Literature DB >> 19951355

Human telomeric G-quadruplex: thermodynamic and kinetic studies of telomeric quadruplex stability.

Jonathan B Chaires1.   

Abstract

Thermodynamic and kinetic studies complement high-resolution structures of G-quadruplexes. Such studies are essential for a thorough understanding of the mechanisms that govern quadruplex folding and conformational changes in quadruplexes. This perspective article reviews representative thermodynamic and kinetic studies of the folding of human telomeric quadruplex structures. Published thermodynamic data vary widely and are inconsistent; possible reasons for these inconsistencies are discussed. The key issue of whether such folding reactions are a simple two-state process is examined. A tentative energy balance for the folding of telomeric quadruplexes in Na(+) and K(+) solution, and for the conformational transition between these forms is presented.

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Year:  2009        PMID: 19951355      PMCID: PMC2896281          DOI: 10.1111/j.1742-4658.2009.07462.x

Source DB:  PubMed          Journal:  FEBS J        ISSN: 1742-464X            Impact factor:   5.542


  71 in total

1.  Heat capacity changes associated with guanine quadruplex formation: an isothermal titration calorimetry study.

Authors:  Pinaki R Majhi; Jianying Qi; Chung-Fei Tang; Richard H Shafer
Journal:  Biopolymers       Date:  2008-04       Impact factor: 2.505

Review 2.  UV Melting of G-Quadruplexes.

Authors:  Jean-Louis Mergny; Laurent Lacroix
Journal:  Curr Protoc Nucleic Acid Chem       Date:  2009-06

Review 3.  The structures of quadruplex nucleic acids and their drug complexes.

Authors:  Stephen Neidle
Journal:  Curr Opin Struct Biol       Date:  2009-05-30       Impact factor: 6.809

Review 4.  Four-stranded nucleic acids: structure, function and targeting of G-quadruplexes.

Authors:  Julian Leon Huppert
Journal:  Chem Soc Rev       Date:  2008-05-06       Impact factor: 54.564

5.  A sodium-potassium switch in the formation of four-stranded G4-DNA.

Authors:  D Sen; W Gilbert
Journal:  Nature       Date:  1990-03-29       Impact factor: 49.962

6.  Absorbance melting curves of RNA.

Authors:  J D Puglisi; I Tinoco
Journal:  Methods Enzymol       Date:  1989       Impact factor: 1.600

7.  Calculating thermodynamic data for transitions of any molecularity from equilibrium melting curves.

Authors:  L A Marky; K J Breslauer
Journal:  Biopolymers       Date:  1987-09       Impact factor: 2.505

8.  Energetics and kinetics of a conformational switch in G-quadruplex DNA.

Authors:  Robert D Gray; Jing Li; Jonathan B Chaires
Journal:  J Phys Chem B       Date:  2009-03-05       Impact factor: 2.991

9.  Predicting and understanding the stability of G-quadruplexes.

Authors:  Oliver Stegle; Linda Payet; Jean-Louis Mergny; David J C MacKay; Julian Huppert Leon
Journal:  Bioinformatics       Date:  2009-06-15       Impact factor: 6.937

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

Authors:  Ja Yil Lee; D S Kim
Journal:  Nucleic Acids Res       Date:  2009-04-09       Impact factor: 16.971

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  42 in total

Review 1.  A practical guide to studying G-quadruplex structures using single-molecule FRET.

Authors:  Parastoo Maleki; Jagat B Budhathoki; William A Roy; Hamza Balci
Journal:  Mol Genet Genomics       Date:  2017-02-01       Impact factor: 3.291

2.  ATP-dependent G-quadruplex unfolding by Bloom helicase exhibits low processivity.

Authors:  Jagat B Budhathoki; Edward J Stafford; Jaya G Yodh; Hamza Balci
Journal:  Nucleic Acids Res       Date:  2015-05-18       Impact factor: 16.971

3.  Folding and misfolding pathways of G-quadruplex DNA.

Authors:  Adrien Marchand; Valérie Gabelica
Journal:  Nucleic Acids Res       Date:  2016-10-19       Impact factor: 16.971

Review 4.  Making sense of G-quadruplex and i-motif functions in oncogene promoters.

Authors:  Tracy A Brooks; Samantha Kendrick; Laurence Hurley
Journal:  FEBS J       Date:  2010-07-29       Impact factor: 5.542

5.  Molecular dynamics simulations reveal the balance of forces governing the formation of a guanine tetrad-a common structural unit of G-quadruplex DNA.

Authors:  Mateusz Kogut; Cyprian Kleist; Jacek Czub
Journal:  Nucleic Acids Res       Date:  2016-03-14       Impact factor: 16.971

6.  Folding dynamics and conformational heterogeneity of human telomeric G-quadruplex structures in Na+ solutions by single molecule FRET microscopy.

Authors:  Sofie L Noer; Søren Preus; Daniel Gudnason; Mikayel Aznauryan; Jean-Louis Mergny; Victoria Birkedal
Journal:  Nucleic Acids Res       Date:  2015-11-28       Impact factor: 16.971

7.  Resolution and characterization of the structural polymorphism of a single quadruplex-forming sequence.

Authors:  Magdalena M Dailey; M Clarke Miller; Paula J Bates; Andrew N Lane; John O Trent
Journal:  Nucleic Acids Res       Date:  2010-03-25       Impact factor: 16.971

8.  RPA-mediated unfolding of systematically varying G-quadruplex structures.

Authors:  Sujay Ray; Mohammad H Qureshi; Dominic W Malcolm; Jagat B Budhathoki; Uğur Celik; Hamza Balci
Journal:  Biophys J       Date:  2013-05-21       Impact factor: 4.033

9.  Interactions of the human telomere sequence with the nanocavity of the α-hemolysin ion channel reveal structure-dependent electrical signatures for hybrid folds.

Authors:  Na An; Aaron M Fleming; Cynthia J Burrows
Journal:  J Am Chem Soc       Date:  2013-05-29       Impact factor: 15.419

10.  Repair of O6-methylguanine adducts in human telomeric G-quadruplex DNA by O6-alkylguanine-DNA alkyltransferase.

Authors:  Lance M Hellman; Tyler J Spear; Colton J Koontz; Manana Melikishvili; Michael G Fried
Journal:  Nucleic Acids Res       Date:  2014-07-30       Impact factor: 16.971

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