Gene: AT1G57820 (Arabidopsis thaliana)

Overview top

Gene Identifier
AT1G57820
Transcript Identifier
AT1G57820.1
Gene Type
Coding gene
Location
1 : 21414342-21417902 : negative

Family

Gene family
HOM03D001750
(94 genes in 30 species)
specific family
Subfamily
ORTHO03D000897
(63 genes in 28 species)
specific family
Duplication type
Tandem duplicate

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Descriptions

Description
Zinc finger (C3HC4-type RING finger) family protein
Curated Summary
Encodes a 645-amino acid methylcytosine-binding protein with a PHD domain, two RING finger domains, and an SRA domain that is involved in centromere heterochromatinization. This protein functions as an E3 ubiquitin ligase in vitro. The protein has been shown to bind to methylated cytosines of CG, CNG and CNN motifs via its SRA domain but has a preference for the former. It plays a role in the establishment/maintenance of chromatin structure during cell division and is localized in the nucleus. Plants over-expressing VIM1/ORTH2 show an inhibition in root growth and a delay in flowering. Both over-expression of GFP:ORTH2 and loss of ORTH2/VIM1 lead to decreased levels of DNA methylation. GFP:ORTH2 over-expressers also have increased levels of FWA transcripts.
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Identifiers

Identifier Name
aliasVIM1
aliasVARIANT IN METHYLATION 1
aliasORTHRUS 2
aliasORTH2
uniprotQ8VYZ0

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Biological Process

GO termEvidence(s)ProviderDescriptionSource
GO:0006355ISSGene Ontologyregulation of transcription, DNA-dependent1
GO:0031508IMPUniProtcentromeric heterochromatin assembly1 2 3 4 5 6 7 8
GO:0032776IMPGene OntologyDNA methylation on cytosine1
GO:0006325IPIGene Ontologychromatin organization1
GO:0051301IDAUniProtcell division1 2 3 4 5 6 7 8
GO:0016567IDAGene Ontologyprotein ubiquitination1
GO:0010424IMPUniProtDNA methylation on cytosine within a CG sequence1 2 3 4 5 6 7 8
GO:0090309IMPUniProtpositive regulation of methylation-dependent chromatin silencing1 2 3 4 5 6 7 8
GO:0000278RCAGene Ontologymitotic cell cycle1
GO:0000280RCAGene Ontologynuclear division1
GO:0000724RCAGene Ontologydouble-strand break repair via homologous recombination1
GO:0000911RCAGene Ontologycytokinesis by cell plate formation1
GO:0006260RCAGene OntologyDNA replication1
GO:0006261RCAGene OntologyDNA-dependent DNA replication1
GO:0006270RCAGene OntologyDNA replication initiation1
GO:0006275RCAGene Ontologyregulation of DNA replication1
GO:0006306RCAGene OntologyDNA methylation1
GO:0006342RCAGene Ontologychromatin silencing1
GO:0007000RCAGene Ontologynucleolus organization1
GO:0008283RCAGene Ontologycell proliferation1
GO:0009555RCAGene Ontologypollen development1
GO:0016444RCAGene Ontologysomatic cell DNA recombination1
GO:0016568RCAGene Ontologychromatin modification1
GO:0016572RCAGene Ontologyhistone phosphorylation1
GO:0031047RCAGene Ontologygene silencing by RNA1
GO:0051567RCAGene Ontologyhistone H3-K9 methylation1
GO:0051726RCAGene Ontologyregulation of cell cycle1
GO:0010228ISOPLAZA Tree-based Orthologyvegetative to reproductive phase transition of meristemAT5G39550

Molecular Function

GO termEvidence(s)ProviderDescriptionSource
GO:0003677ISSGene OntologyDNA binding1
GO:0008327ISS, IDAUniProtmethyl-CpG binding1 2 3 4 5 6 7 8
GO:0010428ISS, IDAUniProtmethyl-CpNpG binding1 2 3 4 5 6 7 8
GO:0010429ISS, IDAUniProtmethyl-CpNpN binding1 2 3 4 5 6 7 8
GO:0003682IDAUniProtchromatin binding1 2 3 4 5 6 7 8
GO:0010385IDAUniProtdouble-stranded methylated DNA binding1 2 3 4 5 6 7 8
GO:0042393IPI, IEAGene Ontologyhistone binding1
GO:0004842ISS, IDAUniProtubiquitin-protein ligase activity1 2 3 4 5 6 7 8
GO:0005515IEAInterProprotein binding
GO:0008270IEAUniProtzinc ion binding1 2 3 4 5 6 7
GO:0046872IEAInterPrometal ion binding

Cellular Component

GO termEvidence(s)ProviderDescriptionSource
GO:0005634IDA, ISM, UniProtnucleus1 2 3 4 5 6 7 8 9
GO:0010369IDAUniProtchromocenter1 2 3 4 5 6 7 8
GO:0005737ISOPLAZA Tree-based OrthologycytoplasmAT4G08590

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Experimental Evidence
Electronic Evidence
Computational Reviewed Evidence
GO Sources:   Primary     Orthology     Homology  
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InterPro Description
IPR013083Zinc finger, RING/FYVE/PHD-type
IPR015947PUA-like domain
IPR017907Zinc finger, RING-type, conserved site
IPR003105SRA-YDG
IPR001841Zinc finger, RING-type
IPR019786Zinc finger, PHD-type, conserved site
IPR019787Zinc finger, PHD-finger
IPR001965Zinc finger, PHD-type
IPR018957Zinc finger, C3HC4 RING-type
IPR011011Zinc finger, FYVE/PHD-type

Mapman id Description
29.5.11.4.2protein.degradation.ubiquitin.E3.RING
No SignalP domains detected for this gene.