酶催化物的3D模块:将活性站点分解为不同的功能实体
Ioannis G Riziotis1, António J M Ribeiro1, Neera Borkakoti1
1European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, CB10 1SD Cambridge, UK.
Journal of molecular biology
|August 31, 2023
概括
酶利用反复发生的催化残留安排,称为"酶催化模块". 这些模块使用机制和催化场地图谱 (M-CSA) 来识别,有助于结合和催化,通常是从融合进化中产生的.
科学领域:
- 生物化学 生物化学
- 结构生物学 结构生物学
- 酶学 是一种酶学.
背景情况:
- 酶催化依赖于有限的残留物和辅助因子.
- 不同的酶之间预计会出现重复的,结构相似的催化残留安排.
研究的目的:
- 识别和描述酶中反复出现的催化动机.
- 将这些图案定义为"酶催化模块",并分析它们的进化起源和功能.
主要方法:
- 利用了机制和催化场地地图集 (M-CSA),整合了酶结构,序列和机制数据.
- 衍生出3D模板,表示催化剂残留组.
- 采用模糊模板模板搜索来识别反复出现的动机.
主要成果:
- 识别了许多"酶催化模块",在不相关的酶中保持或融合.
- 发现许多模块有助于金属离子,共因子和基质的结合,通常通过融合进化.
- 观察到一些融合模块执行特定的催化作用,如催化三和糖分离三.
- 证明了酶活性部位即使在功能分歧后也保留了保存的模块.
结论:
- 编制了一个全面的催化模块库,描述了广泛的酶.
- 这些模块可以作为酶设计的宝贵模板,并促进对3D酶催化物的理解.
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