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Volumn 12, Issue 11, 2013, Pages 964-971

Contribution of DNA unwrapping from histone octamers to the repair of oxidatively damaged DNA in nucleosomes

Author keywords

Base excision repair; Chromatin; DNA unwrapping kinetics; Human NTH1 kinetics; Nucleosome dynamics

Indexed keywords

DNA; DNA 5S; HISTONE; OCTAMER TRANSCRIPTION FACTOR; REACTIVE OXYGEN METABOLITE;

EID: 84887139861     PISSN: 15687864     EISSN: 15687856     Source Type: Journal    
DOI: 10.1016/j.dnarep.2013.08.010     Document Type: Article
Times cited : (31)

References (51)
  • 1
    • 34250900982 scopus 로고    scopus 로고
    • Base-excision repair of oxidative DNA damage
    • David S.S., O'Shea V.L., Kundu S. Base-excision repair of oxidative DNA damage. Nature 2007, 447:941-950.
    • (2007) Nature , vol.447 , pp. 941-950
    • David, S.S.1    O'Shea, V.L.2    Kundu, S.3
  • 3
    • 84867466090 scopus 로고    scopus 로고
    • Oxidatively induced DNA damage: mechanisms, repair and disease
    • Dizdaroglu M. Oxidatively induced DNA damage: mechanisms, repair and disease. Cancer Letters 2012, 327:26-47.
    • (2012) Cancer Letters , vol.327 , pp. 26-47
    • Dizdaroglu, M.1
  • 4
    • 33847613569 scopus 로고    scopus 로고
    • Oxidative DNA damage repair in mammalian cells: a new perspective
    • Hazra T.K., Das A., Das S., Choudhury S., Kow Y.W., Roy R. Oxidative DNA damage repair in mammalian cells: a new perspective. DNA Repair 2007, 6:470-480.
    • (2007) DNA Repair , vol.6 , pp. 470-480
    • Hazra, T.K.1    Das, A.2    Das, S.3    Choudhury, S.4    Kow, Y.W.5    Roy, R.6
  • 5
    • 38049112778 scopus 로고    scopus 로고
    • Early steps in the DNA base excision/single-strand interruption repair pathway in mammalian cells
    • Hegde M.L., Hazra T.K., Mitra S. Early steps in the DNA base excision/single-strand interruption repair pathway in mammalian cells. Cell Research 2008, 18:27-47.
    • (2008) Cell Research , vol.18 , pp. 27-47
    • Hegde, M.L.1    Hazra, T.K.2    Mitra, S.3
  • 7
    • 1842411320 scopus 로고    scopus 로고
    • Crystal structure of the nucleosome core particle at 2.8Å resolution
    • Luger K., Mader A.W., Richmond R.K., Sargent D.F., Richmond T.J. Crystal structure of the nucleosome core particle at 2.8Å resolution. Nature 1997, 389:251-260.
    • (1997) Nature , vol.389 , pp. 251-260
    • Luger, K.1    Mader, A.W.2    Richmond, R.K.3    Sargent, D.F.4    Richmond, T.J.5
  • 9
    • 75749101495 scopus 로고    scopus 로고
    • Chromatin remodelling during development
    • Ho L., Crabtree G.R. Chromatin remodelling during development. Nature 2010, 463:474-484.
    • (2010) Nature , vol.463 , pp. 474-484
    • Ho, L.1    Crabtree, G.R.2
  • 10
    • 80052970429 scopus 로고    scopus 로고
    • Mechanisms for ATP-dependent chromatin remodelling: the means to the end
    • Flaus A., Owen-Hughes T. Mechanisms for ATP-dependent chromatin remodelling: the means to the end. FEBS Journal 2011, 278:3579-3595.
    • (2011) FEBS Journal , vol.278 , pp. 3579-3595
    • Flaus, A.1    Owen-Hughes, T.2
  • 11
    • 79951969175 scopus 로고    scopus 로고
    • Histone chaperones: modulators of chromatin marks
    • Avvakumov N., Nourani A., Cote J. Histone chaperones: modulators of chromatin marks. Molecular Cell 2011, 41:502-514.
    • (2011) Molecular Cell , vol.41 , pp. 502-514
    • Avvakumov, N.1    Nourani, A.2    Cote, J.3
  • 12
  • 13
    • 34147162118 scopus 로고    scopus 로고
