Different mechanisms for pseudouridine formation in yeast 5S and 5.8S rRNAs

Mol Cell Biol. 2008 May;28(10):3089-100. doi: 10.1128/MCB.01574-07. Epub 2008 Mar 10.


The selection of sites for pseudouridylation in eukaryotic cytoplasmic rRNA occurs by the base pairing of the rRNA with specific guide sequences within the RNA components of box H/ACA small nucleolar ribonucleoproteins (snoRNPs). Forty-four of the 46 pseudouridines (Psis) in the cytoplasmic rRNA of Saccharomyces cerevisiae have been assigned to guide snoRNAs. Here, we examine the mechanism of Psi formation in 5S and 5.8S rRNA in which the unassigned Psis occur. We show that while the formation of the Psi in 5.8S rRNA is associated with snoRNP activity, the pseudouridylation of 5S rRNA is not. The position of the Psi in 5.8S rRNA is guided by snoRNA snR43 by using conserved sequence elements that also function to guide pseudouridylation elsewhere in the large-subunit rRNA; an internal stem-loop that is not part of typical yeast snoRNAs also is conserved in snR43. The multisubstrate synthase Pus7 catalyzes the formation of the Psi in 5S rRNA at a site that conforms to the 7-nucleotide consensus sequence present in other substrates of Pus7. The different mechanisms involved in 5S and 5.8S rRNA pseudouridylation, as well as the multiple specificities of the individual trans factors concerned, suggest possible roles in linking ribosome production to other processes, such as splicing and tRNA synthesis.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Ascomycota / genetics
  • Ascomycota / metabolism
  • Base Sequence
  • DNA Primers / genetics
  • Gene Deletion
  • Genes, Fungal
  • Genetic Complementation Test
  • Hydro-Lyases / genetics
  • Hydro-Lyases / metabolism
  • Microtubule-Associated Proteins / genetics
  • Microtubule-Associated Proteins / metabolism
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Pseudouridine / metabolism*
  • RNA, Fungal / chemistry
  • RNA, Fungal / genetics
  • RNA, Fungal / metabolism*
  • RNA, Ribosomal, 5.8S / chemistry
  • RNA, Ribosomal, 5.8S / genetics
  • RNA, Ribosomal, 5.8S / metabolism*
  • RNA, Ribosomal, 5S / chemistry
  • RNA, Ribosomal, 5S / genetics
  • RNA, Ribosomal, 5S / metabolism*
  • RNA, Small Nucleolar / genetics
  • RNA, Small Nucleolar / metabolism
  • Ribonucleoproteins, Small Nuclear / genetics
  • Ribonucleoproteins, Small Nuclear / metabolism
  • Saccharomyces cerevisiae / genetics
  • Saccharomyces cerevisiae / metabolism
  • Saccharomyces cerevisiae Proteins / genetics
  • Saccharomyces cerevisiae Proteins / metabolism
  • Sequence Homology, Nucleic Acid
  • Spliceosomes / metabolism


  • DNA Primers
  • Microtubule-Associated Proteins
  • Pus7 protein, S cerevisiae
  • RNA, Fungal
  • RNA, Ribosomal, 5.8S
  • RNA, Ribosomal, 5S
  • RNA, Small Nucleolar
  • Ribonucleoproteins, Small Nuclear
  • Saccharomyces cerevisiae Proteins
  • Pseudouridine
  • Hydro-Lyases
  • CBF5 protein, S cerevisiae