Table 1. JCVI functional categories for the entire annotated genome and characterized proteome.

Functional Categories	Total from genome	Percent of genome	Total of observed proteome	Percent of observed proteome	Total of observed proteome	Hfq regulated	SmpB regulated	% Hfq regulated	% SmpB regulated
Amino acid biosynthesis	130	2.69	84	4.86	84	37	15	44.05	17.86
Biosynthesis of cofactors, prosthetic groups, and carriers	163	3.37	93	5.38	93	34	6	36.56	6.45
Cell envelope	469	9.71	131	7.58	131	58	10	44.27	7.63
Cellular processes	286	5.92	117	6.77	117	74	22	63.25	18.80
Central intermediary metabolism	168	3.48	86	4.97	86	42	17	48.84	19.77
DNA metabolism	155	3.21	56	3.24	56	27	7	48.21	12.50
Energy metabolism	546	11.30	250	14.46	250	149	24	59.60	9.60
Fatty acid and phospholipid metabolism	73	1.51	36	2.08	36	20	1	55.56	2.78
Hypothetical proteins	78	1.61	27	1.56	27	9	1	33.33	3.70
Mobile and extrachromosomal element functions	221	4.58	17	0.98	17	8	6	47.06	35.29
Protein fate	184	3.81	93	5.38	93	45	14	48.39	15.05
Protein synthesis	375	7.76	146	8.44	146	67	15	45.89	10.27
Purines, pyrimidines, nucleosides, and nucleotides	81	1.68	64	3.70	64	33	5	51.56	7.81
Regulatory functions	304	6.29	82	4.74	82	34	5	41.46	6.10
Signal transduction	26	0.54	7	0.40	7	2	0	28.57	0.00
Transcription	52	1.08	31	1.79	31	13	4	41.94	12.90
Transport and binding proteins	517	10.70	113	6.54	113	61	15	53.98	13.27
Unclassified	332	6.87	94	5.44	94	50	11	53.19	11.70
Unknown function	670	13.87	202	11.68	202	99	27	49.01	13.37

Genes and gene products are categorized by the JCVI (J. Craig Venter Institute), formerly TIGR (The Institute for Genomic Research), categorization system. Some proteins are annotated to multiple categories, accounting for the larger total protein count.