    • ATP-dependent chromatin remodeling factors and DNA damage repair
    • Osley M.A., Tsukuda T., Nickoloff J.A. ATP-dependent chromatin remodeling factors and DNA damage repair. Mutation Research 2007, 618:65-80.
    • (2007) Mutation Research , vol.618 , pp. 65-80
    • Osley, M.A.1    Tsukuda, T.2    Nickoloff, J.A.3
  • 15
    • 84872398729 scopus 로고    scopus 로고
    • Transcription-associated histone modifications and cryptic transcription
    • Smolle M., Workman J.L. Transcription-associated histone modifications and cryptic transcription. Biochimica et Biophysica Acta 2013, 1829:84-97.
    • (2013) Biochimica et Biophysica Acta , vol.1829 , pp. 84-97
    • Smolle, M.1    Workman, J.L.2
  • 16
    • 34548239142 scopus 로고    scopus 로고
    • ATP-dependent chromatin remodeling is required for base excision repair in conventional but not in variant H2A.Bbd nucleosomes
    • Menoni H., Gasparutto D., Hamiche A., Cadet J., Dimitrov S., Bouvet P., Angelov D. ATP-dependent chromatin remodeling is required for base excision repair in conventional but not in variant H2A.Bbd nucleosomes. Molecular and Cellular Biology 2007, 27:5949-5956.
    • (2007) Molecular and Cellular Biology , vol.27 , pp. 5949-5956
    • Menoni, H.1    Gasparutto, D.2    Hamiche, A.3    Cadet, J.4    Dimitrov, S.5    Bouvet, P.6    Angelov, D.7
  • 18
    • 34547850642 scopus 로고    scopus 로고
    • Different structural states in oligonucleosomes are required for early versus late steps of base excision repair
    • Nakanishi S., Prasad R., Wilson S.H., Smerdon M. Different structural states in oligonucleosomes are required for early versus late steps of base excision repair. Nucleic Acids Research 2007, 35:4313-4321.
    • (2007) Nucleic Acids Research , vol.35 , pp. 4313-4321
    • Nakanishi, S.1    Prasad, R.2    Wilson, S.H.3    Smerdon, M.4
  • 19
    • 84867452253 scopus 로고    scopus 로고
    • Pathways for repairing and tolerating the spectrum of oxidative DNA lesions
    • Berquist B.R., Wilson D.M. Pathways for repairing and tolerating the spectrum of oxidative DNA lesions. Cancer Letters 2012, 327:61-72.
    • (2012) Cancer Letters , vol.327 , pp. 61-72
    • Berquist, B.R.1    Wilson, D.M.2
  • 20
    • 37549004382 scopus 로고    scopus 로고
    • Initiation of base excision repair of oxidative lesions in nucleosomes by the human, bifunctional DNA glycosylase NTH1
    • Prasad A., Wallace S.S., Pederson D.S. Initiation of base excision repair of oxidative lesions in nucleosomes by the human, bifunctional DNA glycosylase NTH1. Molecular and Cellular Biology 2007, 27:8442-8453.
    • (2007) Molecular and Cellular Biology , vol.27 , pp. 8442-8453
    • Prasad, A.1    Wallace, S.S.2    Pederson, D.S.3
  • 22
    • 0028791330 scopus 로고
    • Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation
    • Polach K.J., Widom J. Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation. Journal of Molecular Biology 1995, 254:130-149.
    • (1995) Journal of Molecular Biology , vol.254 , pp. 130-149
    • Polach, K.J.1    Widom, J.2
  • 23
    • 0034598944 scopus 로고    scopus 로고
    • Sequence and position-dependence of the equilibrium accessibility of nucleosomal DNA target sites
    • Anderson J.D., Widom J. Sequence and position-dependence of the equilibrium accessibility of nucleosomal DNA target sites. Journal of Molecular Biology 2000, 296:979-987.
    • (2000) Journal of Molecular Biology , vol.296 , pp. 979-987
