PLAZA 3.0 Monocots gene overview : AT5G04560

Gene: AT5G04560 (Arabidopsis thaliana)

Overview

Gene Identifier: AT5G04560
Transcript Identifier: AT5G04560.2
Gene Type: Coding gene
Location: 5 : 1309786-1318091 : positive

Family

Gene family: HOM03M001003
(72 genes in 16 species)
specific family

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Descriptions

Description: HhH-GPD base excision DNA repair family protein

Curated Summary: Encodes a DNA glycosylase DEMETER (DME). Responsible for endosperm maternal-allele-specific hypomethylation at the MEDEA (MEA) gene. DME can excise 5-methylcytosine in vitro and when expressed in E. coli. DME establishes MEA imprinting by removing 5-methylcytosine to activate the maternal allele.

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Identifiers

Identifier	Name
alias	DME
alias	DEMETER
uniprot	Q8LK56

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...the orthologs using the Integrative Orthology Viewer.
...the conserved binding sites (upstream/downstream,intron)

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Biological Process

GO term	Evidence(s)	Provider	Description	Source
GO:0009793	IMP	UniProt	embryo development ending in seed dormancy	1 2 3 4 5 6 7
GO:0006349	IMP	UniProt	regulation of gene expression by genetic imprinting	1 2 3 4 5 6 7
GO:0006306	IDA, RCA,	UniProt	DNA methylation	1 2 3 4 5 6 7 8
GO:0006284	IEA	UniProt	base-excision repair	1 2 3 4 5 6
GO:0006355	IEA	UniProt	regulation of transcription, DNA-dependent	1 2 3 4 5 6
GO:0006351	IEA	UniProt	transcription, DNA-templated	1 2 3 4 5 6
GO:0006281	IEA	InterPro	DNA repair

Molecular Function

GO term	Evidence(s)	Provider	Description	Source
GO:0019104	IDA, ISS,	UniProt	DNA N-glycosylase activity	1 2 3 4 5 6 7 8
GO:0003906	IDA	UniProt	DNA-(apurinic or apyrimidinic site) lyase activity	1 2 3 4 5 6 7
GO:0051539	IEA	UniProt	4 iron, 4 sulfur cluster binding	1 2 3 4 5 6
GO:0003677	IEA	UniProt	DNA binding	1 2 3 4 5 6
GO:0046872	IEA	UniProt	metal ion binding	1 2 3 4 5 6
GO:0003824	IEA	InterPro	catalytic activity

Cellular Component

GO term	Evidence(s)	Provider	Description	Source
GO:0005634	ISM, ISS	Gene Ontology	nucleus	1 2
GO:0043078	IDA	UniProt	polar nucleus	1 2 3 4 5 6 7

Color Legend

Experimental Evidence

Electronic Evidence

Computational Reviewed Evidence

InterPro	Description
IPR023170	Helix-turn-helix, base-excision DNA repair, C-terminal
IPR003651	Endonuclease III-like, iron-sulphur cluster loop motif
IPR011257	DNA glycosylase
IPR003265	HhH-GPD domain

Mapman id	Description
27.3.34	RNA.regulation of transcription.Orphan family

No SignalP domains detected for this gene.