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Updated: Jun 1, 2025

Profiling Ubiquitin and Ubiquitin-like Dependent Post-translational Modifications and Identification of Significant Alterations

Profiling Ubiquitin and Ubiquitin-like Dependent Post-translational Modifications and Identification of Significant Alterations

Published on: November 7, 2019

使用翻译后修改分析数据推断酶活性的一种计算工具.

Dehui Kong^1,2, Aijun Zhang^1,2, Ling Li^1,2

¹Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA.

Communications biology

|January 21, 2025

概括

我们开发了JUMPsem,这是一个计算工具,可以从翻译后修改数据中推断酶活性. 这种方法准确地估计了激酶,E3结合酶和HAT活动,性能优于现有的工具.

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相关实验视频

Last Updated: Jun 1, 2025

Profiling Ubiquitin and Ubiquitin-like Dependent Post-translational Modifications and Identification of Significant Alterations

Profiling Ubiquitin and Ubiquitin-like Dependent Post-translational Modifications and Identification of Significant Alterations

Published on: November 7, 2019

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Published on: February 27, 2020

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Published on: January 8, 2018

科学领域:

生物化学生物化学
计算生物学计算生物学
蛋白质组学是指蛋白质组学.

背景情况:

酶对于细胞信号传递至关重要,但它们的活动测量具有挑战性,通常是间接的.
目前的方法很难从大规模的翻译后修改 (PTM) 数据直接推断酶活性.
高通量蛋白质组学通常测量蛋白质丰富度,而不是功能活性.

研究的目的:

介绍JUMPsem,这是一个新的计算工具,用于从PTM分析数据中推断酶活性.
为了使特定的酶类的估计,包括酶,无素E3酶和组胺乙烯转移酶 (HATs).
建立新的酶基质关系,改善酶功能的分析.

主要方法:

在JUMP框架下使用结构方程建模 (SEM).
应用了JUMPsem对蛋白质组,泛素组和乙烯基组数据.
开发了用于新型酶基质关系发现的模式搜索功能.

主要成果:

JUMPsem成功估计了激酶,无素E3结合酶和HAT活动.
该工具通过分析动机序列来确定新的酶基质关系.
与IKAP和KSEA相比,JUMPsem在激酶活性预测方面表现优越,提供更大的速度和范围.

结论:

JUMPsem提供了一种强大而可扩展的方法,可以从PTM数据中推断蛋白酶活动.
开源的R包和R/Shiny应用程序提高了研究人员的可访问性.
通过提高对酶功能的理解,JUMPsem有可能促进药物开发.