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. 2015 Jan;43(Database issue):D138-40.
doi: 10.1093/nar/gku1109. Epub 2014 Nov 5.

The tmRNA website

Corey M Hudson  1 , Kelly P Williams  2
Affiliations

The tmRNA website

Corey M Hudson et al. Nucleic Acids Res. 2015 Jan.

Abstract

The transfer-messenger RNA (tmRNA) and its partner protein SmpB act together in resolving problems arising when translating bacterial ribosomes reach the end of mRNA with no stop codon. Their genes have been found in nearly all bacterial genomes and in some organelles. The tmRNA Website serves tmRNA sequences, alignments and feature annotations, and has recently moved to http://bioinformatics.sandia.gov/tmrna/. New features include software used to find the sequences, an update raising the number of unique tmRNA sequences from 492 to 1716, and a database of SmpB sequences which are served along with the tmRNA sequence from the same organism.

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Figures

Figure 1.
Figure 1.
Taxonomic distribution of tmRNAs in the website. The Krona metagenome visualizer (15) is used to display 9387 tmRNA instances. In this visualization, higher taxonomic ranks are toward the center. In its dynamic form at our website, users click to restrict to lower ranks but with fuller presentation. It has been modified to also serve as a navigation tool for the website.
See this image and copyright information in PMC

References

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    1. Hudson C.M., Lau B.Y., Williams K.P. Ends of the line for tmRNA-SmpB. Front. Microbiol. 2014;5:421. - PMC - PubMed

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