5LSN

SINEB2 element of the long non-coding RNA activator of translation AS Uchl1

Summary for 5LSN

• Entry DOI: 10.2210/pdb5lsn/pdb
• NMR Information: BMRB: 34038
• Descriptor: RNA (29-MER) (1 entity in total)
• Functional Keywords: rna sineup hairpin, rna
• Biological source: Mus musculus (House Mouse)
• Total number of polymer chains: 1
• Total formula weight: 9309.52

Authors

Podbevsek, P.,Plavec, J. (deposition date: 2016-09-05, release date: 2017-09-20, Last modification date: 2024-05-15)

Primary citation

Podbevsek, P.,Fasolo, F.,Bon, C.,Cimatti, L.,Reisser, S.,Carninci, P.,Bussi, G.,Zucchelli, S.,Plavec, J.,Gustincich, S.
Structural determinants of the SINE B2 element embedded in the long non-coding RNA activator of translation AS Uchl1.
Sci Rep, 8:3189-3189, 2018

PubMed Abstract: Pervasive transcription of mammalian genomes leads to a previously underestimated level of complexity in gene regulatory networks. Recently, we have identified a new functional class of natural and synthetic antisense long non-coding RNAs (lncRNA) that increases translation of partially overlapping sense mRNAs. These molecules were named SINEUPs, as they require an embedded inverted SINE B2 element for their UP-regulation of translation. Mouse AS Uchl1 is the representative member of natural SINEUPs. It was originally discovered for its role in increasing translation of Uchl1 mRNA, a gene associated with neurodegenerative diseases. Here we present the secondary structure of the SINE B2 Transposable Element (TE) embedded in AS Uchl1. We find that specific structural regions, containing a short hairpin, are required for the ability of AS Uchl1 RNA to increase translation of its target mRNA. We also provide a high-resolution structure of the relevant hairpin, based on NMR observables. Our results highlight the importance of structural determinants in embedded TEs for their activity as functional domains in lncRNAs.

PubMed: 29453387
DOI: 10.1038/s41598-017-14908-6

Experimental method

SOLUTION NMR