Table 2 Operons that are most likely under the direct transcriptional control of ArcA
From: Probing regulon of ArcA in Shewanella oneidensis MR-1 by integrated genomic analyses
Operona | Ratio (log2) b | Â | Â | Â | Â | Â | Â | |
|---|---|---|---|---|---|---|---|---|
| Â | +O2 | -O2 | FCc | Sited | Se | Z f | Binding sequence | Function of Operon |
so0021-0 (fadBA) | 0.67 | -1.81 | I | 400 | + | 2.45 | GTTAATAATAAATAT | Fatty oxidation complex |
so0266-9 (ccmF-1) | 1.07 | 0.94 | H | 71 | + | 2.63 | GTGAACAGAATGTTA | Cytochrome c-type biogenesis protein CcmF |
so0343 (acnA) | 2.35 | 0.08 | H | 53 | + | 2.31 | CTTAACTCAATGTGC | Aconitate hydratase 1 |
so0383-2 (hsdSM) | -0.64 | -0.59 | J | 276 | + | 3.04 | GTTAATAAAATGTTT | Type I restriction-modification system |
so0756 (aroG) | -0.84 | -2.18 | A | 164 | + | 2.74 | TTTAAAAATATGTTA | Phospho-2-dehydro-3-deoxyheptonate aldolase, phe-sensitive |
so0806 | 3.22 | 3.64 | E | 45 | - | 2.49 | GAAAATTTTTTGTTA | Alkaline phosphatase, putative |
so0866 | 7.00 | 8.08 | L | 136 | + | 2.94 | GTAATTTAAATGTTA | Serine protease, subtilase family |
so0916 | 2.19 | 1.10 | O | 150 | + | 2.35 | GTTAATAAAATATTG | Transcriptional regulator, marr family |
so1004-3 | -1.31 | -2.39 | J | 199 | - | 2.65 | GTTATTGAAATGTAA | Hypothetical protein |
so1035-9 (cobTSUQO) | 0.36 | 1.50 | B | 83 | + | 2.56 | GTTAATTTAATGCTT | Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase |
so1307 (aqpZ) | 1.42 | 0.87 | R | 197 | - | 3.01 | GTTAACAAAGCGATA | Aquaporin Z |
so1309 | -0.09 | 1.20 | J | 161 | + | 3.17 | GTTACTTAAATGTTA | Conserved hypothetical protein |
so1427-30 | -1.77 | -4.37 | C | 246 | - | 3.13 | GTTAATAAAATGTTT | Decaheme cytochrome c |
so1483 (aceBA) | 3.90 | 0.15 | H | 291 | + | 2.34 | TTTCACTAGATGTTA | Malate synthase A |
so1623 (ptsG) | 2.00 | 3.26 | P | 506 | - | 2.76 | GTTACTTTATTGTTA | PTS system, glucose-specific IIBC component |
so1659 | 0.83 | 1.54 | H | 260 | - | 2.49 | ATTAATTTAATGATA | Decaheme cytochrome c |
so1661 | 2.47 | 3.11 | O | 219 | + | 3.12 | GTTAAATAATTGTTA | Transcriptional regulator, lysr family |
so1673 | 0.64 | 3.69 | C | 288 | + | 2.66 | GTAAATGAAATGTAA | Outer membrane protein ompw, putative |
so1806 (pspF) | 2.63 | 2.42 | O | 90 | - | 3.13 | GTTAATAAAATGTTT | Psp operon transcriptional activator |
so1807-9 (pspABC) | -1.49 | -0.85 | L | 102 | + | 3.13 | GTTAATAAAATGTTT | Phage shock protein A |
so1812 (mdeA) | 3.10 | 3.46 | H | 84 | + | 2.45 | GTTATTTAAAAGATA | Methionine gamma-lyase |
so1821 | -2.29 | -3.22 | R | 230 | + | 3.05 | GTTAATTTGATGTTA | Outer membrane porin, putative |
so1822 | 3.35 | 4.99 | R | 133 | + | 2.41 | GTTGATTAAAGGTTT | Tonb-dependent receptor, putative |
so1944 | 1.12 | 1.80 | J | 65 | - | 2.96 | GTTAAGTAATTGTAA | Hypothetical protein |
so1961 (maa) | 2.96 | -1.57 | D | 114 | + | 2.63 | GTTAGCTAAATGGTA | Maltose O-acetyltransferase |
