However, the relationship between hydrophobicity of a protein sequence and its solubility seems extremely complex.
Eighteen HA subtypes, with a protein sequence identity between 40 % and 60%%, divided into two phylogenetic groups, have been described [ 6].
A protein sequence comparison between GhWRKY15 and the other plant WRKY proteins demonstrated that the amino acid sequences of these proteins are highly similar, with a homology of 42.60% to NtWRKY3 (BAA77358), 49.70% to AtWRKY15 (NP_179913), 54.27% to StWRKY2 (and49721), and 63.19% to PtWRKY16 (ACV92028).
In this approach, the raw BLAST score resulting from a comparison between a query saliva protein sequence from species A and a protein sequence from species B is divided by the self-BLAST score obtained with the BLAST of the query protein sequence from species A with itself.
The SeqalSV sequence variability evaluation system complements results from StralSV by performing comparisons between a reference protein sequence and proteins in the sequence databases.
Additionally, as new functions are discovered and correlated with this sequence information, the knowledge of the often complex relationship between a protein's sequence and function will improve.
Pairwise sequence similarities between all protein sequences were calculated using BLASTP with an e-value cutoff of 1E-05.
Difficulties arise because the relationship between a protein's sequence and structure is highly complex, as is the relationship between structure and function.
In their paper describing chemical synthesis of a gene in 1984, Benner and colleagues suggested that systematic variation of amino acids could provide an understanding of the relationship between a protein's sequence and its function [ 17].
17 From calculated pairwise sequence alignments PROVEAN extracts alignment scores between an unmutated query protein sequence, a query sequence with introduced amino acid variants, and closely related homologous proteins that are known to be functional.
