Mesoscopic Model and Free Energy Landscape for Protein-DNA Binding Sites: Analysis of Cyanobacterial Promoters
Figure 2
First four PCA eigenvectors calculated for three different complete genes.
The promoter region -with the TSS highlighted- and the codifying region are pointed out. Most of the fluctuations appear localized in the promoter region, meaning that bubbles tend to form mostly here. This feature manifests the different mechanical behavior of the promoter and codifying regions, suggesting its key role in the DNA-protein interaction.