Table II. Putative LexA regulon and DNA-binding sites in Synechococcus sp. WH7803.
| Gene | Putative LexA-Binding Site | Position from ATGa | Log2 Fold Change from Microarray Datab |
Gene Clusterc | Gene Product | ||||
| HL-Ct/LL-Ct | LL+H2O2/LL-Ct | LL+MV/LL-Ct | HL+H2O2/HL-Ct | HL+MV/HL-Ct | |||||
| Genes with a putative LexA-binding site in their upstream intergenic region | |||||||||
| lexA | GGTACACATGTATT | −21 | −0.1 | 0.9 | (0.2) | 1.4 | 1.4 | B | SOS-response transcriptional repressor |
| recA | AGTACAGATGTACG | −137 | −1.1 | 1.9 | 1.0 | 1.1 | 1.4 | B | Recombinase A |
| umuD umuCd | AGTACAGATGTTCT | −40 | (−0.3) (−0.3) | 2.6 1.6 | 1.2 0.6 | 1.2 (0.4) | 1.3 0.6 | B B | Subunits of DNA polymerase for DNA repair |
| dprA | AGTACACATGTATT | +1 | −0.5 | 0.6 | (0.2) | 0.6 | 0.8 | B | Putative DNA-protecting protein |
| wcaG | AGTACAAACGTATT | −8 | (−0.3) | (−0.1) | 0.5 | 0.7 | 0.9 | B | Nucleoside-diphosphate-sugar epimerase |
| 0096e | AATACAGTTGTATT | −88 | −2.1 | 2.2 | (0.6) | 2.9 | 3.2 | ND | Hypothetical protein |
| 0814e | GGTACGCCTGTTCT | −96 | (−0.6) | 1.7 | 1.4 | 1.9 | 2.3 | ND | Conserved hypothetical protein |
| 0843e | AGTACAGATGTACT | −20 | −0.7 | 1.6 | 1.8 | 1.4 | 1.5 | ND | Conserved hypothetical protein |
| 1500e | AGTACAGATGTACT | −13 | −1.5 | 1.5 | (0.4) | 2.2 | 2.0 | ND | Conserved hypothetical protein |
| Consensus | |||||||||
| RRTACRNNYGTWYK | |||||||||
| Genes with no LexA-binding site found but whose orthologs are thought to be part of the E. coli LexA regulon | |||||||||
| recN | (−0.4) | (−0.2) | (−0.5) | (0.1) | (−0.3) | D | ATPase involved in DNA repair | ||
| ruvB | (−0.3) | (−0.2) | (0.7) | 0.9 | (0.4) | B | Holliday ATP-dependent DNA helicase | ||
| ssb | −0.8 | (−0.1) | (0.5) | 1.0 | 1.0 | A | Single-stranded DNA-binding protein | ||
| uvrA | (0.1) | (0.1) | −0.7 | −1.2 | −1.2 | D | Excinuclease ATPase subunit | ||
| uvrD | (−0.4) | (−0.4) | (−0.1) | (−0.4) | (−0.2) | A | DNA-dependent ATPase I and helicase II | ||
a
Positions have been calculated between the first nucleotide of the start codon and the middle of the putative binding site.
b
Values in parentheses are not statistically significant (i.e. with FDR > 0.05).
c
See hierachical clustering analysis in Figure 8. ND, Not determined (hypothetical proteins were excluded from the analysis).
d
umuD and umuC genes are likely organized in an operon.
e
The complete open reading frame number is SynWH7803_XXXX.