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    Clpb ClpB family mitochondrial disaggregase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 65041, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Clpbprovided by RGD
    Official Full Name
    ClpB family mitochondrial disaggregaseprovided by RGD
    Primary source
    RGD:621328
    See related
    Ensembl:ENSRNOG00000019693 AllianceGenome:RGD:621328
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Skd3
    Summary
    Predicted to enable ATP hydrolysis activity. Predicted to be involved in RIG-I signaling pathway; antiviral innate immune response; and cellular response to heat. Predicted to be located in mitochondrial intermembrane space. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in 3-methylglutaconic aciduria with cataracts, neurologic involvement and neutropenia. Orthologous to human CLPB (caseinolytic mitochondrial matrix peptidase chaperone subunit B). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Testes (RPKM 581.1), Kidney (RPKM 198.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Clpb in Genome Data Viewer
    Location:
    1q32
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (165440705..165563514)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (156028740..156158183)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (166739372..166866095)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120099897 Neighboring gene ADP-ribosyltransferase 2b Neighboring gene lactate dehydrogenase A, pseudogene 3 Neighboring gene uncharacterized LOC102547177 Neighboring gene paired-like homeobox 2a Neighboring gene inositol polyphosphate phosphatase-like 1

    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. Attenuated induction of heat shock gene expression in aging diploid fibroblasts. Liu AY, et al. J Biol Chem, 1989 Jul 15. PMID 2745427
    2. Expression of a putative ATPase suppresses the growth defect of a yeast potassium transport mutant: identification of a mammalian member of the Clp/HSP104 family. Périer F, et al. Gene, 1995 Jan 23. PMID 7835694
    3. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, 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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ATP hydrolysis activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables ATP-dependent protein disaggregase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent protein disaggregase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ATP-dependent protein disaggregase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in RIG-I signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in RIG-I signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in antiviral innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in antiviral innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in cellular response to heat IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to heat IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to heat ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in granulocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in granulocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in granulocyte differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrial intermembrane space IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrial intermembrane space ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrial intermembrane space ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    mitochondrial disaggregase
    Names
    ClpB caseinolytic peptidase B homolog
    ClpB homolog, mitochondrial AAA ATPase chaperonin
    caseinolytic mitochondrial matrix peptidase chaperone subunit B
    caseinolytic peptidase B protein homolog
    suppressor of K+ transport defect 3
    suppressor of potassium transport defect 3
    NP_075236.2
    XP_008758018.1
    XP_038945788.1
    XP_038945793.1
    XP_063128945.1
    XP_063128951.1

    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_022947.2 → NP_075236.2  mitochondrial disaggregase

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q9WTT2
      UniProtKB/TrEMBL
      F1M955, Q6IRH7
      Related
      ENSRNOP00000081336.1, ENSRNOT00000103087.1
      Conserved Domains (3) summary
      COG0542
      Location:309 → 625
      ClpA; ATP-dependent Clp protease ATP-binding subunit ClpA [Posttranslational modification, protein turnover, chaperones]
      sd00045
      Location:137 → 164
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:138 → 266
      Ank_2; Ankyrin repeats (3 copies)

    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_086019.1 Reference GRCr8

      Range
      165440705..165563514
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008759796.3 → XP_008758018.1  mitochondrial disaggregase isoform X1

      UniProtKB/TrEMBL
      A0A0G2K3V9, A0A8J8YEH1
      Related
      ENSRNOP00000072796.1
      Conserved Domains (7) summary
      smart01086
      Location:575 → 660
      ClpB_D2-small; C-terminal, D2-small domain, of ClpB protein
      smart00382
      Location:373 → 510
      AAA; ATPases associated with a variety of cellular activities
      cd00204
      Location:137 → 315
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      pfam07724
      Location:376 → 564
      AAA_2; AAA domain (Cdc48 subfamily)
      pfam12796
      Location:138 → 296
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:137 → 164
      ANK; ANK repeat [structural motif]
      cl21455
      Location:339 → 401
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    2. XM_063272875.1 → XP_063128945.1  mitochondrial disaggregase isoform X2

    3. XM_039089860.2 → XP_038945788.1  mitochondrial disaggregase isoform X2

      Conserved Domains (1) summary
      COG0542
      Location:35 → 351
      ClpA; ATP-dependent Clp protease ATP-binding subunit ClpA [Posttranslational modification, protein turnover, chaperones]

    4. XM_063272881.1 → XP_063128951.1  mitochondrial disaggregase isoform X2

    5. XM_039089865.2 → XP_038945793.1  mitochondrial disaggregase isoform X3

      Conserved Domains (1) summary
      COG0542
      Location:17 → 333
      ClpA; ATP-dependent Clp protease ATP-binding subunit ClpA [Posttranslational modification, protein turnover, chaperones]

    RNA

    1. XR_005491697.2 RNA Sequence

    2. XR_010057345.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9WTT2.1 GenPept UniProtKB/Swiss-Prot:Q9WTT2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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