预测人类替代拼接的结构影响
Yuxuan Song1, Chengxin Zhang1, Gilbert S Omenn1
1Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, USA.
Genome biology
|September 17, 2025
概括
替代拼接显著改变蛋白质结构和功能,影响翻译后修改部位. 这项研究预测了超过11000种人类异构体的结构,揭示了细胞类型特定的表达模式.
科学领域:
- 计算生物学 计算生物学
- 结构生物学 结构生物学
- 基因组学就是基因组学.
背景情况:
- 神经网络推进了蛋白质结构预测,但往往忽视了拼接变体.
- 替代拼接从单个基因中产生多样化的蛋白质异型,影响蛋白质的结构和功能.
- 研究替代拼接的结构影响对于理解细胞复杂性至关重要.
研究的目的:
- 使用AlphaFold2.2. 预测超过11000个人类蛋白质异型的结构.
- 为了识别和描述由替代拼接引起的结构变化.
- 为了将蛋白质异型结构与细胞类型特定表达联系起来.
主要方法:
- 利用AlphaFold2来预测 >11,000个人类异构体的结构.
- 应用多个指标 (模板匹配,二次结构,表面电荷,旋转半径,PTM站点可访问性) 来检测拼接诱导的变化.
- 基于结构的综合功能预测和单细胞RNA-seq数据 (智慧表).
主要成果:
- 在蛋白质结构,表面电荷,旋转半径和PTM站点可访问性中发现了拼接诱导的变化.
- 观察到异构体之间结构相似性较低的实例,尽管它们的序列相同性很高.
- 功能预测揭示了异构体之间的众多差异,通常与参考基因相比,功能损失占主导地位.
- 用单细胞RNA-seq数据将异构体表达映射到特定细胞类型.
结论:
- 这项研究为了解拼接异型的结构和功能提供了宝贵的资源.
- 强调了替代拼接对蛋白质结构和细胞功能的重大影响.
- 能够在不同的人类细胞类型中探索异构体结构和功能.
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