Figure 3.

Consensus sequence logos. (a) Bioinformatics logo from Ref. (14), based on the sequences of 21 experimentally known binding sites. (b) E _{interaction-based} logo, obtained from the Boltzmann probabilities of residues from site-specific interaction energies listed in Table 1a. (c) (E _interaction + E_{DNA deform})-based logo, obtained from the Boltzmann probabilities of residues from site-specific interaction energies listed in Table 1. This includes an estimate of the bending energy of the DNA as describe in the text.