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    PUB4 RING/U-box superfamily protein with ARM repeat domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 816846, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PUB4
    Official Full Name
    RING/U-box superfamily protein with ARM repeat domain-containing protein
    Primary source
    TAIR:AT2G23140
    Locus tag
    AT2G23140
    See related
    Araport:AT2G23140
    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
    AtPUB4; plant U-box 4; T20D16.23; T20D16_23
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    Genomic context

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    See PUB4 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    5
    Sequence:
    Chromosome: 2; NC_003071.7 (9845410..9849379, complement)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene Late embryogenesis abundant protein, group 6 Neighboring gene uncharacterized protein Neighboring gene arabinogalactan protein 17 Neighboring gene Plant self-incompatibility protein S1 family Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The PUB4 E3 Ubiquitin Ligase Is Responsible for the Variegated Phenotype Observed upon Alteration of Chloroplast Protein Homeostasis in Arabidopsis Cotyledons. Jeran N, et al. Genes (Basel), 2021 Sep 6. PMID 34573369, Free PMC Article
    2. Chlorophagy does not require PLANT U-BOX4-mediated ubiquitination. Nakamura S, et al. Plant Signal Behav, 2021 Mar 4. PMID 33331806, Free PMC Article
    3. Ubiquitin facilitates a quality-control pathway that removes damaged chloroplasts. Woodson JD, et al. Science, 2015 Oct 23. PMID 26494759, Free PMC Article
    4. A plant U-box protein, PUB4, regulates asymmetric cell division and cell proliferation in the root meristem. Kinoshita A, et al. Development, 2015 Feb 1. PMID 25605779
    5. The Arabidopsis U-box/ARM repeat E3 ligase AtPUB4 influences growth and degeneration of tapetal cells, and its mutation leads to conditional male sterility. Wang H, et al. Plant J, 2013 May. PMID 23398263

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Arabidopsis PUB2 and PUB4 connect signaling components of pattern-triggered immunity.
      Title: Arabidopsis PUB2 and PUB4 connect signaling components of pattern-triggered immunity.
    2. The PUB4 E3 Ubiquitin Ligase Is Responsible for the Variegated Phenotype Observed upon Alteration of Chloroplast Protein Homeostasis in Arabidopsis Cotyledons.
      Title: The PUB4 E3 Ubiquitin Ligase Is Responsible for the Variegated Phenotype Observed upon Alteration of Chloroplast Protein Homeostasis in Arabidopsis Cotyledons.
    3. Chlorophagy does not require PLANT U-BOX4-mediated ubiquitination.
      Title: Chlorophagy does not require PLANT U-BOX4-mediated ubiquitination.
    4. PUB4 role in the cytokinin signaling networks regulating developmental and physiological processes.PUB4 interaction with XLG1, XLG2 and XlG3 proteins.
      Title: EXTRA-LARGE G PROTEINs Interact with E3 Ligases PUB4 and PUB2 and Function in Cytokinin and Developmental Processes.
    5. PLANT U-BOX 4 (PUB4), is a key regulatory component of root meristem maintenance that functions downstream of an exogenous synthetic CLV3 peptide.
      Title: Mystery in genetics: PUB4 gives a clue to the complex mechanism of CLV signaling pathway in the shoot apical meristem.
    6. A genetic screen identified the plant U-box 4 (PUB4) E3 ubiquitin ligase as being necessary for ubiquitination and selective degradation of chloroplasts damaged by reactive oxygen species.
      Title: Ubiquitin facilitates a quality-control pathway that removes damaged chloroplasts.
    7. PUB4 promotes expression of a cell cycle regulatory gene, CYCD6;1, and regulates formative periclinal asymmetric cell divisions in endodermis and cortex/endodermis initial daughters.
      Title: A plant U-box protein, PUB4, regulates asymmetric cell division and cell proliferation in the root meristem.
    8. AtPUB4-mediated pathway acts in parallel with the brassinosteroid pathway in controlling developmental fates of the tapetal cells to ensure male fertility. [PUB4]
      Title: The Arabidopsis U-box/ARM repeat E3 ligase AtPUB4 influences growth and degeneration of tapetal cells, and its mutation leads to conditional male sterility.
    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_001202654.2
    NM_001335838.1
    NM_001335839.1
    NM_001335840.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables ubiquitin protein ligase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within anther wall tapetum development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cellular response to reactive oxygen species IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within chloroplast disassembly IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein ubiquitination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within root development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm 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
    RING/U-box superfamily protein with ARM repeat domain-containing protein
    NP_001189583.1
    • RING/U-box superfamily protein with ARM repeat domain; FUNCTIONS IN: ubiquitin-protein ligase activity, binding; INVOLVED IN: protein ubiquitination; LOCATED IN: ubiquitin ligase complex; EXPRESSED IN: male gametophyte, pollen tube; EXPRESSED DURING: L mature pollen stage, M germinated pollen stage; CONTAINS InterPro DOMAIN/s: U box domain (InterPro:IPR003613), Armadillo-like helical (InterPro:IPR011989), Armadillo (InterPro:IPR000225), Armadillo-type fold (InterPro:IPR016024); BEST Arabidopsis thaliana protein match is: ARM repeat superfamily protein (TAIR:AT5G67340.1).
    NP_179895.6
    • RING/U-box superfamily protein with ARM repeat domain; FUNCTIONS IN: ubiquitin-protein ligase activity, binding; INVOLVED IN: protein ubiquitination; LOCATED IN: ubiquitin ligase complex; EXPRESSED IN: male gametophyte, cultured cell, pollen tube; EXPRESSED DURING: L mature pollen stage, M germinated pollen stage; CONTAINS InterPro DOMAIN/s: U box domain (InterPro:IPR003613), Armadillo-like helical (InterPro:IPR011989), Armadillo (InterPro:IPR000225), Armadillo-type fold (InterPro:IPR016024); BEST Arabidopsis thaliana protein match is: ARM repeat superfamily protein (TAIR:AT5G67340.1); Has 11466 Blast hits to 5570 proteins in 449 species: Archae - 8; Bacteria - 346; Metazoa - 2626; Fungi - 852; Plants - 4850; Viruses - 10; Other Eukaryotes - 2774 (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_003071.7 Reference assembly

