FDM2 XH/XS domain-containing protein [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: FDM2
Official Full Name: XH/XS domain-containing protein
Primary source: TAIR:AT4G00380
Locus tag: AT4G00380
See related: Araport:AT4G00380
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: A_IG005I10.22; A_IG005I10_22; F5I10.22; F5I10_22; factor of DNA methylation 2; IDN2 PARALOG 2; IDP2; INDL2; INVOLVED IN DE NOVO 2 (IDN2) - LIKE 2
Summary: Belongs to a subgroup of SGS3-like proteins that act redundantly in RNA-directed DNA methylation: AT1G15910 (FDM1), AT4G00380 (FDM2), AT3G12550 (FDM3), AT1G13790 (FDM4), AT1G80790 (FDM5).
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Genomic context

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See FDM2 in Genome Data Viewer

Location:: chromosome: 4

Exon count:: 9

Sequence:: Chromosome: 4; NC_003075.7 (167497..171010)

Chromosome 4 - NC_003075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003075.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data show that two partially redundant proteins termed IDN2-LIKE 1 (IDNL1; AT1G15910) and IDN2-LIKE 2 (IDNL2; AT4G00380) that are paralogous to INVOLVED IN DE NOVO 2 (IDN2) and that form a stable complex with IDN2 in vivo.
Title: INVOLVED IN DE NOVO 2-containing complex involved in RNA-directed DNA methylation in Arabidopsis.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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NM_001340242.1

Supported by ESTs:

NM_116262.3

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
involved_in gene silencing by siRNA-directed DNA methylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within gene silencing by siRNA-directed DNA methylation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of double-strand break repair via homologous recombination	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	ISM Inferred from Sequence Model more info
located_in plasma membrane	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: XH/XS domain-containing protein

NP_001319829.1

XH/XS domain-containing protein; CONTAINS InterPro DOMAIN/s: Domain of unknown function XS (InterPro:IPR005380), Domain of unknown function XH (InterPro:IPR005379), Domain of unknown function, putative Zinc finger, XS/XH (InterPro:IPR005381); BEST Arabidopsis thaliana protein match is: XH/XS domain-containing protein (TAIR:AT1G15910.1); Has 52398 Blast hits to 32322 proteins in 2074 species: Archae - 615; Bacteria - 6626; Metazoa - 25839; Fungi - 3724; Plants - 1961; Viruses - 202; Other Eukaryotes - 13431 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003075.7 Reference assembly

Range

167497..171010

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001340243.1 → NP_001329769.1 XH/XS domain-containing protein [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A1P8B8T3, A0A654FKL9
NM_001340242.1 → NP_001319829.1 XH/XS domain-containing protein [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/Swiss-Prot

F4JH53, O23064

UniProtKB/TrEMBL

A0A654FKL9
NM_116262.3 → NP_567176.2 XH/XS domain-containing protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_567176.2

Status: REVIEWED

UniProtKB/Swiss-Prot

F4JH53, O23064

UniProtKB/TrEMBL

A0A654FKL9

Conserved Domains (4) summary

pfam03470
Location:42 → 84

zf-XS; XS zinc finger domain

pfam03468
Location:118 → 225

XS; XS domain

pfam03469
Location:503 → 633

XH; XH domain

cl09111
Location:388 → 495

Prefoldin; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits ...