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For: Guliaev AB, Hang B, Singer B. Structural insights by molecular dynamics simulations into specificity of the major human AP endonuclease toward the benzene-derived DNA adduct, pBQ-C. Nucleic Acids Res 2004;32:2844-52. [PMID: 15155853 PMCID: PMC419600 DOI: 10.1093/nar/gkh594] [Citation(s) in RCA: 32] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]  Open
Number Cited by Other Article(s)
1
Davletgildeeva AT, Kuznetsova AA, Ishchenko AA, Saparbaev M, Kuznetsov NA. An Insight into the Mechanism of DNA Cleavage by DNA Endonuclease from the Hyperthermophilic Archaeon Pyrococcus furiosus. Int J Mol Sci 2024;25:8897. [PMID: 39201583 PMCID: PMC11354406 DOI: 10.3390/ijms25168897] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2024] [Revised: 08/08/2024] [Accepted: 08/14/2024] [Indexed: 09/02/2024]  Open
2
Kinetic Features of 3'-5'-Exonuclease Activity of Apurinic/Apyrimidinic Endonuclease Apn2 from Saccharomyces cerevisiae. Int J Mol Sci 2022;23:ijms232214404. [PMID: 36430884 PMCID: PMC9697762 DOI: 10.3390/ijms232214404] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2022] [Revised: 11/16/2022] [Accepted: 11/17/2022] [Indexed: 11/22/2022]  Open
3
Cai Y, Cao H, Wang F, Zhang Y, Kapranov P. Complex genomic patterns of abasic sites in mammalian DNA revealed by a high-resolution SSiNGLe-AP method. Nat Commun 2022;13:5868. [PMID: 36198706 PMCID: PMC9534904 DOI: 10.1038/s41467-022-33594-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2021] [Accepted: 09/23/2022] [Indexed: 11/30/2022]  Open
4
Senchurova SI, Syryamina VN, Kuznetsova AA, Novopashina DS, Ishchenko AA, Saparbaev M, Dzuba SA, Fedorova OS, Kuznetsov NA. The mechanism of damage recognition by apurinic/apyrimidinic endonuclease Nfo from Escherichia coli. Biochim Biophys Acta Gen Subj 2022;1866:130216. [PMID: 35905924 DOI: 10.1016/j.bbagen.2022.130216] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2022] [Revised: 06/18/2022] [Accepted: 07/18/2022] [Indexed: 12/12/2022]
5
Bulygin AA, Fedorova OS, Kuznetsov NA. Insights into Mechanisms of Damage Recognition and Catalysis by APE1-like Enzymes. Int J Mol Sci 2022;23:ijms23084361. [PMID: 35457179 PMCID: PMC9026830 DOI: 10.3390/ijms23084361] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2022] [Revised: 04/12/2022] [Accepted: 04/13/2022] [Indexed: 02/06/2023]  Open
6
Kuznetsova AA, Senchurova SI, Ishchenko AA, Saparbaev M, Fedorova OS, Kuznetsov NA. Common Kinetic Mechanism of Abasic Site Recognition by Structurally Different Apurinic/Apyrimidinic Endonucleases. Int J Mol Sci 2021;22:8874. [PMID: 34445579 PMCID: PMC8396254 DOI: 10.3390/ijms22168874] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Revised: 08/12/2021] [Accepted: 08/16/2021] [Indexed: 02/03/2023]  Open
7
Davletgildeeva AT, Kuznetsova AA, Fedorova OS, Kuznetsov NA. Activity of Human Apurinic/Apyrimidinic Endonuclease APE1 Toward Damaged DNA and Native RNA With Non-canonical Structures. Front Cell Dev Biol 2020;8:590848. [PMID: 33195255 PMCID: PMC7662432 DOI: 10.3389/fcell.2020.590848] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Accepted: 09/30/2020] [Indexed: 01/02/2023]  Open
8
Bulygin AA, Kuznetsova AA, Vorobjev YN, Fedorova OS, A. Kuznetsov N. The Role of Active-Site Plasticity in Damaged-Nucleotide Recognition by Human Apurinic/Apyrimidinic Endonuclease APE1. Molecules 2020;25:molecules25173940. [PMID: 32872297 PMCID: PMC7504742 DOI: 10.3390/molecules25173940] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2020] [Revised: 08/25/2020] [Accepted: 08/26/2020] [Indexed: 12/19/2022]  Open
9
Reading Targeted DNA Damage in the Active Demethylation Pathway: Role of Accessory Domains of Eukaryotic AP Endonucleases and Thymine-DNA Glycosylases. J Mol Biol 2020:S0022-2836(19)30720-X. [DOI: 10.1016/j.jmb.2019.12.020] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Revised: 11/24/2019] [Accepted: 12/05/2019] [Indexed: 01/07/2023]
10
