An Immunobioinformatic Comparison of Influenza A Subtype Hemagglutinins
Joel K Weltman*
Department of Medicine, Alpert Medical School, Brown University, USA
- *Corresponding Author:
- Joel K Weltman
Department of Medicine, Alpert Medical School
Brown University, USA
E-mail: [email protected]
Received Date: June 25, 2013; Accepted Date: June 29, 2014; Published Date: July 01, 2014
Citation: Weltman JK (2014) An Immunobioinformatic Comparison of Influenza A Subtype Hemagglutinins. J Med Microb Diagn 3: 135. doi: 10.4172/2161-0703.1000135
Copyright: © 2014 Weltman JK. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
The purpose of this research is to identify nucleotide and amino acid positions are essential for the function of the HA gene and its protein products. A metric for sequence variability was hamming distance, determined for all possible inter-subtype HA sequence pairs of H1N1, H3N2 and H6N1 HA sequences in the complete NCBI HA gene datasets. Almost all (97.22%) of nucleotide positions at which the Hamming distance was zero were in the HA2 domain of the HA gene; the invariant nucleotides occupied second and first codon positions except for a tail-region encoded invariant tryptophan. In contrast with the results at the nucleotide level, the patterns of epitope distribution in the encoded HA proteins were similar except for a 25-amino acid sequence (283-307) in the HA1 region of HA H6N1. These results demonstrate the occurrence of similar organization of immunological epitopic biopatterns in influenza a hemagglutinins at the protein level, even in the face of large differences in the sequences of encoding nucleotides and encoded amino acids.