Shaowu Meng
University of Toronto Mississauga, Ontario, Canada
Zhuo Zhang
Institute for Infocomm Research, Singapore
ABSTRACT
Pseudoknots have been extensively identified in viruses. However, very few pseudoknots in Human genome have been previously reported. In this study, we identify two pseudoknots in mRNAs of two separate C2H2 zinc finger (C2H2-ZNF) genes after studying the entire 226 C2H2-ZNF genes in Human Chromosome 19 through using standard tools in an original manner, such as searching Pfam database and analyzing the primary structure of these genes and the secondary structure of their putative mRNAs. The two pseudoknots are different in structure and one of them is very likely to stimulate +1 programmed ribosomal frameshifting. We also found some interesting characteristics of the two genes: each gene has significant C2H2-ZNF domains (e-2 or better) in two ORFs of different reading frames; the two ORFs each have a promoter, a transcription start site, a start codon, a Kozak pattern, a Poly(A) site and a Poly(A) signal and thus each of them can be viewed as a gene. Moreover, we compare these two pseudoknots with the structures of the reported pseudoknots in mammals. Present discovery would be useful in the deeper understanding of structural characteristics and functions of pseudoknots.
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How to cite this article
Shaowu Meng and Zhuo Zhang, 2005. Two Pseudoknots from Human C2H2 Zinc Finger Genes
Discovered by Computational Structure Analysis. Biotechnology, 4: 194-201.
DOI: 10.3923/biotech.2005.194.201
URL: https://scialert.net/abstract/?doi=biotech.2005.194.201
DOI: 10.3923/biotech.2005.194.201
URL: https://scialert.net/abstract/?doi=biotech.2005.194.201
REFERENCES
- Nameki, N., B. Felden, J.F. Atkins, R.F. Gesteland, H. Himeno and A. Muto, 1999. Functional and structural analysis of a pseudoknot upstream of the tag-encoded sequence in E. coli tmRNA. J. Mol. Biol., 286: 733-744.
CrossRefDirect Link - Gesteland, R. and J. Atkins, 1996. Recoding: Dynamic reprogramming of translation. Ann. Rev. Biochem., 65: 741-768.
CrossRefDirect Link - Venter, I.C., M.D. Adams, E.W. Myers, P.W. Li and R.J. Mural et al., 2001. The sequence of the human genome. Science, 291: 1304-1351.
CrossRefDirect Link - Dehal, P., P. Predki, A.S. Olsen, A. Kobayashi and P. Folta et al., 2001. Human chromosome 19 and related regions in mouse: Conservative and lineage-specific evolution. Science, 293: 104-111.
CrossRefDirect Link - Atkins, J.F., P.V. Baranov, O. Fayet, A.J. Herr and M.T. Howard et al., 2001. Overriding standard decoding: Implications of recoding for ribosome function and enrichment of gene expression. Cold Spring Harb Symp. Quant. Biol., 116: 217-232.
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