Deoxyribose phosphate lyase

Prasad R, Beard WA, Strauss PR, Wilson SH. Human DNA polymerase beta deoxyribose phosphate lyase. Substrate specificity and catalytic mechanism. J. Biol. Chem. 1998 273 15263-15270. Prasad R, Bebenek K, Hou E, Shock DD, Beard WA, Woodgate R, Kunkel TA, Wilson SH. Localization of the deoxyribose phosphate lyase active site in human DNA polymerase iota by controlled proteolysis. J. Biol. Chem. 2003 278 29649-29654. 

Prasad, R., Beard, W. A., Chyan,J. Y, Maciejewski, M. W., Mullen, G. P., and Wilson, S. H. (1998). Functional analysis of the amino-terminal 8-kDa domain of DNA polymerase beta as revealed by site-directed mutagenesis. DNA binding and 5 -deoxyribose phosphate lyase activities./. Biol. Chem. 273, 11121-11126. 

Longley, M. J., Prasad, R., Srivastava, D. K., Wilson, S. H., and Copeland, W. C. (1998). Identification of 5 -deoxyribose phosphate lyase activity in human DNA polymerase 7 and its role in mitochondrial base excision repair in vitro. Proc. Natl Acad. Sci. USA 95, 12244-12248. 

Prasad, R., Bebenek, K, Hou, E., Shock, D. D., Beard, W. A., Woodgate, R., Kunkel, T. A., and Wilson, S. H. (2003). Localization of the deoxyribose phosphate lyase active site in human DNA polymerase t by controlled proteolysis. / Biol Chem. 278,29649-29654. Rechkoblit, O., Zhang, Y, Guo, D., Wang, Z., Amin, S., Krzeminsky, J., Louneva, N., and Geacintov, N. E. (2002). traras-Lesion synthesis past bulky benzo[a]pyrene diol... 

Base excision is used to correct defects involving a single base. Figure 65.2 shows how the erroneous base uracil (derived from cytosine) is cleaved from the V C of deoxyribose by DNA glycosylase to leave an AP site (for structure of DNA, see Fig. 60.2). An AP site is a site without either a purine or a pyrimidine - described as apurinic or apyrimidinic . Alternatively, it is known as an abasic site . Then AP endonuclease cleaves the 5 C bond. This is followed by deoxyribose phosphate lyase that removes deoxyribose phosphate by cleaving the 3 C bond. Finally, the gap is filled by DNA polymerase and the nick is sealed by DNA ligase. 

Lyases decarboxylase, dehydratase, deoxyribose-phosphate aldolase nonhydrolytic bond cleavage... 

Figure 23.7. Structure of an AP site (center) and structures produced by 5 AP endonuclease activity (left) or lyase activity (right). These are formed in double-strand DNA, but only one strand is represented in the figure. 5 AP-endonuclease activity results in the formation of a 5 -deoxyribose-phosphate end (5 -dRP), which must be subsequently processed by a dRPase (see text). Lyase activity results in the formation of 3 -unsaturated aldehydic a, P, 4-hydroxy-2-pentenal end, which must be subsequently acted upon by a 5 AP endonuclease. (Reproduced with permission from Boiteux, S., and Guillet, M. Abasic sites in DNA repair and biological consequences in Saccharomyces cerevisiae. DNA Repair 3,1-12, 2004.)...

Garcia-Diaz, M., Bebenek, K., Kunkel, T. A., and Blanco, L. (2001). Identification of an intrinsic 5 -deoxyribose-5-phosphate lyase activity in human DNA polymerase lambda. A possible role in base excision repair. J. Biol. Chem. 276, 34659-34663. 

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