TABLE 1.

Homology of pVir-encoded proteins to H. pylori proteins

ORF	Protein	Length (aa)a	Mass (kDa)	pI	Genomic H. pylori orthologb	Length (aa)	% Identity	% Similarityc
ORF1	ComB1	225	25.9	8.10	HP0038	245	31	60
					JHP34d	247	31	60
ORF2	ComB2	356	40.9	8.77	HP0039/HP0040	40/247	30e	49e
					JHP35	328	30	50
ORF3	ComB3	378	42.8	7.95	HP0041/HP0042	123/233	33e	58e
					JHP36	376	31	56
ORF4	VirB11	317	36.4	5.79	HP1421	304	35	59
					JHP1316	304	35	59

^aaa, amino acids. 

^bThe HP and JHP proteins represent the orthologs from H. pylori strains 26695 (59) and J99 (3), respectively. 

^cThe percent relatedness between orthologs is calculated as the number of identical or identical and conserved residues from an optimal alignment as a percentage of the length of the C. jejuni protein. 

^dThe C. jejuni ComB1 protein is also related to the H. pylori J99 protein JHP921, which is located in that strain's hypervariable plasticity zone (3). The percent identity and similarity to this ortholog are 36 and 62%, respectively. 

^eDue to the splitting of the orthologs in H. pylori 26695 by a frameshift mutation, the percent identity and similarity were calculated by aligning each of the predicted portions and combining the totals.