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4-硫代脯氨酸能使顺式脯氨酸存在于天然状态下的蛋白质的慢折叠相速度提高两个数量级。

4-Thiaproline accelerates the slow folding phase of proteins containing cis prolines in the native state by two orders of magnitude.

机构信息

School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland.

School of Biochemistry, University of Bristol, Bristol, UK.

出版信息

Protein Sci. 2024 Feb;33(2):e4877. doi: 10.1002/pro.4877.

DOI:10.1002/pro.4877
PMID:38115231
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10804670/
Abstract

The cis/trans isomerization of peptidyl-prolyl peptide bonds is often the bottleneck of the refolding reaction for proteins containing cis proline residues in the native state. Proline (Pro) analogues, especially C4-substituted fluoroprolines, have been widely used in protein engineering to enhance the thermodynamic stability of peptides and proteins and to investigate folding kinetics. 4-thiaproline (Thp) has been shown to bias the ring pucker of Pro, to increase the cis population percentage of model peptides in comparison to Pro, and to diminish the activation energy barrier for the cis/trans isomerization reaction. Despite its intriguing properties, Thp has been seldom incorporated into proteins. Moreover, the impact of Thp on the folding kinetics of globular proteins has never been reported. In this study, we show that upon incorporation of Thp at cisPro76 into the thioredoxin variant Trx1P the half-life of the refolding reaction decreased from ~2 h to ~35 s. A dramatic acceleration of the refolding rate could be observed also for the protein pseudo wild-type barstar upon replacement of cisPro48 with Thp. Quantum chemical calculations suggested that the replacement of the C H group by a sulfur atom in the pyrrolidine ring, might lower the barrier for cis/trans rotation due to a weakened peptide bond. The protein variants retained their thermodynamic stability upon incorporation of Thp, while the catalytic and enzymatic activities of the modified Trx1P remained unchanged. Our results show that the Pro isostere Thp might accelerate the rate of the slow refolding reaction for proteins containing cis proline residues in the native state, independent from the local structural environment.

摘要

肽酰脯氨酰肽键的顺反异构化通常是含有顺式脯氨酸残基的天然状态蛋白质重折叠反应的瓶颈。脯氨酸(Pro)类似物,特别是 C4 取代的氟代脯氨酸,已广泛用于蛋白质工程,以提高肽和蛋白质的热力学稳定性,并研究折叠动力学。已证明 4-硫代脯氨酸(Thp)可以使 Pro 的环构象偏析,与 Pro 相比,增加模型肽的顺式比例,并降低顺反异构化反应的活化能垒。尽管具有诱人的特性,但 Thp 很少被整合到蛋白质中。此外,Thp 对球状蛋白质折叠动力学的影响从未有过报道。在这项研究中,我们表明,在硫氧还蛋白变体 Trx1P 中的 cisPro76 掺入 Thp 后,重折叠反应的半衰期从约 2 小时缩短至约 35 秒。对于 cisPro48 被 Thp 取代的假野生型枯草杆菌蛋白酶蛋白,也可以观察到重折叠速率的急剧加速。量子化学计算表明,由于肽键减弱,在吡咯烷环中的 CH 基团被硫原子取代可能会降低顺/反旋转的势垒。在掺入 Thp 后,蛋白质变体保留了它们的热力学稳定性,而修饰的 Trx1P 的催化和酶活性保持不变。我们的结果表明,Pro 等排体 Thp 可能会加速含有天然状态顺式脯氨酸残基的蛋白质的缓慢重折叠反应速率,而与局部结构环境无关。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/297a939320ed/PRO-33-e4877-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/82300a134542/PRO-33-e4877-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/3e6ce4b2e133/PRO-33-e4877-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/dc1955cd93e8/PRO-33-e4877-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/be3bb3b0dce3/PRO-33-e4877-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/6110830513fb/PRO-33-e4877-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/db3269c5f8ae/PRO-33-e4877-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/ccbdde1beab2/PRO-33-e4877-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/6d89021398d5/PRO-33-e4877-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/297a939320ed/PRO-33-e4877-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/82300a134542/PRO-33-e4877-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/3e6ce4b2e133/PRO-33-e4877-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/dc1955cd93e8/PRO-33-e4877-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/be3bb3b0dce3/PRO-33-e4877-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/6110830513fb/PRO-33-e4877-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/db3269c5f8ae/PRO-33-e4877-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/ccbdde1beab2/PRO-33-e4877-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/6d89021398d5/PRO-33-e4877-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3a39/10804670/297a939320ed/PRO-33-e4877-g004.jpg

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Pseudoprolines as stereoelectronically tunable proline isosteres.拟脯氨酸作为立体电子可调的脯氨酸类似物。
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Protein Design with Fluoroprolines: 4,4-Difluoroproline Does Not Eliminate the Rate-Limiting Step of Thioredoxin Folding.
用氟代脯氨酸进行蛋白质设计:4,4-二氟脯氨酸不会消除硫氧还蛋白折叠的限速步骤。
Chembiochem. 2021 Dec 2;22(23):3326-3332. doi: 10.1002/cbic.202100418. Epub 2021 Oct 8.
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Incorporation of proline analogs into recombinant proteins expressed in Escherichia coli.将脯氨酸类似物掺入在大肠杆菌中表达的重组蛋白中。
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Biochemistry of fluoroprolines: the prospect of making fluorine a bioelement.氟代脯氨酸的生物化学:使氟成为生物元素的前景。
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