| 1 | Putative hAPN receptor binding sites in SARS_CoV spike protein显示文摘AIM:To obtain the information of ligand-receptor binding between thd S protein of SARS_CoV and CD13, identify the possible interacting domains or motifs related to binding sites, and provide clues for studying the functions of SARS proteins and designing anti-SARS drugs and vaccines. METHODS: On the basis of comparative genomics, the homology search, phylogenetic analyses, and multi-sequence alignment were used to predict CD13 related interacting domains and binding sites sites in the S protein of SARS_CoV. Molecular modeling and docking simulation methods were employed to address the interaction feature between CD13 and S protein of SARS_CoV in validating the bioinformatics predictions. RESULTS:Possible binding sites in the SARS_CoV S protein to CD13 have been mapped out by using bioinformatics analysis tools. The binding for one protein-protein interaction pair (D757-R761 motif of the SARS_CoV S protein to P585-A653 domain of CD13) has been simulated by molecular modeling and docking simulation methods. CONCLUSION:CD13 may be a possible receptor of the SARS_CoV S protein which may be associated with the SARS infection. This study also provides a possible strategy for mapping the possible binding receptors of the proteins in a genome. | YUXiao-Jing LUOCheng LinJian-Cheng HAOPei HEYou-Yu GUOZong-Ming QINLei SUJiong LIUBo-Shu HUANGYin NANPeng LIChuan-Song XIONGBin LUOXiao-Min ZHAOGuo-Ping PEIGang CHENKai-Xian SHENXu SHENJian-Hua ZOUJian-Ping HEWei-Zhong SHITie-Liu ZHONGYang JIANGHua-Liang LIYi-Xue | 2003 | Acta Pharmacologica Sinica2003，24，6： | 13 |
| 2 | Identification of probable genomic packaging signal sequence from SARS—CoV genome by bioinformatics analysis显示文摘AIM:To predict the probable genomic packaging signal of SARS-CoV by bioinformatics analysis. The derived packaging signal may be used to design antisense RNA and RNA interfere (RANi) drugs treating SARS. methods: Based on the studies about the genomic packaging signals of MHV and BCoV, especially the information about primary and secondary structures, the putative genomic packaging signal of SARS_CoV were analyzed by using bioinformatic tools. Multi-alignment for the genomic sequences was performed among SARS-CoV,MHV,BCoV, PEDV and HCoV 229E. Secondary structures of RNA sequences were also predicted for the identification fo the possible genomic packaging signals. Meanwhile, the N and M proteins of all five viruses were analyzed to study the evolutionary relationship with genomic packaging signals. RESULTS: The putative genomic packaging signal of SARS-CoV locates at the 3′ end of ORF1b near that of MHV and BCoV, where is the most variable region of this gene. The RNA secondary structure of SARS-CoV genomic packaging signal is very similar to that of MHV and BCoV. The same result was also obtained in studying the genomic packaging signals of PEDV and HCoV 229E. Further more, the genomic sequence multi-alignment indicated that the locations of packaging signals of SARS-CoV, PEDV, and HCoV overlaped each other. It seems that the mutation rate of packaging signal sequences is much higher than the N protein, while only subtle variations for the M protein. CONCLUSIONS: The probable genomic packaging signal of SARS-CoV is analogous to that of MHV and BCoV, with the corresponding secondary RNA structure locating at the similar region of ORF1b. The positions where genomic packaging signals exist have suffered rounds of mutations, which may influence the primary structures of the N and M proteins consequently. | QINLei XIONGBin LUOCheng GUOZong-Ming HAOPei SUJiong NANPeng FENGYing SHIYi-Xiang YUXiao-Jing LUOXiao-Min CHENKai-Xian SHENXu SHENJian-Hua ZOUJian-Ping ZHAOGuo-Ping SHITie-Liu HEWei-Zhong ZHONGYang JIANGHua-Liang LIYi-Xue | 2003 | Acta Pharmacologica Sinica2003，24，6： | 9 |
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