Table 5.
Summary of analysis of Staphylococcus aureus strains
Output for Staph aureus COL | Metric |
---|---|
No. of Proteins in Staph aureus Col proteome | 2615 |
No. of Surface Proteins (with Transmembrane Helices) | 649 |
Number of Proteins with Signal Peptides | 255 |
Sub-proteome analyzed (secreted and membrane affiliated) | 835 |
Total B-cell epitopes > 4 aa long | 14,089 |
Total B-cell epitopes overlapping or borders within 3 aa of a MHC-II high affinity binding peptide | 4,527 |
Percentage of B cell epitopes overlapping or bordering within 3 aa of a MHC-II high affinity binding peptide | 32.13% |
Total MHC-II high affinity binding peptides | 3,230 |
Output for 15 Strains of Staph. aureus | Metric |
Proteomes of Staphylococcus aureus strains analyzed | 15 |
Unique CEGs detected (all strains) | 5646 |
CEGs conserved in 15/15 strains | 572 |
Additional CEGs conserved in 14/15 strains | 364 |
Median CEG (amino acids) | 25 |
Minimum CEG (amino acids) | 15 |
Maximum CEG (amino acids) | 60 |
Proteins conserved in 15 strains with conserved CEGs (secreted and membrane affiliated) | 140 |
Staphylococcus aureus COL is used as an example of the properties analyzed and observed within a strain. The data from 15 strains of Staph. aureus is summarized in the lower half of the Table. The strains are listed in Additional File 3, Table S3b. Epitopes conserved in 14 of 15 strains tend to have only a single amino acid change. Epitopes characterized as B cell epitopes are within the top 25% on a permuted population basis. Peptides characterized as a MHC-II high affinity binding peptide are n the top 25% of binding affinities on a permuted population basis as defined in Table 4. A CEG is a coincident epitope group comprising a stretch of amino acids where overlapping or adjacent B-cell epitopes as well as MHC high affinity binding peptides are predicted.