Table 1.
Uncharacterized ancestral arCOGs that include predicted membrane proteins.
| arCOG | Related arCOGs |
Number of TMs |
Presence/absence pattern in major lineagesa
|
Prediction/comment | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Desulfu- rococci |
Sulfo- lobi |
Thermo- protei |
Thaumar- chaeota |
Korar- chaeota |
Archaeog- lobi |
Halo- bacteria |
Methano- bacteria |
Methan- ococci |
Methano- microbia |
Thermo- cocci |
Thermo- plasmata |
Nanoar- chaeota |
||||
| 02673 | 07287 08873 |
3,4 | p | 1 | – | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | Sec system component, YidC ortholog (see Fig. 1); |
| 01994 | 01995 01996 05021 |
3 or 6 | p | 1 | p | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | p | 1 | Putative membrane remodeling system component (see Fig. 3); Many archaea have multiple paralogs |
| 02177 | 02178 | 7 | – | – | – | – | – | 1 | 1 | p | 1 | 1 | 1 | – | 1 | Putative membrane remodeling system component (see Fig. 3) |
| 01314 | 2 | p | p | p | – | 1 | 1 | p | p | p | p | 1 | – | – | Putative secretion system component (see Fig. 2,Table 2) | |
| 02884 | 02886 02887 11424 |
2 or 4 | p | p | p | – | – | p | p | p | p | p | P | p | – | Putative secretion system component (see Fig. 2,Table 2) |
| 00899 | 00901 00903 00902 00898 |
7–9 | p | – | p | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | p | – | Flippase involved in the protein glycosylation pathways; many archaea have multiple paralogs |
| 02245 | 6–14 | – | – | 1 | – | 1 | 1 | 1 | 1 | 1 | 1 | 1 | p | – | Cytidylyltransferase family enzyme involved in lipid metabolism | |
| 04002 | 08353 11324 |
2,3 | – | – | p | p | 1 | p | – | – | – | p | P | p | – | Cytochrome b superfamily, possibly involved in electron transfer as a component of redox complexes; expanded in several Thermococci |
| 02078 | 2 | – | – | – | – | 1 | – | – | 1 | 1 | 1 | P | – | – | Possibly involved in electron transfer as a component of redox complexes; | |
| 03427 | 03426 | 4,5 | p | – | – | – | – | – | p | – | 1 | – | P | p | – | Transporter; expansion in Thermococci |
| 02008 | 4 | 1 | 1 | 1 | – | 1 | – | p | p | – | – | 1 | 1 | – | Transporter component | |
| 04354 | 12 | p | – | p | – | 1 | 1 | – | – | – | – | P | – | – | Transporter | |
| 04469 | 11 | – | – | – | – | – | p | 1 | 1 | 1 | 1 | 1 | p | 1 | Transporter | |
| 02159 | 7 | p | 1 | p | – | – | 1 | – | – | – | 1 | p | p | – | No prediction; expansion in Methanomicrobia | |
| 03206 | 03207 05723 |
8–10 | – | – | – | 1 | – | – | p | 1 | – | 1 | – | – | Lipopolysaccharide biosynthesis | |
a
Complete phyletic patterns are provided in the Supplementary Table 2.
The patterns are abbreviated as follows:–, absent in the vast majority of the respective genomes; p, partially present, and 1, present in the vast majority of genomes.