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arXiv 2103.12733physics.bio-phq-bio.BM
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SARS-CoV-2刺突蛋白易受中等电场的影响

The SARS-CoV-2 Spike Protein is vulnerable to moderate electric fields

Claudia R. Arbeitman, Pablo Rojas, Pedro Ojeda-May, Martin E. Garcia

摘要:

大多数正在进行的旨在开发针对COVID-19的特异性疗法和疫苗的项目都使用SARS-CoV-2刺突(S)蛋白作为主要靶标[1-3]。刺突蛋白与宿主细胞的ACE 2受体(ACE 2)的结合构成了病毒进入的第一步和关键步骤。在这个过程中,S蛋白的受体结合结构域(RBD)起着至关重要的作用,因为它含有受体结合基序(RBM),负责与受体对接。到目前为止,大多数生物化学方法正在进行测试,以防止病毒与ACE 2结合[4]。在这里,我们表明,与原子模拟的帮助下,容易实现和中等强度的外部电场可以显着地破坏S蛋白的稳定性,诱导持久的结构损伤。一个显著的场诱导构象变化发生在RBD的识别环L3水平,其中两个平行的β折叠(被认为是对ACE 2具有高亲和力的原因[5])发生变化,形成非结构化卷曲,几乎不可能与ACE 2受体结合(图1a)。值得注意的是,虽然S的结构灵活性允许病毒提高其进入细胞的概率,但这也是S在施加强度至少比破坏大多数蛋白质所需的强度小两个数量级的电场时令人惊讶的脆弱性的起源。我们的研究结果表明,存在一种清洁的物理方法来削弱SARS-CoV-2病毒,而无需进一步的生化处理。此外,该效应可用于预防感染的目的,也可用于开发S的体外结构操纵技术。由于该方法在很大程度上是非特异性的,因此它可以适用于S中的突变、SARS-CoV-2的其他蛋白以及一般而言其他病毒类型的膜蛋白。

英文摘要:

Most of the ongoing projects aimed at the development of specific therapies and vaccines against COVID-19 use the SARS-CoV-2 spike (S) protein as the main target [1-3]. The binding of the spike protein with the ACE2 receptor (ACE2) of the host cell constitutes the first and key step for virus entry. During this process, the receptor binding domain (RBD) of the S protein plays an essential role, since it contains the receptor binding motif (RBM), responsible for the docking to the receptor. So far, mostly biochemical methods are being tested in order to prevent binding of the virus to ACE2 [4]. Here we show, with the help of atomistic simulations, that external electric fields of easily achievable and moderate strengths can dramatically destabilise the S protein, inducing long-lasting structural damage. One striking field-induced conformational change occurs at the level of the recognition loop L3 of the RBD where two parallel beta sheets, believed to be responsible for a high affinity to ACE2 [5], undergo a change into an unstructured coil, which exhibits almost no binding possibilities to the ACE2 receptor (Figure 1a). Remarkably, while the structural flexibility of S allows the virus to improve its probability of entering the cell, it is also the origin of the surprising vulnerability of S upon application of electric fields of strengths at least two orders of magnitude smaller than those required for damaging most proteins. Our findings suggest the existence of a clean physical method to weaken the SARS-CoV-2 virus without further biochemical processing. Moreover, the effect could be used for infection prevention purposes and also to develop technologies for in-vitro structural manipulation of S. Since the method is largely unspecific, it can be suitable for application to mutations in S, to other proteins of SARS-CoV-2 and in general to membrane proteins of other virus types.

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