水分子在本质上无序的蛋白质表面的排序
Derya Vural1, Utsab R Shrestha2, Loukas Petridis2
1Department of Physics, Marmara University, Istanbul, Türkiye; Oak Ridge National Laboratory, Biosciences Division, UT/ORNL Center for Molecular Biophysics, Oak Ridge, Tennessee; Department of Biochemistry and Cellular and Molecular Biology, University of Tennessee, Knoxville, Tennessee.
Biophysical journal
|October 15, 2023
概括
在折叠蛋白和内在无序蛋白 (IDP) 周围的水合水结构显示了类似的分布,但不同的水扰动. IDP水化不那么四面体,受水氧相互作用和口袋动态的影响.
科学领域:
- 生物物理学的生物物理.
- 结构生物学 结构生物学
- 计算生物学 计算生物学
背景情况:
- 围绕折叠蛋白质的水合水结构得到了很好的研究.
- 对于内在无序蛋白质 (IDP) 的水分存在有限的理解.
研究的目的:
- 在一个折叠蛋白 (lyszyme) 和一个IDP (SH4UD) 周围比较当地的水结构.
- 研究蛋白质结构对水分子动态和排序的影响.
主要方法:
- 使用了分子动力学模拟.
- 在水化中分析了水分子的辐射分布和四面体性.
- 检查了水蛋白相互作用和口袋特征.
主要成果:
- 第一个和第二个水化对两种蛋白质类型的辐射分布都相似.
- 第一个水化中的水与散装水对折叠的蛋白质和IDPs都会产生干扰.
- 乱 (四面体性丧失) 在折叠蛋白质中比IDP更为明显.
- IDP水化显示了水与氧相互作用的增加,而不依赖于紧度.
- 第一个外中的水分子寿命随着IDP的紧度而增加.
结论:
- 蛋白质结构显著影响水的局部组织和动态.
- IDP的配置会影响水口袋的动力学,体积和极性.
- 水解水的行为在折叠蛋白和IDP之间显著不同.
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