The low-resolution structural models of hepatitis C virus RNA subdomain 5BSL3.2 and its distal complex with domain 3'X point to conserved regulatory mechanisms within the Flaviviridae family.
Journal
Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011
Informations de publication
Date de publication:
28 02 2022
28 02 2022
Historique:
accepted:
29
01
2022
revised:
18
01
2022
received:
16
12
2021
pubmed:
10
2
2022
medline:
16
4
2022
entrez:
9
2
2022
Statut:
ppublish
Résumé
Subdomain 5BSL3.2 of hepatitis C virus RNA lies at the core of a network of distal RNA-RNA contacts that connect the 5' and 3' regions of the viral genome and regulate the translation and replication stages of the viral cycle. Using small-angle X-ray scattering and NMR spectroscopy experiments, we have determined at low resolution the structural models of this subdomain and its distal complex with domain 3'X, located at the 3'-terminus of the viral RNA chain. 5BSL3.2 adopts a characteristic 'L' shape in solution, whereas the 5BSL3.2-3'X distal complex forms a highly unusual 'Y'-shaped kissing junction that blocks the dimer linkage sequence of domain 3'X and promotes translation. The structure of this complex may impede an effective association of the viral polymerase with 5BSL3.2 and 3'X to start negative-strand RNA synthesis, contributing to explain the likely mechanism used by these sequences to regulate viral replication and translation. In addition, sequence and shape features of 5BSL3.2 are present in functional RNA motifs of flaviviruses, suggesting conserved regulatory processes within the Flaviviridae family.
Identifiants
pubmed: 35137150
pii: 6523802
doi: 10.1093/nar/gkac061
pmc: PMC8887478
doi:
Substances chimiques
3' Untranslated Regions
0
RNA, Viral
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, N.I.H., Intramural
Research Support, U.S. Gov't, Non-P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
2287-2301Subventions
Organisme : NCI NIH HHS
ID : 75N91019D00024
Pays : United States
Informations de copyright
© The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research.
Références
Protein Sci. 2018 Jan;27(1):293-315
pubmed: 29067766
J Biol Chem. 2016 Aug 12;291(33):17437-49
pubmed: 27334920
Science. 1999 Jul 2;285(5424):110-3
pubmed: 10390360
RNA. 2009 Sep;15(9):1740-52
pubmed: 19605533
Nucleic Acids Res. 2018 May 4;46(8):4200-4212
pubmed: 29409065
Nucleic Acids Res. 2019 Jul 2;47(W1):W636-W641
pubmed: 30976793
Nature. 2013 Apr 25;496(7446):477-81
pubmed: 23619693
RNA. 2020 Feb;26(2):186-198
pubmed: 31694875
Front Microbiol. 2017 Oct 31;8:2093
pubmed: 29163393
Bioinformatics. 2015 Apr 15;31(8):1325-7
pubmed: 25505092
Nucleic Acids Res. 2006 May 17;34(9):2618-33
pubmed: 16707664
J Phys Chem B. 2011 Jul 7;115(26):8569-74
pubmed: 21644523
J Comput Chem. 2004 Oct;25(13):1605-12
pubmed: 15264254
Nucleic Acids Res. 2015 Mar 11;43(5):2914-26
pubmed: 25712095
Nat Commun. 2021 May 5;12(1):2530
pubmed: 33953197
Cell Mol Life Sci. 2012 Jan;69(1):103-13
pubmed: 21598019
Biophys J. 1999 Jun;76(6):2879-86
pubmed: 10354416
J Virol. 2005 Jan;79(1):380-92
pubmed: 15596831
J Virol. 2000 Dec;74(23):11121-8
pubmed: 11070008
Nucleic Acids Res. 2012 Aug;40(14):6908-21
pubmed: 22561372
J Virol. 1997 Oct;71(10):7345-52
pubmed: 9311812
J Virol. 1997 Nov;71(11):8698-706
pubmed: 9343228
J Virol. 2008 Sep;82(18):9008-22
pubmed: 18614633
Nucleic Acids Res. 2015 Sep 30;43(17):8529-39
pubmed: 26240378
Nucleic Acids Res. 2018 Jul 2;46(W1):W30-W35
pubmed: 29718468
RNA. 2017 Sep;23(9):1465-1476
pubmed: 28630140
Virology. 2005 Jan 20;331(2):375-86
pubmed: 15629780
Virology. 2005 Nov 25;342(2):276-85
pubmed: 16139319
Nat Commun. 2015 Jul 08;6:7646
pubmed: 26155016
Cell Mol Life Sci. 2015 Sep;72(17):3375-85
pubmed: 25822205
Nucleic Acids Res. 2005 Jan 28;33(2):693-703
pubmed: 15681619
RNA. 2010 May;16(5):913-25
pubmed: 20360391
Cold Spring Harb Perspect Med. 2020 Feb 3;10(2):
pubmed: 31548228
Proc Natl Acad Sci U S A. 2014 Oct 28;111(43):15385-9
pubmed: 25313046
Bioinformatics. 2009 Aug 1;25(15):1974-5
pubmed: 19398448
J Gen Virol. 2010 May;91(Pt 5):1207-12
pubmed: 20053824
Nature. 2008 Mar 6;452(7183):51-5
pubmed: 18322526
Nucleic Acids Res. 2004 May 11;32(8):2623-31
pubmed: 15141033
Nat Rev Microbiol. 2014 Jul;12(7):493-504
pubmed: 24931042
Nucleic Acids Res. 2016 Jul 8;44(W1):W315-9
pubmed: 27095203
Lancet Infect Dis. 2020 Sep;20(9):e238-e244
pubmed: 32628905
J Biol Chem. 2000 Jun 9;275(23):17710-7
pubmed: 10749880
J Appl Crystallogr. 2009 Apr 1;42(Pt 2):342-346
pubmed: 27630371
Nucleic Acids Res. 2014 Jan;42(1):567-82
pubmed: 24049069
Adv Virus Res. 2003;59:177-228
pubmed: 14696330
Science. 2015 Feb 13;347(6223):771-5
pubmed: 25678663
Nucleic Acids Res. 2016 Jul 8;44(W1):W424-9
pubmed: 27151198
J Appl Crystallogr. 2012 Mar 15;45(Pt 2):342-350
pubmed: 25484842
J Virol. 2008 Jan;82(1):184-95
pubmed: 17942554
Nucleic Acids Res. 2013 Feb 1;41(4):2526-40
pubmed: 23275555
Virology. 1996 Sep 1;223(1):255-61
pubmed: 8806561
J Virol. 2004 Feb;78(3):1352-66
pubmed: 14722290