TABLE 1.
Bioinformatic analysis of HNV-F proteins to determine the presence of a signal peptidea
| Protein | Location of SP detected with: |
|||
|---|---|---|---|---|
| SignalP | SPEPLip | PreDisi | Signal-BLAST | |
| GhV-F′ | Not found | Not found | 36b | Not found |
| GhV-F(+A) | 22–25 | 22 | 25 | 22 |
| GhV-F(+C) | 22–25 | 22 | 25 | 22 |
| GhV-F(+G) | 22–25 | 22 | 25 | 22 |
| GhV-F(+T) | 22–25 | 22 | 25 | 22 |
| NiV-FMalaysia | 24–28 | 24 | 26 | 23 |
| NiV-FBangladesh | 24–28 | Not found | 26 | 25 |
| HeV-F | 21–27 | 21 | 26 | 30 |
| CedPV-F | 23 | Not found | 22 | 21 |
a
The first 70 amino acids of the indicated HNV-F proteins were analyzed by four signal peptide prediction programs: SignalP, SPEPLip, PreDisi, and Signal-BLAST. Except for GhV-F′, at least three and often all four programs found signal peptide sequences at the N terminus of all HNV-F proteins examined, including the rectified GhV-F(+1). The predicted signal peptide cleavage sites (between 21 and 28) in all the HNV-F sequences examined are shown.
b
PreDisi gives a predicted cleavage site of 36 for GhV-F′, but the associated probability score that GhV-F′ has a signal peptide is zero.