23S methyl RNA motif

The 23S methyl RNA motif is a conserved RNA structure found upstream of genes predicted to encode rRNA methyltransferases, possibly for 23S rRNA.[1] However, in one case it is far (3 kilobases) from the rRNA methyltransferase gene. Nonetheless, it was proposed that this RNA could be a cis-regulatory element, an attractive hypothesis in view of the fact that rRNA methyltransferases can bind RNA, and therefore presumably the 23S methyl RNA. This regulatory strategy is common in bacteria to control levels of ribosomal subunits, using RNA motifs called ribosomal leaders. Additionally, 23S methyl RNAs have rho-independent transcription terminators downstream, which could be a mechanism of regulation.[1]

23S methyl RNA motif
Predicted secondary structure and sequence conservation of 23S methyl RNA motif
Identifiers
Symbol23S-methyl
RfamRF01065
Other data
RNA typeCis-reg
Domain(s)Bacteria
SOSO:0005836
PDB structuresPDBe

The 23S methyl RNA is found exclusively in the order of bacteria called Lactobacillales.[1]

References
  1. Weinberg Z, Barrick JE, Yao Z, et al. (2007). "Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline". Nucleic Acids Res. 35 (14): 4809–4819. doi:10.1093/nar/gkm487. PMC 1950547. PMID 17621584.
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