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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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