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 |