NDLI: DNA with damage in both strands as affinity probes and nucleotide excision repair substrates

Content Provider	Springer Nature Link
Author	Lukyanchikova, N. V. Petruseva, I. O. Evdokimov, A. N. Silnikov, V. N. Lavrik, O. I.
Copyright Year	2016
Abstract	Nucleotide excision repair (NER) is a multistep process of recognition and elimination of a wide spectrum of damages that cause significant distortions in DNA structure, such as UV-induced damage and bulky chemical adducts. A series of model DNAs containing new bulky fluoro-azidobenzoyl photoactive lesion dCFAB and well-recognized nonnucleoside lesions nFlu and nAnt have been designed and their interaction with repair proteins investigated. We demonstrate that modified DNA duplexes dCFAB/dG (probe I), dCFAB/nFlu+4 (probe II), and dCFAB/nFlu−3 (probe III) have increased (as compared to unmodified DNA, umDNA) structure-dependent affinity for XPC—HR23B (Kd um > Kd I > Kd II ≈ Kd III ) and differentially crosslink to XPC and proteins of NER-competent extracts. The presence of dCFAB results in (i) decreased melting temperature (ΔTm = −3°C) and (ii) 12° DNA bending. The extended dCFAB/dG-DNA (137 bp) was demonstrated to be an effective NER substrate. Lack of correlation between the affinity to XPC—HR23B and substrate properties of the model DNA suggests a high impact of the verification stage on the overall NER process. In addition, DNAs containing closely positioned, well-recognized lesions in the complementary strands represent hardly repairable (dCFAB/nFlu+4, dCFAB/nFlu−3) or irreparable (nFlu/nFlu+4, nFlu/nFlu−3, nAnt/nFlu+4, nAnt/nFlu−3) structures. Our data provide evidence that the NER system of higher eukaryotes recognizes and eliminates damaged DNA fragments on a multi-criterion basis.
Starting Page	263
Ending Page	274
Page Count	12
File Format	PDF
ISSN	00062979
Journal	Biochemistry (Moscow)
Volume Number	81
Issue Number	3
e-ISSN	16083040
Language	English
Publisher	Pleiades Publishing
Publisher Date	2016-03-31
Publisher Place	Moscow
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	DNA bulky DNA lesions protein factors of NER photoaffinity labeling Biochemistry Bioorganic Chemistry Microbiology Biomedicine general
Content Type	Text
Resource Type	Article
Subject	Biochemistry Biophysics Geriatrics and Gerontology

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Nucleotide excision repair: DNA damage recognition and preincision complex assembly

Interaction of nucleotide excision repair proteins with DNA containing bulky lesion and apurinic/apyrimidinic site

Interaction of nucleotide excision repair factors RPA and XPA with DNA containing bulky photoreactive groups imitating damages

Photoactivated DNA analogs of substrates of the nucleotide excision repair system and their interaction with proteins of NER-competent extract of HeLa cells. Synthesis and application of long model DNA

Photoactivated DNA analogs of substrates of the nucleotide excision repair system and their interaction with proteins of NER-competent HeLa cell extract

Interaction of nucleotide excision repair factors XPC-HR23B, XPA, and RPA with damaged DNA

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Study of interaction of XRCC1 with DNA and proteins of base excision repair by photoaffinity labeling technique

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DNA with damage in both strands as affinity probes and nucleotide excision repair substrates

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