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    UBP5 ubiquitin-specific protease 5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 818691, updated on 18-Sep-2024

    Summary

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    Official Symbol
    UBP5
    Official Full Name
    ubiquitin-specific protease 5
    Primary source
    TAIR:AT2G40930
    Locus tag
    AT2G40930
    See related
    Araport:AT2G40930
    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
    ATUBP5; PDE323; PIGMENT DEFECTIVE EMBRYO 323; T20B5.13; T20B5_13; ubiquitin-specific protease 5
    Summary
    Encodes ubiquitin-specific protease with nuclear localization signals that is likely to be involved in ubiquitin-mediated protein degradation.
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    Genomic context

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    See UBP5 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    13
    Sequence:
    Chromosome: 2; NC_003071.7 (17076311..17082528, complement)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene F-box and associated interaction domains-containing protein Neighboring gene F-box and associated interaction domains-containing protein Neighboring gene PLAC8 family protein Neighboring gene ethylene response sensor 1 Neighboring gene Basic-leucine zipper (bZIP) transcription factor family protein

    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 UBP5 histone H2A deubiquitinase counteracts PRCs-mediated repression to regulate Arabidopsis development. Godwin J, et al. Nat Commun, 2024 Jan 22. PMID 38253560, Free PMC Article
    2. Ubiquitin-specific proteases from Arabidopsis thaliana: cloning of AtUBP5 and analysis of substrate specificity of AtUBP3, AtUBP4, and AtUBP5 using Escherichia coli in vivo and in vitro assays. Rao-Naik C, et al. Arch Biochem Biophys, 2000 Jul 15. PMID 10898935
    3. 14-3-3 proteins fine-tune plant nutrient metabolism. Shin R, et al. FEBS Lett, 2011 Jan 3. PMID 21094157
    4. Evidence for network evolution in an Arabidopsis interactome map. Arabidopsis Interactome Mapping Consortium. Science, 2011 Jul 29. PMID 21798944, Free PMC Article
    5. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. UBP5 is a new regulator of PRCs activities, directly controlling H2Aub deubiquitination and affecting H3K27 trimethylation to regulate gene expression.
      Title: The UBP5 histone H2A deubiquitinase counteracts PRCs-mediated repression to regulate Arabidopsis development.
    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_129656.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables cysteine-type deubiquitinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables cysteine-type deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2A deubiquitinase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of gene expression, epigenetic IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within ubiquitin-dependent protein catabolic process TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    ubiquitin-specific protease 5
    NP_565944.1
    • ubiquitin-specific protease 5 (UBP5); CONTAINS InterPro DOMAIN/s: Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2, conserved site (InterPro:IPR018200), Peptidase C19, ubiquitin-specific peptidase, DUSP domain (InterPro:IPR006615), Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (InterPro:IPR001394); BEST Arabidopsis thaliana protein match is: ubiquitin-specific protease 9 (TAIR:AT4G10570.1); Has 10784 Blast hits to 7330 proteins in 261 species: Archae - 0; Bacteria - 2; Metazoa - 5578; Fungi - 1854; Plants - 1330; Viruses - 10; Other Eukaryotes - 2010 (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
      17076311..17082528 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001336876.1 → NP_001323724.1  ubiquitin-specific protease 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O22207, Q9SEX3
      UniProtKB/TrEMBL
      A0A178VRF5, A0A5S9X5Z1, A0A654F614
      Conserved Domains (1) summary
      COG5560
      Location:32 → 917
      UBP12; Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

    2. NM_129656.4 → NP_565944.1  ubiquitin-specific protease 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_565944.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O22207, Q9SEX3
      UniProtKB/TrEMBL
      A0A178VRF5, A0A5S9X5Z1, A0A654F614
      Conserved Domains (1) summary
      COG5560
      Location:32 → 917
      UBP12; Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O22207.2

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