Differential scanning calorimetry of proteins and Zimm–Bragg model in water

IF 3.8 3区 生物学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Archives of biochemistry and biophysics Pub Date : 2024-08-23 DOI:10.1016/j.abb.2024.110132
Knarik V. Yeritsyan, Artem V. Badasyan
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Abstract

Differential Scanning Calorimetry (DSC) is a regular and powerful tool to measure the specific heat profile of various materials. Hydrogen bonds play a crucial role in stabilizing the three-dimensional structure of proteins. Naturally, information about the strength of hydrogen bonds is contained in the measured DSC profiles. Despite its obvious importance, there is no approach that would allow the extraction of such information from the heat capacity measurements. In order to connect the measured profile to microscopic properties of a polypeptide chain, a proper model is required to fit. Using recent advances in the Zimm–Bragg (ZB) theory of protein folding in water, we propose a new and efficient algorithm to process the DSC experimental data and to extract the H-bonding energy among other relevant constants. Thus, for the randomly picked set of 33 proteins, we have found a quite narrow distribution of hydrogen bonding energies from 1 to 8 kJ/mol with the average energy of intra-protein hydrogen bonds h¯=4.2±1.5 kJ/mol and the average energy of water–protein bonds as hps¯=3.8±1.5 kJ/mol. This is an important illustration of a tiny disbalance between the water–protein and intraprotein hydrogen bonds. Fitted values of the nucleation parameter σ belong to the range from 0.001 to 0.01, as expected. The reported method can be considered as complementary to the classical two-state approach and together with other parameters provides the protein–water and intraprotein H-bonding energies, not accessible within the two-state paradigm.

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蛋白质的差示扫描量热法和水中的齐姆-布拉格模型
差示扫描量热仪(DSC)是测量各种材料比热曲线的常规而强大的工具。氢键在稳定蛋白质三维结构方面起着至关重要的作用。自然,氢键强度的信息也包含在所测量的 DSC 曲线中。尽管氢键的重要性不言而喻,但目前还没有一种方法可以从热容量测量值中提取此类信息。为了将测得的曲线与多肽链的微观特性联系起来,需要一个合适的模型来拟合。利用蛋白质在水中折叠的 Zimm-Bragg(ZB)理论的最新进展,我们提出了一种新的高效算法来处理 DSC 实验数据,并在其他相关常数中提取 H 键能。因此,对于随机挑选的 33 个蛋白质,我们发现氢键能量的分布范围很窄,从 1 到 8 kJ/mol,其中蛋白质内氢键的平均能量 h¯=4.2±1.5 kJ/mol,水-蛋白质键的平均能量为 hps¯=3.8±1.5 kJ/mol。这充分说明水-蛋白质氢键和蛋白质内氢键之间存在微小的不平衡。成核参数 σ 的拟合值在 0.001 至 0.01 之间,符合预期。所报告的方法可视为经典双态方法的补充,它与其他参数一起提供了双态范式无法获得的蛋白质-水和蛋白质内氢键能量。
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来源期刊
Archives of biochemistry and biophysics
Archives of biochemistry and biophysics 生物-生化与分子生物学
CiteScore
7.40
自引率
0.00%
发文量
245
审稿时长
26 days
期刊介绍: Archives of Biochemistry and Biophysics publishes quality original articles and reviews in the developing areas of biochemistry and biophysics. Research Areas Include: • Enzyme and protein structure, function, regulation. Folding, turnover, and post-translational processing • Biological oxidations, free radical reactions, redox signaling, oxygenases, P450 reactions • Signal transduction, receptors, membrane transport, intracellular signals. Cellular and integrated metabolism.
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