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    FDM5 XH/XS domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 844418, updated on 18-Sep-2024

    Summary

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    Official Symbol
    FDM5
    Official Full Name
    XH/XS domain-containing protein
    Primary source
    TAIR:AT1G80790
    Locus tag
    AT1G80790
    See related
    Araport:AT1G80790
    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
    F23A5.14; F23A5_14; factor of DNA methylation 5
    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 FDM5 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    9
    Sequence:
    Chromosome: 1; NC_003070.9 (30359649..30363427)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene P-loop containing nucleoside triphosphate hydrolases superfamily protein Neighboring gene Polynucleotidyl transferase, ribonuclease H-like superfamily protein Neighboring gene miscRNA Neighboring gene Tudor/PWWP/MBT 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_001335010.1
    NM_106727.4

    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 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    XH/XS domain-containing protein
    NP_178194.1
    • 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 81745 Blast hits to 47168 proteins in 2099 species: Archae - 1218; Bacteria - 10615; Metazoa - 37220; Fungi - 5411; Plants - 3180; Viruses - 320; Other Eukaryotes - 23781 (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
      30359649..30363427
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001335009.1 → NP_001321040.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B9DHL1, Q0WUU8, Q9SAI1
      UniProtKB/TrEMBL
      A0A178WF73, A0A5S9WW61, A0A654EVW5
      Conserved Domains (4) summary
      pfam03470
      Location:42 → 84
      zf-XS; XS zinc finger domain
      TIGR02169
      Location:238 → 429
      SMC_prok_A; chromosome segregation protein SMC, primarily archaeal type
      pfam03469
      Location:501 → 632
      XH; XH domain
      cd12266
      Location:118 → 222
      RRM_like_XS; RNA recognition motif (RRM)-like XS domain found in plants

    2. NM_106727.4 → NP_178194.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_178194.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B9DHL1, Q0WUU8, Q9SAI1
      UniProtKB/TrEMBL
      A0A178WF73, A0A5S9WW61, A0A654EVW5
      Conserved Domains (4) summary
      pfam03470
      Location:42 → 84
      zf-XS; XS zinc finger domain
      TIGR02169
      Location:238 → 429
      SMC_prok_A; chromosome segregation protein SMC, primarily archaeal type
      pfam03469
      Location:501 → 632
      XH; XH domain
      cd12266
      Location:118 → 222
      RRM_like_XS; RNA recognition motif (RRM)-like XS domain found in plants

    3. NM_001335010.1 → NP_001321039.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8APP5
      Conserved Domains (3) summary
      pfam03470
      Location:42 → 84
      zf-XS; XS zinc finger domain
      TIGR02169
      Location:238 → 429
      SMC_prok_A; chromosome segregation protein SMC, primarily archaeal type
      cd12266
      Location:118 → 222
      RRM_like_XS; RNA recognition motif (RRM)-like XS domain found in plants
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SAI1.1

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