Table 3.

Analysis of Uptake Sequence–Encoded Peptides in Proteomes

Set of proteins	H. influenzae Rd KW20	N. meningitidis Z2491
Proteins encoded by genome	1657	2065
Proteins containing UEPsa	643 (38.8%)	460 (22.3%)
Translated ORFs with a single UEPa	425	335
with homologs in three genomes	282	173
99-aa alignment centered on UEPa	140	91
Number analyzed (no gaps at UEP)	131	86
Mean pairwise identity QHb	54.6%	51.0%
Mean pairwise identity HHc	54.4%	55.0%

Note.—For all ORFs containing a single US in each genome, homologs were defined based on Blast hits (BlastP with E value < 1 × 10⁻⁹) of the protein sequence against the translated genomes of three related bacteria as described in Materials and Methods.

^aUEP, US-encoded peptide.

^bQH, query–homolog.

^cHH, homolog–homolog.