Functional category H. influenzae M.pneumoniae M.genitalium
Amino acid metabolism 68 (4.0) n.d. n.d.
Biosynthesis of cofactors 69 (4.0) 8 (1.2) 8 (1.7)
Cell envelope 105 (6.2) 54 (8.0) 30+ (6.3)
Cellular processes 54 (3.2) 20 (2.9) 20 (4.2)
* Chaperones 6 (0.4) 7 (1.0) 7 (1.5)
* Secretion 15 (0.9) 9 (1.3) 9 (1.9)
Central intermediate metabolism 30 (1.7) 6 (0.9) 5 (1.0)
Energy metabolism 112 (6.6) 39 (5.7) 32 (6.7)
Fatty acid and phospholipid 40 (2.3) 9 (1.3) 8 (1.7)
metabolism
Nucleotide metabolism 73 (4.3) 19 (2.8) 19 (4.0)
Regulatory functions 64 (3.7) 8 (1.2) 8 (1.7)
Replication, modification, 87 (5.1) 46 (6.8) 32 (6.7)
restriction, recombination and
repair
Transcription 27 (1.6) 13 (1.9) 13 (2.7)
Translation 125 (7.3) 99 (14.6) 99 (20.6)
Transport 123 (7.2) 44 (6.5) 34 (7.1)
Other categories (and general 331 (19.4) 191 (28.2) 176*(36.7)
function
prediction only)
Repetitive DNA sequence derived n.a. 46 (6.8) n.a.
ORFs
No functional prediction or 295 (17.3) 74 (10.9) 11*(2.3)
database match
Total number of proteins 1703 677 479+
Legend: Comparison of functional classification of proteins based on sequence similarity.
Abbreviations: n.d. = not detected, n.a. = not annotated, + = according to our calculations, * = as a result of our study, numbers are different from those published by Fraser et al. (2), numbers in brackets = percentage of total ORFs. For comparison between H.influenzae and M.genitalium see http://www.ncbi.nlm.nih.gov./cgi-bin/complete_genomes.