Sequence analysis of p53 response-elements suggests multiple binding modes of the p53 tetramer to DNA targets.

ABSTRACT: The p53 tetramer recognizes specifically a 20-bp DNA element. Here, we examined symmetries encoded in p53 response elements (p53REs). We analyzed base inversion correlations within the half-site, as well as in the full-site palindrome. We found that p53REs are not only direct repeats of half-sites; rather, two p53 half-sites couple to form a higher order 20 bp palindrome. The palindrome couplings between the half-sites are stronger for the human than for the mouse genome. The full-site palindrome and half-site palindrome are controlled by insertions between the two half-sites. The most notable feature is that the full-site palindrome with coupling between quarter-sites one and four (H14 coupling) dominates the p53REs without insertions. The most frequently observed insertion in human p53RE

SUBMITTER: Ma B 

PROVIDER: S-EPMC1888811 | biostudies-literature | 2007

REPOSITORIES: biostudies-literature