Table 2.
Sialic acid binding scores and surface exposure of tryptophan -containing subsequences.
| Subsequence | Protein | GenBank or PDB entry | Score | Experimental observation or exposure suggested by structural analogy |
|---|---|---|---|---|
| FFSNVTWFHAIHVSGTN | SARS-CoV-2 S1-NTD | MN908947.3 | 0.88 | Tryptophan exposed |
| FYSNVTGFHTIHTFGNP | SARS-CoV S1-NTD | NP_828851.1 | 0.82 | Site aligning with above, no tryptophan, exposed |
| SNIIRGWIFGTTLDSKT | SARS-CoV S1-NTD |
MN908947.3 | 0.71 | Example of buried Tryptophan, but possibly accessible at base of cleft |
| HDGGKTWHSAATAIYCA | neuraminidase Influenza B | PDB 1NSB | 0.94 | Tryptophan exposed |
| EGKQGNFKNLREFVFKN | SARS-CoV-2 S1-NTD | MN908947.3 | 0.47 | Aligns with a Zhang-Yap binding site |
| SEKSGNFKHLREFVFKN | SARS-CoV S1-NTD |
NP_828851.1 | 0.53 | Aligns with a Zhang-Yap binding site |
| KAGNSIFRSFHFTDFYN | Hemagglutinin esterase | PDB 3CL5 | 0.88 | Aligns with a Zhang-Yap binding site |
| SAGDSIFKSYHFTRFYN | CoV - E3 | PDB 4EB1.1 | 0.82 | Aligns with a Zhang-Yap binding site |
| GDSSSGWTAGAAAYYVG | SARS-CoV-2 | MN908947.3 | 0.94 | Aligns with a Zhang-Yap binding site |
| SPAQDIWGTSAAAYFVG | SARS-CoB | NP_828851.1 | 0.82 | Aligns with a Zhang-Yap binding site |
| SGSNDIWMQNKGLFYTQ | Hemagglutinin esterase | PDB 3CL5 | 0.71 | Aligns with Zhang-Yap binding site |
| NGSNDVWIFNKVRFYRA | CoV - E3 | Q14EB1.1 | 0.71 | Aligns with Zhang-Yap binding site |