(Q35017806)

5 August 2017

Explaining the varied glycosidic conformational, G-tract length and sequence preferences for anti-parallel G-quadruplexes (English)

1 reference

5 August 2017

Thomas E. Cheatham, III

series ordinal

3

object named as

Thomas E Cheatham

1 reference

5 August 2017

2

Jiří Šponer

1 reference

5 August 2017

Xiaohui Cang

1

1 reference

PubMed ID

21296760

5 August 2017

language of work or name

English

0 references

publication date

3 February 2011

1 reference

5 August 2017

14

1 reference

inferred from page(s)

published in

Nucleic Acids Research

1 reference

5 August 2017

39

1 reference

5 August 2017

10

1 reference

5 August 2017

4499-4512

1 reference

Creative Commons Attribution-NonCommercial 2.5 Generic

5 August 2017

start time

4 October 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Solution Structure of a Unique G-Quadruplex Scaffold Adopted by a Guanosine-Rich Human Intronic Sequence

8 July 2018

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A measure of bending in nucleic acids structures applied to A-tract DNA.

8 July 2018

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Structure of a two-G-tetrad intramolecular G-quadruplex formed by a variant human telomeric sequence in K+ solution: insights into the interconversion of human telomeric G-quadruplex structures

8 July 2018

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A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA.

8 July 2018

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A G-Rich Sequence within the c-kit Oncogene Promoter Forms a Parallel G-Quadruplex Having Asymmetric G-Tetrad Dynamics

8 July 2018

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G-quadruplex structures: in vivo evidence and function

8 July 2018

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The structures of quadruplex nucleic acids and their drug complexes

8 July 2018

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Dramatic effect of single-base mutation on the conformational dynamics of human telomeric G-quadruplex

8 July 2018

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Function and targeting of G-quadruplexes

8 July 2018

1 reference

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Structure of the Human Telomere in K + Solution: A Stable Basket-Type G-Quadruplex with Only Two G-Tetrad Layers

8 July 2018

1 reference

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Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations

8 July 2018

1 reference

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Nature and magnitude of aromatic stacking of nucleic acid bases

8 July 2018

1 reference

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Polymorphism of human telomeric quadruplex structures

8 July 2018

1 reference

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Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions

8 July 2018

1 reference

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Human telomere, oncogenic promoter and 5'-UTR G-quadruplexes: diverse higher order DNA and RNA targets for cancer therapeutics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structure of two intramolecular G-quadruplexes formed by natural human telomere sequences in K+ solution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structure of the Hybrid-2 type intramolecular human telomeric G-quadruplex in K+ solution: insights into structure polymorphism of the human telomeric sequence

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structure of the intramolecular human telomeric G-quadruplex in potassium solution: a novel adenine triple formation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Refinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformers

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structural basis for binding of porphyrin to human telomeres

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

A new modified thrombin binding aptamer containing a 5'-5' inversion of polarity site

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Quadruplex DNA: sequence, topology and structure

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Crystallization and characterization of the thallium form of the Oxytricha nova G-quadruplex

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structure of the human telomere in K+ solution: an intramolecular (3 + 1) G-quadruplex scaffold

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Engineering the quadruplex fold: nucleoside conformation determines both folding topology and molecularity in guanine quadruplexes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

The RCSB PDB information portal for structural genomics

8 July 2018

1 reference

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(3 + 1) Assembly of three human telomeric repeats into an asymmetric dimeric G-quadruplex

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

8-methyl-2'-deoxyguanosine incorporation into parallel DNA quadruplex structures

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

The Amber biomolecular simulation programs

8 July 2018

1 reference

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The effect of chemical modifications on the thermal stability of different G-quadruplex-forming oligonucleotides

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

An interlocked dimeric parallel-stranded DNA quadruplex: a potent inhibitor of HIV-1 integrase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

UCSF Chimera--a visualization system for exploratory research and analysis

8 July 2018

1 reference

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NMR structure of the thrombin-binding DNA aptamer stabilized by Sr2+.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Helix formation by guanylic acid

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Formation pathways of a guanine-quadruplex DNA revealed by molecular dynamics and thermodynamic analysis of the substates

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

The solution structure of d(G(4)T(4)G(3))(2): a bimolecular G-quadruplex with a novel fold

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Crystal structure of the potassium form of an Oxytricha nova G-quadruplex

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Crystal structure of parallel quadruplexes from human telomeric DNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

An intramolecular quadruplex of (GGA)(4) triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

V-shaped scaffold: a new architectural motif identified in an A x (G x G x G x G) pentad-containing dimeric DNA quadruplex involving stacked G(anti) x G(anti) x G(anti) x G(syn) tetrads

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

DNA G-quartets in a 1.86 A resolution structure of an Oxytricha nova telomeric protein-DNA complex

