Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

DNA conformation and dynamics.

A Ninaber1, J M Goodfellow

  • 1Department of Crystallography, Birkbeck College, London, UK.

Radiation and Environmental Biophysics
|June 29, 1999
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

The pH-dependent stability of wild-type and mutant transthyretin oligomers.

Biophysical journal·2003
Same author

The biological implications of damage to DNA incorporating an 8-oxodeoxyguanine:cytosine basepair.

Journal of biomolecular structure & dynamics·1999
Same author

The pH-induced release of iron from transferrin investigated with a continuum electrostatic model.

Biophysical journal·1998
Same author

The intrinsic curvature of a 51 bp K-DNA fragment of Leishmania tarentolae: a molecular model.

Journal of biomolecular structure & dynamics·1998
Same author

Modelling protein unfolding: hen egg-white lysozyme.

Protein engineering·1997
Same author

Hydrophobic solvation in aqueous trifluoroethanol solution.

Biopolymers·1996
Same journal

Correction: Assessment of radiotherapy effect and toxicity using tissue-associated DNA methylation markers in cell-free DNA: a study on prostate cancer.

Radiation and environmental biophysics·2026
Same journal

Stereolithography-printed Bi<sub>2</sub>O<sub>3</sub>-reinforced photopolymer nanocomposite samples with antibacterial and radiation shielding properties.

Radiation and environmental biophysics·2026
Same journal

Protective and remineralizing capacity of biosilicate, chitosan-based material, and fluoride on demineralized and irradiated enamel.

Radiation and environmental biophysics·2026
Same journal

Methodology for estimating intake from an unknown mixture of radioactive compounds.

Radiation and environmental biophysics·2026
Same journal

Assessing the variation of DNA damage response of individual human cells exposed to photon radiation.

Radiation and environmental biophysics·2026
Same journal

Quantifying measurement uncertainties in diode-based in-vivo dosimetry for Cobalt-60 high dose rate brachytherapy.

Radiation and environmental biophysics·2026
See all related articles

Understanding DNA structure and radiation damage is crucial. Molecular modeling reveals how lesions like 8-oxodeoxyguanosine impact DNA, influencing mutagenesis, cancer, and aging.

Area of Science:

  • Structural Biology
  • Computational Chemistry
  • Radiation Biology

Background:

  • Nucleotide conformation and dynamics are vital for understanding DNA's response to radiation damage.
  • Modified bases, resulting from OH-radical interactions, require investigation alongside normal oligonucleotide structures.
  • The Brookhaven Protein Data Bank contains extensive structural data for nucleic acids and protein-DNA complexes.

Purpose of the Study:

  • To review existing structural data and molecular modeling techniques for studying DNA conformation, stability, and dynamics.
  • To investigate the effects of chemical modifications, such as alkylation and radiation-induced lesions, on DNA structure.
  • To analyze the impact of incorporating 8-oxodeoxyguanosine, a common radiation damage product, into duplex DNA.

Main Methods:

Related Experiment Videos

  • Review of atomic coordinate entries from the Brookhaven Protein Data Bank.
  • Application of molecular modeling techniques, including explicit counter-ions, solvent molecules, and Particle Mesh Ewald methods.
  • Analysis of long time-scale simulations to study DNA dynamics and stability.

Main Results:

  • Elucidation of novel DNA conformations and sequence specificity through structural data.
  • Insight into protein/DNA interactions from experimental structures.
  • Characterization of the effects of base alkylation and DNA curvature on nucleic acid structure and dynamics.

Conclusions:

  • Molecular modeling, enhanced with advanced computational methods, provides critical insights into DNA conformation, stability, and dynamics.
  • Understanding radiation-induced DNA lesions, such as 8-oxodeoxyguanosine, is essential for comprehending mutagenesis, cancer, and aging processes.
  • Continued advancements in computational techniques will further elucidate the atomic-level consequences of DNA damage and modification.