Literature DB >> 20964331

A bulky DNA lesion derived from a highly potent polycyclic aromatic tumorigen stabilizes nucleosome core particle structure.

Yuqin Cai1, Lihua Wang, Shuang Ding, Adam Schwaid, Nicholas E Geacintov, Suse Broyde.   

Abstract

The impact of a bulky DNA lesion on the structure and dynamics of a nucleosome core particle (NCP) containing a lesion derived from the unusually potent tumorigen dibenzo[a,l]pyrene that resists nucleotide excision repair (NER) in free DNA was investigated using 65 ns molecular dynamics simulations. Our results reveal that, relative to unmodified NCP, the lesion stabilizes the nucleosome via stacking interactions, improved Watson-Crick base pairing, hydrogen bonding between DNA and histones, and damped dynamics. These findings suggest that such lesions should be as resistant to NER in the nucleosome environment as they are in free DNA.

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Year:  2010        PMID： 20964331      PMCID： PMC2990886          DOI： 10.1021/bi101560y

Source DB:  PubMed          Journal:  Biochemistry        ISSN： 0006-2960            Impact factor:   3.162


  20 in total

1.  The Protein Data Bank.

Authors:  H M Berman; J Westbrook; Z Feng; G Gilliland; T N Bhat; H Weissig; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

Review 2.  Nature and nurture - lessons from chemical carcinogenesis.

Authors:  Andreas Luch
Journal:  Nat Rev Cancer       Date:  2005-02       Impact factor: 60.716

3.  DNA stretching and extreme kinking in the nucleosome core.

Authors:  Michelle S Ong; Timothy J Richmond; Curt A Davey
Journal:  J Mol Biol       Date:  2007-03-02       Impact factor: 5.469

Review 4.  Molecular mechanisms of mammalian global genome nucleotide excision repair.

Authors:  Ludovic C J Gillet; Orlando D Schärer
Journal:  Chem Rev       Date:  2006-02       Impact factor: 60.622

5.  Recognition of DNA adducts by human nucleotide excision repair. Evidence for a thermodynamic probing mechanism.

Authors:  D Gunz; M T Hess; H Naegeli
Journal:  J Biol Chem       Date:  1996-10-11       Impact factor: 5.157

Review 6.  Thermodynamic and structural factors in the removal of bulky DNA adducts by the nucleotide excision repair machinery.

Authors:  Nicholas E Geacintov; Suse Broyde; Tonko Buterin; Hanspeter Naegeli; Min Wu; Shixiang Yan; Dinshaw J Patel
Journal:  Biopolymers       Date:  2002-11-05       Impact factor: 2.505

7.  Minor groove orientation of the KWKK peptide tethered via the N-terminal amine to the acrolein-derived 1,N2-gamma-hydroxypropanodeoxyguanosine lesion with a trimethylene linkage.

Authors:  Hai Huang; Ivan D Kozekov; Albena Kozekova; Carmelo J Rizzo; Amanda K McCullough; R Stephen Lloyd; Michael P Stone
Journal:  Biochemistry       Date:  2010-07-27       Impact factor: 3.162

8.  Recognition of DNA damage by the Rad4 nucleotide excision repair protein.

Authors:  Jung-Hyun Min; Nikola P Pavletich
Journal:  Nature       Date:  2007-09-19       Impact factor: 49.962

Review 9.  On the impact of the molecule structure in chemical carcinogenesis.

Authors:  Andreas Luch
Journal:  EXS       Date:  2009

10.  The role of DNA shape in protein-DNA recognition.

Authors:  Remo Rohs; Sean M West; Alona Sosinsky; Peng Liu; Richard S Mann; Barry Honig
Journal:  Nature       Date:  2009-10-29       Impact factor: 49.962
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  7 in total

1.  Probing for DNA damage with β-hairpins: similarities in incision efficiencies of bulky DNA adducts by prokaryotic and human nucleotide excision repair systems in vitro.

Authors:  Yang Liu; Dara Reeves; Konstantin Kropachev; Yuqin Cai; Shuang Ding; Marina Kolbanovskiy; Alexander Kolbanovskiy; Judith L Bolton; Suse Broyde; Bennett Van Houten; Nicholas E Geacintov
Journal:  DNA Repair (Amst)       Date:  2011-07-08

2.  Identification and quantification of DNA adducts in the oral tissues of mice treated with the environmental carcinogen dibenzo[a,l]pyrene by HPLC-MS/MS.

Authors:  Shang-Min Zhang; Kun-Ming Chen; Cesar Aliaga; Yuan-Wan Sun; Jyh-Ming Lin; Arun K Sharma; Shantu Amin; Karam El-Bayoumy
Journal:  Chem Res Toxicol       Date:  2011-07-19       Impact factor: 3.739

3.  Nucleotide excision repair efficiencies of bulky carcinogen-DNA adducts are governed by a balance between stabilizing and destabilizing interactions.

Authors:  Yuqin Cai; Nicholas E Geacintov; Suse Broyde
Journal:  Biochemistry       Date:  2012-02-09       Impact factor: 3.162

4.  The structural location of DNA lesions in nucleosome core particles determines accessibility by base excision repair enzymes.

Authors:  Yesenia Rodriguez; Michael J Smerdon
Journal:  J Biol Chem       Date:  2013-03-29       Impact factor: 5.157

5.  Differences in the Access of Lesions to the Nucleotide Excision Repair Machinery in Nucleosomes.

Authors:  Yuqin Cai; Konstantin Kropachev; Michael A Terzidis; Annalisa Masi; Chryssostomos Chatgilialoglu; Vladimir Shafirovich; Nicholas E Geacintov; Suse Broyde
Journal:  Biochemistry       Date:  2015-06-30       Impact factor: 3.162

6.  Ribonucleotides as nucleotide excision repair substrates.

Authors:  Yuqin Cai; Nicholas E Geacintov; Suse Broyde
Journal:  DNA Repair (Amst)       Date:  2013-11-26

7.  Free energy profiles of base flipping in intercalative polycyclic aromatic hydrocarbon-damaged DNA duplexes: energetic and structural relationships to nucleotide excision repair susceptibility.

Authors:  Yuqin Cai; Han Zheng; Shuang Ding; Konstantin Kropachev; Adam G Schwaid; Yijin Tang; Hong Mu; Shenglong Wang; Nicholas E Geacintov; Yingkai Zhang; Suse Broyde
Journal:  Chem Res Toxicol       Date:  2013-07-02       Impact factor: 3.739
  7 in total

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