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    RING/U-box superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 828953, updated on 18-Sep-2024

    Summary

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    Official Full Name
    RING/U-box superfamily protein
    Primary source
    TAIR:AT4G28370
    Locus tag
    AT4G28370
    See related
    Araport:AT4G28370
    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
    F20O9.50; F20O9_50; FLY1; FLYING SAUCER 1
    Summary
    Encodes an E3 ubiquitin ligase that is involved in plant cell wall modification, seed mucilage extrusion, and controls the degree of pectin methylesterification in seed mucilage. It is located in the endomembrane system, likely localized in late endosome/multivesicular bodies/prevacular compartment. It has been shown to ubiquitinate proteins in conjunction with UBA1 and UBC8.
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    Genomic context

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    Location:
    chromosome: 4
    Exon count:
    15
    Sequence:
    Chromosome: 4; NC_003075.7 (14034536..14039668)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene tRNA-Lys Neighboring gene early nodulin-like protein 3 Neighboring gene Leucine-rich repeat (LRR) family protein Neighboring gene ADP/ATP carrier 3

    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. Flying saucer1 is a transmembrane RING E3 ubiquitin ligase that regulates the degree of pectin methylesterification in Arabidopsis seed mucilage. Voiniciuc C, et al. Plant Cell, 2013 Mar. PMID 23482858, Free PMC Article
    2. The Genetic Control of SEEDSTICK and LEUNIG-HOMOLOG in Seed and Fruit Development: New Insights into Cell Wall Control. Di Marzo M, et al. Plants (Basel), 2022 Nov 17. PMID 36432874, Free PMC Article
    3. The 14-3-3 isoforms chi and epsilon differentially bind client proteins from developing Arabidopsis seed. Swatek KN, et al. J Proteome Res, 2011 Sep 2. PMID 21766784
    4. Border control--a membrane-linked interactome of Arabidopsis. Jones AM, et al. Science, 2014 May 16. PMID 24833385
    5. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer K, et al. Nature, 1999 Dec 16. PMID 10617198

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. FLY1 is a transmembrane RING E3 ubiquitin ligase, which controls the methylesterification of pectin in seed mucilage. [FLY1]
      Title: Flying saucer1 is a transmembrane RING E3 ubiquitin ligase that regulates the degree of pectin methylesterification in Arabidopsis seed mucilage.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001341912.1
    NM_001341913.1
    NM_001341914.1
    NM_118978.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables ubiquitin-protein transferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within mucilage extrusion from seed coat IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mucilage pectin biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mucilage pectin metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within plant-type cell wall modification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in endomembrane system IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RING/U-box superfamily protein
    NP_194566.3
    • RING/U-box superfamily protein; FUNCTIONS IN: zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: endomembrane system; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, RING-type (InterPro:IPR001841), Zinc finger, C3HC4 RING-type (InterPro:IPR018957); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT2G20650.2); Has 309 Blast hits to 308 proteins in 35 species: Archae - 0; Bacteria - 0; Metazoa - 74; Fungi - 25; Plants - 165; Viruses - 0; Other Eukaryotes - 45 (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
      14034536..14039668
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_118978.4 → NP_194566.3  RING/U-box superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_194566.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49446, Q0WN63, Q5PP23
      UniProtKB/TrEMBL
      A0A178UXS0, A0A5S9XXD7, A0A7G2F6V1
      Conserved Domains (2) summary
      cd00162
      Location:512 → 555
      RING_Ubox; RING-H2 finger (C3H2C3-type) [structural motif]
      pfam13639
      Location:510 → 556
      zf-RING_2; Ring finger domain

    2. NM_001341912.1 → NP_001328219.1  RING/U-box superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49446, Q0WN63, Q5PP23
      UniProtKB/TrEMBL
      A0A178UXS0, A0A5S9XXD7, A0A7G2F6V1
      Conserved Domains (2) summary
      cd00162
      Location:512 → 555
      RING_Ubox; RING-H2 finger (C3H2C3-type) [structural motif]
      pfam13639
      Location:510 → 556
      zf-RING_2; Ring finger domain

    3. NM_001341913.1 → NP_001328220.1  RING/U-box superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49446, Q0WN63, Q5PP23
      UniProtKB/TrEMBL
      A0A178UXS0, A0A5S9XXD7, A0A7G2F6V1
      Conserved Domains (2) summary
      cd00162
      Location:512 → 555
      RING_Ubox; RING-H2 finger (C3H2C3-type) [structural motif]
      pfam13639
      Location:510 → 556
      zf-RING_2; Ring finger domain

    4. NM_001341914.1 → NP_001328221.1  RING/U-box superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49446, Q0WN63, Q5PP23
      UniProtKB/TrEMBL
      A0A178UXS0, A0A5S9XXD7, A0A7G2F6V1
      Conserved Domains (2) summary
      cd00162
      Location:512 → 555
      RING_Ubox; RING-H2 finger (C3H2C3-type) [structural motif]
      pfam13639
      Location:510 → 556
      zf-RING_2; Ring finger domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5PP23.1

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