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PROSITE documentation PDOC00447

Alkylbase DNA glycosidases alkA family signature

Description:

Alkylbase DNA glycosidases [1] are DNA repair enzymes that hydrolyzes the deoxyribose N-glycosidic bond to excise various alkylated bases from a damaged DNA polymer.

In Escherichia coli there are two alkylbase DNA glycosidases: one (gene tag) which is constitutively expressed and which is specific for the removal of 3-methyladenine (EC 3.2.2.20), and one (gene alkA) which is induced during adaptation to alkylation and which can remove a variety of alkylation products (EC 3.2.2.21). Tag and alkA do not share any region of sequence similarity.

In yeast there is an alkylbase DNA glycosidase (gene MAG1) [2,3], which can remove 3-methyladenine or 7-methyladenine and which is structurally related to alkA.

MAG and alkA are both proteins of about 300 amino acid residues. While the C- and N-terminal ends appear to be unrelated, there is a central region of about 130 residues which is well conserved. As a signature pattern we have selected part of this region.

Last update:

December 2004 / Pattern and text revised.

Technical section:

PROSITE method (with tools and information) covered by this documentation:

ALKYLBASE_DNA_GLYCOS, PS00516; Alkylbase DNA glycosidases alkA family signature  (PATTERN)
Consensus pattern: G-[IV]-[GK]-x-W-[ST]-[AVI]-x-[LIVMFY](2)-x-[LIVM]-x(8)-[MF]-x(2)-[ED]-D
Sequences known to belong to this class detected by the pattern: ALL
Other sequence(s) detected in Swiss-Prot: NONE
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Matching PDB structures: 1DIZ 1MPG 1PVS 3CVS ... [ALL]

References:

1 AuthorsLindahl T., Sedgwick B., Sekiguchi M., Nakabeppu Y.
TitleRegulation and expression of the adaptive response to alkylating agents.
SourceAnnu. Rev. Biochem. 57:133-157(1988).
PubMed ID3052269
DOI10.1146/annurev.bi.57.070188.001025
2 AuthorsBerdal K.G., Bjoras M., Bjelland S., Seeberg E.C.
TitleCloning and expression in Escherichia coli of a gene for an alkylbase DNA glycosylase from Saccharomyces cerevisiae; a homologue to the bacterial alkA gene.
SourceEMBO J. 9:4563-4568(1990).
PubMed ID2265619
3 AuthorsChen J., Derfler B., Samson L.
TitleSaccharomyces cerevisiae 3-methyladenine DNA glycosylase has homology to the AlkA glycosylase of E. coli and is induced in response to DNA alkylation damage.
SourceEMBO J. 9:4569-4575(1990).
PubMed ID2265620

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