The domain of the Bacillus subtilis DEAD-box helicase YxiN that is responsible for specific binding of 23S rRNA has an RNA recognition motif fold

Shu-Ying Wang, Yaoxiong Hu, Michael T. Overgaard, Fedor V. Karginov, Olke C. Uhlenbeck, David B. McKay

Research output: Contribution to journalArticle

49 Citations (Scopus)

Abstract

The YxiN protein of Bacillus subtilis is a member of the DbpA subfamily of prokaryotic DEAD-box RNA helicases. Like DbpA, it binds with high affinity and specificity to segments of 23S ribosomal RNA as short as 32 nucleotides (nt) that include hairpin 92. Several experiments have shown that the 76-residue carboxy-terminal domain of YxiN is responsible for the high-affinity RNA binding. The domain has been crystallized and its structure has been solved to 1.7 Å resolution. The structure reveals an RNA recognition motif (RRM) fold that is found in many eukaryotic RNA binding proteins; the RRM fold was not apparent from the amino acid sequence. The domain has two solvent exposed aromatic residues at sites that correspond to the aromatic residues of the ribonucleoprotein (RNP) motifs RNP1 and RNP2 that are essential for RNA binding in many RRMs. However, mutagenesis of these residues (Tyr404 and Tyr447) to alanine has little effect on RNA affinity, suggesting that the YxiN domain binds target RNAs in a manner that differs from the binding mode commonly found in many eukaryotic RRMs.

Original languageEnglish
Pages (from-to)959-967
Number of pages9
JournalRNA
Volume12
Issue number6
DOIs
Publication statusPublished - 2006 Jun 1

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Bacillus subtilis
RNA
23S Ribosomal RNA
DEAD-box RNA Helicases
Ribonucleoproteins
RNA-Binding Proteins
Mutagenesis
Alanine
Amino Acid Sequence
Nucleotides
RNA Recognition Motif
tetrahydrozoline

All Science Journal Classification (ASJC) codes

  • Molecular Biology

Cite this

Wang, Shu-Ying ; Hu, Yaoxiong ; Overgaard, Michael T. ; Karginov, Fedor V. ; Uhlenbeck, Olke C. ; McKay, David B. / The domain of the Bacillus subtilis DEAD-box helicase YxiN that is responsible for specific binding of 23S rRNA has an RNA recognition motif fold. In: RNA. 2006 ; Vol. 12, No. 6. pp. 959-967.
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The domain of the Bacillus subtilis DEAD-box helicase YxiN that is responsible for specific binding of 23S rRNA has an RNA recognition motif fold. / Wang, Shu-Ying; Hu, Yaoxiong; Overgaard, Michael T.; Karginov, Fedor V.; Uhlenbeck, Olke C.; McKay, David B.

In: RNA, Vol. 12, No. 6, 01.06.2006, p. 959-967.

Research output: Contribution to journalArticle

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