2KPV

NMR model of the first let-7 miRNA complementary site (LCS1) in 3'-UTR of lin-41 mRNA from C. elegans

Summary for 2KPV

• Entry DOI: 10.2210/pdb2kpv/pdb
• Descriptor: RNA (34-MER) (1 entity in total)
• Functional Keywords: stem-loop, adenine bulge, asymmetric internal loop, residual dipolar couplings, gaaa tetraloop, rna
• Total number of polymer chains: 1
• Total formula weight: 10954.57

Authors

Cevec, M.,Thibaudeau, C.,Plavec, J. (deposition date: 2009-10-20, release date: 2010-08-04, Last modification date: 2024-05-01)

Primary citation

Cevec, M.,Thibaudeau, C.,Plavec, J.
NMR structure of the let-7 miRNA interacting with the site LCS1 of lin-41 mRNA from Caenorhabditis elegans.
Nucleic Acids Res., 38:7814-7821, 2010

PubMed Abstract: We have determined the 3D structure of a 34-nt RNA construct, herein named LCS1co, which mimics the interaction of let-7 microRNA (miRNA) to one of its complementary binding sites, LCS1, in the 3'-untranslated region of lin-41 mRNA by solution-state NMR spectroscopy. let-7 miRNAs control the timing of development of the nematode Caenorhabditis elegans and are highly conserved in mammals. The sequence and structure of the two conserved let-7 complementary sites, LCS1 and LCS2, in the 3'-untranslated region of lin-41 mRNA are important for a proper downregulation of lin-41. The high-resolution NMR structure reveals details of the binding of let-7 miRNA to lin-41 mRNA which involves formation of a complex with non-canonical structural elements within the seed region. LCS1co exhibits a stem-loop structure with two stems, an asymmetric internal loop and an adenine bulge. Comparison with the NMR solution-state structure of the let-7:lin-41 complex involving the LCS2-binding site shows that conformational freedom of the asymmetric internal loop of LCS1co correlates with a smaller bend between the upper and lower stems in comparison to the well-defined asymmetric loop of LCS2co.

PubMed: 20660479
DOI: 10.1093/nar/gkq640

Experimental method

SOLUTION NMR