Deciphering the architecture and interactome of hnRNP proteins and enigmRBPs.
Journal
Molecular omics
ISSN: 2515-4184
Titre abrégé: Mol Omics
Pays: England
ID NLM: 101713384
Informations de publication
Date de publication:
09 08 2021
09 08 2021
Historique:
pubmed:
22
5
2021
medline:
14
1
2022
entrez:
21
5
2021
Statut:
ppublish
Résumé
RNA-binding proteins (RBPs) have conserved domains and consensus sequences that interact with RNAs and other proteins forming ribonucleoprotein (RNP) complexes. RNPs are involved in the regulation of several cellular processes, including transcription, pre-mRNA splicing, mRNA transport, localization, degradation and storage, and ultimately control of translation. Heterogeneous nuclear ribonucleoproteins (hnRNPs) comprise a family of RBPs that mediate transcription control and nuclear processing of transcripts. Some hnRNPs are part of the spliceosome complex, a dynamic machinery formed by RNPs that regulate alternative splicing of pre-mRNAs. Here, chemical crosslinking of proteins was applied to identify specific interacting regions and protein structural features of hnRNPs: hnRNPA1, hnRNPA2/B1, hnRNPC, and RALY. The results reveal interaction of these proteins within RNA-binding domains and conserved motifs, providing evidence of a coordinated action of known regulatory sequences of RBPs. Moreover, these crosslinking data enable structural model generation for RBPs, illustrating how crosslinking mass spectrometry can complement other structural methods.
Identifiants
pubmed: 34017973
doi: 10.1039/d1mo00024a
pmc: PMC8355073
mid: NIHMS1709079
doi:
Substances chimiques
Heterogeneous-Nuclear Ribonucleoproteins
0
Ribonucleoproteins
0
RNA
63231-63-0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
503-516Subventions
Organisme : NIGMS NIH HHS
ID : R01 GM086688
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL144778
Pays : United States
Organisme : NIGMS NIH HHS
ID : R35 GM136255
Pays : United States
Références
Gut. 2021 Sep;70(9):1698-1712
pubmed: 33219048
Mol Cell. 2020 Apr 2;78(1):9-29
pubmed: 32243832
Nat Methods. 2016 Jun;13(6):515-20
pubmed: 27111507
Mol Cell Proteomics. 2012 Dec;11(12):1965-76
pubmed: 23033476
Nat Rev Mol Cell Biol. 2007 Jun;8(6):479-90
pubmed: 17473849
Anal Chem. 2005 Jan 1;77(1):311-8
pubmed: 15623310
Genes Dev. 1999 May 1;13(9):1102-15
pubmed: 10323862
Nat Methods. 2014 Oct;11(10):1064-70
pubmed: 25173706
Mol Biol Cell. 2018 Dec 15;29(26):3067-3081
pubmed: 30354839
PLoS One. 2012;7(11):e48870
pubmed: 23145003
Nat Protoc. 2015 Jun;10(6):845-58
pubmed: 25950237
Mol Cell Biol. 1994 Jan;14(1):518-33
pubmed: 8264621
Wiley Interdiscip Rev RNA. 2017 Nov;8(6):
pubmed: 28791797
J Cell Biol. 1997 Apr 7;137(1):27-35
pubmed: 9105034
Gene Expr. 2002;10(1-2):79-92
pubmed: 11868989
Hum Genet. 2016 Aug;135(8):851-67
pubmed: 27215579
Int J Biochem Cell Biol. 2017 Oct;91(Pt B):124-135
pubmed: 28733251
Nature. 1992 Feb 20;355(6362):730-2
pubmed: 1371331
J Proteome Res. 2019 Feb 1;18(2):753-758
pubmed: 30520642
Mol Cell Biol. 2009 Oct;29(20):5620-31
pubmed: 19667073
RNA Biol. 2018;15(8):1106-1118
pubmed: 30146924
Proc Natl Acad Sci U S A. 2020 Feb 11;117(6):2948-2956
