TABLE 3.

PhoP-like promoters identified by consensus sequence searching, patterns of regulation detected by qPCR, and results of gel shift assays

Sequence or operonSequenceaGenome coordinatesMg2+ regulatedbPhoP regulatedbGel shift
Consensus sequenceCGTTCAGNNNNNRTTCAG
oprH-phoP-phoQCGTTCAGCCCGGGTTCAG1276906-1276923YesYesYesd
CGTTCAGGGGCGGTTCAG1276928-1276945
pmrH-ugdCGTTCAGTCTTCATTCAG3979746-3979763YesYesYes
CGTTCAGGCAGCATTCAG3979789-3979806
PA1343CGTTCAGAAATTGTTCAG1457051-1457068YesYesYes
CGTTCAGGCCCGATTCAG1457073-1457109
PA0921CGTTCAGCGATGGTTCAG1006780-1006797YesYesYes
PA4457-PA4461CGTTCAGCTTGGATTCAG4989024-4989041NoNTcNT
PA1851CGTCCAGGCCTGTTTCAG2010955-2010972NoNTNT
PA3925CGTTCAGACCCTATCCAG4400087-4400104NoNTNT
PA0918CATTCAGGCTGGCTTCAG1002608-1002591NoNTNT
PA2775-PA2774CCTTCACGGATGATTCAG3133288-3133271NoNTNT
spuABCDCGTTGAGGCCGTTTTCAG334565-334582NoNTNT
  • a Nucleotides that differ from the nucleotides in the consensus sequence are indicated by boldface type. Abbreviations: N = A, C, G, or T; R = A or G.

  • b Determined by reverse transcription-qPCR.

  • c NT, not tested (no Mg2+ regulation could be demonstrated, and no regulation was observed in array experiments).

  • d Promoter regions were tested for binding to PhoP and PmrA. Only the pmrH-ugd promoter fragment bound to both. The other promoters bound only to PhoP and not to PmrA.