Table 5.
List of the main hub partners linking neurodegeneration-associated proteins and giving rise to MHC class II-binding endogenous peptides in the human B-cell lineage.
| Hub molecules linking common neurodegeneration-associated proteins | Reported MHC class II restriction |
|---|---|
| Heat shock cognate 71 kDa protein (HSPA8) | HLA class II, HLA-DR, HLA-DQ, HLA-DR1, HLA-DQ7.5, HLA-DQ2.5, HLA-DQ2.2, HLA-DR3, HLA-DRB1*15:01 (HLA-DR15), HLA-DR15/DR51, HLA-DQA1*05:01/DQB1*02:01 (HLA-DQ2.5), HLA-DRB1*04:01 (HLA-DR4), HLA-DRB1*04:05 (HLA-DR4) |
| Sequestosome-1 (SQSTM1) | HLA class II, HLA-DR, HLA-DQ, HLA-DR1, HLA-DQ7.5, HLA-DQ2.5, HLA-DQ2.2, HLA-DR15/DR51, HLA-DQA1*05:01/DQB1*02:01 (HLA-DQ2.5) |
| Heat shock protein HSP 90-alpha (HSP90AA1) | HLA class II, HLA-DR, HLA-DQ, HLA-DQ7.5, HLA-DQ2.5, HLA-DQ2.2, HLA-DRB1*04:05 (HLA-DR4), HLA-DRB1*15:01 (HLA-DR15) HLA-DQA1*05:01/DQB1*02:01 (HLA-DQ2.5) |
| 14-3-3 protein zeta/delta (YWHAZ) | HLA class II, HLA-DR, HLA-DQ, HLA-DR1, HLA-DRB1*04:05 (HLA-DR4) |
| 4-3-3 protein theta (YWHAQ) | HLA class II, HLA-DQ, HLA-DRB1*04:05 (HLA-DR4) |
| Heat shock 70 kDa protein 4 (HSPA4) | HLA-DR, HLA-DR3 |
| Ubiquitin carboxyl-terminal hydrolase CYLD (CYLD) | HLA-DRB1*04:05 (HLA-DR4) |
| TNF receptor-associated factor 6 (TRAF6) | HLA-DR1 |
The “IEDB-AR” immune epitope database (43) was screened in order to retain only publications reporting on the systematic mass spectrometry identification of endogenous peptides binding MHC-class II molecules in the human B-cell lineage. Only results obtained in the absence of immunization or stimulation protocols were taken into account. The retrieved list of parent proteins and corresponding reported MHC class II restriction of derived peptides was then crossed with the list of 11 hub molecules being abundantly expressed by human B lymphocytes and linking common neurodegeneration-associated. The protein names and corresponding gene symbols are shown in the left column; the corresponding reported MHC class II restrictions of derived peptides are shown in the right column. When needed, aliases frequently used in the HLA class II genotype/serotype nomenclature are indicated in brackets.