Abreviations: [PS], Protein synthesis; [DM], DNA Metabolism; [RF]

Abreviations: [PS], Protein synthesis; [DM], DNA Metabolism; [RF], Regulatory Function; [CIM], Central Intermediary Metabolism; [EM], Energy Metabolism; [OC], Other Categories; [UF], Unknown Function; [TBP], Transport Binding Proteins; [PF], Protein Fate; [HP], Hypothetical Protein; [AAB], Amino Acid Biosynthesis; [FAPM], Fatty Acid and Phospholipid Metabolism; [DRF], Disrupted Reading Frame;

[CP], Cellular Processes; [BCPGC], Biosynthesis of Cofactors, Prosthetic Groups, and Carriers; [CE], Cell Envelope; [ST], Signal Transduction; [T], Transcription; and [PPNN], Purines, Pyrimidines, Nucleosides and Nucleotides. (DOC 134 KB) Additional file 3: Figure SI2. Sequence logo ( http://​weblogo.​berkeley.​edu/​logo.​cgi ) of the identified EtrA binding site motif for S. oneidensis MR-1. The logo represents the palindromic model of the aligned sites, showing the relative frequency of each base at each position of the motif. The Selleckchem Veliparib Y-axis indicates the information content measured in bits. All of the predicted sites that contribute to the model are in Table SI1 in the supplementary materials. (PDF 12 KB) References 1. Holden M, Bentley S, Sebaihia M, Thompson N, Cerdeño-Tárraga A, Parkhill J: The magnificent seven. Trends learn more Microbiol 2003, 11:12–14.22.PubMedCrossRef 2. Tiedje JM: Shewanella -the environmentally versatile genome. Nat Biotechnol 2002, 20:1093–1094.PubMedCrossRef 3. Heidelberg

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CT, Newman DK: Anaerobic regulation by an atypical Arc system in Shewanella oneidensis . Mol Microbiol 2005, 56:1347–1357.PubMedCrossRef Ureohydrolase 5. Saffarini DA, Schultz R, Beliaev A: Involvement of cyclic AMP (cAMP) and cAMP receptor protein in anaerobic respiration of Shewanella oneidensis . J Bacteriol 2003, 185:3668–3671.PubMedCrossRef 6. Beliaev AS, Thompson DK, Fields MW, Wu L, Lies DP, Nealson KH, Zhou J: Microarray transcription profiling of a Shewanella oneidensis etrA mutant. J Bacteriol 2002, 184:4612–4616.PubMedCrossRef 7. Maier TM, Myers CR: Isolation and characterization of a Shewanella putrefaciens MR-1 electron transport regulator etrA mutant: reassessment of the role of EtrA. J Bacteriol 2001, 183:4918–4926.PubMedCrossRef 8. Darwin AJ, Ziegelhoffer EC, Kiley PJ, Stewart V: Fnr, NarP, and NarL regulation of E. coli K-12 napF (periplasmic nitrate reductase) operon transcription in vitro.

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