Table 1 The predicted GlnR-binding site(s) in the promoter regions of putative GlnR target genes in P. polymyxa WLY78
Gene name | Function | Co-trans gene | Putative binding site | p value |
|---|---|---|---|---|
nifB | nitrogenase cofactor biosynthesis protein | nifHDKENXhesAnifV | ACGATATATTACTTGACGT | 1.60E-05 |
ATGTAAGGGAATATAACGT | 2.30E-05 | |||
glnR | MerR family transcriptional regulator | glnA | TTGTGAGTTTTTCTAACAT | 1.50E-07 |
glnA1 | glutamine synthetase | GCGTAAGCATATCTAACAT | 2.80E-06 | |
TTGAGATTTATAATGACGA | 5.10E-05 | |||
amtB | ammonium transporter | glnK2 | TAGTTAGTAAATATGACAT | 2.90E-05 |
ATGTAAAGAAACTTAACAT | 2.30E-07 | |||
glnK1 | signal transduction histidine kinase | CTGTGAATTTAGCTCACAT | 1.20E-05 | |
glnQ | glutamine transport ATP-binding protein | glnHMP | ATGTGAAATTTAATAACAT | 2.30E-06 |
ACGTGAAGTTTTATGACAT | 4.20E-07 | |||
nasA | nitrate transporter | ATGTCAACATTCAATACATG | 5.90E-05 | |
GTGTTATGTATATTGACAT | 7.10E-06 | |||
nasD1 | nitrite reductase | ATGTCAATATACATAACAC | 7.10E-06 | |
ATGTATTGAATGTTGACAT | 5.90E-05 | |||
nasD2 | nitrite reductase | nasEF | GCGTAAGGAATGTTGACAT | 1.60E-06 |
metN | methionine ABC transporter ATP-binding protein | metI | TCGACATATTTCATACCAT | 1.50E-05 |
ansZ | L-asparaginase | AAGTTATATTTTCTAACAT | 1.10E-05 | |
TTGTCAGTTAATCTATCAT | 4.10E-06 | |||
gcvH | glycine cleavage system protein H | ATGTCAATAAAAATGTCAT | 1.10E-05 | |
TTGTTATAAATTATTATAT | 8.70E-05 | |||
pucR | purine catabolism regulatory protein | ATGTCATGTAAAATGACAT | 3.90E-07 | |
dppA | peptide ABC transporter substrate-binding protein | dppBC | TTGTGAGTATATGTCACAC | 2.00E-05 |
oppA | oligopeptide ABC transporter substrate-binding protein | oppBC | ATGTGATATAACATGACAT | 1.90E-07 |
appA | oligopeptide ABC transporter substrate-binding protein | appBCDF | ACGTGATATTATTTTACAC | 9.60E-06 |
ldh3 | lactate dehydrogenase | ATGGCACTATTCCTTCCAT | 8.70E-05 | |
ATGTTATGTTATGTAACGT | 4.60E-07 | |||
maeA1 | NAD-dependent malic enzyme | ATGTCATCTTTCGTTATGA | 9.60E-06 | |
dxs | 1-deoxy-D-xylulose-5-phosphate synthase | TTGTTAACTTTACTCACAA | 9.30E-07 | |
bglA1 | 6-phospho-beta-glucosidase | bglP | TCGTTACGAATACTTACAG | 8.30E-06 |
bglA2 | 6-phospho-beta-glucosidase | TTAAAATAAAACTTGACAT | 1.30E-05 | |
gpsA | glycerol-3-phosphate dehydrogenase | TTGTAATGACTCGTTACGTA | 1.50E-05 | |
yvqE | two-component sensor protein | yvqC | ACGTCATAAATTCTGACAT | 3.50E-07 |
ATGTTATAAAAAGTACCAA | 4.00E-05 | |||
sigF | RNA polymerase sigma 70 | CCGTCAGGTGTCGTAACGA | 1.70E-05 |