Figure 3.

Multi-target TFs. SELEX screening of TF-binding sequences revealed that a set of the bifunctional nucleoid proteins with both architectural roles in genome folding and regulatory role in transcription bind up to ∼1000 sites along the entire Escherichia coli genome. The number of binding peaks was: 1269 for Fis (A); 987 for H-NS (B); and 813 for IHF (C). High-level binding sites of these nucleoid proteins within type-A and type-B spacers are shown under green background. In the case of bidirectional transcription units within type-A spacers, the first genes on both sides are shown, whereas in the case of type-B spacers, the first genes in one transcriptional direction are shown. The Y-axis indicates the fluorescent intensity of SELEX fragment binding to each probe relative to that of library DNA.