Structure modeling and spatial epitope analysis for HA protein of the novel H1N1 influenza virus
WU Di1,2, XU TianLei1, SUN Jing1, DAI JianXin4,6, DING GuoHui9, HE YunGang9, ZHOU ZhengFeng10, XIONG Hui10, DONG Hui10, JIN WeiRong10, BIAN Chao9, JIN Li3,9,10, WANG HongYan3, WANG XiaoNing3,5, YANG Zhong2,3, ZHONG Yang2,3, WANG Hao4,6, CHE XiaoYan7, HUANG Zhong8, LAN Ke8, SUN Bing8, WU Fan8, YUAN ZhenAn8, ZHANG Xi8, ZHOU XiaoNong11, ZHOU JiaHai12, MA ZhiYong13, TONG GuangZhi13, GUO YaJun4,6, ZHAO GuoPing3,9,10,14, LI YiXue2,9 &|CAO ZhiWei1,2
1 School of Life Sciences and Technology, Tongji University, Shanghai 200092, China;
2 Shanghai Center for Bioinformation Technology, Shanghai 200235, China|3 School of Life Sciences, Fudan University, Shanghai 200433, China;
4 Cancer Institute of the Second Military Medical University, Shanghai 200433, China;
5 School of Life Sciences and Technology, South China University of Technology, Guangzhou 510641, China;
6 National Engineering Research Center for Antibody Drugs, Shanghai 201203, China;
7 Zhujiang Hospital, Southern Medical University, Guangzhou 510282, China;
8 Shanghai Municipal Center for Disease Control &|Prevention, Shanghai 200336, China;
9 Shanghai Institutes of Biological Sciences, Chinese Academy of Sciences (Lab of Computational Genomics, CAS-MPG Partner Institute of Computational Biology|Center of Bioinformatics, Key Lab of System Biology|Lab of Synthetic Biology, Institute of Plant Physiology &|Ecology|Institute Pasteur), Shanghai 200031, China;
10 National Engineering Research Center for Biochip Technology, Shanghai Biochip Co. Ltd, Shanghai 201203, China;
11 National Institute for Parasitic Diseases, Chinese Center for Disease Control and Prevention, Shanghai 200025, China;
12 Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China;
13 Shanghai Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Shanghai 200241, China;
14 National Engineering Research Center for Biochip Technology, Shanghai Biochip Co. Ltd, Shanghai 201203, China
In recent months, a novel influenza virus H1N1 broke out around the world. With bioinformatics tech-nology, the 3D structure of HA protein was obtained, and the epitope residues were predicted with the method developed in our group for this novel flu virus. 58 amino acids were identified as potential epitope residues, the majority of which clustered at the surface of the globular head of HA protein. Al-though it is located at the similar position, the epitope of HA protein for the novel H1N1 flu virus has obvious differences in the electrostatic potential compared to that of HA proteins from previous flu viruses.
Supported by the National Key Basic Research and Development Program of China (Grant Nos. 2004CB720103, 2006AA02312) and Shanghai Education Foundation (Grant Nos. 000236018, 2000236016)