CBP60-DB:一个由AlphaFold预测的CALMODULIN-BINDING PROTEIN 60蛋白质家族的植物王国数据库,具有新的结构聚类算法
Keaun Amani1, Vanessa Shivnauth1, Christian Danve M Castroverde1
1Department of Biology Wilfrid Laurier University Waterloo Ontario Canada.
Plant direct
|July 12, 2023
概括
这项研究介绍了CBP60-DB,这是植物王国中CALMODULIN-BINDING PROTEIN 60 (CBP60) 基因的全面数据库. 它通过分析蛋白质结构和功能,有助于理解植物生长,压力信号和免疫反应.
科学领域:
- 植物分子生物学 植物分子生物学
- 生物信息学是一种生物信息学.
- 结构生物学 结构生物学
背景情况:
- 卡尔莫杜林结合蛋白60 (CBP60) 蛋白质在植物生长,压力信号和免疫力中起着至关重要的作用,特别是在像Arabidopsis thaliana这样的模型物种中.
- 关键的同类CBP60s,CBP60g和SARD1,调节免疫成分和代谢物,如酸 (SA) 和N-酸 (NHP).
- 植物物种中CBP60的更广泛的功能,调节和多样化在很大程度上仍未被探索.
研究的目的:
- 创建一个全面的,全王国数据库 (CBP60-DB) 用于植物CBP60基因同类的结构和生物信息特征.
- 促进研究CBP60蛋白质的功能,调节和多样化在不同的植物种类.
- 为植物生物学社区提供一个用户友好的资源.
主要方法:
- 从62个植物基因组中对1052个CBP60基因同类进行生物信息分析.
- 基于深度学习的结构预测,使用AlphaFold2对所有已识别的植物CBP60蛋白进行预测.
- 开发一种新的集群可视化算法,以评估整个王国的结构相似性.
- 整合外部生物信息资源,用于蛋白质域和基因分析.
主要成果:
- CBP60-DB含有1052个CBP60基因同类,代表2376个独特的转录和1996个独特的蛋白质.
- 对于所有已识别的植物CBP60蛋白质,提供结构分析和域/基因信息.
- 一种新的集群算法能够有效地推断植物种群中保存的CBP60功能.
结论:
- CBP60-DB是一个新的,全面的,易于使用的资源,用于研究植物CBP60蛋白家族.
- 该数据库以AlphaFold2预测为基础,大大提高了对CBP60在植物生物学中的作用的理解.
- 这一资源将支持未来对植物免疫,应激反应和生长调节的研究.
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