TABLE 4.
Overview of RBPs of phages belonging to the Menlow group and with (predicted) depolymerase activity.
|
Alignment with Menlow RBP |
||||||
| Phage | Accession number | Number of aa | Coverage | E-value | Identity | Identity range |
| First RBP with anchor (protein 2, Figure 5) | ||||||
| Menlow | AUG87748.1 | 960 aa | 100% | 0.0 | 100% | 960/960 |
| KpS110 | AUV59228.1c | 960 aa | 42% | 0.0 | 95% | 383/424 |
| May | AUG87958.1 | 1180 aa | 44% | 0.0 | 90% | 392/412 |
| 0507-KN2-1 | YP_008532046.1c | 1072 aa | 43% | 0.0 | 90% | 385/427 |
| Second RBP with conserved peptide (protein 3, Figure 5) | ||||||
| Menlow | AUG87749.1 | 768 aa | 100% | 0.0 | 100% | 768/768 |
| KpS110 | AUV59230.1 | 857 aa | 25% | 4E-120 | 96% | 189/196 |
| May | AUG87959.1b | 1288 aa | 27% | 1E-105 | 84% | 178/212 |
| 0507-KN2-1 | YP_008532047.1a | 1245 aa | 25% | 5E-112 | 92% | 180/195 |
| Third RBP with conserved peptide (protein 5, Figure 5) | ||||||
| Menlow | AUG87751.1b | 660 aa | 100% | 0.0 | 100% | 660/660 |
| KpS110 | AUV59232.1 | 674 aa | 13% | 6E-22 | 60% | 55/91 |
| May | AUG87960.1b | 660 aa | 100% | 0.0 | 99% | 657/660 |
| 0507-KN2-1 | YP_008532048.1b | 657 aa | 27% | 8E-37 | 48% | 91/190 |
| Fourth RBP with conserved peptide (protein 7, Figure 5) | ||||||
| Menlow | AUG87753.1 | 730 aa | 100% | 0.0 | 100% | 730/730 |
| KpS110 | AUV59234.1 | 685 aa | 19% | 1E-40 | 61% | 86/141 |
| May | AUG87962.1 | 692 aa | 16% | 2E-40 | 71% | 86/121 |
| 0507-KN2-1 | YP_008532049.1b | 607 aa | 14% | 1E-35 | 72% | 79/109 |
| Fifth RBP (protein 8, Figure 5) | ||||||
| Menlow | AUG87754.1b | 1612 aa | 100% | 0.0 | 100% | 1612/1612 |
| KpS110 | AUV59236.1b | 1612 aa | 100% | 0.0 | 99% | 1602/1612 |
| May | AUG87963.1b | 1612 aa | 100% | 0.0 | 99% | 1591/1612 |
| 0507-KN2-1 | YP_008532051.1b | 1616 aa | 100% | 0.0 | 99% | 1604/1612 |
| Additional RBP (not present in genome of Menlow) | ||||||
| Menlow | No protein | |||||
| KpS110 | AUV59229.1 | 554 aa | Not applicable | |||
| May | No protein | |||||
| 0507-KN2-1 | YP_008532050.1 | 542 aa | ||||
The RBP system of phages belonging to the Menlow group is visualized in Figure 5. aRBP for which the depolymerase activity has been experimentally verified (Hsu et al., 2013). bRBP with a lower probability on depolymerizing activity. cRBP without enzymatic activity. BLASTp was used as computational alignment algorithm and pairwise alignments were performed against the respective RBP from phage Menlow. The accession number of each RBP is given, along with its length and alignment characteristics (cover-coverage, E-value,% identity, identity range-number of identical amino acids/length) of the region over which identical amino acids are found by Blastp, starting from the N-terminus (amino acid 1). HHPred analysis revealed homology in RBPs to T4gp10-like domains: First RBP (protein 2) – 94–252 aa compared to 61–248 aa of T4gp10 (Probability 99.88) and 92–251 aa compared to 214–386 aa of T4gp10 (Probability 44.31); Second RBP (protein 3) – 26–204 aa compared to 68–296 aa of T4gp10 (Probability 94.08) and 26–162 aa compared to 165–384 aa of T4gp10 (Probability 95.39) and 41–83 aa compared to 303–383 aa of T4gp10 (Probability 73.93). Values are shown for template phage Menlow.