TABLE 1.
Comparison of proteins present in pectin PULs from Pseudoalteromonas sp. PS47, Pseudoalteromonas haloplanktis ANT/505, and Gramella flava JLT2011
| Protein name in PS47 | dbCAN2 HMMER E value | Protein name in P. haloplanktis and locus taga | % amino acid identity (PS47 vs P. haloplanktis) | Protein name in G. flava and locus tagb | % amino acid identity (PS47 vs G. flava) |
|---|---|---|---|---|---|
| PsCE12 | 3.5e−72 | RhgT (transcriptional regulator; GNTR) | 63.5 | Rga (CE12) | |
| PH505_ap00680 | GRFL_2179 | 5.6 | |||
| GRFL_218) | 12.4 | ||||
| PsGH28 | 1e−87 | GhyB (amylomaltase; GH77) | 75.3 | PelL (GH28) | |
| PH505_ap00640 | GRFL_2174 | 46.0 | |||
| GRFL_2178 | 33.0 | ||||
| PsGH105A | 1.1e−106 | DNA-directed RNA polymerase, α-subunit | 64.5 | RhiN (GH105) | 38.4d |
| PH505_ap00610 | GRFL_2176 | ||||
| PsGH105B | 4.2e−113 | GhyA (GH105) | 63.6 | RhiN (GH105) | 43.6 |
| PH505_ap00600 | GRFL_2176 | ||||
| PsGH43 | 2.1e−71 | XylA/B (xylosidase/arabinase) | XynB (GH43) | 46.4 | |
| PH505_ap00580 | 56.8c | GRFL_2177 | |||
| PH505_ap00590 | 69.7c | ||||
| PsCE10 | 5.9e−44 | Esterase/lipase/thioesterase | 52.8 | NAf | NA |
| PH505_ap00560 | |||||
| PsCE8 | 1.5e−31 | PelA (pectate lyase/methylesterase; PL1; CE8)e | 21.6d | PemA (CE8) | |
| PH505_ap00520 | GRFL_2158 | 5.4 | |||
| GRFL_2180 | 14.1 | ||||
| PsPL1 | 9.5e−66 | PelA (pectate lyase/methylesterase; PL1; CE8)e | NA | NA | |
| PH505_ap00520 | 15.0d | ||||
| PelC (pectate lyase; PL3) | |||||
| PH505_ap00550 | 51.6 |
a
From reference 31.
b
From reference 29.
c
Sequence identity based upon only partial coverage, as XylA (118 residues) and XylB (76 residues) are encoded by cryptic genes.
d
For fusion proteins or proteins with additional domains, the sequence identity shown applies only to the homologous domain, not the entire protein sequence.
e
The annotation of this protein as a bifunctional pectate lyase/methylesterase has been experimentally validated.
f
NA, not applicable.