G3BP1 binds to guanine quadruplexes in mRNAs to modulate their stabilities.
3' Untranslated Regions
Aminoquinolines
/ chemistry
Base Sequence
Cloning, Molecular
Computational Biology
/ methods
DNA Helicases
/ genetics
Datasets as Topic
Escherichia coli
/ genetics
G-Quadruplexes
Gene Expression
Genes, Reporter
Genetic Vectors
/ chemistry
HEK293 Cells
HeLa Cells
Humans
Ligands
Luciferases
/ genetics
Picolinic Acids
/ chemistry
Poly-ADP-Ribose Binding Proteins
/ genetics
Protein Binding
RNA Helicases
/ genetics
RNA Recognition Motif Proteins
/ genetics
RNA Stability
Recombinant Proteins
/ chemistry
Journal
Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011
Informations de publication
Date de publication:
08 11 2021
08 11 2021
Historique:
accepted:
04
10
2021
revised:
12
09
2021
received:
27
03
2021
pubmed:
7
10
2021
medline:
22
12
2021
entrez:
6
10
2021
Statut:
ppublish
Résumé
RNA guanine quadruplexes (rG4) assume important roles in post-transcriptional regulations of gene expression, which are often modulated by rG4-binding proteins. Hence, understanding the biological functions of rG4s requires the identification and functional characterizations of rG4-recognition proteins. By employing a bioinformatic approach based on the analysis of overlap between peaks obtained from rG4-seq analysis and those detected in >230 eCLIP-seq datasets for RNA-binding proteins generated from the ENCODE project, we identified a large number of candidate rG4-binding proteins. We showed that one of these proteins, G3BP1, is able to bind directly to rG4 structures with high affinity and selectivity, where the binding entails its C-terminal RGG domain and is further enhanced by its RRM domain. Additionally, our seCLIP-Seq data revealed that pyridostatin, a small-molecule rG4 ligand, could displace G3BP1 from mRNA in cells, with the most pronounced effects being observed for the 3'-untranslated regions (3'-UTR) of mRNAs. Moreover, luciferase reporter assay results showed that G3BP1 positively regulates mRNA stability through its binding with rG4 structures. Together, we identified a number of candidate rG4-binding proteins and validated that G3BP1 can bind directly with rG4 structures and regulate the stabilities of mRNAs.
Identifiants
pubmed: 34614161
pii: 6382385
doi: 10.1093/nar/gkab873
pmc: PMC8565330
doi:
Substances chimiques
3' Untranslated Regions
0
Aminoquinolines
0
Ligands
0
Picolinic Acids
0
Poly-ADP-Ribose Binding Proteins
0
RNA Recognition Motif Proteins
0
Recombinant Proteins
0
pyridostatin
0
Luciferases
EC 1.13.12.-
DNA Helicases
EC 3.6.4.-
G3BP1 protein, human
EC 3.6.4.12
RNA Helicases
EC 3.6.4.13
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
11323-11336Subventions
Organisme : NIEHS NIH HHS
ID : R35 ES031707
Pays : United States
Informations de copyright
© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.
Références
Angew Chem Int Ed Engl. 2018 Apr 16;57(17):4702-4706
pubmed: 29453903
J Am Chem Soc. 2018 Dec 26;140(51):17945-17955
pubmed: 30517002
Nat Methods. 2016 Jun;13(6):508-14
pubmed: 27018577
Bioinformatics. 2014 Jun 1;30(11):1618-9
pubmed: 24489365
Nature. 2012 Sep 6;489(7414):57-74
pubmed: 22955616
Bioinformatics. 2017 May 15;33(10):1563-1564
pubmed: 28158328
Nucleic Acids Res. 2016 Feb 29;44(4):1746-59
pubmed: 26792894
Nat Struct Mol Biol. 2010 Jul;17(7):853-61
pubmed: 20526337