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

A double chain reversal loop and two diagonal loops define the architecture of a unimolecular DNA quadruplex containing a pair of stacked G(syn)-G(syn)-G(anti)-G(anti) tetrads flanked by a G-(T-T) Triad and a T-T-T triple

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

G-quadruplex DNA structures--variations on a theme

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

A two-stranded template-based approach to G.(C-A) triad formation: designing novel structural elements into an existing DNA framework

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

G-Quadruplex DNA as a target for drug design

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structures of the potassium-saturated, 2:1, and intermediate, 1:1, forms of a quadruplex DNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

G-quadruplex DNA: a potential target for anti-cancer drug design

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

G-quadruplexes as targets for drug design

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

A dimeric DNA interface stabilized by stacked A.(G.G.G.G).A hexads and coordinated monovalent cations

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

A diamond-shaped zipper-like DNA architecture containing triads sandwiched between mismatches and tetrads

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

The effect of sodium, potassium and ammonium ions on the conformation of the dimeric quadruplex formed by the Oxytricha nova telomere repeat oligonucleotide d(G(4)T(4)G(4))

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Following G-quartet formation by UV-spectroscopy

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Solution structure of a Na cation stabilized DNA quadruplex containing G.G.G.G and G.C.G.C tetrads formed by G-G-G-C repeats observed in adeno-associated viral DNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Bombyx mori single repeat telomeric DNA sequence forms a G-quadruplex capped by base triads

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Determination of the number and location of the manganese binding sites of DNA quadruplexes in solution by EPR and NMR in the presence and absence of thrombin

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Solution structure of a parallel-stranded G-quadruplex DNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Three-dimensional solution structure of the thrombin-binding DNA aptamer d(GGTTGGTGTGGTTGG)

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

The structure of alpha-thrombin inhibited by a 15-mer single-stranded DNA aptamer

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Solution structure of the human telomeric repeat d[AG3(T2AG3)3] G-tetraplex

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Refined solution structure of the dimeric quadruplex formed from the Oxytricha telomeric oligonucleotide d(GGGGTTTTGGGG)

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structural properties of the [d(G3T4G3)]2 quadruplex: evidence for sequential syn-syn deoxyguanosines

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Formation of parallel four-stranded complexes by guanine-rich motifs in DNA and its implications for meiosis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Conservation of the human telomere sequence (TTAGGG)n among vertebrates

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Characterization by 1H NMR of glycosidic conformations in the tetramolecular complex formed by d(GGTTTTTGG).

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Multinuclear nuclear magnetic resonance studies of Na cation-stabilized complex formed by d(G-G-T-T-T-T-C-G-G) in solution. Implications for G-tetrad structures

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3105399

Structural diversity and extreme stability of unimolecular Oxytricha nova telomeric G-quadruplex.

8 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Structural polymorphism of the four-repeat Oxytricha nova telomeric DNA sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

The formation pathway of tetramolecular G-quadruplexes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Comparison of simple potential functions for simulating liquid water

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Predictive modelling of topology and loop variations in dimeric DNA quadruplex structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Solution structure of the biologically relevant G-quadruplex element in the human c-MYC promoter. Implications for G-quadruplex stabilization

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

205Tl NMR methods for the characterization of monovalent cation binding to nucleic acids

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Dynamics of B-DNA on the microsecond time scale.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Small change in a G-rich sequence, a dramatic change in topology: new dimeric G-quadruplex folding motif with unique loop orientations

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Structural dynamics and cation interactions of DNA quadruplex molecules containing mixed guanine/cytosine quartets revealed by large-scale MD simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Effects of an 8-bromodeoxyguanosine incorporation on the parallel quadruplex structure [d(TGGGT)]4.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

A conformationally constrained nucleotide analogue controls the folding topology of a DNA g-quadruplex

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Performance of Molecular Mechanics Force Fields for RNA Simulations: Stability of UUCG and GNRA Hairpins

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Dependence of A-RNA simulations on the choice of the force field and salt strength

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

Nature of Base Stacking: Reference Quantum-Chemical Stacking Energies in Ten Unique B-DNA Base-Pair Steps

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKR031

G-quadruplexes: from guanine gels to chemotherapeutics

21 January 2018

1 reference

12 December 2020

Effect of G-tract length on the topology and stability of intramolecular DNA quadruplexes

1 reference

12 December 2020

An Ambiguous Structure of a DNA 15-mer Thrombin Complex

1 reference

12 December 2020

d(G3T4G4) forms unusual dimeric G-quadruplex structure with the same general fold in the presence of K+, Na+ or NH4+ ions

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKR031

1 reference

release_bnme27fmrnfwvnwwc3rfoqkqsq

5 August 2017

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/bnme27fmrnfwvnwwc3rfoqkqsq

24 November 2022

mapped directly with Wikidata item

PMCID

3105399

1 reference

5 August 2017

1 reference

PubMed ID

21296760