(Q42734918)

6 November 2017

Theoretical study of large conformational transitions in DNA: the B<-->A conformational change in water and ethanol/water (English)

1 reference

6 November 2017

Agnes Noy

1

0 references

Modesto Orozco

series ordinal

4

object named as

Modesto Orozco

1 reference

6 November 2017

Alberto Pérez

2

1 reference

PMCID

1904281

6 November 2017

Charles A Laughton

series ordinal

3

1 reference

PMCID

1904281

6 November 2017

language of work or name

English

0 references

publication date

25 April 2007

1 reference

6 November 2017

Nucleic Acids Research

1 reference

6 November 2017

35

1 reference

6 November 2017

3330-3338

1 reference

6 November 2017

10

1 reference

The B- to A-DNA transition and the reorganization of solvent at the DNA surface.

6 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

The relative flexibility of B-DNA and A-RNA duplexes: database analysis

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Dynamics of the B-A transition of DNA double helices

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Theoretical methods for the simulation of nucleic acids.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Evidence for 2-chain helix in crystalline structure of sodium deoxyribonucleate

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Molecular Structure of Nucleic Acids: Molecular Structure of Deoxypentose Nucleic Acids

27 May 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

27 May 2018

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

A glossary of DNA structures from A to Z

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Molecular dynamics simulation of nucleic acids: successes, limitations, and promise

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Sequence-dependent B<-->A transition in DNA evaluated with dimeric and trimeric scales

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

DNA structure from A to B.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

DNA structure: what's in charge?

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Molecular dynamics simulation of nucleic acids

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

A-form conformational motifs in ligand-bound DNA structures

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

The structure of a stable intermediate in the A left-right-arrow B DNA helix transition

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Structure of a transcribing T7 RNA polymerase initiation complex

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Protein-DNA interactions: A structural analysis

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

DNA sequence-dependent deformability deduced from protein-DNA crystal complexes

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Simulations of the molecular dynamics of nucleic acids

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Molecular switch in signal transduction: reaction paths of the conformational changes in ras p21.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

An A-DNA triplet code: thermodynamic rules for predicting A- and B-DNA

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

The B to A transition of DNA in solution

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

The dynamics of the B-A transition of natural DNA double helices

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

The discovery of the DNA double helix.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Classical molecular interaction potentials: improved setup procedure in molecular dynamics simulations of proteins.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Free Energy Landscape of A-DNA to B-DNA Conversion in Aqueous Solution

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1904281

Relative Flexibility of DNA and RNA: a Molecular Dynamics Study

1 December 2018

1 reference

12 December 2020

Targeted molecular dynamics: a new approach for searching pathways of conformational transitions

1 reference

12 December 2020

A modified version of the Cornell et al. force field with improved sugar pucker phases and helical repeat

1 reference

12 December 2020

Role of sugar re-puckering in the transition of A and B forms of DNA in solution. A molecular dynamics study

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKL1135

1 reference

6 November 2017

1 reference

6 November 2017

1 reference

PMCID

1904281