In addition, two tandem 5′-CAAAA-3′ motifs were identified upstream of the so2426 locus at position -88 relative to the annotated translation start codon (Table 1), pointing to the possible involvement of an autoregulatory SRT1720 chemical structure mechanism. Interestingly, a subset of the genes repressed in the Δso2426 mutant, namely genes with functions in iron acquisition and storage, also possessed a predicted ferric uptake regulator (Fur) box in their upstream regulatory regions. A potential Fur recognition motif, 5′-AAATGAtATTGATTcTCgTTT-3′, was identified in the upstream region flanking

so2426 and overlapped the transcriptional start sites for this gene [21]. Table 1 Putative SO2426 gene targets containing the predicted SO2426-binding site ORF Functional Category/Gene Product Motif Strand Distance a E-value b   Cellular processes         SO2280    bicyclomycin resistance protein AACGCTCAGGCAAA – -241 2.06E-04   Central intermediary metabolism              5-methylthioadenosine nucleosidase/S-         SO3705

   adenosylhomocysteine nucleosidase, putative GTCAGCCAGCAAAA + +21 4.73E-05   Energy metabolism         SO2743    acetyl-coenzyme A synthetase (acs) AAAAAAGAGCAAAA – -160 1.46E-05   Hypothetical proteins         SO1188    conserved hypothetical protein AAAACTCAGCAGAA – -113 2.08E-06 SO1190    conserved hypothetical protein CTAAGGCAACAAAA – +12 2.38E-05 SO1770    glycerate kinase, putative ACAACCCAGAAGAA – -177 2.61E-05 SO3025    conserved hypothetical protein GCAAAACATCAAAA selleckchem + -234 1.13E-04 SO3062    hypothetical protein ATAAATCAGGAGAA + -5 7.64E-06 SO4499    hypothetical protein CTGCAACAGGAGAA + -5 1.19E-05 SO4504    conserved hypothetical protein ATGTCCCAGACAAA + -169 Grape seed extract 1.06E-04 SO4719    conserved hypothetical protein ATGAACCACAAGAA + -199 9.88E-05   Transport and binding proteins         SO0139    ferritin (ftn) CAAAAGCAACAAAA – -63 2.08E-06 SO1580    TonB-dependent heme receptor AAAAAGCAGAAAAA – -112 3.68E-06 SO1771    permease, GntP family CTACAACAGCCAAA + -41 2.81E-06 SO2045    cation efflux family protein CACCCTCAACAGAA + +11 5.98E-05

SO3030    siderophore biosynthesis protein (alcA) CTGTAACAGCAAAT + -133 2.86E-05 SO3032    siderophore biosynthesis protein, putative CCGGATCAGCAAAA + -284 1.46E-05 SO3033    ferric alcaligin siderophore receptor ATCAAACAGCCAAA + -112 3.20E-06 SO3063    sodium:alanine symporter family protein CAAAAACAACAGAA + -18 1.09E-06 SO4150    transporter, putative AAAAAACTGCAGAA + +16 7.64E-06 SO4516    ferric vibriobactin receptor (viuA) CAGTAGCAGAAGAA + -249 1.62E-05 SO4743    TonB-dependent receptor, putative CAAAAACAACAAAT – -168 2.38E-05   Signal transduction         SO2426    DNA-binding response regulator CAATACCTGCCAAA + -88 5.12E-05 a Distance in base pairs of the start of the potential SO2426 binding site from the first nucleotide of the predicted translation start codon of the corresponding gene listed in the first column.