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    Ddi2 DNA damage inducible 1 homolog 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313668, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ddi2provided by RGD
    Official Full Name
    DNA damage inducible 1 homolog 2provided by RGD
    Primary source
    RGD:1311815
    See related
    EnsemblRapid:ENSRNOG00000012274 AllianceGenome:RGD:1311815
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1311815
    Summary
    Predicted to enable aspartic-type endopeptidase activity; identical protein binding activity; and ubiquitin binding activity. Predicted to be involved in several processes, including cellular response to hydroxyurea; regulation of DNA stability; and regulation of protein stability. Predicted to be located in cytosol and nucleoplasm. Orthologous to several human genes including DDI2 (DNA damage inducible 1 homolog 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 307.6), Kidney (RPKM 214.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ddi2 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (159272625..159318365, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (153989591..154035342, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (160230958..160282836, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 25, member 34 Neighboring gene pleckstrin homology and RUN domain containing M2 Neighboring gene agmatinase Neighboring gene DnaJ heat shock protein family (Hsp40) member C16 Neighboring gene caspase 9 Neighboring gene chymotrypsin like elastase 2A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Human DNA-Damage-Inducible 2 Protein Is Structurally and Functionally Distinct from Its Yeast Ortholog. Sivá M, et al. Sci Rep, 2016 Jul 27. PMID 27461074, Free PMC Article
    2. Reply to Vangala et al.: Complete inhibition of the proteasome reduces new proteasome production by causing Nrf1 aggregation. Sha Z, et al. Curr Biol, 2016 Sep 26. PMID 27676298, Free PMC Article
    3. The aspartyl protease DDI2 activates Nrf1 to compensate for proteasome dysfunction. Koizumi S, et al. Elife, 2016 Aug 16. PMID 27528193, Free PMC Article
    4. Removal of RTF2 from Stalled Replisomes Promotes Maintenance of Genome Integrity. Kottemann MC, et al. Mol Cell, 2018 Jan 4. PMID 29290612, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables aspartic-type endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellular response to hydroxyurea ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasomal protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA stability ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of protein stability ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein DDI1 homolog 2
    Names
    DNA-damage inducible protein 2
    NP_001382515.1
    XP_006239367.1
    XP_006239368.1
    XP_006239370.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001395586.1 → NP_001382515.1  protein DDI1 homolog 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8J8Y1M0
      Conserved Domains (2) summary
      cd05479
      Location:221 → 343
      RP_DDI; retropepsin-like domain of DNA damage inducible protein
      cd01796
      Location:1 → 76
      Ubl_Ddi1_like; ubiquitin-like (Ubl) domain found in the eukaryotic Ddi1 family

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      159272625..159318365 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006239305.5 → XP_006239367.1  protein DDI1 homolog 2 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y0Y2, A0A8I6GFW9
      Related
      ENSRNOP00000077256.1, ENSRNOT00000119479.2
      Conserved Domains (4) summary
      cd05479
      Location:221 → 343
      RP_DDI; RP_DDI; retropepsin-like domain of DNA damage inducible protein
      cd01796
      Location:3 → 76
      DDI1_N; DNA damage inducible protein 1 ubiquitin-like domain
      smart00213
      Location:1 → 74
      UBQ; Ubiquitin homologues
      pfam09786
      Location:387 → 535
      CytochromB561_N; Cytochrome B561, N terminal

    2. XM_006239306.5 → XP_006239368.1  protein DDI1 homolog 2 isoform X2

      UniProtKB/TrEMBL
      A0A8I6GFW9
      Related
      ENSRNOP00000087348.1, ENSRNOT00000109253.2
      Conserved Domains (3) summary
      cd05479
      Location:218 → 340
      RP_DDI; RP_DDI; retropepsin-like domain of DNA damage inducible protein
      pfam09786
      Location:384 → 532
      CytochromB561_N; Cytochrome B561, N terminal
      cl00155
      Location:43 → 73
      UBQ; Ubiquitin-like proteins

    3. XM_006239308.5 → XP_006239370.1  protein DDI1 homolog 2 isoform X3

      UniProtKB/TrEMBL
      A6ITV4
      Related
      ENSRNOP00000016352.8, ENSRNOT00000016352.8

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001034149.1: Suppressed sequence

      Description
      NM_001034149.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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