The structural analysis of protein sequences based on the quasi-amino acids code
Zhu Ping(朱平)a)†, Tang Xu-Qing(唐旭清)a)b), and Xu Zhen-Yuan(徐振源)a)
a School of Science, Jiangnan University, Wuxi 214122, China; b Key Laboratory of Intelligent Computing and Signal Processing of Ministry of Education, Anhui University, Hefei 230039, China
Abstract Proteomics is the study of proteins and their interactions in a cell. With the successful completion of the Human Genome Project, it comes the postgenome era when the proteomics technology is emerging. This paper studies protein molecule from the algebraic point of view. The algebraic system ($\varSigma$,+,*) is introduced, where $\varSigma$ is the set of 64 codons. According to the characteristics of ($\varSigma$,+,*), a novel quasi-amino acids code classification method is introduced and the corresponding algebraic operation table over the set ZU of the 16 kinds of quasi-amino acids is established. The internal relation is revealed about quasi-amino acids. The results show that there exist some very close correlations between the properties of the quasi-amino acids and the codon. All these correlation relationships may play an important part in establishing the logic relationship between codons and the quasi-amino acids during the course of life origination. According to Ma F et al (2003 J. Anhui Agricultural University30 439), the corresponding relation and the excellent properties about amino acids code are very difficult to observe. The present paper shows that (ZU, ⊕, $\otimes$) is a field. Furthermore, the operational results display that the codon tga has different property from other stop codons. In fact, in the mitochondrion from human and ox genomic codon, tga is just tryptophane, is not the stop codon like in other genetic code, it is the case of the Chen W C et al (2002 Acta Biophysica Sinica18(1) 87). The present theory avoids some inexplicable events of the 20 kinds of amino acids code, in other words it solves the problem of `the 64 codon assignments of mRNA to amino acids is probably completely wrong' proposed by Yang (2006 Progress in Modern Biomedicine6 3).
Received: 18 March 2008
Revised: 12 April 2008
Accepted manuscript online:
Fund: Project supported in part by the
International Technology Collaboration Research Program of China
(Grant No 2007DFA706700).
Cite this article:
Zhu Ping(朱平), Tang Xu-Qing(唐旭清), and Xu Zhen-Yuan(徐振源) The structural analysis of protein sequences based on the quasi-amino acids code 2009 Chin. Phys. B 18 363
Modelling of a DNA packaging motor Qian Jun(钱钧),Xie Ping (谢平), Xue Xiao-Guang(薛晓光), and Wang Peng-Ye(王鹏业) . Chin. Phys. B, 2009, 18(11): 4852-4864.
No Suggested Reading articles found!
Viewed
Full text
Abstract
Cited
Altmetric
blogs
tweeters
Facebook pages
Wikipedia page
Google+ users
Online attention
Altmetric calculates a score based on the online attention an article receives. Each coloured thread in the circle represents a different type of online attention. The number in the centre is the Altmetric score. Social media and mainstream news media are the main sources that calculate the score. Reference managers such as Mendeley are also tracked but do not contribute to the score. Older articles often score higher because they have had more time to get noticed. To account for this, Altmetric has included the context data for other articles of a similar age.
