Table 1.
Putative PurR binding sites in H. influenzae.
| Score | Sequence | ORF | Position | Transcript | Process |
|---|---|---|---|---|---|
| 6.00 | ACGCAAACGTTTGCTT | HI0887 | −63 | purH-purD-glyA | purine biosynthesis |
| 5.97 | AAGCAAACGTTTGCTA | HI1726 | −77 | hemH (purC) | purine biosynthesis |
| 5.85 | AAGCAAACGTTTGCGA | HI1429 | −63 | purM-purN | purine biosynthesis |
| 5.75 | AAGCAAACGTTTGCAT | HI0752 | 1 | purL | purine biosynthesis |
| 5.74 | AAGAAAACGTTTGCGT | HI1206 | −82 | cvpA-purF | purine biosynthesis |
| 5.70 | AGGCAAACGTTTGCTA | HI1615 | −75 | purE-purK | purine biosynthesis |
| 5.68 | AAGTAAACGTTTGCGT | HI0125 | −83 | HI0125 | unknown |
| 5.31 | ATGCAAACGGTTGCTT | HI0061 | −70 | rec2 | natural competence |
| 5.27 | TAGCAAACGCTTTCTT | HI0609 | −45 | folD | 1-carbon metabolism |
| 5.16 | TTGCAAACGGTTGCTT | HI1736 | −95 | HI1736 | unknown |
| 5.11 | TGGCAAACGATTGCTA | HI0495 | −85 | aphA | phosphatase, periplasmic |
| 4.88 | AAGTAAACGATTGTGT | HI0464 | −34 | rpiA-serA | purine biosynthesis |
| 4.84 | AGGAAAACGTTTCCGT | HI0638 | −26 | hflD-purB | purine biosynthesis |
| 4.59 | ATGCAAACGATTACTC | HI0667 | −76 | glpX | phosphatase,cytoplasmic |
| 4.54 | ATAAAATCGTTTGCTA | HI1153 | −41 | hpt | purine biosynthesis |
The PurR-binding motif of Ravcheev et al. (2002) was used to score the H. influenzae Rd KW20 genome (see Experimental procedures). The sequences for ORFs on the reverse strand have been reverse complemented. The rec2 site is shaded and bold. ORF indicates the gene nearest to the site. Position indicates the distance of the start codon from the distal end of the site (total site length = 16 bp). Transcript indicates the predicted genes regulated by the PurR site. Process indicates annotated metabolic processes encoded by the transcript. All 20 sequenced H. influenzae genomes had putative sites upstream of rec2, 18 with the same score as Rd KW20, and two strains (22.4–21 and PittEE) with better sites (site: ATGCAAACGTTTGCTT, score: 5.75).