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JUMPstart RNA motif

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JUMPstart RNA
Consensus secondary structure of JUMPstart RNAs
Identifiers
SymbolJUMPstart RNA
RfamRF01707
Other data
RNA typeCis-regulatory element
Domain(s)Bacteria
PDB structuresPDBe

The JUMPstart RNA motif describes a conserved RNA-based secondary structure associated with JUMPstart elements. The 39-base-pair JUMPstart sequence describes a conserved element upstream of genes that participate in polysaccharide synthesis. The JUMPstart element has been shown to function as an RNA, and is present in the 5' untranslated regions of the genes it regulates.

JUMPstart sequences include an ops element, which is an acronym for "operon-polarity suppressor" and has the nucleotide consensus GGCGGUAG. The ops element acts in concert with the RfaH protein to improve transcription of genes downstream of the ops element, especially genes far away within long operons.

References

  1. Weinberg Z, Wang JX, Bogue J, et al. (March 2010). "Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea and their metagenomes". Genome Biol. 11 (3): R31. doi:10.1186/gb-2010-11-3-r31. PMC 2864571. PMID 20230605.
  2. Hobbs M, Reeves PR (June 1994). "The JUMPstart sequence: a 39 bp element common to several polysaccharide gene clusters". Mol. Microbiol. 12 (5): 855–856. doi:10.1111/j.1365-2958.1994.tb01071.x. PMID 8052136. S2CID 19948539.
  3. ^ Marolda CL, Valvano MA (June 1998). "Promoter region of the Escherichia coli O7-specific lipopolysaccharide gene cluster: structural and functional characterization of an upstream untranslated mRNA sequence". J. Bacteriol. 180 (12): 3070–3079. doi:10.1128/JB.180.12.3070-3079.1998. PMC 107806. PMID 9620955.
  4. ^ Nieto JM, Bailey MJ, Hughes C, Koronakis V (February 1996). "Suppression of transcription polarity in the Escherichia coli haemolysin operon by a short upstream element shared by polysaccharide and DNA transfer determinants". Mol. Microbiol. 19 (4): 705–713. doi:10.1046/j.1365-2958.1996.446951.x. PMID 8820641. S2CID 39593320.
  5. Leeds JA, Welch RA (June 1997). "Enhancing transcription through the Escherichia coli hemolysin operon, hlyCABD: RfaH and upstream JUMPStart DNA sequences function together via a postinitiation mechanism". J. Bacteriol. 179 (11): 3519–3527. doi:10.1128/jb.179.11.3519-3527.1997. PMC 179143. PMID 9171395.
  6. Wang L, Jensen S, Hallman R, Reeves PR (August 1998). "Expression of the O antigen gene cluster is regulated by RfaH through the JUMPstart sequence". FEMS Microbiol. Lett. 165 (1): 201–206. doi:10.1111/j.1574-6968.1998.tb13147.x. PMID 9711858.

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