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    ATX2 trithorax-like protein 2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 837093, updated on 18-Sep-2024

    Summary

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    Official Symbol
    ATX2
    Official Full Name
    trithorax-like protein 2
    Primary source
    TAIR:AT1G05830
    Locus tag
    AT1G05830
    See related
    Araport:AT1G05830
    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
    SDG30; SET DOMAIN PROTEIN 30; T20M3.10; T20M3_10; trithorax-like protein 2
    Summary
    Encodes a homolog of trithorax, a histone-lysine N-methyltransferase. Paralog of ATX1. Unlike ATX1 which is involved in trimethylating of histone H3-mysine 4, ATX2 is involved in dimethylating of histone H3-lysine 4. ATX1 and ATX2 influence the expression of largely nonoverlapping gene sets. The expression pattern of ATX2 is also different from that of ATX1.
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    Genomic context

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    See ATX2 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    24
    Sequence:
    Chromosome: 1; NC_003070.9 (1754130..1761909)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene basic helix-loop-helix (bHLH) DNA-binding superfamily protein Neighboring gene Rab GTPase-like A5A protein Neighboring gene SIGNAL PEPTIDE PEPTIDASE-LIKE 5 Neighboring gene PHD finger protein Neighboring gene ncRNA Neighboring gene Eukaryotic aspartyl protease family protein Neighboring gene ncRNA

    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. The highly similar Arabidopsis homologs of trithorax ATX1 and ATX2 encode proteins with divergent biochemical functions. Saleh A, et al. Plant Cell, 2008 Mar. PMID 18375658, Free PMC Article
    2. Arabidopsis Trithorax histone methyltransferases are redundant in regulating development and DNA methylation. Shang JY, et al. J Integr Plant Biol, 2022 Dec. PMID 36354145
    3. ARABIDOPSIS TRITHORAX1 dynamically regulates FLOWERING LOCUS C activation via histone 3 lysine 4 trimethylation. Pien S, et al. Plant Cell, 2008 Mar. PMID 18375656, Free PMC Article
    4. The Arabidopsis homologs of trithorax (ATX1) and enhancer of zeste (CLF) establish 'bivalent chromatin marks' at the silent AGAMOUS locus. Saleh A, et al. Nucleic Acids Res, 2007. PMID 17881378, Free PMC Article
    5. COMPASS functions as a module of the INO80 chromatin remodeling complex to mediate histone H3K4 methylation in Arabidopsis. Shang JY, et al. Plant Cell, 2021 Oct 11. PMID 34270751, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    NM_001083995.4
    NM_100464.7

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables histone H3K4 dimethyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables histone H3K4 methyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in epigenetic regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in epigenetic regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in vegetative to reproductive phase transition of meristem IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Set1C/COMPASS complex 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-like protein 2
    NP_001077464.4
    • trithorax-like protein 2 (ATX2); FUNCTIONS IN: histone methyltransferase activity (H3-K4 specific), DNA binding; INVOLVED IN: histone H3-K4 methylation, regulation of transcription, DNA-dependent, regulation of transcription; LOCATED IN: nucleus; EXPRESSED IN: stigma, rosette leaf, male gametophyte, root; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), FY-rich, C-terminal (InterPro:IPR003889), Zinc finger, PHD-type (InterPro:IPR001965), FY-rich, N-terminal (InterPro:IPR003888), Post-SET domain (InterPro:IPR003616), FY-rich, C-terminal subgroup (InterPro:IPR018516), PWWP (InterPro:IPR000313), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), FY-rich, N-terminal subgroup (InterPro:IPR018518), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: homologue of trithorax (TAIR:AT2G31650.1); Has 7263 Blast hits to 7069 proteins in 482 species: Archae - 2; Bacteria - 419; Metazoa - 3302; Fungi - 848; Plants - 1335; Viruses - 0; Other Eukaryotes - 1357 (source: NCBI BLink).
    NP_172074.6
    • trithorax-like protein 2 (ATX2); FUNCTIONS IN: histone methyltransferase activity (H3-K4 specific), DNA binding; INVOLVED IN: histone H3-K4 methylation, regulation of transcription, DNA-dependent, regulation of transcription; LOCATED IN: nucleus; EXPRESSED IN: stigma, rosette leaf, male gametophyte, root; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), FY-rich, C-terminal (InterPro:IPR003889), Zinc finger, PHD-type (InterPro:IPR001965), FY-rich, N-terminal (InterPro:IPR003888), Post-SET domain (InterPro:IPR003616), FY-rich, C-terminal subgroup (InterPro:IPR018516), PWWP (InterPro:IPR000313), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), FY-rich, N-terminal subgroup (InterPro:IPR018518), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: homologue of trithorax (TAIR:AT2G31650.1); Has 7263 Blast hits to 7069 proteins in 482 species: Archae - 2; Bacteria - 419; Metazoa - 3302; Fungi - 848; Plants - 1335; Viruses - 0; Other Eukaryotes - 1357 (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
      1754130..1761909
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001331587.1 → NP_001321563.1  trithorax-like protein 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P0CB22, Q8RXL4, Q9MA43
      UniProtKB/TrEMBL
      A0A654E861

    2. NM_001331588.1 → NP_001321564.1  trithorax-like protein 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P0CB22, Q8RXL4, Q9MA43
      UniProtKB/TrEMBL
      A0A654E861

    3. NM_100464.7 → NP_172074.6  trithorax-like protein 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_172074.6

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P0CB22, Q8RXL4, Q9MA43
      UniProtKB/TrEMBL
      A0A654E861
      Conserved Domains (7) summary
      smart00542
      Location:524 → 610
      FYRC; FY-rich domain, C-terminal region
      smart00317
      Location:919 → 1038
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG2940
      Location:706 → 1056
      SET; SET domain-containing protein (function unknown) [General function prediction only]
      cd15494
      Location:628 → 674
      PHD_ATX1_2_like; PHD finger found in Arabidopsis thaliana histone-lysine N-methyltransferase arabidopsis trithorax-like protein ATX1, ATX2, and similar proteins
      cd15662
      Location:685 → 806
      ePHD_ATX1_2_like; Extended PHD finger found in Arabidopsis thaliana ATX1, -2, and similar proteins
      pfam00855
      Location:313 → 403
      PWWP; PWWP domain
      pfam05964
      Location:464 → 513
      FYRN; F/Y-rich N-terminus

    4. NM_001083995.4 → NP_001077464.4  trithorax-like protein 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001077464.4

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P0CB22, Q8RXL4, Q9MA43
      UniProtKB/TrEMBL
      A0A654E861
      Conserved Domains (7) summary
      smart00542
      Location:524 → 610
      FYRC; FY-rich domain, C-terminal region
      smart00317
      Location:919 → 1038
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG2940
      Location:706 → 1056
      SET; SET domain-containing protein (function unknown) [General function prediction only]
      cd15494
      Location:628 → 674
      PHD_ATX1_2_like; PHD finger found in Arabidopsis thaliana histone-lysine N-methyltransferase arabidopsis trithorax-like protein ATX1, ATX2, and similar proteins
      cd15662
      Location:685 → 806
      ePHD_ATX1_2_like; Extended PHD finger found in Arabidopsis thaliana ATX1, -2, and similar proteins
      pfam00855
      Location:313 → 403
      PWWP; PWWP domain
      pfam05964
      Location:464 → 513
      FYRN; F/Y-rich N-terminus
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P0CB22.1

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