pubmed: 31974312
Nature. 2001 Aug 9;412(6847):607-14
pubmed: 11493912
RNA. 2002 Apr;8(4):426-39
pubmed: 11991638
Nat Genet. 2000 May;25(1):25-9
pubmed: 10802651
J Proteome Res. 2013 Jun 7;12(6):2869-84
pubmed: 23614458
Proc Natl Acad Sci U S A. 1989 Dec;86(24):9788-92
pubmed: 2557628
J Proteome Res. 2017 Aug 4;16(8):2762-2772
pubmed: 28648085
Nat Commun. 2015 Dec 03;6:10127
pubmed: 26632259
PLoS One. 2019 Sep 9;14(9):e0221048
pubmed: 31498791
RNA. 2010 Aug;16(8):1449-62
pubmed: 20584894
Nucleic Acids Res. 2017 Jan 4;45(D1):D158-D169
pubmed: 27899622
Mol Cell. 2018 Feb 1;69(3):354-369
pubmed: 29395060
Am J Respir Cell Mol Biol. 2018 May;58(5):604-613
pubmed: 29077485
J Mol Biol. 2005 Jul 8;350(2):319-37
pubmed: 15936032
Mol Biosyst. 2015 Aug;11(8):2144-51
pubmed: 26088262
J Cancer Res Ther. 2013 Nov;9 Suppl:S129-34
pubmed: 24516048
Nucleic Acids Res. 2015 Apr 20;43(7):3826-40
pubmed: 25765647
J Proteome Res. 2013 Apr 5;12(4):1569-79
pubmed: 23413883
Genome Res. 2003 Nov;13(11):2498-504
pubmed: 14597658
Mol Cell. 2006 May 19;22(4):511-9
pubmed: 16713581
Curr Protoc Mol Biol. 2003 Aug;Chapter 27:Unit 27.2
pubmed: 18265329
Nat Struct Biol. 1997 Mar;4(3):215-22
pubmed: 9164463
Nat Protoc. 2019 Aug;14(8):2318-2343
pubmed: 31270507
EMBO J. 1997 Dec 15;16(24):7361-71
pubmed: 9405365
Cell Rep. 2019 Oct 29;29(5):1351-1368.e5
pubmed: 31665645
Sci Rep. 2020 Jul 28;10(1):12618
pubmed: 32724211
Cell Mol Life Sci. 2016 Nov;73(21):4075-84
pubmed: 27229125
Cell. 2009 Feb 20;136(4):701-18
pubmed: 19239890
Cell. 2015 Sep 10;162(6):1299-308
pubmed: 26321680
Exp Cell Res. 2020 Apr 15;389(2):111884
pubmed: 32014444
Biochem Biophys Res Commun. 2018 Apr 30;499(1):30-36
pubmed: 29551686
Trends Biochem Sci. 2015 Nov;40(11):662-672
pubmed: 26481498
Curr Opin Struct Biol. 2008 Jun;18(3):290-8
pubmed: 18515081
EMBO J. 1992 Jul;11(7):2655-64
pubmed: 1628625
Nat Commun. 2018 Jan 29;9(1):420
pubmed: 29379020
Nucleic Acids Res. 2019 Jan 8;47(D1):D442-D450
pubmed: 30395289
Nat Rev Genet. 2007 Jul;8(7):533-43
pubmed: 17572691
J Proteome Res. 2007 May;6(5):1882-98
pubmed: 17391014
Cell Mol Life Sci. 2009 Apr;66(7):1239-56
pubmed: 19099192
PLoS One. 2011 Apr 19;6(4):e19061
pubmed: 21526149
Bioinformatics. 2019 Mar 1;35(5):895-897
pubmed: 30137231
Cell Commun Signal. 2016 Apr 06;14:9
pubmed: 27048167
J Cell Biol. 2007 Mar 26;176(7):929-39
pubmed: 17371836
Commun Biol. 2019 Jan 14;2:19
pubmed: 30652130
Proteomics. 2013 Jan;13(1):22-4
pubmed: 23148064
J Biol Chem. 1988 Jan 15;263(2):1063-71
pubmed: 2447078
J Cell Biol. 2006 Mar 13;172(6):803-8
pubmed: 16520386
Nat Rev Mol Cell Biol. 2018 May;19(5):327-341
pubmed: 29339797
Mol Syst Biol. 2019 Apr 8;15(4):e8689
pubmed: 30962360
J Am Chem Soc. 2014 Oct 15;136(41):14536-44
pubmed: 25216038
PLoS One. 2013;8(1):e54004
pubmed: 23382864
Mol Cell. 2013 Jun 6;50(5):613-23
pubmed: 23746349
Bioinformatics. 2016 Sep 1;32(17):2716-8
pubmed: 27153666
Nat Commun. 2016 Nov 08;7:13248
pubmed: 27824037
PLoS Genet. 2017 Feb 24;13(2):e1006633
pubmed: 28234895
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W363-7
pubmed: 15980490
Annu Rev Microbiol. 2009;63:27-44
pubmed: 19385727