmpuscu@scu.edu.cn.
Physical chemistry chemical physics : PCCP
|March 21, 2024
概括
偏差配体具有治疗潜力,但它们的激活机制尚不清楚. 这项研究使用分子动力学和深度学习来揭示由G蛋白和β-阿雷斯偏向激素诱导的mu-阿片类受体 (μOR) 中明显的构造变化.
科学领域:
- 药理学和结构生物学.
- 计算化学和化学信息学
背景情况:
- 偏差配体选择性地激活特定的信号通路,提供治疗前景.
- 了解偏向激活的结构基础对于药物开发至关重要,但仍然有限.
- 类阿片受体 (μOR) 是治疗疼痛的关键标,偏向性激动剂显示出潜在的作用.
研究的目的:
- 为了研究在μOR处偏向激活的独特形状特征.
- 为了确定关键的残留物参与中介偏差信号由G蛋白和β-arrestin激动剂.
- 为合理设计针对GPCRs的有偏见的药物提供见解.
主要方法:
- 用两种偏向激素对不活跃的μOR进行了广泛的加速分子动力学模拟:TRV130 (G蛋白偏向) 和endomorphin2 (β-arrestin偏向).
- 应用可解释的深度学习分类模型来分析模拟数据并识别关键残留.
- 对连接体结合姿势,受体跨膜螺旋体运动和细胞内环形状的分析.
主要成果:
- 与Endomorphin2相比,TRV130在μOR核心中结合得更深,与D114^2.50.0相互作用.
- 与β-arrestin偏向激活相比,G蛋白偏向激活 (TRV130) 诱导TM6细胞内末端向外更大的运动,而β-arrestin偏向激活 (内分泌2).
- 与TRV130相比,Endomorphin2导致TM7细胞内末端更显著的向内移动以及H8和ICL1的复杂变化;通过深度学习确定了偏差激活的关键残留物.
结论:
- 独特的结构动力学区分了G蛋白和β-阿雷斯偏向激活在μOR.
- 该研究确定了特定的残留物和结构重组,这些残留物和结构重组对于偏差信号传输至关重要.
- 这些发现为GPCR偏差激活机制提供了有价值的分子见解,有助于未来的药物设计.
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