Literature DB >> 22956454

Sequence, stability, and structure of G-quadruplexes and their interactions with drugs.

Yuwei Chen1, Danzhou Yang.   

Abstract

Although DNA is most widely known for its ability to store and pass along genetic information, the discovery of G-quadruplex structures has illuminated a new role for DNA in biology. DNA G-quadruplexes are four-stranded globular nucleic acid secondary structures formed in specific G-rich sequences with biological significance, such as human telomeres and oncogene promoters. This review focuses on the unimolecular DNA G-quadruplexes, which can readily form in solution under physiological conditions and are considered to be the most biologically relevant. Available structural data show a great conformational diversity of unimolecular G-quadruplexes, which are amenable to small-molecule drug targeting. The relationships between sequence, structure, and stability of unimolecular DNA G-quadruplexes, as well as the recent progress on interactions with small-molecule compounds and insights into rational design of G-quadruplex-interactive molecules, will be discussed.

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Year:  2012        PMID: 22956454      PMCID: PMC3463244          DOI: 10.1002/0471142700.nc1705s50

Source DB:  PubMed          Journal:  Curr Protoc Nucleic Acid Chem        ISSN: 1934-9270


  81 in total

Review 1.  Targeting telomeres and telomerase.

Authors:  Anne De Cian; Laurent Lacroix; Céline Douarre; Nassima Temime-Smaali; Chantal Trentesaux; Jean-François Riou; Jean-Louis Mergny
Journal:  Biochimie       Date:  2007-07-24       Impact factor: 4.079

Review 2.  Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions.

Authors:  Yong Qin; Laurence H Hurley
Journal:  Biochimie       Date:  2008-02-29       Impact factor: 4.079

3.  DNA torsional stress propagates through chromatin fiber and participates in transcriptional regulation.

Authors:  Christophe Lavelle
Journal:  Nat Struct Mol Biol       Date:  2008-02       Impact factor: 15.369

4.  Structural basis of DNA quadruplex recognition by an acridine drug.

Authors:  Nancy H Campbell; Gary N Parkinson; Anthony P Reszka; Stephen Neidle
Journal:  J Am Chem Soc       Date:  2008-05-06       Impact factor: 15.419

Review 5.  Polymorphism of human telomeric quadruplex structures.

Authors:  Jixun Dai; Megan Carver; Danzhou Yang
Journal:  Biochimie       Date:  2008-03-08       Impact factor: 4.079

6.  The functional response of upstream DNA to dynamic supercoiling in vivo.

Authors:  Fedor Kouzine; Suzanne Sanford; Zichrini Elisha-Feil; David Levens
Journal:  Nat Struct Mol Biol       Date:  2008-01-13       Impact factor: 15.369

7.  Intramolecularly folded G-quadruplex and i-motif structures in the proximal promoter of the vascular endothelial growth factor gene.

Authors:  Kexiao Guo; Vijay Gokhale; Laurence H Hurley; Daekyu Sun
Journal:  Nucleic Acids Res       Date:  2008-07-09       Impact factor: 16.971

8.  Characterization of the G-quadruplexes in the duplex nuclease hypersensitive element of the PDGF-A promoter and modulation of PDGF-A promoter activity by TMPyP4.

Authors:  Yong Qin; Evonne M Rezler; Vijay Gokhale; Daekyu Sun; Laurence H Hurley
Journal:  Nucleic Acids Res       Date:  2007-11-05       Impact factor: 16.971

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

Authors:  Anh Tuân Phan; Vitaly Kuryavyi; Kim Ngoc Luu; Dinshaw J Patel
Journal:  Nucleic Acids Res       Date:  2007-09-25       Impact factor: 16.971

10.  A novel G-quadruplex-forming GGA repeat region in the c-myb promoter is a critical regulator of promoter activity.

Authors:  SunMi L Palumbo; Regan M Memmott; Diana J Uribe; Yulia Krotova-Khan; Laurence H Hurley; Scot W Ebbinghaus
Journal:  Nucleic Acids Res       Date:  2008-02-05       Impact factor: 16.971

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  33 in total

1.  High-Throughput Screening of G-Quadruplex Ligands by FRET Assay.

Authors:  Kaibo Wang; Daniel P Flaherty; Lan Chen; Danzhou Yang
Journal:  Methods Mol Biol       Date:  2019

2.  Characterization of regulatory sequences in alternative promoters of hypermethylated genes associated with tumor resistance to cisplatin.

Authors:  Mohammed A Ibrahim-Alobaide; Abdelsalam G Abdelsalam; Hytham Alobydi; Kakil Ibrahim Rasul; Ruiwen Zhang; Kalkunte S Srivenugopal
Journal:  Mol Clin Oncol       Date:  2014-11-27

3.  Folding/unfolding kinetics of G-quadruplexes upstream of the P1 promoter of the human BCL-2 oncogene.

Authors:  Yuanlei Cheng; Qingnan Tang; Yutong Li; Yashuo Zhang; Chuyuan Zhao; Jie Yan; Huijuan You
Journal:  J Biol Chem       Date:  2019-02-20       Impact factor: 5.157

4.  Thermodynamic characterization of human telomere quadruplex unfolding.

Authors:  R Buscaglia; R D Gray; J B Chaires
Journal:  Biopolymers       Date:  2013-12       Impact factor: 2.505

5.  Nucleic Acid Conformation Influences Postsynthetic Suzuki-Miyaura Labeling of Oligonucleotides.

Authors:  Manisha B Walunj; Seergazhi G Srivatsan
Journal:  Bioconjug Chem       Date:  2020-10-22       Impact factor: 4.774

6.  Conformations of Human Telomeric G-Quadruplex Studied Using a Nucleotide-Independent Nitroxide Label.

Authors:  Xiaojun Zhang; Cui-Xia Xu; Rosa Di Felice; Jiri Sponer; Barira Islam; Petr Stadlbauer; Yuan Ding; Lingling Mao; Zong-Wan Mao; Peter Z Qin
Journal:  Biochemistry       Date:  2015-12-31       Impact factor: 3.162

7.  Structure and hydrodynamics of a DNA G-quadruplex with a cytosine bulge.

Authors:  Markus Meier; Aniel Moya-Torres; Natalie J Krahn; Matthew D McDougall; George L Orriss; Ewan K S McRae; Evan P Booy; Kevin McEleney; Trushar R Patel; Sean A McKenna; Jörg Stetefeld
Journal:  Nucleic Acids Res       Date:  2018-06-01       Impact factor: 16.971

8.  Structural recognition of the MYC promoter G-quadruplex by a quinoline derivative: insights into molecular targeting of parallel G-quadruplexes.

Authors:  Jonathan Dickerhoff; Jixun Dai; Danzhou Yang
Journal:  Nucleic Acids Res       Date:  2021-06-04       Impact factor: 16.971

9.  Probing G-quadruplex topologies and recognition concurrently in real time and 3D using a dual-app nucleoside probe.

Authors:  Ashok Nuthanakanti; Ishtiyaq Ahmed; Saddam Y Khatik; Kayarat Saikrishnan; Seergazhi G Srivatsan
Journal:  Nucleic Acids Res       Date:  2019-07-09       Impact factor: 16.971

10.  DDX5 helicase resolves G-quadruplex and is involved in MYC gene transcriptional activation.

Authors:  Guanhui Wu; Zheng Xing; Elizabeth J Tran; Danzhou Yang
Journal:  Proc Natl Acad Sci U S A       Date:  2019-09-23       Impact factor: 11.205

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