(Q37361178)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19191698%20AND%20SRC:MED&resulttype=core&format=json

20 January 2020

title

Dynamics of water and ions near DNA: comparison of simulation to time-resolved stokes-shift experiments (English)

1 reference

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20 January 2020

1

1 reference

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20 January 2020

Mark A Berg

5

1 reference

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20 January 2020

author name string

Daniele Andreatta

2

1 reference

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20 January 2020

Sergei Y Ponomarev

3

1 reference

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20 January 2020

David L Beveridge

4

1 reference

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20 January 2020

language of work or name

English

0 references

publication date

1 February 2009

1 reference

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Journal of the American Chemical Society

20 January 2020

published in

1 reference

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20 January 2020

volume

131

1 reference

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20 January 2020

issue

5

1 reference

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20 January 2020

page(s)

1724-1735

1 reference

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The dynamics of water at DNA interfaces: computational studies of Hoechst 33258 bound to DNA.

20 January 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Nanoscale structure and dynamics of DNA.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Water as an active constituent in cell biology

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Mapping hydration dynamics around a protein surface

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Nucleic acid solvation: from outside to insight.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Protein surface hydration mapped by site-specific mutations.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Role of monovalent counterions in the ultrafast dynamics of DNA.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Ultrafast dynamics in DNA: "fraying" at the end of the helix

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

The contribution of transient counterion imbalances to DNA bending fluctuations

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Effect of protein binding on ultrafast DNA dynamics: characterization of a DNA:APE1 complex.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Molecular origin of time-dependent fluorescence shifts in proteins

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Water dynamics in the hydration layer around proteins and micelles.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Ion motions in molecular dynamics simulations on DNA.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Dynamics of water in biological recognition

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Molecular dynamics simulations of DNA curvature and flexibility: helix phasing and premelting

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Water at DNA surfaces: ultrafast dynamics in minor groove recognition

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Solvation and hydration of proteins and nucleic acids: a theoretical view of simulation and experiment

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Probing protein electrostatics with a synthetic fluorescent amino acid.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Water and monovalent ions in the minor groove of B-DNA oligonucleotides as seen by NMR.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Femtosecond dynamics of DNA-mediated electron transfer.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

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

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Conformational substates in proteins

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Nanosecond relaxation dynamics of protein GB1 identified by the time-dependent red shift in the fluorescence of tryptophan and 5-fluorotryptophan.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Ultrafast fluorescence dynamics of tryptophan in the proteins monellin and IIAGlc

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Slow solvation dynamics at the active site of an enzyme: implications for catalysis

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Power-law solvation dynamics in DNA over six decades in time.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Sensitivity of polar solvation dynamics to the secondary structures of aqueous proteins and the role of surface exposure of the probe.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

DNA charge transport: conformationally gated hopping through stacked domains

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Ultrafast dynamics in DNA-mediated electron transfer: base gating and the role of temperature

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Charge migration in DNA: ion-gated transport

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2750815

Multiple Time Scales in Solvation Dynamics of DNA in Aqueous Solution: The Role of Water, Counterions, and Cross-Correlations

2 September 2018

1 reference

12 December 2020

Exploring DNA groove water dynamics through hydrogen bond lifetime and orientational relaxation

1 reference

12 December 2020

Probing polar solvation dynamics in proteins: a molecular dynamics simulation analysis

1 reference

12 December 2020

Hydration dynamics and time scales of coupled water-protein fluctuations

1 reference

12 December 2020

A molecular simulation picture of DNA hydration around A- and B-DNA

1 reference

12 December 2020

Complex local dynamics in DNA on the picosecond and nanosecond time scales

1 reference

12 December 2020

Ordered water structure around a B-DNA dodecamer. A quantitative study

1 reference

12 December 2020

Identifiers

DOI

10.1021/JA805405A

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19191698%20AND%20SRC:MED&resulttype=core&format=json

20 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19191698%20AND%20SRC:MED&resulttype=core&format=json

20 January 2020

PubMed publication ID

19191698

1 reference