Gene: AT5G04560 (Arabidopsis thaliana)

Overview top

Gene Identifier
AT5G04560
Transcript Identifier
AT5G04560.3
Gene Type
Coding gene
Location
Chr5 : 1310671-1318091 : positive

Family

Gene family
HOM04M000985
(140 genes in 29 species)
specific family

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

Type Value
full_nameDEMETER
symbolDME
tidAT5G04560.3
UniProtQ8LK56-1

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Biological Process

GO termEvidence(s)ProviderDescriptionSource
GO:0006284 IEAUniProtbase-excision repair1
GO:0006281 IEAInterProDNA repair
GO:0006351 IEAUniProttranscription, DNA-templated1
GO:0006355 IEAUniProtregulation of transcription, DNA-templated1
GO:0009793 IMPUniProtembryo development ending in seed dormancy1
GO:0006349 IMPUniProtregulation of gene expression by genetic imprinting1
GO:0006306 IDAUniProtDNA methylation1
GO:0050832 IEAPLAZA Integrative Orthologydefense response to fungusAT2G36490
GO:0006342 IEAPLAZA Integrative Orthologychromatin silencingAT2G36490
GO:0080111 IEAPLAZA Integrative OrthologyDNA demethylationAT2G36490
GO:0031936 IEAPLAZA Integrative Orthologynegative regulation of chromatin silencingAT2G36490

Molecular Function

GO termEvidence(s)ProviderDescriptionSource
GO:0051539 IEAUniProt4 iron, 4 sulfur cluster binding1
GO:0003824 IEAInterProcatalytic activity
GO:0003677 IEAUniProtDNA binding1
GO:0046872 IEAUniProtmetal ion binding1
GO:0019104 IDA, ISS, UniProtDNA N-glycosylase activity1 2
GO:0003906 IDAUniProtDNA-(apurinic or apyrimidinic site) lyase activity1
GO:0005515 IEAPLAZA Integrative Orthologyprotein bindingAT2G36490

Cellular Component

GO termEvidence(s)ProviderDescriptionSource
GO:0005634 ISS, ISM, UniProtnucleus1 2
GO:0043078 IDAUniProtpolar nucleus1

Color Legend

Experimental Evidence
Electronic Evidence
Computational Reviewed Evidence
GO Sources:   Primary     Orthology     Homology  
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InterPro Description
IPR003265HhH-GPD domain
IPR023170Helix-turn-helix, base-excision DNA repair, C-terminal
IPR028925Demeter, RRM-fold domain
IPR028924Permuted single zf-CXXC unit
IPR003651Endonuclease III-like, iron-sulphur cluster loop motif
IPR011257DNA glycosylase

Mapman id Description
12.5.3.1.Chromatin organisation.DNA methylation.ROS1-mediated DNA demethylation.methylcytosine-specific DNA glycosylase (ROS1)
14.5.4.DNA damage response.base excision repair (BER).bifunctional DNA glycosylase/lyase (ROS1)
No SignalP domains detected for this gene.