(Q30490647)

18 September 2017

Triplex hydration: nanosecond molecular dynamics simulation of the solvated triplex formed by mixed sequences (English)

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molecular dynamics simulation

18 September 2017

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author name string

Rajendra P Ojha

series ordinal

1

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18 September 2017

Rakesh K Tiwari

series ordinal

2

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18 September 2017

language of work or name

English

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publication date

1 November 2003

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18 September 2017

8

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inferred from page(s)

published in

Nucleic Acids Research

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18 September 2017

31

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18 September 2017

21

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18 September 2017

6373-6380

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NMR - this other method for protein and nucleic acid structure determination.

18 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Detection and determination of oligonucleotide triplex formation-mediated transcription-coupled DNA repair in HeLa nuclear extracts

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Water and ion binding around r(UpA)12 and d(TpA)12 oligomers--comparison with RNA and DNA (CpG)12 duplexes.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Parallel and antiparallel (G.GC)2 triple helix fragments in a crystal structure

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Hydration sites in purine.purine.pyrimidine and pyrimidine.purine.pyrimidine DNA triplexes in aqueous solution

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Solution structure of a pyrimidine.purine.pyrimidine DNA triplex containing T.AT, C+.GC and G.TA triples

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Stereoelectronic effects of deoxyribose O4' on DNA conformation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Nucleic Acid Hybridization: Triplex Stability and Energetics

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Hydration and solution structure of nucleic acids

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

20 June 2018

Triplex DNA structures.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Role of interaction energy in the specificity of transcription. II-The Watson Crick A-U base pair template.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Role of interaction energy in the specificity of transcription. I-The Watson Crick G-C base pair template

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Site-specific oligonucleotide binding represses transcription of the human c-myc gene in vitro

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

The complex of poly(dG).poly(dC) with arginine: stabilization of the B form and transition to multistranded structures

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Sequence-specific cleavage of double helical DNA by triple helix formation.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Water: an integral part of nucleic acid structure

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Second structural motif for recognition of DNA by oligonucleotide-directed triple-helix formation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Specific inhibition of transcription by triple helix-forming oligonucleotides

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

The influence of single base triplet changes on the stability of a Pur·Pur·Pyr triple helix determined by affinity cleaving

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

A molecular dynamics study of conformational changes and hydration of left-handed d(CGCGCGCGCGCG)2 in a nonsalt solution

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Structural transitions of deoxyribonucleic acid in aqueous electrolyte solutions. II. The role of hydration

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Models of triple-stranded polynucleotides with optimised stereochemistry

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Molecular dynamics simulation study of DNA triplex formed by mixed sequences in solution.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275451

Chemical probing of homopurine-homopyrimidine mirror repeats in supercoiled DNA

26 November 2018

1 reference

12 December 2020

Sequence-independent recombination triple helices: a molecular dynamics study

1 reference

12 December 2020

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

1 reference

12 December 2020

Structural polymorphism in d(T)12.d(A)12*d(T)12 triple helices

1 reference

12 December 2020

Therapeutic Applications of Oligonucleotides

1 reference

12 December 2020

Formation of two- and three-Stranded Helical Molecules by Polyinosinic Acid and Polyadenylic Acid

1 reference

12 December 2020

The influence of Mg++ and Zn++ on polypurine-polypyrimidine multistranded helices

1 reference

12 December 2020

Molecular basis of drug action of some antibiotics

1 reference

12 December 2020

AN X-RAY DIFFRACTION STUDY OF POLY (A+U)

1 reference

12 December 2020

Determination of water structure around biomolecules using X-ray and neutron diffraction methods

1 reference

12 December 2020

Interaction energy studies of an antimetabolite 8-azaguanine during transcription

1 reference

12 December 2020

DNA conformation is determined by economics in the hydration of phosphate groups

1 reference

12 December 2020

Molecular dynamics simulation of the DNA triplex d(TC)5.d(GA)5.d(C+T)5

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKG796

1 reference

release_256cn3ghufdupng2zqiabrz3rq

18 September 2017

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/256cn3ghufdupng2zqiabrz3rq

24 November 2022

mapped directly with Wikidata item

1 reference

18 September 2017

PubMed publication ID

14576325

1 reference