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Table 2 Representation of the COG categories within the genetic context of the genes encoding Sigma-54 and its EBP54s and of the promoters.

From: Comparative analyses imply that the enigmatic sigma factor 54 is a central controller of the bacterial exterior

code Description of category s54, EBP, prom
A RNA processing and modification -   -   -
C Energy production and conversion -   +   +
D Cell cycle control, cell division, chromosome partitioning -   -   -
E Amino acid transport and metabolism -   -   +
F Nucleotide transport and metabolism -   -   -
G Carbohydrate transport and metabolism +   -   -
H Coenzyme transport and metabolism -   -   -
I Lipid transport and metabolism -   +   -
J Translation, ribosomal structure and biogenesis +   -   -
K Transcription -   -   -
L Replication, recombination and repair +   -   -
M Cell wall/membrane/envelope biogenesis +   +   +
N Cell motility -   +   +
O Posttranslational modification, protein turnover, chaperones +   +   +
P Inorganic ion transport and metabolism -   -   -
Q Secondary metabolites biosynthesis, transport and catabolism -   -   -
T Signal transduction mechanisms +   +   +
U Intracellular trafficking, secretion, and vesicular transport +   +   +
V Defense mechanisms -   -   -
  1. Over-representation of a particular COG category (with respect to the reference; http://www.ncbi.nlm.nih.gov/COG/old/) within at least half of the analyzed phyla/classes is indicated by +. The categories that were over-represented in more than two genetic contexts are indicated in bold. The functional categories that are not relevant because they are either non-specific (R, S) or mostly specific for eukaryotes (B, W, Y, Z) are not shown.