| Literature DB >> 16468998 |
Ingrun Alseth1, Torbjørn Rognes, Toril Lindbäck, Inger Solberg, Kristin Robertsen, Knut Ivan Kristiansen, Davide Mainieri, Lucy Lillehagen, Anne-Brit Kolstø, Magnar Bjørås.
Abstract
Soil bacteria are heavily exposed to environmental methylating agents such as methylchloride and may have special requirements for repair of alkylation damage on DNA. We have used functional complementation of an Escherichia coli tag alkA mutant to screen for 3-methyladenine DNA glycosylase genes in genomic libraries of the soil bacterium Bacillus cereus. Three genes were recovered: alkC, alkD and alkE. The amino acid sequence of AlkE is homologous to the E. coli AlkA sequence. AlkC and AlkD represent novel proteins without sequence similarity to any protein of known function. However, iterative and indirect sequence similarity searches revealed that AlkC and AlkD are distant homologues of each other within a new protein superfamily that is ubiquitous in the prokaryotic kingdom. Homologues of AlkC and AlkD were also identified in the amoebas Entamoeba histolytica and Dictyostelium discoideum, but no other eukaryotic counterparts of the superfamily were found. The alkC and alkD genes were expressed in E. coli and the proteins were purified to homogeneity. Both proteins were found to be specific for removal of N-alkylated bases, and showed no activity on oxidized or deaminated base lesions in DNA. B. cereus AlkC and AlkD thus define novel families of alkylbase DNA glycosylases within a new protein superfamily.Entities:
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Year: 2006 PMID: 16468998 PMCID: PMC1413580 DOI: 10.1111/j.1365-2958.2006.05044.x
Source DB: PubMed Journal: Mol Microbiol ISSN: 0950-382X Impact factor: 3.501
Fig. 1MMS survival of BK2118 (alkA tag) transformed by B. cereus clones pUC-alkC, pUC-alkD and pUC-alkE. Logarithmically growing BK2118 cells harbouring expression constructs for AlkA (◊), AlkC (▴), AlkD (▪), AlkE (×) or pUC (□) only were spread on LB plates containing 0.5, 1, 2 or 5 mM MMS and incubated at 37°C for 2 days. The percentage of surviving colonies was calculated. This survival experiment was repeated three times with similar results.
Fig. 23mA DNA glycosylase activity in protein extracts of E. coli BK2118 cells expressing B. cereus AlkC, AlkD or AlkE. [3H]-methyl-N-nitrosourea treated calf thymus DNA (800 fmol modified bases) was incubated with 1 µg extracts at 37°C for 30 min, the DNA was ethanol precipitated and the supernatant subjected to scintillation counting. Control cells contained empty pUC vector.
Fig. 3Reverse phase HPLC of methylated bases released by AlkA, AlkC and AlkD from [3H]-methyl-N-nitrosourea treated calf thymus DNA. [3H]-MNU-DNA was incubated with increasing amounts of AlkA (◊), AlkC (▪) and AlkD (•) at 37°C for 30 min. The DNA was precipitated with ethanol and the supernatant was analysed by HPLC. Radioactivity in fractions corresponding to 3mA (A), 3mG (B) and 7mG (C) was measured in a liquid scintillation counter. The experiments in this figure were repeated three times with similar results.