Transmembrane proteins are some special and important proteins in cells. Because of their importance and specificity, the prediction of the transmembrane regions has very important theoretical and practical significan...Transmembrane proteins are some special and important proteins in cells. Because of their importance and specificity, the prediction of the transmembrane regions has very important theoretical and practical significance. At present, the prediction methods are mainly based on the physicochemical property and statistic analysis of amino acids. However, these methods are suitable for some environments but inapplicable for other environments. In this paper, the multi-sources information fusion theory has been introduced to predict the transmembrane regions. The proposed method is test on a data set of transmembrane proteins. The results show that the proposed method has the ability of predicting the transmembrane regions as a good performance and powerful tool.展开更多
More than 20 sequences of phospholipid hydroperoxide glutathione peroxidase (PHGPX) from a sequence database were analyzed. The analyses show that the primary structures of most PHGPX proteins have three highly con...More than 20 sequences of phospholipid hydroperoxide glutathione peroxidase (PHGPX) from a sequence database were analyzed. The analyses show that the primary structures of most PHGPX proteins have three highly conserved regions forming a catalytic center and have more than 50% amino acid sequence identity in common. However, two PHGPXs from bovine and swine with the same function have very low similarity with typical PHGPXs and do not have the three highly conserved regions. Thus, the PHGPX proteins are divided into two types: those with the three highly conserved regions, designated as PHGPX I, and the others as PHGPX II. In general, type I proteins are composed of ca.170 amino acid residues; a few of them have an extra signal peptide sequence at the N terminal of the protein. The composition of plant and animal PHGPX amino acids is very different, with most plant PHGPXs being weak acidic, while most animal ones are alkaline. Another specific conservative motif is also found in plant PHGPX proteins. System evolution analysis shows that ortholog and paralog evolution models both exist in PHGPXs, with the plant PHGPX and the animal PHGPX diverging exclusively into two branches in PHGPX I. The information revealed by the evolution tree agrees with the general species evolution process from low to advanced and from simple to complicated.展开更多
基金Supported by the National Natural Science Foundation of China (No. 60874105, 61174022)the Program for New Century Excellent Talents in University (No. NCET-08-0345)the Chongqing Natural Science Foundation (No. CSCT, 2010BA2003)
文摘Transmembrane proteins are some special and important proteins in cells. Because of their importance and specificity, the prediction of the transmembrane regions has very important theoretical and practical significance. At present, the prediction methods are mainly based on the physicochemical property and statistic analysis of amino acids. However, these methods are suitable for some environments but inapplicable for other environments. In this paper, the multi-sources information fusion theory has been introduced to predict the transmembrane regions. The proposed method is test on a data set of transmembrane proteins. The results show that the proposed method has the ability of predicting the transmembrane regions as a good performance and powerful tool.
基金Supported by the National Natural Science F oundationof China(Nos. 3 9770 0 78and 3 0 170 0 80 )the NationalTransgenic Plant Research Project(No.J99-A-041)+1 种基金State Key Basic Research and Development Plan(No.G199980 10 10 0 )Yunnan Province-Unive
文摘More than 20 sequences of phospholipid hydroperoxide glutathione peroxidase (PHGPX) from a sequence database were analyzed. The analyses show that the primary structures of most PHGPX proteins have three highly conserved regions forming a catalytic center and have more than 50% amino acid sequence identity in common. However, two PHGPXs from bovine and swine with the same function have very low similarity with typical PHGPXs and do not have the three highly conserved regions. Thus, the PHGPX proteins are divided into two types: those with the three highly conserved regions, designated as PHGPX I, and the others as PHGPX II. In general, type I proteins are composed of ca.170 amino acid residues; a few of them have an extra signal peptide sequence at the N terminal of the protein. The composition of plant and animal PHGPX amino acids is very different, with most plant PHGPXs being weak acidic, while most animal ones are alkaline. Another specific conservative motif is also found in plant PHGPX proteins. System evolution analysis shows that ortholog and paralog evolution models both exist in PHGPXs, with the plant PHGPX and the animal PHGPX diverging exclusively into two branches in PHGPX I. The information revealed by the evolution tree agrees with the general species evolution process from low to advanced and from simple to complicated.
