Figure 3. Sequence alignment of sigma factor binding sites.

Top: Alignment of the experimentally-determined binding sites for P_B [3] (underlined) with the σ³² binding sites from the E. coli rpoD promoter and with the canonical σ⁷⁰ binding sites [13], [30]. Bottom: Potential heat shock promoter (PB2) downstream of P_B aligned with the consensus σ³² binding sites [14]. Numbers indicate start and end position of the φX174 sequence, and a dot indicates spacing to maintain alignment.