    • Anderson, J.D.1    Widom, J.2
  • 24
    • 0032493667 scopus 로고    scopus 로고
    • Evidence that partial unwrapping of DNA from nucleosomes facilitates the binding of heat shock factor following DNA replication in yeast
    • Geraghty D.S., Sucic H.B., Chen J., Pederson D.S. Evidence that partial unwrapping of DNA from nucleosomes facilitates the binding of heat shock factor following DNA replication in yeast. Journal of Biological Chemistry 1998, 273:20463-20472.
    • (1998) Journal of Biological Chemistry , vol.273 , pp. 20463-20472
    • Geraghty, D.S.1    Sucic, H.B.2    Chen, J.3    Pederson, D.S.4
  • 25
    • 75149158767 scopus 로고    scopus 로고
    • Non-specific DNA binding interferes with the efficient excision of oxidative lesions from chromatin by the human DNA glycosylase, NEIL1
    • Odell I.D., Newick K., Heintz N.H., Wallace S.S., Pederson D.S. Non-specific DNA binding interferes with the efficient excision of oxidative lesions from chromatin by the human DNA glycosylase, NEIL1. DNA Repair 2010, 9:134-143.
    • (2010) DNA Repair , vol.9 , pp. 134-143
    • Odell, I.D.1    Newick, K.2    Heintz, N.H.3    Wallace, S.S.4    Pederson, D.S.5
  • 26
    • 38349143342 scopus 로고    scopus 로고
    • Accumulation of oxidatively induced DNA damage in human breast cancer cell lines following treatment with hydrogen peroxide
    • Nyaga S.G., Jaruga P., Lohani A., Dizdaroglu M., Evans M.K. Accumulation of oxidatively induced DNA damage in human breast cancer cell lines following treatment with hydrogen peroxide. Cell Cycle 2007, 6:1472-1478.
    • (2007) Cell Cycle , vol.6 , pp. 1472-1478
    • Nyaga, S.G.1    Jaruga, P.2    Lohani, A.3    Dizdaroglu, M.4    Evans, M.K.5
  • 29
    • 0032555571 scopus 로고    scopus 로고
    • Purification and characterization of human NTH1, a homolog of Escherichia coli endonuclease III. Direct identification of Lys-212 as the active nucleophilic residue
    • Ikeda S., Biswas T., Roy R., Izumi T., Boldogh I., Kurosky A., Sarker A.H., Seki S., Mitra S. Purification and characterization of human NTH1, a homolog of Escherichia coli endonuclease III. Direct identification of Lys-212 as the active nucleophilic residue. Journal of Biological Chemistry 1998, 273:21585-21593.
    • (1998) Journal of Biological Chemistry , vol.273 , pp. 21585-21593
    • Ikeda, S.1    Biswas, T.2    Roy, R.3    Izumi, T.4    Boldogh, I.5    Kurosky, A.6    Sarker, A.H.7    Seki, S.8    Mitra, S.9
  • 31
    • 0348010372 scopus 로고    scopus 로고
    • In vitro and in vivo dimerization of human endonuclease III stimulates its activity
    • Liu X., Choudhury S., Roy R. In vitro and in vivo dimerization of human endonuclease III stimulates its activity. Journal of Biological Chemistry 2003, 278:50061-50069.
    • (2003) Journal of Biological Chemistry , vol.278 , pp. 50061-50069
    • Liu, X.1    Choudhury, S.2    Roy, R.3
  • 32
    • 34247133810 scopus 로고    scopus 로고
    • Rapid determination of the active fraction of DNA repair glycosylases: a novel fluorescence assay for trapped intermediates
    • Blaisdell J.O., Wallace S.S. Rapid determination of the active fraction of DNA repair glycosylases: a novel fluorescence assay for trapped intermediates. Nucleic Acids Research 2007, 35:1601-1611.
    • (2007) Nucleic Acids Research , vol.35 , pp. 1601-1611
    • Blaisdell, J.O.1    Wallace, S.S.2
  • 34
    • 0642315208 scopus 로고
    • Transient-state kinetic analysis of enzyme reaction pathways
