Computational Studies of RNA and DNA [E-Book] / edited by J. Šponer, F. Lankaš.
Lankaš, F. (editor)
Šponer, J. (editor)
Dordrecht : Springer Netherlands, 2006
XII, 638 p. online resource.
Full Text
Table of Contents:
  • Basics of Nucleic Acid Structure:Concepts, Tools, and Archives
  • Using Amber to simulate DNA and RNA
  • Theoretical Studies of Nucleic Acids and Nucleic Acid-Protein Complexes Using CHARMM
  • Continuum Solvent Models to Study the Structure and Dynamics of Nucleic Acids and Complexes With Ligands
  • Data Mining of Molecular Dynamic Trajectories of Nucleic Acids
  • Enhanced Sampling Methods for Atomistic Simulation Of Nucleic Acids
  • Modeling DNA Deformation
  • Molecular Dynamics Simulations and Free Energy Calculations on Protein-Nucleic Acid Complexes
  • DNA Simulation Benchmarks as Revealed by X-Ray Structures.-RNA: The Cousin Left Behind Becomes a Star
  • Molecular dynamics simulations of RNA systems: importance of the initial conditions- RNA molecular dynamics
  • Molecular dynamics simulations of nucleic acids: MD simulations of G-DNA and functional RNAs
  • Using Computer Simulations to Study Decoding by the Ribosome
  • Base stacking and base pairing: Advanced quantum chemical studies
  • Interaction of Metal Cations With Nucleic Acids and their Building Units: A comprehensive view from quantum chemical calculations
  • Proton transfer in DNA base pairs: Potential mutagenic processes
  • Comparative Study of Quantum Mechanical Methods Related to Nucleic Acid Bases: Electronic Spectra, Excited State Structures and Interactions
  • Substituent Effects on Hydrogen Bonds in DNA:A Kohn-Sham DFT approach
  • Computational modeling of charge transfer in DNA
  • Quantum chemical calculations of NMR parameters
  • The Importance of Entropic Factors In DNA Behaviour: Insights From Simulations
  • Sequence-dependent harmonic deformability of nucleic acids inferred from atomistic molecular dynamics
  • Simulation of equilibrium and dynamic properties of large DNA molecules
  • Chromatin Simulations: From DNA to chromatin fibers. .