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DEK domain-containing chromatin associated protein [ Arabidopsis thaliana (thale cress) ]

Gene ID: 828770, updated on 18-Sep-2024

Summary

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Official Full Name
DEK domain-containing chromatin associated protein
Primary source
TAIR:AT4G26630
Locus tag
AT4G26630
See related
Araport:AT4G26630
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
DEK-domain containing protein 3; DEK3; T15N24.80; T15N24_80
Summary
Encodes a chromatin-associated protein that specifically binds histones H3 and H4 and contributes to modulation of Arabidopsis chromatin structure and function.
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Genomic context

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Location:
chromosome: 4
Exon count:
12
Sequence:
Chromosome: 4; NC_003075.7 (13430405..13435770, complement)

Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene S-adenosyl-L-methionine-dependent methyltransferases superfamily protein Neighboring gene D6 protein kinase like 1 Neighboring gene Sucrase/ferredoxin-like family protein Neighboring gene WRKY family transcription factor family protein Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003075.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. GSK3-mediated phosphorylation of DEK3 regulates chromatin accessibility and stress tolerance in Arabidopsis. Waidmann S, et al. FEBS J, 2022 Jan. PMID 34492159
  2. A DEK domain-containing protein modulates chromatin structure and function in Arabidopsis. Waidmann S, et al. Plant Cell, 2014 Nov. PMID 25387881, Free PMC Article
  3. Interactomics of Qa-SNARE in Arabidopsis thaliana. Fujiwara M, et al. Plant Cell Physiol, 2014 Apr. PMID 24556609
  4. Proteomic analysis of the Arabidopsis nucleolus suggests novel nucleolar functions. Pendle AF, et al. Mol Biol Cell, 2005 Jan. PMID 15496452, Free PMC Article
  5. Global Analysis of Membrane-associated Protein Oligomerization Using Protein Correlation Profiling. McBride Z, et al. Mol Cell Proteomics, 2017 Nov. PMID 28887381, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. GSK3-mediated phosphorylation of DEK3 regulates chromatin accessibility and stress tolerance in Arabidopsis.
    Title: GSK3-mediated phosphorylation of DEK3 regulates chromatin accessibility and stress tolerance in Arabidopsis.
  2. DEK3 affects nucleosome occupancy and chromatin accessibility and modulates the expression of DEK3 target genes. Functional levels of DEK3 are crucial for stress tolerance.
    Title: A DEK domain-containing protein modulates chromatin structure and function 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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Markers

NM_001036647.3
NM_118797.5

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables chromatin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin remodeling IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within negative regulation of DNA-templated transcription IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in response to salt stress IEP
Inferred from Expression Pattern
more info
 PubMed 
acts_upstream_of_or_within response to salt stress IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytosol HDA PubMed 
located_in nucleolus 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
DEK domain-containing chromatin associated protein
NP_001031724.1
  • DEK domain-containing chromatin associated protein; CONTAINS InterPro DOMAIN/s: DEK, C-terminal (InterPro:IPR014876); BEST Arabidopsis thaliana protein match is: DEK domain-containing chromatin associated protein (TAIR:AT5G55660.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
NP_194393.3
  • DEK domain-containing chromatin associated protein; CONTAINS InterPro DOMAIN/s: DEK, C-terminal (InterPro:IPR014876); BEST Arabidopsis thaliana protein match is: DEK domain-containing chromatin associated protein (TAIR:AT5G55660.1); Has 293195 Blast hits to 121176 proteins in 3836 species: Archae - 1379; Bacteria - 45347; Metazoa - 110567; Fungi - 36004; Plants - 15140; Viruses - 1802; Other Eukaryotes - 82956 (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_003075.7 Reference assembly

    Range
    13430405..13435770 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_118797.5 → NP_194393.3  DEK domain-containing chromatin associated protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_194393.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    B9DFH7, Q0WN52, Q0WSS7, Q0WW14, Q8RWF6, Q9SUA1
    UniProtKB/TrEMBL
    A0A654FT16
    Conserved Domains (3) summary
    PTZ00108
    Location:466 → 675
    PTZ00108; DNA topoisomerase 2-like protein; Provisional
    TIGR00927
    Location:20 → 281
    2A1904; K+-dependent Na+/Ca+ exchanger
    pfam08766
    Location:677 → 730
    DEK_C; DEK C terminal domain

  2. NM_001036647.3 → NP_001031724.1  DEK domain-containing chromatin associated protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001031724.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    B9DFH7, Q0WN52, Q0WSS7, Q0WW14, Q8RWF6, Q9SUA1
    UniProtKB/TrEMBL
    A0A654FT16
    Conserved Domains (3) summary
    PTZ00108
    Location:466 → 675
    PTZ00108; DNA topoisomerase 2-like protein; Provisional
    TIGR00927
    Location:20 → 281
    2A1904; K+-dependent Na+/Ca+ exchanger
    pfam08766
    Location:677 → 730
    DEK_C; DEK C terminal domain
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9SUA1.1

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