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    FDM4 XH/XS domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 837939, updated on 18-Sep-2024

    Summary

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    Official Symbol
    FDM4
    Official Full Name
    XH/XS domain-containing protein
    Primary source
    TAIR:AT1G13790
    Locus tag
    AT1G13790
    See related
    Araport:AT1G13790
    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
    F16A14.2; F16A14_2; factor of DNA methylation 4
    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 FDM4 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    7
    Sequence:
    Chromosome: 1; NC_003070.9 (4726770..4730425)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene root UVB sensitive protein (Protein of unknown function, DUF647) Neighboring gene F-box/RNI-like/FBD-like domains-containing protein Neighboring gene uncharacterized protein Neighboring gene Tetratricopeptide repeat (TPR)-like superfamily protein Neighboring gene Restriction endonuclease, type II-like superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A subgroup of SGS3-like proteins act redundantly in RNA-directed DNA methylation. Xie M, et al. Nucleic Acids Res, 2012 May. PMID 22302148, Free PMC Article
    2. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    NM_001332088.1
    NM_101247.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within gene silencing by siRNA-directed DNA methylation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    XH/XS domain-containing protein
    NP_001318996.1
    • 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:AT3G48670.2); Has 49019 Blast hits to 30980 proteins in 1872 species: Archae - 565; Bacteria - 6337; Metazoa - 23607; Fungi - 3326; Plants - 1659; Viruses - 198; Other Eukaryotes - 13327 (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

    1. NC_003070.9 Reference assembly

      Range
      4726770..4730425
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001332088.1 → NP_001318996.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LMH6
      UniProtKB/TrEMBL
      A0A178W5G1, A0A5S9U8W3
      Conserved Domains (4) summary
      COG5281
      Location:301 → 543
      COG5281; Phage-related minor tail protein [Mobilome: prophages, transposons]
      pfam03470
      Location:34 → 76
      zf-XS; XS zinc finger domain
      pfam03468
      Location:216 → 330
      XS; XS domain
      pfam03469
      Location:602 → 726
      XH; XH domain

    2. NM_101247.3 → NP_172834.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_172834.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LMH6
      UniProtKB/TrEMBL
      A0A178W5G1, A0A5S9U8W3
      Conserved Domains (4) summary
      COG5281
      Location:301 → 543
      COG5281; Phage-related minor tail protein [Mobilome: prophages, transposons]
      pfam03470
      Location:34 → 76
      zf-XS; XS zinc finger domain
      pfam03468
      Location:216 → 330
      XS; XS domain
      pfam03469
      Location:602 → 726
      XH; XH domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LMH6.1

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