(A) Alignment of identified peptides (colored blue) and the hypothetical TIGR protein SO_1175 (colored red). Numbers on the right show the number of times the peptide was identified in MS/MS spectra (spectral count). The start codon, at position 1,218,574 on the forward strand of the chromosome, is normally read as valine. These peptide identifications demonstrate that translation begins upstream of the annotated start site. (B) Alignment of identified peptides (blue) with the nucleotide sequence of N-terminal region of SO_1175, relative to proposed new start codon (single arrow) and to the original proposed start codon (double arrow). A Shine Dalgarno-like site (underlined) is found upstream only to the proposed new start site. (C) Multiple sequence alignment of SO_1175 of S. oneidensis (red) with orthologs in other Shewanella strains.
