Work

A Map of Minor Groove Shape and Electrostatic Potential from Hydroxyl Radical Cleavage Patterns of DNA

Year: 2011

Type: article

Abstract: DNA shape variation and the associated variation in minor groove electrostatic potential are widely exploited by proteins for DNA recognition. Here we show that the hydroxyl radical cleavage pattern is a quantitative measure of DNA backbone solvent accessibility, minor groove width, and minor groove electrostatic potential, at single nucleotide resolution. We introduce maps of DNA shape and electrostatic potential as tools for understanding how proteins recognize binding sites in a genome. These maps reveal periodic structural signals in yeast and Drosophila genomic DNA sequences that are associated with positioned nucleosomes.

Source: ACS Chemical Biology

DOI: 10.1021/cb200155t

Authors: Eric P. Bishop, Remo Rohs, Stephen C. J. Parker, Sean M. West, Peng Liu, Richard S. Mann, Barry Honig, Thomas D. Tullius

Institutions: Boston University, University of Southern California, National Institutes of Health, Howard Hughes Medical Institute, National Human Genome Research Institute, Columbia University

Language: English

Topic: DNA and Nucleic Acid Chemistry

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: green

Funders: Howard Hughes Medical Institute, National Institutes of Health, National Human Genome Research Institute, National Cancer Institute, National Institute of General Medical Sciences

Awards: National Center: Multiscale Analysis of Genomic and Cellular Networks (MAGNet), G2221374616, G2640710390, Structure of genomic DNA at single-nucleotide resolution, Molecular Genetics of Segment Identity, G7023109010

OpenAlex ID: W2084212424

FWCI: 4.23

Cites: 41

Cited by: 88

Related to: 10