    • Johnson K.A. Transient-state kinetic analysis of enzyme reaction pathways. Enzymes 1992, 20:1-61.
    • (1992) Enzymes , vol.20 , pp. 1-61
    • Johnson, K.A.1
  • 35
    • 0015177581 scopus 로고
    • Transients and relaxation kinetics of enzyme reactions
    • Gutfreund H. Transients and relaxation kinetics of enzyme reactions. Annual Review of Biochemistry 1971, 40:315-344.
    • (1971) Annual Review of Biochemistry , vol.40 , pp. 315-344
    • Gutfreund, H.1
  • 36
    • 0032512794 scopus 로고    scopus 로고
    • New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning
    • Lowary P.T., Widom J. New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning. Journal of Molecular Biology 1998, 276:19-42.
    • (1998) Journal of Molecular Biology , vol.276 , pp. 19-42
    • Lowary, P.T.1    Widom, J.2
  • 41
    • 59849116500 scopus 로고    scopus 로고
    • Nucleosome dynamics as studied by single-pair fluorescence resonance energy transfer: a reevaluation
    • Tomschik M., van Holde K., Zlatanova J. Nucleosome dynamics as studied by single-pair fluorescence resonance energy transfer: a reevaluation. Journal of Fluorescence 2009, 19:53-62.
    • (2009) Journal of Fluorescence , vol.19 , pp. 53-62
    • Tomschik, M.1    van Holde, K.2    Zlatanova, J.3
  • 42
    • 77957252758 scopus 로고    scopus 로고
    • Crystal structures of nucleosome core particles containing the '601' strong positioning sequence
    • Vasudevan D., Chua E.Y., Davey C.A. Crystal structures of nucleosome core particles containing the '601' strong positioning sequence. Journal of Molecular Biology 2010, 403:1-10.
    • (2010) Journal of Molecular Biology , vol.403 , pp. 1-10
    • Vasudevan, D.1    Chua, E.Y.2    Davey, C.A.3
  • 48
    • 77952580830 scopus 로고    scopus 로고
    • RPA physically interacts with the human DNA glycosylase NEIL1 to regulate excision of oxidative DNA base damage in primer-template structures
    • Theriot C.A., Hegde M.L., Hazra T.K., Mitra S. RPA physically interacts with the human DNA glycosylase NEIL1 to regulate excision of oxidative DNA base damage in primer-template structures. DNA Repair 2010, 9:643-652.
    • (2010) DNA Repair , vol.9 , pp. 643-652
    • Theriot, C.A.1    Hegde, M.L.2    Hazra, T.K.3    Mitra, S.4
  • 49
    • 41249094475 scopus 로고    scopus 로고
    • Interaction of the human DNA glycosylase NEIL1 with proliferating cell nuclear antigen. The potential for replication-associated repair of oxidized bases in mammalian genomes
    • Dou H., Theriot C.A., Das A., Hegde M.L., Matsumoto Y., Boldogh I., Hazra T.K., Bhakat K.K., Mitra S. Interaction of the human DNA glycosylase NEIL1 with proliferating cell nuclear antigen. The potential for replication-associated repair of oxidized bases in mammalian genomes. Journal of Biological Chemistry 2008, 283:3130-3140.
    • (2008) Journal of Biological Chemistry , vol.283 , pp. 3130-3140
    • Dou, H.1    Theriot, C.A.2    Das, A.3    Hegde, M.L.4    Matsumoto, Y.5    Boldogh, I.6    Hazra, T.K.7    Bhakat, K.K.8    Mitra, S.9
  • 51
    • 35848958821 scopus 로고    scopus 로고
    • Chromatin remodeling: insights and intrigue from single-molecule studies
    • Cairns B.R. Chromatin remodeling: insights and intrigue from single-molecule studies. Nature Structural & Molecular Biology 2007, 14:989-996.
    • (2007) Nature Structural & Molecular Biology , vol.14 , pp. 989-996
    • Cairns, B.R.1


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