Nat Protoc. 2007;2(8):1849-61
pubmed: 17703195
Biochimie. 2018 Jan;144:169-184
pubmed: 29129743
Nucleic Acids Res. 2014 Jun;42(10):6630-44
pubmed: 24771345
Nat Struct Mol Biol. 2011 Jun 05;18(7):796-804
pubmed: 21642970
Bioinformatics. 2019 Sep 15;35(18):3493-3495
pubmed: 30721922
Nature. 2017 Jun 8;546(7657):243-247
pubmed: 28562589
Mol Cell. 2016 Aug 18;63(4):696-710
pubmed: 27453046
J Cell Biol. 2003 Mar 17;160(6):823-31
pubmed: 12642610
Trends Biochem Sci. 2021 Apr;46(4):270-283
pubmed: 33303320
Mol Cell Biol. 1996 Jun;16(6):2561-9
pubmed: 8649363
Chem Biol. 2013 Mar 21;20(3):341-50
pubmed: 23521792
Mol Cell. 2017 Nov 16;68(4):808-820.e5
pubmed: 29129640
Nucleic Acids Res. 2008 Nov;36(19):6260-8
pubmed: 18832370
J Am Chem Soc. 2015 Jul 8;137(26):8521-5
pubmed: 26056849
Elife. 2015 Aug 12;4:
pubmed: 26267306
Cell. 2001 Nov 16;107(4):489-99
pubmed: 11719189
Nat Biotechnol. 2016 Feb;34(2):184-191
pubmed: 26780180
Nat Immunol. 2019 Jan;20(1):18-28
pubmed: 30510222
Nat Commun. 2017 Jul 07;8:16043
pubmed: 28685753
Wiley Interdiscip Rev RNA. 2012 Jul-Aug;3(4):495-507
pubmed: 22488917
Nat Chem Biol. 2007 Apr;3(4):218-21
pubmed: 17322877
J Am Chem Soc. 2017 Sep 13;139(36):12426-12429
pubmed: 28859475
Nat Chem Biol. 2020 May;16(5):489-492
pubmed: 32015521
Genome Res. 2017 Mar;27(3):407-418
pubmed: 27940950
Nucleic Acids Res. 2020 Jan 10;48(1):1-15
pubmed: 31754698
Nucleic Acids Res. 2019 Dec 16;47(22):11746-11754
pubmed: 31722410
Methods. 2007 Dec;43(4):324-31
pubmed: 17967702
Nucleic Acids Res. 2014 Mar;42(5):3346-61
pubmed: 24369427
Nat Commun. 2018 Jul 2;9(1):2558
pubmed: 29967381
Nat Commun. 2019 Jun 3;10(1):2421
pubmed: 31160600
Cell Rep. 2017 Mar 21;18(12):2979-2990
pubmed: 28329689
J Mol Biol. 2017 Jul 7;429(14):2127-2147
pubmed: 28554731
RNA Biol. 2014;11(11):1364-74
pubmed: 25692235
Cell. 2018 Jan 25;172(3):590-604.e13
pubmed: 29373831
J Am Chem Soc. 2008 Nov 26;130(47):15758-9
pubmed: 18975896
BMC Biotechnol. 2008 Dec 04;8:91
pubmed: 19055817
Nucleic Acids Res. 1999 Feb 1;27(3):817-21
pubmed: 9889278
Mol Cell Biol. 2011 Feb;31(4):736-43
pubmed: 21149580
Science. 2016 Sep 23;353(6306):
pubmed: 27708011
Nat Chem. 2014 Jan;6(1):75-80
pubmed: 24345950
Trends Immunol. 2014 Sep;35(9):420-8
pubmed: 25153707
Nucleic Acids Res. 2017 Feb 28;45(4):1584-1595
pubmed: 28013268
Nucleic Acids Res. 2017 Jun 20;45(11):6656-6668
pubmed: 28472472
Trends Biotechnol. 2017 Oct;35(10):997-1013
pubmed: 28755976
Nucleic Acids Res. 2019 Jan 10;47(1):56-68
pubmed: 30462330
Mol Cell. 2010 May 28;38(4):576-89
pubmed: 20513432
Cell. 2020 Apr 16;181(2):346-361.e17
pubmed: 32302572
Nature. 2014 Sep 4;513(7516):65-70
pubmed: 25079319
Nat Methods. 2016 Oct;13(10):841-4
pubmed: 27571552
Nat Commun. 2018 Nov 9;9(1):4730
pubmed: 30413703
Methods Mol Biol. 2017;1648:177-200
pubmed: 28766298
Nat Protoc. 2013 Nov;8(11):2281-2308
pubmed: 24157548
Nucleic Acids Res. 2014 Jan;42(2):1209-23
pubmed: 24121682
Mol Cell. 2013 Jun 6;50(5):613-23
pubmed: 23746349
Mol Cell. 2020 Apr 2;78(1):70-84.e6
pubmed: 32017897
Bioinformatics. 2012 Mar 1;28(5):607-13
pubmed: 22262674
Bioinformatics. 2010 Mar 15;26(6):841-2
pubmed: 20110278
Nucleic Acids Res. 2018 Nov 30;46(21):11592-11604
pubmed: 30256975
Brief Bioinform. 2013 Mar;14(2):178-92
pubmed: 22517427
Nat Commun. 2020 Jan 27;11(1):527
pubmed: 31988292
Cell. 2020 Apr 16;181(2):325-345.e28
pubmed: 32302571