Stepwise prediction and statistical screening: B-cell epitopes on neuraminidase of human avian H5N1 virus |
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Authors: | Ping Huang ShouYi Yu ChangWen Ke |
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Institution: | (1) Key Laboratory for Emergency Pathogen Detection, Center for Disease Control and Prevention of Guangdong Province, Guangzhou, 510300, China;(2) Department of Epidemiology, Southern Medical University, Guangzhou, 510515, China;(3) Collaborating Center for Surveillance, Research and Training of Emerging Infectious Diseases, World Health Organization, Guangzhou, 510300, China |
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Abstract: | The B-cell epitopes of virus are associated with the antiviral drug and the vaccine screening. As the nucleotide sequences
of neuraminidase (NA) of stain GD-01-06 were sequenced, we predicted the α-helix and β-fold structure and the indexes of the
flexible regions of secondary structure of NA with methods of the Hydrophilicity plot by Kyte-Doolittle, the Surface probability
plot by Emini and the Antigenic index by Jameson-Wolf, and then screened statistically the parameters to predict B-cell epitopes
by the Hierarchical cluster and the Bivariate correlation and the quartiles with SPSS 13.0. The impact of variation of amino
acids in NA on its epitopes was analyzed. The predictive results were evaluated by Wu’s Antigenic Index and SWISS-MODEL. We
found that the most possible epitopes on NA were located within or nearby its N-terminal Nos. 120–137, 81–84, 408–415, 273–282,
429–432, 356–368, 46–55, 146–155, 341–350 and 198–209, which were the dominant regions of NA epitopes. Peptide 120–137 including
the glycoprotein domain (NGT126–128) was first chosen as the B-cell epitopes on NA. NA in H5N1 strain isolated after 2003 lacked in No. 53 amino acid (I), resulting in an increase in the surface flexible region of NA
in GD-01-06 and an enlargement to their epitope regions (VEP46–48 → VEPISNTNFL46–55). Conclusively, prediction of the B-cell epitopes on the NA based on multiple parameters is useful for researches on the
molecular immunology and drug screening and immuno-prophylaxis. A deletion of No. 53 amino acid (I) in NA in strain GD-01-06
might increase its antigenicity.
Supported by the Scientific and Technological Project of Guangdong Province (Grant No. 2004A2090102). |
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Keywords: | H5N1 virus neuraminidase (NA) B-cell epitope prediction screening |
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