Preparation, resonance assignment, and preliminary dynamics characterization of residue specific 13C/15N-labeled elongated DNA for the study of sequence-directed dynamics by NMR.

Published

Journal Article

DNA is a highly flexible molecule that undergoes functionally important structural transitions in response to external cellular stimuli. Atomic level spin relaxation NMR studies of DNA dynamics have been limited to short duplexes in which sensitivity to biologically relevant fluctuations occurring at nanosecond timescales is often inadequate. Here, we introduce a method for preparing residue-specific (13)C/(15)N-labeled elongated DNA along with a strategy for establishing resonance assignments and apply the approach to probe fast inter-helical bending motions induced by an adenine tract. Preliminary results suggest the presence of elevated A-tract independent end-fraying internal motions occurring at nanosecond timescales, which evade detection in short DNA constructs and that penetrate deep (7 bp) within the DNA helix and gradually fade away towards the helix interior.

Full Text

Duke Authors

Cited Authors

  • Nikolova, EN; Al-Hashimi, HM

Published Date

  • September 2009

Published In

Volume / Issue

  • 45 / 1-2

Start / End Page

  • 9 - 16

PubMed ID

  • 19636798

Pubmed Central ID

  • 19636798

Electronic International Standard Serial Number (EISSN)

  • 1573-5001

Digital Object Identifier (DOI)

  • 10.1007/s10858-009-9350-y

Language

  • eng

Conference Location

  • Netherlands