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    HMGB6 high-mobility group box 6 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 832408, updated on 18-Sep-2024

    Summary

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    Official Symbol
    HMGB6
    Official Full Name
    high-mobility group box 6
    Primary source
    TAIR:AT5G23420
    Locus tag
    AT5G23420
    See related
    Araport:AT5G23420
    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
    high-mobility group box 6; K19M13.4; K19M13_4
    Summary
    Encodes HMGB6, a protein belonging to the subgroup of HMGB (high mobility group B) proteins. Localized in the nucleus. Binds to supercoiled DNA in vitro. HMGB6 is phosphorylated by protein kinase CK2alpha within its acidic C-terminal domain.
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    Genomic context

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    See HMGB6 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    8
    Sequence:
    Chromosome: 5; NC_003076.8 (7888461..7890355, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene miscRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene Transducin/WD40 repeat-like 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. HMGB6 from Arabidopsis thaliana specifies a novel type of plant chromosomal HMGB protein. Grasser KD, et al. Biochemistry, 2004 Feb 10. PMID 14756567
    2. NUCLEAR FUSION DEFECTIVE1 encodes the Arabidopsis RPL21M protein and is required for karyogamy during female gametophyte development and fertilization. Portereiko MF, et al. Plant Physiol, 2006 Jul. PMID 16698901, Free PMC Article
    3. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Riechmann JL, et al. Science, 2000 Dec 15. PMID 11118137
    4. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    General gene information

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    NM_001203442.1
    NM_122249.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in karyogamy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in polar nucleus fusion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    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
    high-mobility group box 6
    NP_001190371.1
    • high-mobility group box 6 (HMGB6); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; LOCATED IN: nucleus; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages.
    NP_568431.1
    • high-mobility group box 6 (HMGB6); CONTAINS InterPro DOMAIN/s: High mobility group, superfamily (InterPro:IPR009071), High mobility group, HMG1/HMG2 (InterPro:IPR000910); BEST Arabidopsis thaliana protein match is: HMG-box (high mobility group) DNA-binding family protein (TAIR:AT5G23405.1); 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
      7888461..7890355 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_122249.4 → NP_568431.1  high-mobility group box 6 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568431.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8LDF9, Q9FHL6
      UniProtKB/TrEMBL
      A0A178ULY2
      Conserved Domains (1) summary
      cd01390
      Location:115 → 179
      HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

    2. NM_001203442.1 → NP_001190371.1  high-mobility group box 6 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190371.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4KCW4
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8LDF9.1

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