The RNA fold interactome of evolutionary conserved RNA structures in S. cerevisiae.
3' Untranslated Regions
/ genetics
5' Untranslated Regions
/ genetics
Base Sequence
Conserved Sequence
/ genetics
Epistasis, Genetic
Evolution, Molecular
Genes, Reporter
Genome, Fungal
Green Fluorescent Proteins
/ metabolism
Nucleic Acid Conformation
Nucleotide Motifs
/ genetics
Protein Biosynthesis
Proteome
/ metabolism
RNA, Fungal
/ chemistry
RNA, Messenger
/ genetics
RNA-Binding Proteins
/ metabolism
Reproducibility of Results
Saccharomyces cerevisiae
/ genetics
Saccharomyces cerevisiae Proteins
/ genetics
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
03 06 2020
03 06 2020
Historique:
received:
11
06
2019
accepted:
29
04
2020
entrez:
5
6
2020
pubmed:
5
6
2020
medline:
19
8
2020
Statut:
epublish
Résumé
RNA-binding proteins play key roles in regulation of gene expression via recognition of structural features in RNA molecules. Here we apply a quantitative RNA pull-down approach to 186 evolutionary conserved RNA structures and report 162 interacting proteins. Unlike global RNA interactome capture, we associate individual RNA structures within messenger RNA with their interacting proteins. Of our binders 69% are known RNA-binding proteins, whereas some are previously unrelated to RNA binding and do not harbor canonical RNA-binding domains. While current knowledge about RNA-binding proteins relates to their functions at 5' or 3'-UTRs, we report a significant number of them binding to RNA folds in the coding regions of mRNAs. Using an in vivo reporter screen and pulsed SILAC, we characterize a subset of mRNA-RBP pairs and thus connect structural RNA features to functionality. Ultimately, we here present a generic, scalable approach to interrogate the increasing number of RNA structural motifs.
Identifiants
pubmed: 32493961
doi: 10.1038/s41467-020-16555-4
pii: 10.1038/s41467-020-16555-4
pmc: PMC7270185
doi:
Substances chimiques
3' Untranslated Regions
0
5' Untranslated Regions
0
Proteome
0
RNA, Fungal
0
RNA, Messenger
0
RNA-Binding Proteins
0
Saccharomyces cerevisiae Proteins
0
Green Fluorescent Proteins
147336-22-9
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
2789Références
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