SARS-CoV2 Nsp1 is a metal-dependent DNA and RNA endonuclease

• Published in: Biometals Vol. 37; no. 5; pp. 1127 - 1146
• Main Authors: Salgueiro, Bruno A., Saramago, Margarida, Tully, Mark D., Issoglio, Federico, Silva, Sara T. N., Paiva, Ana C. F., Arraiano, Cecília M., Matias, Pedro M., Matos, Rute G., Moe, Elin, Romão, Célia V.
• Format: Journal Article
• Language: English
• Published: Dordrecht Springer Netherlands 01.10.2024; Springer Nature B.V
• Subjects: Binding sites; Biochemistry; Biomedical and Life Sciences; Calcium; Calcium - metabolism; Cell Biology; Coronaviruses; COVID-19; Deoxyribonucleic acid; DNA; DNA - metabolism; Endonuclease; Endoribonucleases - genetics; Endoribonucleases - metabolism; Heavy metals; Humans; Life Sciences; Magnesium; Magnesium - chemistry; Magnesium - metabolism; Manganese; Manganese - chemistry; Manganese - metabolism; Medicine/Public Health; Microbiology; Molecular modelling; Nuclease; Pandemics; Pharmacology/Toxicology; Plant Physiology; Proteins; Ribonucleic acid; RNA; RNA - genetics; RNA - metabolism; SARS-CoV-2 - genetics; SARS-CoV-2 - metabolism; Severe acute respiratory syndrome; Severe acute respiratory syndrome coronavirus 2; Viral diseases; Viral Nonstructural Proteins - chemistry; Viral Nonstructural Proteins - genetics; Viral Nonstructural Proteins - metabolism; Virulence factors; Coronavirus; Nuclease; Magnesium; Biophysics; Manganese; SAXS
• ISSN: 0966-0844; 1572-8773; 1572-8773
• DOI: 10.1007/s10534-024-00596-z

Over recent years, we have been living under a pandemic, caused by the rapid spread of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV2). One of the major virulence factors of Coronaviruses is the Non-structural protein 1 (Nsp1), known to suppress the host cells protein translation machinery, allowing the virus to produce its own proteins, propagate and invade new cells. To unveil the molecular mechanisms of SARS-CoV2 Nsp1, we have addressed its biochemical and biophysical properties in the presence of calcium, magnesium and manganese. Our findings indicate that the protein in solution is a monomer and binds to both manganese and calcium, with high affinity. Surprisingly, our results show that SARS-CoV2 Nsp1 alone displays metal-dependent endonucleolytic activity towards both RNA and DNA, regardless of the presence of host ribosome. These results show Nsp1 as new nuclease within the coronavirus family. Furthermore, the Nsp1 double variant R124A/K125A presents no nuclease activity for RNA, although it retains activity for DNA, suggesting distinct binding sites for DNA and RNA. Thus, we present for the first time, evidence that the activities of Nsp1 are modulated by the presence of different metals, which are proposed to play an important role during viral infection. This research contributes significantly to our understanding of the mechanisms of action of Coronaviruses.