DocumentCode :
3318873
Title :
Non-AUG initiation codon and downstream inframe AUG in Pyrococcus Horikoshii: Evaluating two hypotheses
Author :
Xia, Xuhua ; Yang, Qun
Author_Institution :
Dept. of Biol., Univ. of Ottawa, Ottawa, ON, Canada
fYear :
2011
fDate :
10-12 May 2011
Firstpage :
1
Lastpage :
4
Abstract :
Non-AUG initiation codons in protein-coding genes in Pyrococcus horikoshii are associated with the presence of a downstream inframe AUG typically at the 4th codon, i.e., at the 9th nucleotide site when the 1st coding nucleotide is labeled 0. Here we report that the presence of this downstream codon depends not only on the presence/absence of the initiation AUG, but also on the strength of binding between the Shine-Dalgarno (SD) sequence in the 5´-UTR of mRNA and the anti-SD sequence in the 16S rRNA. Weak binding significantly increases the likelihood of having the downstream AUG. Genes with a GUG initiation codon have weaker binding and a high proportion of them have the downstream AUG. Deviation of the SD sequence from the optimal location also appears to increase the likelihood of the downstream AUG.
Keywords :
biochemistry; bioinformatics; genetics; macromolecules; microorganisms; molecular biophysics; molecular configurations; Pyrococcus horikoshii; Shine-Dalgarno sequence; binding strength; downstream inframe AUG; mRNA; nonAUG initiation codon; nucleotide; protein-coding genes; Archaea; Bioinformatics; Encoding; Genomics; Proteins; Synthetic aperture sonar;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Bioinformatics and Biomedical Engineering, (iCBBE) 2011 5th International Conference on
Conference_Location :
Wuhan
ISSN :
2151-7614
Print_ISBN :
978-1-4244-5088-6
Type :
conf
DOI :
10.1109/icbbe.2011.5780099
Filename :
5780099
Link To Document :
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