Comparison of the amino acid composition of Hsp60 with the proteomic composition
Amino acid composition (X ) as a percentage of 20 amino acid residues in the sequence was determined for each of the Hsp60 sequences in database 1. Then the average amino acid composition ( ) of Hsp60s was determined for each of the 19 phyla.
To estimate the tendency to decrease or increase in the content of certain amino acids in the Hsp60 sequences, it is necessary to calculate the amino acid profile (n ). For this, the average amino acid composition of Hsp60 ( ) for each of the 19 phyla was compared with the average amino acid composition of the corresponding proteomes (p ) (Supplementary, AA composition of proteomes) using the following conditions:
where ni is the normalized value of the average percentage of i -amino acid for Hsp60s (i ) relative to the average proteomic value (pi ) for the corresponding phylum.
The amino acid profile of phylum (n ) includesni values for all amino acid residues. Average proteomic amino acid compositions (p ) were calculated using 8747 reference proteomes obtained from the UniProt Proteomes database (https://www.uniprot.org/proteomes/).
Using the normalized values ni of 19 phyla, the average normalized value ‹X̅ni can be calculated. The summary amino acid profile includes ‹X̅nivalues for all phyla. In should be noted that such an amino acid profile is only meaningful if the groups included have similar amino acid profiles.
In this work, the amino acid profiles of the Hsp60 sequences for 19 phyla and the total amino acid profile were calculated.