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    LINC4 branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5);little nuclei4 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 836706, updated on 18-Sep-2024

    Summary

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    Official Symbol
    LINC4
    Official Full Name
    branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5);little nuclei4
    Primary source
    TAIR:AT5G65770
    Locus tag
    AT5G65770
    See related
    Araport:AT5G65770
    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
    CROWDED NUCLEI 4; CRWN4; LITTLE NUCLEI4; MPA24.12; MPA24_12
    Summary
    Encodes a protein that localizes to the nuclear periphery and affects nuclear morphology.
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    Genomic context

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    See LINC4 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    10
    Sequence:
    Chromosome: 5; NC_003076.8 (26311311..26316025)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene zinc ion binding protein Neighboring gene 2-oxoglutarate dehydrogenase, E1 component Neighboring gene Serine carboxypeptidase S28 family protein Neighboring gene branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5) Neighboring gene myb domain protein 68 Neighboring gene ACC synthase 5

    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. Subnuclear gene positioning through lamina association affects copper tolerance. Sakamoto Y, et al. Nat Commun, 2020 Nov 20. PMID 33219233, Free PMC Article
    2. The Novel Nuclear Envelope Protein KAKU4 Modulates Nuclear Morphology in Arabidopsis. Goto C, et al. Plant Cell, 2014 May. PMID 24824484, Free PMC Article
    3. Roles of CRWN-family proteins in protecting genomic DNA against oxidative damage. Wang Q, et al. J Plant Physiol, 2019 Feb. PMID 30576929
    4. Arabidopsis CROWDED NUCLEI (CRWN) proteins are required for nuclear size control and heterochromatin organization. Wang H, et al. BMC Plant Biol, 2013 Dec 5. PMID 24308514, Free PMC Article
    5. LITTLE NUCLEI 1 and 4 regulate nuclear morphology in Arabidopsis thaliana. Sakamoto Y, et al. Plant Cell Physiol, 2013 Apr. PMID 23396599

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Subnuclear gene positioning through lamina association affects copper tolerance.
      Title: Subnuclear gene positioning through lamina association affects copper tolerance.
    2. role in diminishing ROS accumulation and protecting genomic DNA against excessive oxidative damage caused by methyl methanesulfonate
      Title: Roles of CRWN-family proteins in protecting genomic DNA against oxidative damage.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001161327.1
    NM_001203697.1
    NM_001203698.1
    NM_125974.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within nucleus organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nucleus organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of nucleus size IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromocenter IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear lamina IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear periphery 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
    branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5);little nuclei4
    NP_001154799.1
    • LITTLE NUCLEI4 (LINC4); EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5) (TAIR:AT5G65780.2); Has 215167 Blast hits to 102614 proteins in 3709 species: Archae - 2940; Bacteria - 43360; Metazoa - 90724; Fungi - 17442; Plants - 11239; Viruses - 934; Other Eukaryotes - 48528 (source: NCBI BLink).
    NP_001190626.1
    • LITTLE NUCLEI4 (LINC4); EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5) (TAIR:AT5G65780.2).
    NP_001190627.1
    • ATBCAT-5; FUNCTIONS IN: branched-chain-amino-acid transaminase activity, catalytic activity; LOCATED IN: mitochondrion, chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: little nuclei4 (TAIR:AT5G65770.3).
    NP_201378.5
    • LITTLE NUCLEI4 (LINC4); LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5) (TAIR:AT5G65780.2); Has 212892 Blast hits to 104310 proteins in 3685 species: Archae - 2813; Bacteria - 44601; Metazoa - 88597; Fungi - 16519; Plants - 11430; Viruses - 898; Other Eukaryotes - 48034 (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
      26311311..26316025
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001203697.1 → NP_001190626.1  little nuclei4 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190626.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JXK1, Q9FLH0
      UniProtKB/TrEMBL
      A0A5S9YHV6
      Conserved Domains (3) summary
      COG1196
      Location:50 → 741
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02601
      Location:427 → 500
      Exonuc_VII_L; Exonuclease VII, large subunit
      cl19219
      Location:659 → 746
      DUF342; Protein of unknown function (DUF342)

    2. NM_001203698.1 → NP_001190627.1  branched-chain amino acid aminotransferase 5 / branched-chain amino acid transaminase 5 (BCAT5) [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190627.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654GEJ1, F4JXK3

    3. NM_125974.5 → NP_201378.5  little nuclei4 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_201378.5

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JXK1, Q9FLH0
      UniProtKB/TrEMBL
      A0A5S9YHV6
      Conserved Domains (3) summary
      COG1196
      Location:50 → 741
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02601
      Location:427 → 500
      Exonuc_VII_L; Exonuclease VII, large subunit
      cl19219
      Location:659 → 746
      DUF342; Protein of unknown function (DUF342)

    4. NM_001161327.1 → NP_001154799.1  little nuclei4 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001154799.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654GEJ1
      Conserved Domains (3) summary
      COG1196
      Location:66 → 768
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02601
      Location:454 → 527
      Exonuc_VII_L; Exonuclease VII, large subunit
      cl19219
      Location:686 → 773
      DUF342; Protein of unknown function (DUF342)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FLH0.2

    Gene LinkOut

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