RNA pentaloop structures as effective targets of regulators belonging to the RsmA/CsrA protein family.

Details

Serval ID
serval:BIB_7F969FD46661
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
RNA pentaloop structures as effective targets of regulators belonging to the RsmA/CsrA protein family.
Journal
RNA Biology
Author(s)
Lapouge K., Perozzo R., Iwaszkiewicz J., Bertelli C., Zoete V., Michielin O., Scapozza L., Haas D.
ISSN
1555-8584 (Electronic)
ISSN-L
1547-6286
Publication state
Published
Issued date
2013
Peer-reviewed
Oui
Volume
10
Number
6
Pages
1031-1041
Language
english
Abstract
In the Gac/Rsm signal transduction pathway of Pseudomonas fluorescens CHA0, the dimeric RNA-binding proteins RsmA and RsmE, which belong to the vast bacterial RsmA/CsrA family, effectively repress translation of target mRNAs containing a typical recognition sequence near the translation start site. Three small RNAs (RsmX, RsmY, RsmZ) with clustered recognition sequences can sequester RsmA and RsmE and thereby relieve translational repression. According to a previously established structural model, the RsmE protein makes optimal contacts with an RNA sequence 5'- (A)/(U)CANGGANG(U)/(A)-3', in which the central ribonucleotides form a hexaloop. Here, we questioned the relevance of the hexaloop structure in target RNAs. We found that two predicted pentaloop structures, AGGGA (in pltA mRNA encoding a pyoluteorin biosynthetic enzyme) and AAGGA (in mutated pltA mRNA), allowed effective interaction with the RsmE protein in vivo. By contrast, ACGGA and AUGGA were poor targets. Isothermal titration calorimetry measurements confirmed the strong binding of RsmE to the AGGGA pentaloop structure in an RNA oligomer. Modeling studies highlighted the crucial role of the second ribonucleotide in the loop structure. In conclusion, a refined structural model of RsmE-RNA interaction accommodates certain pentaloop RNAs among the preferred hexaloop RNAs.
Keywords
RNA-binding protein, CsrA, RsmA, translational regulation, Shine-Dalgarno structure, Gac, Rsm pathway
Pubmed
Web of science
Open Access
Yes
Create date
06/05/2013 16:42
Last modification date
20/08/2019 14:40
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