AA_REDUCED: Reduced amino acid alphabets
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The AA_REDUCED list contains reductions of the standard amino acid alphabet (AA_STANDARD).

1	AA_REDUCED

Reduced amino alphabets can sometimes improve sensitivity and specificity of finding homologous matches between amino acid sequences. The first twelve AA_REDUCED alphabets were optimized for finding synteny between genomic sequences. The next 113 alphabets are from a review of published amino acid alphabets (Solis, 2015). The final 17 alphabets were optimized for amino acid classification.

Solis, A. (2015). Amino acid alphabet reduction preserves fold information contained in contact interactions in proteins. Proteins: Structure, Function, and Genetics, 83(12), 2198-2216.

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