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Table 1 Allergen references and analytical parameters.

From: Three dimensional structure directs T-cell epitope dominance associated with allergy

Allergen Ves v 5 Api m 1 Phl p 1 Cry j 1
aka pathogenesis-related protein phospholipase a2 expansin family Polysaccharide lyase
Source yellow jacket honey bee timothy grass Japanese cedar
No. Residues 204 134 240 374
Epitopes     
No. Subjects 13 20 9 18
Peptide length 12 16* 12 15
Peptide overlap 9 10* 9 10
Step 3 8* 3 6
No. Peptides 65 19 76 69
Reference [2] [54] [55] [56]
Corex stability     
Structure file 1qnx 1poc 1n10 Cry j 1 model
Reference [53] [57] to be published [58]
Monte Carlo sampling no no no yes
Entropy scaling 0.994 0.885 0.85 1.039
Structure method X-ray X-ray X-ray X-ray
Homology model, template no no no yes, 1pxz
B-factor     
Structure file 1qnx 1poc 1n10 1pxz
Averaging window size 15 11 15 15
1st derivative averaging window size 9 11 9 9
Sequence entropy     
No. Homologs aligned 50 15 97 51
Range of identity 24–97% 11–77% 21–90% 10–75%
Strategy for identification blast Genbank non-redundant blast Swiss-Prot blast Swiss-Prot blast Swiss-Prot
Averaging window size 15 15 15 15
1st derivative averaging window size 9 9 9 9
  1. *average value, peptide series not regular