Cargando…

(1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N”

Among the proteins encoded by the SARS-CoV-2 RNA, nsP3 (non-structural Protein3) is the largest multi-domain protein. Its role is multifaceted and important for the viral life cycle. Nonetheless, regarding the specific role of each domain there are many aspects of their function that have to be inve...

Descripción completa

Detalles Bibliográficos
Autores principales: Gallo, Angelo, Tsika, Aikaterini C., Fourkiotis, Nikolaos K., Cantini, Francesca, Banci, Lucia, Sreeramulu, Sridhar, Schwalbe, Harald, Spyroulias, Georgios A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Netherlands 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7680711/
https://www.ncbi.nlm.nih.gov/pubmed/33225414
http://dx.doi.org/10.1007/s12104-020-09987-y
_version_ 1783612488261042176
author Gallo, Angelo
Tsika, Aikaterini C.
Fourkiotis, Nikolaos K.
Cantini, Francesca
Banci, Lucia
Sreeramulu, Sridhar
Schwalbe, Harald
Spyroulias, Georgios A.
author_facet Gallo, Angelo
Tsika, Aikaterini C.
Fourkiotis, Nikolaos K.
Cantini, Francesca
Banci, Lucia
Sreeramulu, Sridhar
Schwalbe, Harald
Spyroulias, Georgios A.
author_sort Gallo, Angelo
collection PubMed
description Among the proteins encoded by the SARS-CoV-2 RNA, nsP3 (non-structural Protein3) is the largest multi-domain protein. Its role is multifaceted and important for the viral life cycle. Nonetheless, regarding the specific role of each domain there are many aspects of their function that have to be investigated. SARS Unique Domains (SUDs), constitute the nsP3c region of the nsP3, and were observed for the first time in SARS-CoV. Two of them, namely SUD-N (the first SUD) and the SUD-M (sequential to SUD-N), exhibit structural homology with nsP3b (“X” or macro domain); indeed all of them are folded in a three-layer α/β/α sandwich. On the contrary, they do not exhibit functional similarities, like ADP-ribose binding properties and ADP-ribose hydrolase activity. There are reports that suggest that these two SUDs may exhibit a binding selectivity towards G-oligonucleotides, a feature which may contribute to the characterization of their role in the formation of the replication/transcription viral complex (RTC) and of the interaction of various viral “components” with the host cell. While the structures of these domains of SARS-CoV-2 have not been determined yet, SUDs interaction with oligonucleotides and/or RNA molecules may provide a platform for drug discovery. Here, we report the almost complete NMR backbone and side-chain resonance assignment ((1)H,(13)C,(15)N) of SARS-CoV-2 SUD-N protein, and the NMR chemical shift-based prediction of the secondary structure elements. These data may be exploited for its 3D structure determination and the screening of chemical compounds libraries, which may alter SUD-N function.
format Online
Article
Text
id pubmed-7680711
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher Springer Netherlands
record_format MEDLINE/PubMed
spelling pubmed-76807112020-11-23 (1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N” Gallo, Angelo Tsika, Aikaterini C. Fourkiotis, Nikolaos K. Cantini, Francesca Banci, Lucia Sreeramulu, Sridhar Schwalbe, Harald Spyroulias, Georgios A. Biomol NMR Assign Article Among the proteins encoded by the SARS-CoV-2 RNA, nsP3 (non-structural Protein3) is the largest multi-domain protein. Its role is multifaceted and important for the viral life cycle. Nonetheless, regarding the specific role of each domain there are many aspects of their function that have to be investigated. SARS Unique Domains (SUDs), constitute the nsP3c region of the nsP3, and were observed for the first time in SARS-CoV. Two of them, namely SUD-N (the first SUD) and the SUD-M (sequential to SUD-N), exhibit structural homology with nsP3b (“X” or macro domain); indeed all of them are folded in a three-layer α/β/α sandwich. On the contrary, they do not exhibit functional similarities, like ADP-ribose binding properties and ADP-ribose hydrolase activity. There are reports that suggest that these two SUDs may exhibit a binding selectivity towards G-oligonucleotides, a feature which may contribute to the characterization of their role in the formation of the replication/transcription viral complex (RTC) and of the interaction of various viral “components” with the host cell. While the structures of these domains of SARS-CoV-2 have not been determined yet, SUDs interaction with oligonucleotides and/or RNA molecules may provide a platform for drug discovery. Here, we report the almost complete NMR backbone and side-chain resonance assignment ((1)H,(13)C,(15)N) of SARS-CoV-2 SUD-N protein, and the NMR chemical shift-based prediction of the secondary structure elements. These data may be exploited for its 3D structure determination and the screening of chemical compounds libraries, which may alter SUD-N function. Springer Netherlands 2020-11-23 2021 /pmc/articles/PMC7680711/ /pubmed/33225414 http://dx.doi.org/10.1007/s12104-020-09987-y Text en © Springer Nature B.V. 2020 This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Article
Gallo, Angelo
Tsika, Aikaterini C.
Fourkiotis, Nikolaos K.
Cantini, Francesca
Banci, Lucia
Sreeramulu, Sridhar
Schwalbe, Harald
Spyroulias, Georgios A.
(1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N”
title (1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N”
title_full (1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N”
title_fullStr (1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N”
title_full_unstemmed (1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N”
title_short (1)H,(13)C and (15)N chemical shift assignments of the SUD domains of SARS-CoV-2 non-structural protein 3c: “the N-terminal domain-SUD-N”
title_sort (1)h,(13)c and (15)n chemical shift assignments of the sud domains of sars-cov-2 non-structural protein 3c: “the n-terminal domain-sud-n”
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7680711/
https://www.ncbi.nlm.nih.gov/pubmed/33225414
http://dx.doi.org/10.1007/s12104-020-09987-y
work_keys_str_mv AT galloangelo 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn
AT tsikaaikaterinic 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn
AT fourkiotisnikolaosk 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn
AT cantinifrancesca 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn
AT bancilucia 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn
AT sreeramulusridhar 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn
AT schwalbeharald 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn
AT spyrouliasgeorgiosa 1h13cand15nchemicalshiftassignmentsofthesuddomainsofsarscov2nonstructuralprotein3cthenterminaldomainsudn