Table 2.
HLA binding affinity of similar 9-amino acids sequences between SARS-CoV-2 and Mycobacterium bovis predicted by NetMHCpan 4.1.
| Predicted HLA binding affinity |
Predicted HLA binding affinity |
|||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Amino acid sequence | SARS-CoV-2 | BCG | Gene name in SARS-CoV-2 | Protein name in BCG | HLA allele | SARS-CoV-2 | BCG | HLA allele | SARS-CoV-2 | BCG |
| Sequence 1 | VLGSLAATV | VLGGLAATV | ORF1ab (nsp9) | UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase | HLA-A*02:01 | 0.36 (High) | 0.32 (High) | Not predicted | ||
| Sequence 2 | LQGPPGTGK | LLGPPGTGK | ORF1ab (nsp13) | Type VII secretion AAA-ATPase EccA | HLA-A*03:01 | 0.42 (High) | 0.03 (High) | HLA-A*11:01 | 0.47 (High) | 0.50 (High) |
| Sequence 3 | QPTSEAVEA | RPTSEAVEA | ORF1ab (nsp2) | PPOX class F420-dependent enzyme | HLA-B*07:02 | 1.89 (Weak) | 0.65 (Weak) | Not predicted | ||
| Sequence 4 | LAPLLSAGI | LAPLLCAGI | ORF1ab (nsp3) | Alcohol dehydrogenase | HLA-C*01:02 | 0.36 (High) | 1.6 (Weak) | Not predicted | ||
| Sequence 5 | LAPLLSAGI | LAPLLSAGA | ORF1ab (nsp3) | Metal-transporting ATPase | Not predicted | Not predicted | ||||
| Sequence 6 | LVPFWITIA | LGPFWITIA | ORF1ab (nsp4) | Sugar ABC transporter permease | Not predicted | Not predicted | ||||
Different amino acid residues between SARS-CoV-2 and Mycobacterium bovis are underlined. Common HLA-A (A*01:01, A*02:01, A*03:01, A*11:01, A*24:02, A*33:03), HLA-B (B*07:02, B*08:01, B*44:03, B*52:01) and HLA-C (C*01:02, C*03:04, C*05:01, C*06:02, C*07:01) were tested for peptide binding affinity. The amino acid sequences of both SARS-CoV-2 and Mycobacterium bovis were analyzed by a computer algorithm (NetMHCpan 4.1, http://www.cbs.dtu.dk/services/NetMHCpan/). High indicates strong binding peptides. Weak indicates weak binding peptides. Not predicted indicates that these is no HLA allele which can bind to peptide sequences among tested HLA alleles. Frequency of HLA alleles among humans were searched by a publicly available database (Allele Frequency Net Database, http://www.allelefrequencies.net/hla.asp).