Table 3.

Phyletic distribution of the archaeal COGs

Functional category	Number of COGs including all five euryarchaeal species	Number of COGs including all five euryarchaeal species and A. pernix	Number of COGs including a subset of euryarchaeal species and A. pernix	Number of COGs including A. pernix but none of the euryarchaeal species
Translation and ribosome biogenesis	113	109	17	0
Transcription	26	25	11	0
Replication, recombination, repair	38	27	15	2
Cell division and chromosome partitioning	3	1	0	0
Post-translational modification,	19	15	4	2
protein turnover, chaperones
Cell envelope biogenesis, outer membrane	8	7	8	0
Cell motility and secretion	8	8	6	0
Inorganic ion transport and metabolism	13	9	27	2
Signal transduction	4	4	5	1
Carbohydrate transport and metabolism	20	18	13	2
Energy production and conversion	36	22	33	18
Amino acid transport and metabolism	34	29	58	5
Nucleotide transport and metabolism	34	25	6	3
Coenzyme metabolism	25	21	30	2
Lipid metabolism	8	6	15	2
General functional prediction only	75	59	60	8
Uncharacterized	67	45	82	4
Total	514	416	273	50