The +4G Site in Kozak Consensus Is Not Related to the Efficiency of Translation Initiation
作者： Xuhua Xia
DOI: 10.1371/JOURNAL.PONE.0000188
关键词:
摘要: The optimal context for translation initiation in mammalian species is GCCRCCaugG (where R = purine and “aug” the codon), with -3R +4G being particularly important. presence of has been interpreted as necessary efficient initiation. Accumulated experimental bioinformatic evidence suggested an alternative explanation based on amino acid constraint second codon, i.e., Ala or Gly are needed nascent peptide cleavage initiator Met, consequent overuse codons (GCN GGN) leads to consensus. I performed a critical test these hypotheses 34169 human protein-coding genes published gene expression data. result shows that prevalence not related Among five G-starting codons, only alanine (GCN), glycine (GGN) much smaller extent, overrepresented at whereas other three overrepresented. While highly expressed have more than lowly genes, difference caused by GCN GGN codon. These results inconsistent initiation, but consistent proposal hypothesis.
paperity.org参考文章(46)
S. Grünert, R.J. Jackson, The immediate downstream codon strongly influences the efficiency of utilization of eukaryotic translation initiation codons. The EMBO Journal. ,vol. 13, pp. 3618- 3630 ,(1994) , 10.1002/J.1460-2075.1994.TB06669.X
M Kozak, Effects of long 5' leader sequences on initiation by eukaryotic ribosomes in vitro. Gene Expression. ,vol. 1, pp. 117- 125 ,(1991)
R P Moerschell, Y Hosokawa, S Tsunasawa, F Sherman, The specificities of yeast methionine aminopeptidase and acetylation of amino-terminal methionine in vivo. Processing of altered iso-1-cytochromes c created by oligonucleotide transformation. Journal of Biological Chemistry. ,vol. 265, pp. 19638- 19643 ,(1990) , 10.1016/S0021-9258(17)45419-6
Age Tats, Maido Remm, Tanel Tenson, Highly expressed proteins have an increased frequency of alanine in the second amino acid position BMC Genomics. ,vol. 7, pp. 28- 28 ,(2006) , 10.1186/1471-2164-7-28
John SHINE, Lynn DALGARNO, Terminal-sequence analysis of bacterial ribosomal RNA. Correlation between the 3'-terminal-polypyrimidine sequence of 16-S RNA and translational specificity of the ribosome FEBS Journal. ,vol. 57, pp. 221- 230 ,(1975) , 10.1111/J.1432-1033.1975.TB02294.X
Xuhua Xia, Data Analysis in Molecular Biology and Evolution ,(2000)
Victor E Velculescu, Stephen L Madden, Lin Zhang, Alex E Lash, Jian Yu, Carlo Rago, Anita Lal, Clarence J Wang, Gary A Beaudry, Kristin M Ciriello, Brian P Cook, Michael R Dufault, Anne T Ferguson, Yuhong Gao, Tong-Chuan He, Heiko Hermeking, Siewleng K Hiraldo, Paul M Hwang, Marissa A Lopez, Hilary F Luderer, Brynna Mathews, Joseph M Petroziello, Kornelia Polyak, Leigh Zawel, Wen Zhang, Xiaoming Zhang, Wei Zhou, Frank G Haluska, Jin Jen, Saraswati Sukumar, Gregory M Landes, Gregory J Riggins, Bert Vogelstein, Kenneth W Kinzler, Analysis of human transcriptomes Nature Genetics. ,vol. 23, pp. 387- 388 ,(1999) , 10.1038/70487
Marie Sémon, Jean R. Lobry, Laurent Duret, No Evidence for Tissue-Specific Adaptation of Synonymous Codon Usage in Humans Molecular Biology and Evolution. ,vol. 23, pp. 523- 529 ,(2006) , 10.1093/MOLBEV/MSJ053
Stéphanie Dinel, C Bolduc, P Belleau, A Boivin, M Yoshioka, E Calvo, B Piedboeuf, EE Snyder, Fernand Labrie, J St-Amand, Reproducibility, bioinformatic analysis and power of the SAGE method to evaluate changes in transcriptome Nucleic Acids Research. ,vol. 33, ,(2005) , 10.1093/NAR/GNI025
Thalia A. Farazi, Gabriel Waksman, Jeffrey I. Gordon, The biology and enzymology of protein N-myristoylation. Journal of Biological Chemistry. ,vol. 276, pp. 39501- 39504 ,(2001) , 10.1074/JBC.R100042200