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    HMGB5 high mobility group B5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829709, updated on 18-Sep-2024

    Summary

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    Official Symbol
    HMGB5
    Official Full Name
    high mobility group B5
    Primary source
    TAIR:AT4G35570
    Locus tag
    AT4G35570
    See related
    Araport:AT4G35570
    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
    F8D20.80; F8D20_80; high mobility group B5; HMGD; NFD05; NFD5; NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR 5
    Summary
    Encodes a protein belonging to the subgroup of HMGB (high mobility group B) proteins that have a distinctive DNA-binding motif, the HMG-box domain. The motif confers non-sequence specific interaction with linear DNA and structure-specific binding to distorted DNA sites. The HMGB proteins are involved in the assembly of nucleoprotein complexes. Cannot be phosphorylated by CK2alpha.
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    Genomic context

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    See HMGB5 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    7
    Sequence:
    Chromosome: 4; NC_003075.7 (16887131..16888371, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene Transducin/WD40 repeat-like superfamily protein Neighboring gene NAC transcription factor-like 9 Neighboring gene miscRNA

    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. Arabidopsis chromatin-associated HMGA and HMGB use different nuclear targeting signals and display highly dynamic localization within the nucleus. Launholt D, et al. Plant Cell, 2006 Nov. PMID 17114349, Free PMC Article
    2. Nucleocytoplasmic distribution of the Arabidopsis chromatin-associated HMGB2/3 and HMGB4 proteins. Pedersen DS, et al. Plant Physiol, 2010 Dec. PMID 20940346, Free PMC Article
    3. Screening for in planta protein-protein interactions combining bimolecular fluorescence complementation with flow cytometry. Berendzen KW, et al. Plant Methods, 2012 Jul 12. PMID 22789293, Free PMC Article
    4. Phosphorylation of maize and Arabidopsis HMGB proteins by protein kinase CK2alpha. Stemmer C, et al. Biochemistry, 2003 Apr 1. PMID 12653554
    5. Variability in Arabidopsis thaliana chromosomal high-mobility-group-1-like proteins. Stemmer C, et al. Eur J Biochem, 1997 Dec 15. PMID 9461286

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001342361.1
    NM_119722.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables chromatin binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables structural constituent of chromatin TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromatin TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    colocalizes_with cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    colocalizes_with nucleus 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
    high mobility group B5
    NP_195282.1
    • high mobility group B5 (HMGB5); CONTAINS InterPro DOMAIN/s: High mobility group, superfamily (InterPro:IPR009071), High mobility group, HMG1/HMG2 (InterPro:IPR000910); BEST Arabidopsis thaliana protein match is: high mobility group B4 (TAIR:AT2G17560.2); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (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
      16887131..16888371 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_119722.3 → NP_195282.1  high mobility group B5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_195282.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49597
      UniProtKB/TrEMBL
      A0A178V4H6, A0A5S9XYY4
      Conserved Domains (1) summary
      cd01390
      Location:34 → 100
      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 chromosomal ...

    2. NM_001342361.1 → NP_001329802.1  high mobility group B5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49597
      UniProtKB/TrEMBL
      A0A178V4H6, A0A5S9XYY4
      Conserved Domains (1) summary
      cd01390
      Location:34 → 100
      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 chromosomal ...
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O49597.1

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