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奈玛特韦抗 SARS-CoV-2 变异体的体外疗效的结构基础。

Structural basis for the in vitro efficacy of nirmatrelvir against SARS-CoV-2 variants.

机构信息

Medicine Design, Pfizer Worldwide Research, Development & Medical, La Jolla, California, USA.

Medicine Design, Pfizer Worldwide Research, Development & Medical, Groton, Connecticut, USA.

出版信息

J Biol Chem. 2022 Jun;298(6):101972. doi: 10.1016/j.jbc.2022.101972. Epub 2022 Apr 22.

Abstract

The COVID-19 pandemic continues to be a public health threat with emerging variants of SARS-CoV-2. Nirmatrelvir (PF-07321332) is a reversible, covalent inhibitor targeting the main protease (M) of SARS-CoV-2 and the active protease inhibitor in PAXLOVID (nirmatrelvir tablets and ritonavir tablets). However, the efficacy of nirmatrelvir is underdetermined against evolving SARS-CoV-2 variants. Here, we evaluated the in vitro catalytic activity and potency of nirmatrelvir against the M of prevalent variants of concern (VOCs) or variants of interest (VOIs): Alpha (α, B.1.1.7), Beta (β, B.1.351), Delta (δ, B1.617.2), Gamma (γ, P.1), Lambda (λ, B.1.1.1.37/C37), Omicron (ο, B.1.1.529), as well as the original Washington or wildtype strain. These VOCs/VOIs carry prevalent mutations at varying frequencies in the M specifically for α, β, γ (K90R), λ (G15S), and ο (P132H). In vitro biochemical enzymatic assay characterization of the enzyme kinetics of the mutant M demonstrates that they are catalytically comparable to wildtype. We found that nirmatrelvir has similar potency against each mutant M including P132H that is observed in the Omicron variant with a Ki of 0.635 nM as compared to a Ki of 0.933 nM for wildtype. The molecular basis for these observations were provided by solution-phase structural dynamics and structural determination of nirmatrelvir bound to the ο, λ, and β M at 1.63 to 2.09 Å resolution. These in vitro data suggest that PAXLOVID has the potential to maintain plasma concentrations of nirmatrelvir many-fold times higher than the amount required to stop the SARS-CoV-2 VOC/VOI, including Omicron, from replicating in cells.

摘要

新型冠状病毒(SARS-CoV-2)不断出现变异株,大流行仍在持续,对公共卫生构成威胁。奈玛特韦(PF-07321332)是一种针对 SARS-CoV-2 主蛋白酶(M)的可逆共价抑制剂,也是帕克洛维(奈玛特韦片/利托那韦片)中的活性蛋白酶抑制剂。然而,奈玛特韦对不断进化的 SARS-CoV-2 变异株的疗效尚不确定。在此,我们评估了奈玛特韦对主要关切变异株(VOC)或感兴趣变异株(VOI)M 的体外催化活性和效力:阿尔法(α,B.1.1.7)、贝塔(β,B.1.351)、德尔塔(δ,B1.617.2)、伽马(γ,P.1)、拉姆达(λ,B.1.1.1.37/C37)、奥密克戎(ο,B.1.1.529)以及原始华盛顿或野生型株。这些 VOC/VOI 在 M 上具有不同频率的常见突变,具体为 α、β、γ(K90R)、λ(G15S)和 ο(P132H)。对突变 M 的酶动力学进行体外生化酶谱分析表明,它们在催化方面与野生型相当。我们发现,奈玛特韦对每种突变 M 的效力相似,包括在奥密克戎变异株中观察到的 P132H,其 Ki 值为 0.635 nM,而野生型的 Ki 值为 0.933 nM。这些观察结果的分子基础是通过溶液相结构动力学和奈玛特韦与 ο、λ 和 β M 结合的结构测定提供的,分辨率为 1.63 至 2.09 Å。这些体外数据表明,PAXLOVID 有可能使奈玛特韦的血浆浓度保持在多倍于阻止 SARS-CoV-2 VOC/VOI(包括奥密克戎)在细胞中复制所需的水平。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/38d3/9144014/c5488a80d0c0/gr1.jpg

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