TABLE 1.

Putative Fnr motifs located upstream of the genes affected by the etrA mutation

Gene or operon and product (ORF)Putative Fnr boxaPosition (bp)b
nrfA, cytochrome c552, nitrite reductase (1203)TTGAT . . . . cgCAA83
frdA, fumarate reductase, flavocytochrome c3 (1863)aTGAa . . . . ATCAA272
Diheme split-Soret cytochrome c (2952)TcGAT . . . . AcCAA192
fccA, fumarate reductase (2987)gTGAT . . . . tTCAA210
fdhA, selenocysteine formate dehydrogenase (3005)cTGAT . . . . ATaAA222
Prismane, 6Fe-6S protein (3388)gTGAT . . . . cTCtA119
fdhABC, formate dehydrogenase (1752)cTGtT . . . . ATCAA55
frdABC, fumarate reductase (2389)TTGAT . . . . cTCAg105
napDAHGB, nitrate reductase (2848-2852)TTGAT . . . . ATCgA119
dmsAB, DMSO reductase (3454-3458)gTGAT . . . . tTCAA169
hydABC, Ni-Fe hydrogenase (4138-4142)TTGAT . . . . ATCAA100
cydAB, cytochrome d ubiquinol-oxidase (487 and 488)TTGAT . . . . ATCAA338
scyA, monoheme c cytochrome (2262)TTGAT . . . . tTCcA170
bfr, bacterioferritin (3134)TTGAT . . . . ATCAA43
ordL, probable oxidoreductase (3280)TaGAT . . . . AaCAg200
ccoPOQN, cytochrome cbb3 oxidase (4403)TTGAT . . . . ATCAA212
ccoPOQN, cytochrome cbb3 oxidase (4404)TTGAc . . . . cTCAA169
ccoPOQN, cytochrome cbb3 oxidase (4405)TTGAc . . . . ATCAA106
ccoPOQN, cytochrome cbb3 oxidase (4406)TTGAa . . . . cgCAA163
fur, ferric uptake regulatory protein (3965)TTGAa . . . . cgCAA163
kinA, sensor histidine kinase (4603)TTGAc . . . . AgCAA176
Ferrichrome-iron receptor (1988)TTGAT . . . . ATCAc103
ompF, outer membrane porin (2304)gTGAT . . . . AatAA166
feoB, ferrous iron transporter (3813)TTGAT . . . . ATtAg369
TTGAT . . . . gTaAA87
nrdG, anaerobic ribonucleotide reductase (4911)tTGAT . . . . ATCAt121
TTGtT . . . . ATCAA63
sodB, Fe-Mn superoxide dismutase (33)aTGAT . . . . ATCAc87
cycH, cytochrome c biogenesis (2263)TTGAT . . . . AaagA344
ydaA, tpx-fnr intergenic region (4397)TTGAT . . . . AaCAA36
Conserved hypothetical protein (4468)gTGAT . . . . ATCAc314
  • a Nucleotides matching those of the E. coli fnr consensus sequence (TTGATNNNNATCAA) are shown in uppercase letters. The selected identity cutoff is 70%.

  • b The position of the putative fnr box x is given as the distance from the 5′ end of the motif to the presumed translation start codon.