Structural Organization, Evolution, and Distribution of Viral Pyrimidine Dimer-DNA Glycosylases

Overview

Journal Biophys Rev

Publisher Springer

Specialty Biophysics

Date 2022 Sep 20

PMID 36124272

Authors

Alexandra N Karmanova

Nikita A Nikulin

Andrei A Zimin

Affiliations

Soon will be listed here.

Abstract

Supplementary Information: The online version contains supplementary material available at 10.1007/s12551-022-00972-4.

Citing Articles

Editorial for the special issue of biophysical reviews on the 9th Congress of the Russian society for photobiology held in Shepsi, Krasnodar region, Russia, on September 12-19, 2021.

Tsygankov A, Riznichenko G, Rubin A, Solovchenko A, Tuchin V Biophys Rev. 2022; 14(4):743-749.

PMID: 35990254 PMC: 9383676. DOI: 10.1007/s12551-022-00993-z.

References

Kumar S, Stecher G, Li M, Knyaz C, Tamura K . MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Mol Biol Evol. 2018; 35(6):1547-1549. PMC: 5967553. DOI: 10.1093/molbev/msy096. View

DULBECCO R . Experiments on photoreactivation of inactive bacteriophages. J Cell Physiol Suppl. 1952; 39(Suppl. 1):125-8. DOI: 10.1002/jcp.1030390413. View

Dizdaroglu M, Zastawny T, Carmical J, Lloyd R . A novel DNA N-glycosylase activity of E. coli T4 endonuclease V that excises 4,6-diamino-5-formamidopyrimidine from DNA, a UV-radiation- and hydroxyl radical-induced product of adenine. Mutat Res. 1996; 362(1):1-8. DOI: 10.1016/0921-8777(95)00025-9. View

Marshall C, Santangelo T . Archaeal DNA Repair Mechanisms. Biomolecules. 2020; 10(11). PMC: 7690668. DOI: 10.3390/biom10111472. View

Harm W . Recovery of UV-inactivated E. coli cells by the v-gene action of phage T4. Mutat Res. 1968; 6(1):175-9. DOI: 10.1016/0027-5107(68)90115-2. View

Morikawa K, Matsumoto O, Tsujimoto M, Katayanagi K, Ariyoshi M, Doi T . X-ray structure of T4 endonuclease V: an excision repair enzyme specific for a pyrimidine dimer. Science. 1992; 256(5056):523-6. DOI: 10.1126/science.1575827. View

Kim S, Jin S, Pfeifer G . Formation of cyclobutane pyrimidine dimers at dipyrimidines containing 5-hydroxymethylcytosine. Photochem Photobiol Sci. 2013; 12(8):1409-15. PMC: 3731422. DOI: 10.1039/c3pp50037c. View

Nikulin N, Zimin A . Influence of Non-canonical DNA Bases on the Genomic Diversity of . Front Microbiol. 2021; 12:632686. PMC: 8056088. DOI: 10.3389/fmicb.2021.632686. View

Schrock 3rd R, Lloyd R . Reductive methylation of the amino terminus of endonuclease V eradicates catalytic activities. Evidence for an essential role of the amino terminus in the chemical mechanisms of catalysis. J Biol Chem. 1991; 266(26):17631-9. View

10.

Ganesan A, Hanawalt P . Photobiological Origins of the Field of Genomic Maintenance. Photochem Photobiol. 2015; 92(1):52-60. PMC: 4720547. DOI: 10.1111/php.12542. View

11.

Morikawa K, Ariyoshi M, Vassylyev D, Matsumoto O, Katayanagi K, Ohtsuka E . Crystal structure of a pyrimidine dimer-specific excision repair enzyme from bacteriophage T4: refinement at 1.45 A and X-ray analysis of the three active site mutants. J Mol Biol. 1995; 249(2):360-75. DOI: 10.1006/jmbi.1995.0302. View

12.

Fitzgerald L, Graves M, Li X, Hartigan J, Pfitzner A, Hoffart E . Sequence and annotation of the 288-kb ATCV-1 virus that infects an endosymbiotic chlorella strain of the heliozoon Acanthocystis turfacea. Virology. 2007; 362(2):350-61. PMC: 2018652. DOI: 10.1016/j.virol.2006.12.028. View

13.

Sampath H, McCullough A, Lloyd R . Regulation of DNA glycosylases and their role in limiting disease. Free Radic Res. 2012; 46(4):460-78. PMC: 4894311. DOI: 10.3109/10715762.2012.655730. View

14.

Friedberg E, King J . Dark repair of ultraviolet-irradiated deoxyribonucleic acid by bacteriophage T4: purification and characterization of a dimer-specific phage-induced endonuclease. J Bacteriol. 1971; 106(2):500-7. PMC: 285122. DOI: 10.1128/jb.106.2.500-507.1971. View

15.

Dizdaroglu M, Coskun E, Jaruga P . Repair of oxidatively induced DNA damage by DNA glycosylases: Mechanisms of action, substrate specificities and excision kinetics. Mutat Res Rev Mutat Res. 2017; 771:99-127. PMC: 7451025. DOI: 10.1016/j.mrrev.2017.02.001. View

16.

Mechetin G, Endutkin A, Diatlova E, Zharkov D . Inhibitors of DNA Glycosylases as Prospective Drugs. Int J Mol Sci. 2020; 21(9). PMC: 7247160. DOI: 10.3390/ijms21093118. View

17.

Yokoyama H, Mizutani R . Structural biology of DNA (6-4) photoproducts formed by ultraviolet radiation and interactions with their binding proteins. Int J Mol Sci. 2014; 15(11):20321-38. PMC: 4264169. DOI: 10.3390/ijms151120321. View

18.

DULBECCO R . Experiments on photoreactivation of bacteriophages inactivated with ultraviolet radiation. J Bacteriol. 1950; 59(3):329-47. PMC: 385765. DOI: 10.1128/jb.59.3.329-347.1950. View

19.

Purmal A, Rabow L, Lampman G, Cunningham R, Kow Y . A common mechanism of action for the N-glycosylase activity of DNA N-glycosylase/AP lyases from E. coli and T4. Mutat Res. 1996; 364(3):193-207. DOI: 10.1016/s0921-8777(96)00032-8. View

20.

Contreras-Moreira B, Vinuesa P . GET_HOMOLOGUES, a versatile software package for scalable and robust microbial pangenome analysis. Appl Environ Microbiol. 2013; 79(24):7696-701. PMC: 3837814. DOI: 10.1128/AEM.02411-13. View