5WTY

Structure of Nop9 RNA complex

Summary for 5WTY

• Entry DOI: 10.2210/pdb5wty/pdb
• Related: 5WTX
• Descriptor: Nucleolar protein 9, RNA (5'-R(*AP*AP*AP*GP*GP*AP*AP*UP*UP*GP*AP*CP*GP*GP*AP*AP*GP*G)-3') (3 entities in total)
• Functional Keywords: pumilio repeat-containing protein, rna-binding protein, rnp, rna binding protein-rna complex, rna binding protein/rna
• Biological source: Saccharomyces cerevisiae S288c; More
• Cellular location: Nucleus, nucleolus : P47077
• Total number of polymer chains: 4
• Total formula weight: 148338.23

Authors

Ye, K.,Wang, B. (deposition date: 2016-12-15, release date: 2017-01-25, Last modification date: 2024-03-20)

Primary citation

Wang, B.,Ye, K.
Nop9 binds the central pseudoknot region of 18S rRNA
Nucleic Acids Res., 45:3559-3567, 2017

PubMed Abstract: The assembly of eukaryotic ribosomes requires numerous factors that transiently associate with evolving pre-ribosomal particles. The Pumilio repeat-containing protein Nop9 briefly associates with the 90S pre-ribosome during its co-transcriptional assembly. Here, we show that Nop9 specifically binds an 11-nucleotide sequence of 18S rRNA that forms the 3΄ side of the central pseudoknot and helix 28 in the mature subunit. Crystal structures of Nop9 in the free and RNA-bound states reveal a new type of Pumilio repeat protein with a distinct structure, target sequence and RNA-binding mode. Nop9 contains 10 Pumilio repeats arranged into a U-shaped scaffold. The target RNA is recognized by two stretches of repeats in a bipartite manner, and three central bases are unrecognized as a result of the degeneracy of repeats 6 and 7. Our data suggest that Nop9 regulates the folding of 18S rRNA at early assembly stages of 90S.

PubMed: 28053123
DOI: 10.1093/nar/gkw1323

Experimental method

X-RAY DIFFRACTION (2.785 Å)