Matkarimov BT, Saparbaev MK. DNA Repair and Mutagenesis in Vertebrate Mitochondria: Evidence for Asymmetric DNA Strand Inheritance. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2020;1241:77-100. [DOI: 10.1007/978-3-030-41283-8_6] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
11
Kuznetsova AA, Matveeva AG, Milov AD, Vorobjev YN, Dzuba SA, Fedorova OS, Kuznetsov NA. Substrate specificity of human apurinic/apyrimidinic endonuclease APE1 in the nucleotide incision repair pathway. Nucleic Acids Res 2019;46:11454-11465. [PMID: 30329131 PMCID: PMC6265485 DOI: 10.1093/nar/gky912] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2018] [Accepted: 10/10/2018] [Indexed: 12/14/2022]  Open
12
Whitaker AM, Freudenthal BD. APE1: A skilled nucleic acid surgeon. DNA Repair (Amst) 2018;71:93-100. [PMID: 30170830 PMCID: PMC6491353 DOI: 10.1016/j.dnarep.2018.08.012] [Citation(s) in RCA: 99] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
13
Kuznetsova AA, Fedorova OS, Kuznetsov NA. Kinetic Features of 3'-5' Exonuclease Activity of Human AP-Endonuclease APE1. Molecules 2018;23:molecules23092101. [PMID: 30134601 PMCID: PMC6225374 DOI: 10.3390/molecules23092101] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Revised: 08/02/2018] [Accepted: 08/16/2018] [Indexed: 11/16/2022]  Open
14
Kladova OA, Bazlekowa-Karaban M, Baconnais S, Piétrement O, Ishchenko AA, Matkarimov BT, Iakovlev DA, Vasenko A, Fedorova OS, Le Cam E, Tudek B, Kuznetsov NA, Saparbaev M. The role of the N-terminal domain of human apurinic/apyrimidinic endonuclease 1, APE1, in DNA glycosylase stimulation. DNA Repair (Amst) 2018;64:10-25. [PMID: 29475157 DOI: 10.1016/j.dnarep.2018.02.001] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2017] [Revised: 01/09/2018] [Accepted: 02/06/2018] [Indexed: 12/25/2022]
15
Amaral ICC, Carvalho LVBD, Pimentel JNDS, Pereira AC, Vieira JA, Castro VSD, Borges RM, Alves SR, Nogueira SM, Tabalipa MDM, Otero UB, Oliveira KMPGD, Corrêa SM, Fonseca ASA, Moreira JC, Peres F, Teixeira LR, Menezes MAC, Mattos RDCODC, Sarcinelli PDN, Larentis AL. Avaliação ambiental de BTEX (benzeno, tolueno, etilbenzeno, xilenos) e biomarcadores de genotoxicidade em trabalhadores de postos de combustíveis. REVISTA BRASILEIRA DE SAÚDE OCUPACIONAL 2017. [DOI: 10.1590/2317-6369000124515] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]  Open
16
Valente D, Costa-Amaral IC, Carvalho LVBD, Santos MVCD, Castro VSD, Rodrigues DDRF, Falco AD, Silva CB, Nogueira SM, Gonçalves ES, Moreira JC, André LC, Teixeira LR, Sarcinelli PDN, Sisenando HA, Oliveira MSD, Perini JA, Mattos RDCODC, Larentis AL. Utilização de biomarcadores de genotoxicidade e expressão gênica na avaliação de trabalhadores de postos de combustíveis expostos a vapores de gasolina. REVISTA BRASILEIRA DE SAÚDE OCUPACIONAL 2017. [DOI: 10.1590/2317-6369000124415] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]  Open
17
Li M, Wilson DM. Human apurinic/apyrimidinic endonuclease 1. Antioxid Redox Signal 2014;20:678-707. [PMID: 23834463 PMCID: PMC3901322 DOI: 10.1089/ars.2013.5492] [Citation(s) in RCA: 193] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
18
Uracil in duplex DNA is a substrate for the nucleotide incision repair pathway in human cells. Proc Natl Acad Sci U S A 2013;110:E3695-703. [PMID: 24023064 DOI: 10.1073/pnas.1305624110] [Citation(s) in RCA: 62] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
19
Prorok P, Saint-Pierre C, Gasparutto D, Fedorova OS, Ishchenko AA, Leh H, Buckle M, Tudek B, Saparbaev M. Highly mutagenic exocyclic DNA adducts are substrates for the human nucleotide incision repair pathway. PLoS One 2012;7:e51776. [PMID: 23251620 PMCID: PMC3522590 DOI: 10.1371/journal.pone.0051776] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2012] [Accepted: 11/12/2012] [Indexed: 12/20/2022]  Open
20
Chao MW, Kim MY, Ye W, Ge J, Trudel LJ, Belanger CL, Skipper PL, Engelward BP, Tannenbaum SR, Wogan GN. Genotoxicity of 2,6- and 3,5-dimethylaniline in cultured mammalian cells: the role of reactive oxygen species. Toxicol Sci 2012;130:48-59. [PMID: 22831970 PMCID: PMC3621364 DOI: 10.1093/toxsci/kfs229] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2011] [Accepted: 07/19/2012] [Indexed: 11/12/2022]  Open
