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    DDI1 ubiquitin family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 820522, updated on 18-Sep-2024

    Summary

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    Official Symbol
    DDI1
    Official Full Name
    ubiquitin family protein
    Primary source
    TAIR:AT3G13235
    Locus tag
    AT3G13235
    See related
    Araport:AT3G13235
    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
    DNA-damage inducible 1
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    Genomic context

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    See DDI1 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    16
    Sequence:
    Chromosome: 3; NC_003074.8 (4271212..4274487, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene RING/U-box superfamily protein Neighboring gene kinesin-like protein (DUF868) Neighboring gene RNA-binding KH domain-containing protein Neighboring gene uncharacterized protein Neighboring gene pseudo

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The defective proteasome but not substrate recognition function is responsible for the null phenotypes of the Arabidopsis proteasome subunit RPN10. Lin YL, et al. Plant Cell, 2011 Jul. PMID 21764993, Free PMC Article
    2. Mapping the signaling network of BIN2 kinase using TurboID-mediated biotin labeling and phosphoproteomics. Kim TW, et al. Plant Cell, 2023 Mar 15. PMID 36660928, Free PMC Article
    3. A proteomic strategy for global analysis of plant protein complexes. Aryal UK, et al. Plant Cell, 2014 Oct. PMID 25293756, Free PMC Article
    4. Global Analysis of Membrane-associated Protein Oligomerization Using Protein Correlation Profiling. McBride Z, et al. Mol Cell Proteomics, 2017 Nov. PMID 28887381, Free PMC Article
    5. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    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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    Homology

    NM_001202947.1
    NM_001202948.2
    NM_112168.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables aspartic-type endopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables polyubiquitin modification-dependent protein binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in cytosol HDA PubMed 

    General protein information

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    Preferred Names
    ubiquitin family protein
    NP_001189876.1
    • ubiquitin family protein; FUNCTIONS IN: aspartic-type endopeptidase activity; LOCATED IN: cytosol, nucleus; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal (InterPro:IPR000449), Peptidase aspartic (InterPro:IPR021109), Ubiquitin subgroup (InterPro:IPR019956), Peptidase aspartic, eukaryotic predicted (InterPro:IPR019103), Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Peptidase A2A, retrovirus, catalytic (InterPro:IPR001995), Ubiquitin (InterPro:IPR000626), Ubiquitin supergroup (InterPro:IPR019955), UBA-like (InterPro:IPR009060).
    NP_001189877.1
    • ubiquitin family protein; FUNCTIONS IN: aspartic-type endopeptidase activity; LOCATED IN: cytosol, nucleus; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal (InterPro:IPR000449), Peptidase aspartic (InterPro:IPR021109), Ubiquitin subgroup (InterPro:IPR019956), Peptidase aspartic, eukaryotic predicted (InterPro:IPR019103), Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Peptidase A2A, retrovirus, catalytic (InterPro:IPR001995), Ubiquitin (InterPro:IPR000626), Ubiquitin supergroup (InterPro:IPR019955), UBA-like (InterPro:IPR009060).
    NP_566451.1
    • ubiquitin family protein; FUNCTIONS IN: aspartic-type endopeptidase activity; INVOLVED IN: response to cadmium ion; LOCATED IN: cytosol, nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal (InterPro:IPR000449), Peptidase aspartic (InterPro:IPR021109), Ubiquitin subgroup (InterPro:IPR019956), Peptidase aspartic, eukaryotic predicted (InterPro:IPR019103), Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Peptidase A2A, retrovirus, catalytic (InterPro:IPR001995), Ubiquitin (InterPro:IPR000626), Ubiquitin supergroup (InterPro:IPR019955), UBA-like (InterPro:IPR009060); Has 8885 Blast hits to 4319 proteins in 604 species: Archae - 0; Bacteria - 8; Metazoa - 3791; Fungi - 1215; Plants - 2329; Viruses - 83; Other Eukaryotes - 1459 (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_003074.8 Reference assembly

      Range
      4271212..4274487 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001202948.2 → NP_001189877.1  ubiquitin family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189877.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A0A178VJ92, Q1EBV4, Q8LF25, Q9LTU5
      UniProtKB/TrEMBL
      A0A384L6E9, A0A5S9XBN5, A0A7G2EI45
      Conserved Domains (4) summary
      cd05479
      Location:186 → 309
      RP_DDI; retropepsin-like domain of DNA damage inducible protein
      PRK12545
      Location:132 → 211
      PRK12545; RNA polymerase factor sigma-70
      cd14309
      Location:377 → 412
      UBA_scDdi1_like; UBA domain found in Saccharomyces cerevisiae DNA-damage response protein Ddi1 and similar proteins
      cd01796
      Location:1 → 71
      Ubl_Ddi1_like; ubiquitin-like (Ubl) domain found in the eukaryotic Ddi1 family

    2. NM_001202947.1 → NP_001189876.1  ubiquitin family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189876.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A7G2EI45, F4JC86
      Conserved Domains (4) summary
      cd05479
      Location:185 → 308
      RP_DDI; RP_DDI; retropepsin-like domain of DNA damage inducible protein
      cd01796
      Location:3 → 72
      DDI1_N; DNA damage inducible protein 1 ubiquitin-like domain
      smart00213
      Location:1 → 72
      UBQ; Ubiquitin homologues
      cd14309
      Location:376 → 411
      UBA_scDdi1_like; UBA domain found in Saccharomyces cerevisiae DNA-damage response protein Ddi1 and similar proteins

    3. NM_112168.5 → NP_566451.1  ubiquitin family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_566451.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A0A178VJ92, Q1EBV4, Q8LF25, Q9LTU5
      UniProtKB/TrEMBL
      A0A384L6E9, A0A5S9XBN5, A0A7G2EI45
      Conserved Domains (4) summary
      cd05479
      Location:186 → 309
      RP_DDI; retropepsin-like domain of DNA damage inducible protein
      PRK12545
      Location:132 → 211
      PRK12545; RNA polymerase factor sigma-70
      cd14309
      Location:377 → 412
      UBA_scDdi1_like; UBA domain found in Saccharomyces cerevisiae DNA-damage response protein Ddi1 and similar proteins
      cd01796
      Location:1 → 71
      Ubl_Ddi1_like; ubiquitin-like (Ubl) domain found in the eukaryotic Ddi1 family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q1EBV4.1

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