so2099-7 | 4.09 | 2.40 | H | 147 | + | 3.29 | GTTAATTAAATGTCA | Quinone-reactive Ni/Fe hydrogenase, small subunit precursor |
so2100 | 1.18 | 0.63 | J | 216 | - | 3.29 | GTTAATTAAATGTCA | Thioredoxin family protein |
so2199 | 1.48 | 3.72 | J | 101 | - | 2.76 | GTGAATAAAATGTTT | Hypothetical protein |
so2305 (lrp) | -1.40 | -0.02 | O | 507 | + | 2.91 | TTTAATTAAATCTTC | Leucine-responsive regulatory protein |
so2402 (rpsA) | -1.03 | -0.20 | M | 21 | - | 2.56 | GTTACTTTAATGTAA | Ribosomal protein S1 |
so2483 | -2.10 | -3.82 | A | 143 | - | 2.34 | TTTAACTAAGTGTTA | Aspartate aminotransferase, putative |
so2706 (astB) | 0.96 | 1.95 | H | 209 | + | 2.87 | GTTGAAAAAATGTAA | Succinylarginine dihydrolase |
so2727 | -0.97 | -1.47 | H | 220 | - | 2.79 | GTTATTCAAATGTAA | Cytochrome c3 |
so2858-7 | 1.04 | -2.18 | J | 153 | + | 3.07 | GTAAATTCAATGTTA | Conserved hypothetical protein |
so2907 | -2.41 | 0.53 | T | 179 | - | 3.13 | GTTAATAAAATGTTT | Tonb-dependent receptor domain protein |
so3099 | -5.82 | -4.70 | R | 281 | - | 2.96 | GTTAATTAAATTATA | Long-chain fatty acid transport protein, putative |
so3106 (aprE) | 5.45 | 5.94 | L | 127 | - | 3.12 | GTAAATTAATTGTTA | Cold-active serine alkaline protease |
so3278-9 | 2.39 | 2.87 | J | 41 | - | 2.59 | GTTAATTTTATGTAA | Conserved hypothetical protein |
so3395-4 | 2.15 | 4.06 | J | 14 | + | 2.41 | GTGAGTTAAAGGTTA | Hypothetical protein |
so3480 | 1.90 | 2.92 | J | 310 | + | 2.84 | TTTAATTAAAATTTA | Conserved hypothetical protein |
so3489 | 2.42 | 2.56 | T | 41 | + | 2.92 | ATCAATTAAATGTTA | GGDEF domain protein |
so3507 | -0.57 | 0.70 | J | 90 | - | 3.02 | GTTAACTCAATGTTA | Conserved hypothetical protein |
so3508 | -2.79 | 0.05 | J | 46 | + | 3.02 | GTTAACTCAATGTTA | Hypothetical protein |
so3564 (dcp-2) | 0.02 | 0.67 | O | 441 | + | 3.04 | GTTAATTAATTGTTG | Peptidyl-dipeptidase Dcp |
so3565 (cpdB) | -1.87 | 2.10 | H | 257 | - | 3.04 | GTTAATTAATTGTTG | 2,3-cyclic-nucleotide 2-phosphodiesterase |
so3855 (sfcA) | 0.36 | 0.49 | H | 177 | + | 2.93 | GTTAATTGATTGTAA | Malate oxidoreductase |
so3863-5 (modABC) | 0.53 | 2.49 | R | 206 | + | 2.75 | CTTGAGTAAATGTTA | Molybdenum ABC transporter, periplasmic molybdenum-binding protein |
so4245 (argA) | 0.19 | 0.41 | A | 178 | - | 2.65 | GTTAAAAAAATGTGA | Amino-acid acetyltransferase |
so4273 | -0.85 | 0.39 | L | 9 | + | 3.08 | GGTAATTAATTGTTA | Hypothetical protein |
so4457 | 1.69 | 2.66 | T | 63 | - | 2.76 | GTTGCCTAAATGTTA | GGDEF domain protein |
so4480 (aldA) | 0.87 | -0.47 | H | 562 | + | 2.73 | GTTAAATAAAGGTAA | Aldehyde dehydrogenase |
so4570 | -0.33 | -3.76 | J | 147 | - | 3.13 | GTTAATAAAATGTTT | Conserved domain protein |
so4591 (cymA) | -0.40 | -1.65 | H | 112 | - | 2.64 | ATTAATTAAAACTTA | Tetraheme cytochrome c |
so4592 | 2.45 | 1.40 | J | 312 | + | 2.64 | ATTAATTAAAACTTA | Hypothetical protein |