Additional file 5.
Annotations for "Conserved hypothetical proteins". "Conserved hypothetical proteins", which were assigned more than two unique sequences, are listed in this table with homology search based annotation, such as Gene Ontology. Total numbers of average identified unique sequences in each experiment group are listed. Abbreviations in the description column; Synonym, tag number in the SF370 genome; a) Abbreviations in the "location" column; S, secreted protein (supernatant fraction); C, cytoplasmic protein (soluble fraction); W, cell wall associated protein (insoluble fraction), uni; universally identified in all cellular fractions; the number indicates average of MS/MS spectrum number that was assigned to unique peptide sequences. b) Abbreviations in the "condition" column; sta, culture under static growth conditions; co, culture under 5% CO2 culture conditions; sha, culture under shaking conditions; uni, universally identified in all three culture conditions. The number indicates average of MS/MS spectrum number that was assigned to unique peptide sequences. c) COGs, abbreviation of functional categories in Clusters of Orthologous Groups project. "D", Cell cycle control, cell division, chromosome partitioning; "E", Amino acid 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; "M", Cell wall/membrane/envelope biogenesis; "O", Posttranslational modification, protein turnover, chaperones; "P", Inorganic ion transport and metabolism; "Q", Secondary metabolites biosynthesis, transport and catabolism; "R", General function prediction only; "S", Function unknown; "T", Signal transduction mechanisms; "U", Intracellular trafficking, secretion, and vesicular transport; "V", Defense mechanisms; and "-", Not classified into COGs; d) MSD, the number of membrane spanning domain calculated by the SOSUI program, in Reference 48. e) SP, the probability score of signal peptide prediction with the SignalP 3.0 program (Hidden Markov Model), in Reference 29, 30
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Okamoto and Yamada BMC Microbiology 2011 11:249 doi:10.1186/1471-2180-11-249