21
Conformational dynamics of threonine 195 and the S1 subsite in functional trypsin variants. J Mol Model 2012;18:4941-54. [DOI: 10.1007/s00894-012-1541-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2012] [Accepted: 07/16/2012] [Indexed: 12/25/2022]
22
Hang B. Formation and repair of tobacco carcinogen-derived bulky DNA adducts. J Nucleic Acids 2010;2010:709521. [PMID: 21234336 PMCID: PMC3017938 DOI: 10.4061/2010/709521] [Citation(s) in RCA: 67] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2010] [Revised: 07/16/2010] [Accepted: 09/17/2010] [Indexed: 01/08/2023]  Open
23
Gelin A, Redrejo-Rodríguez M, Laval J, Fedorova OS, Saparbaev M, Ishchenko AA. Genetic and biochemical characterization of human AP endonuclease 1 mutants deficient in nucleotide incision repair activity. PLoS One 2010;5:e12241. [PMID: 20808930 PMCID: PMC2923195 DOI: 10.1371/journal.pone.0012241] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2010] [Accepted: 07/25/2010] [Indexed: 11/19/2022]  Open
24
Rodriguez B, Yang Y, Guliaev AB, Chenna A, Hang B. Benzene-derived N2-(4-hydroxyphenyl)-deoxyguanosine adduct: UvrABC incision and its conformation in DNA. Toxicol Lett 2009;193:26-32. [PMID: 20006688 DOI: 10.1016/j.toxlet.2009.12.005] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2009] [Revised: 12/03/2009] [Accepted: 12/03/2009] [Indexed: 10/20/2022]
25
Chenna A, Gupta RC, Bonala RR, Johnson F, Hang B. Synthesis of the fully protected phosphoramidite of the benzene-DNA adduct, N2-(4-Hydroxyphenyl)-2'-deoxyguanosine and incorporation of the later into DNA oligomers. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2008;27:979-91. [PMID: 18696366 DOI: 10.1080/15257770802258034] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
26
Bakavoli M, Rahimizadeh M, Ebrahimi AR, Taghizadeh A, Davoodnia A, Nikpour M. A new route to pyrimido[1,6-a]benzimidazole derivatives. J Heterocycl Chem 2008. [DOI: 10.1002/jhet.5570450534] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
27
Kulkarni SA, Moir D, Zhu J. Influence of structural and functional modifications of selected genotoxic carcinogens on metabolism and mutagenicity - a review. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2007;18:459-514. [PMID: 17654335 DOI: 10.1080/10629360701430090] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
28
Wang P, Guliaev AB, Elder RH, Hang B. Alkylpurine-DNA-N-glycosylase excision of 7-(hydroxymethyl)-1,N6-ethenoadenine, a glycidaldehyde-derived DNA adduct. DNA Repair (Amst) 2006;5:23-31. [PMID: 16290249 DOI: 10.1016/j.dnarep.2005.07.013] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2005] [Revised: 07/15/2005] [Accepted: 07/18/2005] [Indexed: 11/27/2022]
29
Xie Z, Zhang Y, Guliaev AB, Shen H, Hang B, Singer B, Wang Z. The p-benzoquinone DNA adducts derived from benzene are highly mutagenic. DNA Repair (Amst) 2005;4:1399-409. [PMID: 16181813 DOI: 10.1016/j.dnarep.2005.08.012] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
30
Roy S, Sen S. Homology modeling based solution structure of Hoxc8-DNA complex: role of context bases outside TAAT stretch. J Biomol Struct Dyn 2005;22:707-18. [PMID: 15842175 DOI: 10.1080/07391102.2005.10507037] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
31
Yu J, Ha T, Schulten K. Conformational model of the Holliday junction transition deduced from molecular dynamics simulations. Nucleic Acids Res 2004;32:6683-95. [PMID: 15613597 PMCID: PMC545448 DOI: 10.1093/nar/gkh1006] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2004] [Revised: 11/03/2004] [Accepted: 11/29/2004] [Indexed: 11/12/2022]  Open
32
Hang B. Repair of exocyclic DNA adducts: rings of complexity. Bioessays 2004;26:1195-208. [PMID: 15499577 DOI: 10.1002/bies.20130] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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