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    ATXR5 TRITHORAX-RELATED PROTEIN 5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830839, updated on 18-Sep-2024

    Summary

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    Official Symbol
    ATXR5
    Official Full Name
    TRITHORAX-RELATED PROTEIN 5
    Primary source
    TAIR:AT5G09790
    Locus tag
    AT5G09790
    See related
    Araport:AT5G09790
    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
    ARABIDOPSIS TRITHORAX-RELATED PROTEIN 5; F17I14.20; F17I14_20; PDE336; PIGMENT DEFECTIVE 336; SDG15; SETDOMAIN GROUP 15
    Summary
    Encodes a SET-domain protein, a H3K27 monomethyltransferases required for chromatin structure and gene silencing. Regulates heterochromatic DNA replication. Contains a PCNA-binding domain. ATXR5 accumulates preferentially during the late G1 or S phase, suggesting that it plays a role in cell-cycle regulation or progression. A plant line expressing an RNAi construct directed against this gene has reduced agrobacterium-mediated tumor formation.
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    Genomic context

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    See ATXR5 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    6
    Sequence:
    Chromosome: 5; NC_003076.8 (3038978..3041206, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Ribosomal protein L17 family protein Neighboring gene Transcriptional factor B3 family protein Neighboring gene miscRNA Neighboring gene ARM repeat superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Molecular basis for the methylation specificity of ATXR5 for histone H3. Bergamin E, et al. Nucleic Acids Res, 2017 Jun 20. PMID 28383693, Free PMC Article
    2. ATXR5/6 Forms Alternative Protein Complexes with PCNA and the Nucleosome Core Particle. Davarinejad H, et al. J Mol Biol, 2019 Mar 29. PMID 30826376
    3. Selective methylation of histone H3 variant H3.1 regulates heterochromatin replication. Jacob Y, et al. Science, 2014 Mar 14. PMID 24626927, Free PMC Article
    4. Regulation of heterochromatic DNA replication by histone H3 lysine 27 methyltransferases. Jacob Y, et al. Nature, 2010 Aug 19. PMID 20631708, Free PMC Article
    5. ATXR5 and ATXR6 are H3K27 monomethyltransferases required for chromatin structure and gene silencing. Jacob Y, et al. Nat Struct Mol Biol, 2009 Jul. PMID 19503079, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. ATXR5/6 Forms Alternative Protein Complexes with PCNA and the Nucleosome Core Particle.
      Title: ATXR5/6 Forms Alternative Protein Complexes with PCNA and the Nucleosome Core Particle.
    2. Several molecular determinants regulate ATXR5/6 methyltransferase activity and epigenetic inheritance of H3.1 K27me1 mark in plants.
      Title: Molecular basis for the methylation specificity of ATXR5 for histone H3.
    3. this study identifies a histone-modifying enzyme ATXR5 that selectively methylates the replication-dependent histone H3 variant H3.1.
      Title: Selective methylation of histone H3 variant H3.1 regulates heterochromatin replication.
    4. mutations in the homologous histone 3 lysine 27 (H3K27) monomethyltransferases, ARABIDOPSIS TRITHORAX-RELATED PROTEIN5 (ATXR5) and ATXR6, lead to re-replication of specific genomic locations
      Title: Regulation of heterochromatic DNA replication by histone H3 lysine 27 methyltransferases.
    5. These results indicate that ATXR5 and ATXR6 form a new class of H3K27 methyltransferases and that H3K27me1 represents a previously uncharacterized pathway required for transcriptional repression in Arabidopsis.
      Title: ATXR5 and ATXR6 are H3K27 monomethyltransferases required for chromatin structure and gene silencing.
    6. ATXR5 and ARXR6 interact with proliferating cell nuclear antigen (PCNA) and are associated with a role in the cell cycle or DNA replication. [ATXR5]
      Title: Two cell-cycle regulated SET-domain proteins interact with proliferating cell nuclear antigen (PCNA) in Arabidopsis.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001085090.2
    NM_001343068.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables histone H3K27 methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3K27 monomethyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA-mediated transformation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pollen development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of DNA replication IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of cell cycle IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    TRITHORAX-RELATED PROTEIN 5
    NP_001078559.1
    • ARABIDOPSIS TRITHORAX-RELATED PROTEIN 5 (ATXR5); CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: ARABIDOPSIS TRITHORAX-RELATED PROTEIN 6 (TAIR:AT5G24330.1); Has 4395 Blast hits to 4055 proteins in 218 species: Archae - 0; Bacteria - 10; Metazoa - 2832; Fungi - 365; Plants - 935; Viruses - 0; Other Eukaryotes - 253 (source: NCBI BLink).
    NP_001318519.1
    • ARABIDOPSIS TRITHORAX-RELATED PROTEIN 5 (ATXR5); CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: ARABIDOPSIS TRITHORAX-RELATED PROTEIN 6 (TAIR:AT5G24330.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (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_003076.8 Reference assembly

      Range
      3038978..3041206 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001343068.1 → NP_001318519.1  TRITHORAX-RELATED PROTEIN 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UCN4, A0A2H1ZE68, A0A384LP05, A0A7G2FBH1
      Conserved Domains (2) summary
      cd10539
      Location:241 → 378
      SET_ATXR5_6-like; SET domain found in fungal protein lysine methyltransferase SET5 and similar protein
      cl22851
      Location:66 → 111
      PHD_SF; PHD finger superfamily

    2. NM_001085090.2 → NP_001078559.1  TRITHORAX-RELATED PROTEIN 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001078559.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4KFB9, Q1AJM5, Q8VZJ1, Q9FXW6, Q9LXE2
      UniProtKB/TrEMBL
      A0A178UEL1, A0A7G2FBH1
      Conserved Domains (2) summary
      cd10539
      Location:242 → 379
      SET_ATXR5_6-like; SET domain found in fungal protein lysine methyltransferase SET5 and similar protein
      cl22851
      Location:66 → 111
      PHD_SF; PHD finger superfamily
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VZJ1.2

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