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

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

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

Buyong Ma,Yongping Pan,Jie Zheng,Arnold J Levine,Ruth Nussinov,

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 p53REs of 3 bp enhances the half-site palindrome. The statistical frequencies of the coupling between the half-sites in the human genome correlate with grouped experimental p53 affinities with p53REs. Examination of known p53REs indicates the H14 couplings are stronger for positive regulation than for negatively regulated p53REs, with repressors having the lowest H14 couplings. We propose that the palindromic sequence couplings may encode such potential preferred multiple binding modes of the p53 tetramer to DNA.

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

B Ma,Y Pan,J Zheng,AJ Levine,R Nussinov,

For similar proteins: dna-binding proteins: tumor suppressor protein p53 research abstracts see: proteins: dna-binding proteins: tumor suppressor protein p53 research

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

PUBLICATION TYPE: Research Support, U.S. Gov't,

Journal: Nucleic acids research

VOLUME: 35

Page Numbers: 2986-3001

Journal Abbreviation: Nucleic Acids Res.

ISSN: 1362-4962

DAY: 16

MONTH: 04

YEAR: 2007

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

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LANGUAGE: eng

NlmUniqueID: 411011

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

KEYWORDS: Tumor Suppressor Protein p53

MESH TERMS: metabolism

Chemical & Substance for Abstract: Sequence analysis of p53 response-elements suggests multiple binding modes of the p53 tetramer to DNA targets. Information

Substance Name: DNA

Registry Number: 9007-49-2

Grant and Affiliation Information for Sequence analysis of p53 response-elements suggests multiple binding modes of the p53 tetramer to DNA targets.

AFFILIATION: Basic Research Program, SAIC-Frederick Inc., Center for Cancer Research Nanobiology Program, NCI-Frederick, Frederick, MD 21702, USA. mab@ncifcrf.gov

Country: England

AGENCY: United States NCI

GRANT: N01-CO-12400

ACRONYM: CO

MEDLINETA: Nucleic Acids Res

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