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1 H, 13 C and 15 N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “The SUD-M and SUD-C domains”
Biomolecular NMR Assignments ( IF 0.9 ) Pub Date : 2021-01-09 , DOI: 10.1007/s12104-020-10000-9
Angelo Gallo 1 , Aikaterini C Tsika 1 , Nikolaos K Fourkiotis 1 , Francesca Cantini 2, 3 , Lucia Banci 2, 3 , Sridhar Sreeramulu 4 , Harald Schwalbe 4 , Georgios A Spyroulias 1
Affiliation  

SARS-CoV-2 RNA, nsP3c (non-structural Protein3c) spans the sequence of the so-called SARS Unique Domains (SUDs), first observed in SARS-CoV. Although the function of this viral protein is not fully elucidated, it is believed that it is crucial for the formation of the replication/transcription viral complex (RTC) and of the interaction of various viral “components” with the host cell; thus, it is essential for the entire viral life cycle. The first two SUDs, the so-called SUD-N (the N-terminal domain) and SUD-M (domain following SUD-N) domains, exhibit topological and conformational features that resemble the nsP3b macro (or “X”) domain. Indeed, they are all folded in a three-layer α/β/α sandwich structure, as revealed through crystallographic structural investigation of SARS-CoV SUDs, and they have been attributed to different substrate selectivity as they selectively bind to oligonucleotides. On the other hand, the C-terminal SUD (SUD-C) exhibit much lower sequence similarities compared to the SUD-N & SUD-M, as reported in previous crystallographic and NMR studies of SARS-CoV. In the absence of the 3D structures of SARS-CoV-2, we report herein the almost complete NMR backbone and side-chain resonance assignment (1H,13C,15N) of SARS-CoV-2 SUD-M and SUD-C proteins, and the NMR chemical shift-based prediction of their secondary structure elements. These NMR data will set the base for further understanding at the atomic-level conformational dynamics of these proteins and will allow the effective screening of a large number of small molecules as binders with potential biological impact on their function.



中文翻译:

SARS-CoV-2 非结构蛋白 3c 的 SUD 结构域的 1 H、13 C 和 15 N 化学位移分配:“SUD-M 和 SUD-C 结构域”

SARS-CoV-2 RNA、nsP3c(非结构蛋白 3c)跨越了所谓的 SARS 独特域(SUDs)的序列,首次在 SARS-CoV 中观察到。尽管这种病毒蛋白的功能尚未完全阐明,但据信它对于复制/转录病毒复合物 (RTC) 的形成以及各种病毒“成分”与宿主细胞的相互作用至关重要;因此,它对于整个病毒生命周期至关重要。前两个 SUD,即所谓的 SUD-N(N 端域)和 SUD-M(SUD-N 之后的域)域,表现出类似于 nsP3b 宏(或“X”)域的拓扑和构象特征。事实上,它们都折叠成三层 α/β/α 夹层结构,正如通过对 SARS-CoV SUD 的晶体结构研究所揭示的那样,并且它们被归因于不同的底物选择性,因为它们选择性地结合寡核苷酸。另一方面,与 SUD-N 和 SUD-M 相比,C 末端 SUD (SUD-C) 的序列相似性要低得多,正如之前对 SARS-CoV 的晶体学和 NMR 研究所报道的那样。在没有 SARS-CoV-2 的 3D 结构的情况下,我们在此报告了几乎完整的 NMR 主链和侧链共振分配(SARS-CoV-2 SUD-M 和 SUD-C 蛋白的1 H, 13 C, 15 N) 及其二级结构元素的基于 NMR 化学位移的预测。这些 NMR 数据将为进一步了解这些蛋白质的原子级构象动力学奠定基础,并将允许有效筛选大量小分子作为粘合剂,这些小分子可能对其功能产生生物学影响。

更新日期:2021-01-10
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