alkB DNA oxidative demethylase [Escherichia coli str. K-12 substr. MG1655] - Gene

Summary

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Official Symbol: alkB
Official Full Name: DNA oxidative demethylase
Primary source: ECOCYC:EG10037
Locus tag: b2212
See related: ASAP:ABE-0007308
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage: Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as: aidD; ECK2204
Summary: AlkB mutants are extremely sensitive to MMS. [More information is available at EcoGene: EG10037]. AlkB is a Fe(II)-containing, 2-oxoglutarate-dependent dioxygenase involved in the adaptive DNA-repair response of Escherichia coli to alkylating agents. [More information is available at EcoCyc: EG10037].
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Genomic context

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Sequence:: NC_000913.3 (2308691..2309341, complement)

NC_000913.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Insights into the Direct Oxidative Repair of Etheno Lesions: MD and QM/MM Study on the Substrate Scope of ALKBH2 and AlkB.
Title: Insights into the Direct Oxidative Repair of Etheno Lesions: MD and QM/MM Study on the Substrate Scope of ALKBH2 and AlkB.
Transient kinetic analysis of oxidative dealkylation by the direct reversal DNA repair enzyme AlkB.
Title: Transient kinetic analysis of oxidative dealkylation by the direct reversal DNA repair enzyme AlkB.
SSB-AlkB interaction promotes faster repair of the methyl DNA adducts.
Title: Escherichia coli single-stranded DNA binding protein SSB promotes AlkB-mediated DNA dealkylation repair.
AlkB has a wide variety of substrates, including monoalkyl and exocyclic bridged adducts. (Review)
Title: The AlkB Family of Fe(II)/α-Ketoglutarate-dependent Dioxygenases: Repairing Nucleic Acid Alkylation Damage and Beyond.
AlkB dioxygenase preferentially repairs protonated substrates: specificity against exocyclic adducts and molecular mechanism of action
Title: AlkB dioxygenase preferentially repairs protonated substrates: specificity against exocyclic adducts and molecular mechanism of action.
The AlkB dioxygenase plays a major role in decreasing the level of AT-->TA mutations, thus in the repair of Etheno-DNA adducts in E.coli cells.
Title: The role of AlkB protein in repair of 1,N⁶-ethenoadenine in Escherichia coli cells.
Cocrystal structures provide insight into the structural basis of this "k(cat)/K(m) compensation," which makes a significant contribution to promiscuous substrate recognition by AlkB.
Title: Enzymological and structural studies of the mechanism of promiscuous substrate recognition by the oxidative DNA repair enzyme AlkB.
N-terminus verified by Edman degradation on complete protein
Title: Structure and expression of the alkB gene of Escherichia coli related to the repair of alkylated DNA.
work provides direct evidence that AlkB suppresses both genotoxicity and mutagenesis by physiologically realistic low doses of 1-alkylpurine and 3-alkylpyrimidine DNA damage in vivo
Title: Mutagenesis, genotoxicity, and repair of 1-methyladenine, 3-alkylcytosines, 1-methylguanine, and 3-methylthymine in alkB Escherichia coli.
AlkB dioxygenase, PolV (UmuD'C), and AlkA have roles in preventing MMS-induced mutagenesis in Escherichia coli
Title: AlkB dioxygenase in preventing MMS-induced mutagenesis in Escherichia coli: effect of Pol V and AlkA proteins.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by EcoCyc

Function	Evidence Code	Pubs
enables broad specificity oxidative DNA demethylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables broad specificity oxidative DNA demethylase activity	IDA Inferred from Direct Assay more info	PubMed
enables broad specificity oxidative DNA demethylase activity	IEA Inferred from Electronic Annotation more info
enables dioxygenase activity	IDA Inferred from Direct Assay more info	PubMed
enables ferrous iron binding	IBA Inferred from Biological aspect of Ancestor more info
enables ferrous iron binding	IDA Inferred from Direct Assay more info	PubMed
enables oxidative RNA demethylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables oxidative RNA demethylase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA alkylation repair	IDA Inferred from Direct Assay more info	PubMed
involved_in DNA repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in RNA repair	IDA Inferred from Direct Assay more info	PubMed
involved_in oxidative RNA demethylation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within oxidative demethylation	IDA Inferred from Direct Assay more info	PubMed
involved_in response to methyl methanesulfonate	IMP Inferred from Mutant Phenotype more info	PubMed