Dynamical signature of abasic damage in DNA.

No abstract is available for this paper.

• Publication year

  2011

• Venue

  Journal of the American Chemical Society

• Publication date

  2011-02-02

• Fields of study

  Biology, Medicine, Physics, Chemistry

• Identifiers
  DOI 10.1021/ja109714vPMID 21175205
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Probe position dependence of DNA dynamics: comparison of the time-resolved Stokes shift of groove-bound to base-stacked probes.

  2010cited by this paper
• Molecular Dynamics Simulations of DNA Solvation Dynamics

  2010cited by this paper
• Effects of an unnatural base pair replacement on the structure and dynamics of DNA and neighboring water and ions.

  2010cited by this paper
• Does the dynamic Stokes shift report on slow protein hydration dynamics?

  2009cited by this paper
• Effects of Long-Range Electrostatics on Time-Dependent Stokes Shift Calculations.

  2009cited by this paper
• Dynamics of water and ions near DNA: comparison of simulation to time-resolved stokes-shift experiments.

  2009cited by this paper
• Solvation dynamics of Hoechst 33258 in water: an equilibrium and nonequilibrium molecular dynamics study.

  2008cited by this paper
• The dynamics of water at DNA interfaces: computational studies of Hoechst 33258 bound to DNA.

  2008cited by this paper
• Measurement of solvation responses at multiple sites in a globular protein.

  2007cited by this paper
• Refinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformers.

  2007cited by this paper
• Refinement of the AMBER Force Field for Nucleic Acids: Improving the Description of α/γ Conformers

  2007cited by this paper
• Entropy of water in the hydration layer of major and minor grooves of DNA.

  2006cited by this paper
• Power-law solvation dynamics in DNA over six decades in time.

  2005cited by this paper
• High-resolution structure of an extended A-tract: [d(CGCAAATTTGCG)]2.

  2004cited by this paper
• Site- and sequence-selective ultrafast hydration of DNA

  2003cited by this paper
• Water at DNA surfaces: Ultrafast dynamics in minor groove recognition

  2003cited by this paper
• How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules?

  2000cited by this paper
• Water and monovalent ions in the minor groove of B-DNA oligonucleotides as seen by NMR.

  1998cited by this paper
• Kinetics of DNA hydration.

  1997cited by this paper
• Nonreactive Dynamics in Solution: The Emerging Molecular View of Solvation Dynamics and Vibrational Relaxation

  1996cited by this paper
• CHROMOPHORE-SOLVENT DYNAMICS

  1996cited by this paper
• Polar solvation dynamics of polyatomic solutes: Simulation studies in acetonitrile and methanol

  1995cited by this paper
• Three-dimensional crystal structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor-groove-binding drug Hoechst 33258.

  1994cited by this paper
• NMR observation of individual molecules of hydration water bound to DNA duplexes: direct evidence for a spine of hydration water present in aqueous solution.

  1992cited by this paper
• Solvation dynamics for an ion pair in a polar solvent: Time‐dependent fluorescence and photochemical charge transfer

  1991cited by this paper
• THE MISSING TERM IN EFFECTIVE PAIR POTENTIALS

  1987cited by this paper
• Structure of a B-DNA dodecamer. III. Geometry of hydration.

  1981cited by this paper

• Origin of 4',6-diamidino-2-phenylindole (DAPI) fluorescence dynamics in solution and DNA minor groove binding: Unveiled by femtosecond broadband fluorescence, transient absorption, and theoretical calculations.

  2025cites this paper
• Conformational and Environmental Determinants of RNA Solvation Dynamics: Roles of Intrinsic Flexibility, Allostery, and Protein Binding

  2025cites this paper
• Molecular dynamics study on clustered DNA damage: AP sites on the same strand.

  2025cites this paper
• Molecular Picture of the Effect of Cosolvent Crowding on Ligand Binding and Dispersed Solvation Dynamics in G-Quadruplex DNA.

  2022cites this paper
• Linear Response Theory for Decomposition Energies of Stokes Shift in Proteins.

  2020cites this paper
• Computational solvation dynamics: Implementation, application, and validation

  2020cites this paper
• Origin of Slow Solvation Dynamics in DNA: DAPI in Minor Groove of Dickerson-Drew DNA.

  2019cites this paper
• Dynamics of Water and Ions Near DNA: Perspective from Time-Resolved Fluorescence Stokes Shift Experiments and Molecular Dynamics Simulation

  2018cites this paper
• Exploiting Chromophore-Protein Interactions through Linker Engineering To Tune Photoinduced Dynamics in a Biomimetic Light-Harvesting Platform.

  2018cites this paper
• Decompositions of Solvent Response Functions in Ionic Liquids: A Direct Comparison of Equilibrium and Nonequilibrium Methodologies.

  2018cites this paper
• Effect of T·T Mismatch on DNA Dynamics Probed by Minor Groove Binders: Comparison of Dynamic Stokes Shifts of Hoechst and DAPI.

  2017cites this paper
• Structural and Dynamical Impact of a Universal Fluorescent Nucleoside Analogue Inserted Into a DNA Duplex.

  2017cites this paper
• Perspective: Structure and ultrafast dynamics of biomolecular hydration shells

  2017cites this paper
• Water Dynamics in the Hydration Shells of Biomolecules

  2017cites this paper
• Weak nanoscale chaos and anomalous relaxation in DNA.

  2016cites this paper
• Hydration of proteins and nucleic acids: Advances in experiment and theory. A review.

  2016cites this paper
• Dispersed dynamics of solvation in G-quadruplex DNA: comparison of dynamic Stokes shifts of probes in parallel and antiparallel quadruplex structures

  2016cites this paper
• Dynamical Disorder in the DNA Hydration Shell.

  2016cites this paper
• Distribution of Residence Time of Water around DNA Base Pairs: Governing Factors and the Origin of Heterogeneity.

  2015cites this paper
• Power-Law Solvation Dynamics in G-Quadruplex DNA: Role of Hydration Dynamics on Ligand Solvation inside DNA.

  2015cites this paper
• Sequence-Dependent Solvation Dynamics of Minor-Groove Bound Ligand Inside Duplex-DNA.

  2015cites this paper
• Computational Study of Phosphate Vibrations as Reporters of DNA Hydration.

  2015cites this paper
• Algebraic Statistics of Poincaré Recurrences in a DNA Molecule.

  2015cites this paper
• Molecular dynamics investigation of the vibrational spectroscopy of isolated water in an ionic liquid.

  2014cites this paper
• Anomalous power law decay in solvation dynamics of DNA: a mode coupling theory analysis of ion contribution

  2014cites this paper
• On the pH dependent behavior of the firefly bioluminescence: protein dynamics and water content in the active pocket.

  2013cites this paper
• On the mechanism of solvation dynamics in imidazolium-based ionic liquids.

  2013cites this paper
• Molecular dynamics simulations of G-DNA and perspectives on the simulation of nucleic acid structures.

  2012cites this paper
• Molecule‐specific determination of atomic polarizabilities with the polarizable atomic multipole model

  2012cites this paper
• All-atom semiclassical dynamics study of quantum coherence in photosynthetic Fenna-Matthews-Olson complex.

  2012cites this paper
• Reorientation dynamics of nanoconfined water: power-law decay, hydrogen-bond jumps, and test of a two-state model.

  2012cites this paper
• Probe Position-Dependent Counterion Dynamics in DNA: Comparison of Time-Resolved Stokes Shift of Groove-Bound to Base-Stacked Probes in the Presence of Different Monovalent Counterions.

  2012cites this paper