      Range
      9845410..9849379 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_127878.7 → NP_179895.6  RING/U-box superfamily protein with ARM repeat domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_179895.6

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9X0E1, F4ILG6
      Conserved Domains (3) summary
      smart00504
      Location:236 → 299
      Ubox; Modified RING finger domain
      cd00020
      Location:581 → 696
      ARM; Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, ...
      sd00043
      Location:588 → 613
      ARM; armadillo repeat [structural motif]

    2. NM_001202654.2 → NP_001189583.1  RING/U-box superfamily protein with ARM repeat domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189583.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4ILG7, O22193
      UniProtKB/TrEMBL
      A0A5S9X0E1, A0A654EVA5
      Conserved Domains (5) summary
      smart00504
      Location:233 → 296
      Ubox; Modified RING finger domain
      PLN03200
      Location:556 → 816
      PLN03200; cellulose synthase-interactive protein; Provisional
      PHA03307
      Location:324 → 534
      PHA03307; transcriptional regulator ICP4; Provisional
      sd00043
      Location:585 → 610
      ARM; armadillo repeat [structural motif]
      cd16664
      Location:236 → 274
      RING-Ubox_PUB; U-box domain, a modified RING finger [structural motif]

    3. NM_001335838.1 → NP_001323987.1  RING/U-box superfamily protein with ARM repeat domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AYN7

    4. NM_001335839.1 → NP_001323989.1  RING/U-box superfamily protein with ARM repeat domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4ILG7, O22193
      UniProtKB/TrEMBL
      A0A5S9X0E1, A0A654EVA5
      Conserved Domains (5) summary
      smart00504
      Location:233 → 296
      Ubox; Modified RING finger domain
      PLN03200
      Location:556 → 816
      PLN03200; cellulose synthase-interactive protein; Provisional
      PHA03307
      Location:324 → 534
      PHA03307; transcriptional regulator ICP4; Provisional
      sd00043
      Location:585 → 610
      ARM; armadillo repeat [structural motif]
      cd16664
      Location:236 → 274
      RING-Ubox_PUB; U-box domain, a modified RING finger [structural motif]

    5. NM_001335840.1 → NP_001323988.1  RING/U-box superfamily protein with ARM repeat domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AYN7
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O22193.3

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