AmrZ binds to the psl promoter region. (A) Increasing amounts of purified AmrZ or AmrZ R22A were incubated with fluorescently labeled fragments of DNA overlapping the algD or psl promoter. Lanes: 1, free DNA; 2, 4.0 nM wild-type (WT) AmrZ; 3, 2.8 nM WT AmrZ; 4, 1.1 nM WT AmrZ; 5, 0.6 nM WT AmrZ; 6, 0.3 nM WT AmrZ; 7, 4.0 nM AmrZ R22A; 8, 0.3 nM AmrZ R22A. The position of free DNA is indicated by an arrow, while DNA bound by AmrZ is indicated by a bracket. (B) AmrZ binding fragments containing the psl promoter from 400 bp to 110 bp. Lanes contain either free DNA of the fragment size noted (−) or DNA of the size indicated and 4.0 nM WT AmrZ protein (+). (C) Sequence of the 200-bp region upstream of the pslA coding sequence. The ATG codon of pslA is located at bases 201 to 203. The putative AmrZ binding site is indicated in red (, ). Gray and black bars indicate the sequences of fragment 1 and fragment 2, respectively. These fragments were used in an EMSA to verify AmrZ binding. Irie et al. () identified the transcription start site (+1) at base 53. Overhage et al. () mapped an alternative transcription start site (+1) at base 160. Sequence alignment of the consensus AmrZ binding site (, ) to binding sites of fragment 1 (red sequence) and mutant fragment 2 of the pslA promoter is shown. DNA fragments used in and were produced utilizing 5′-FAM-labeled fragments, while those in utilized unlabeled fragments that were stained with the SYBR green EMSA stain.