(Q52230498)

27 April 2018

title

Molecular dynamics and continuum solvent studies of the stability of polyG-polyC and polyA-polyT DNA duplexes in solution. (English)

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author name string

Cheatham TE 3rd

1

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Srinivasan J

2

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Case DA

3

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Kollman PA

4

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publication date

1 October 1998

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Journal of Biomolecular Structure and Dynamics

published in

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volume

16

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issue

2

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page(s)

265-280

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Observation of the A-DNA to B-DNA transition during unrestrained molecular dynamics in aqueous solution

cites work

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

A molecular level picture of the stabilization of A-DNA in mixed ethanol-water solutions

21 January 2018

1 reference

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Insight into the stabilization of A-DNA by specific ion association: spontaneous B-DNA to A-DNA transitions observed in molecular dynamics simulations of d[ACCCGCGGGT]2 in the presence of hexaamminecobalt(III).

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Structural equilibrium of DNA represented with different force fields

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

A 5-nanosecond molecular dynamics trajectory for B-DNA: analysis of structure, motions, and solvation

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Influence of counter-ions on the crystal structures of DNA decamers: binding of [Co(NH3)6]3+ and Ba2+ to A-DNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Aggregated DNA in ethanol solution

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Neomycin, spermine and hexaamminecobalt (III) share common structural motifs in converting B- to A-DNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Thermodynamics of a reverse turn motif. Solvent effects and side-chain packing

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Free energy determinants of secondary structure formation: I. alpha-Helices

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Evaluation of the conformational free energies of loops in proteins.

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Molecular dynamics simulations of d(C-G-C-G-A) X d(T-C-G-C-G) with and without "hydrated" counterions

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Comparison of simple potential functions for simulating liquid water

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

21 January 2018

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Conformational and helicoidal analysis of 30 PS of molecular dynamics on the d(CGCGAATTCGCG) double helix: "curves", dials and windows.

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

The definition of generalized helicoidal parameters and of axis curvature for irregular nucleic acids

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Definitions and nomenclature of nucleic acid structure components

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Conformational sub-states in B-DNA.

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Electrostatic interactions in macromolecules: theory and applications

21 January 2018

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Semianalytical treatment of solvation for molecular mechanics and dynamics

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Pairwise solute descreening of solute charges from a dielectric medium

21 January 2018

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Hydration patterns and intermolecular interactions in A-DNA crystal structures. Implications for DNA recognition

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

A systematic method for studying the spatial distribution of water molecules around nucleic acid bases

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Hydration of the DNA bases is local

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Theoretical considerations on the "spine of hydration" in the minor groove of d(CGCGAATTCGCG).d(GCGCTTAAGCGC): Monte Carlo computer simulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

A theoretical study of the aqueous hydration of canonical B d(CGCGAATTCGCG): Monte Carlo simulation and comparison with crystallographic ordered water sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

The B-DNA dodecamer at high resolution reveals a spine of water on sodium

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Sequence dependence of the helical repeat of DNA in solution

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

Sequence-dependent helical periodicity of DNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.1998.10508245

10.1080/07391102.1998.10508245

21 January 2018

Identifiers

DOI

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27 April 2018

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27 April 2018