LOCUS       NM_017393               1207 bp    mRNA    linear   ROD 07-FEB-2025
DEFINITION  Mus musculus caseinolytic mitochondrial matrix peptidase
            proteolytic subunit (Clpp), mRNA; nuclear gene for mitochondrial
            product.
ACCESSION   NM_017393
VERSION     NM_017393.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1207)
  AUTHORS   Xu,L., Tan,C., Barr,J., Talaba,N., Verheyden,J., Chin,J.S.,
            Gaboyan,S., Kasaraneni,N., Elgamal,R.M., Gaulton,K.J., Lin,G.,
            Afshar,K., Golts,E., Meier,A., Crotty Alexander,L.E., Borok,Z.,
            Shen,Y., Chung,W.K., McCulley,D.J. and Sun,X.
  TITLE     Context-dependent roles of mitochondrial LONP1 in orchestrating the
            balance between airway progenitor versus progeny cells
  JOURNAL   Cell Stem Cell 31 (10), 1465-1483 (2024)
   PUBMED   39181129
REFERENCE   2  (bases 1 to 1207)
  AUTHORS   Key,J., Gispert,S. and Auburger,G.
  TITLE     Knockout Mouse Studies Show That Mitochondrial CLPP Peptidase and
            CLPX Unfoldase Act in Matrix Condensates near IMM, as Fast Stress
            Response in Protein Assemblies for Transcript Processing,
            Translation, and Heme Production
  JOURNAL   Genes (Basel) 15 (6), 694 (2024)
   PUBMED   38927630
  REMARK    GeneRIF: Knockout Mouse Studies Show That Mitochondrial CLPP
            Peptidase and CLPX Unfoldase Act in Matrix Condensates near IMM, as
            Fast Stress Response in Protein Assemblies for Transcript
            Processing, Translation, and Heme Production.
            Review article
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1207)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   4  (bases 1 to 1207)
  AUTHORS   Key,J., Gispert,S., Kandi,A.R., Heinz,D., Hamann,A., Osiewacz,H.D.,
            Meierhofer,D. and Auburger,G.
  TITLE     CLPP-Null Eukaryotes with Excess Heme Biosynthesis Show Reduced
            L-arginine Levels, Probably via CLPX-Mediated OAT Activation
  JOURNAL   Biomolecules 14 (2), 241 (2024)
   PUBMED   38397478
  REMARK    GeneRIF: CLPP-Null Eukaryotes with Excess Heme Biosynthesis Show
            Reduced L-arginine Levels, Probably via CLPX-Mediated OAT
            Activation.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1207)
  AUTHORS   Ergun,Y., Imamoglu,A.G., Cozzolino,M., Demirkiran,C., Basar,M.,
            Garg,A., Yildirim,R.M. and Seli,E.
  TITLE     Mitochondrial Unfolded Protein Response Gene Clpp Is Required for
            Oocyte Function and Female Fertility
  JOURNAL   Int J Mol Sci 25 (3), 1866 (2024)
   PUBMED   38339144
  REMARK    GeneRIF: Mitochondrial Unfolded Protein Response Gene Clpp Is
            Required for Oocyte Function and Female Fertility.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1207)
  AUTHORS   Guillon,B., Bulteau,A.L., Wattenhofer-Donze,M., Schmucker,S.,
            Friguet,B., Puccio,H., Drapier,J.C. and Bouton,C.
  TITLE     Frataxin deficiency causes upregulation of mitochondrial Lon and
            ClpP proteases and severe loss of mitochondrial Fe-S proteins
  JOURNAL   FEBS J 276 (4), 1036-1047 (2009)
   PUBMED   19154341
  REMARK    GeneRIF: The correlative effect of Lon and ClpP upregulation on
            loss of mitochondrial Fe-S proteins during the progression of the
            disease may suggest that Fe-S proteins are potential targets of Lon
            and ClpP proteases in FRDA.
REFERENCE   7  (bases 1 to 1207)
  AUTHORS   Mootha,V.K., Bunkenborg,J., Olsen,J.V., Hjerrild,M.,
            Wisniewski,J.R., Stahl,E., Bolouri,M.S., Ray,H.N., Sihag,S.,
            Kamal,M., Patterson,N., Lander,E.S. and Mann,M.
  TITLE     Integrated analysis of protein composition, tissue diversity, and
            gene regulation in mouse mitochondria
  JOURNAL   Cell 115 (5), 629-640 (2003)
   PUBMED   14651853
REFERENCE   8  (bases 1 to 1207)
  AUTHORS   Andresen,B.S., Corydon,T.J., Wilsbech,M., Bross,P., Schroeder,L.D.,
            Hindkjaer,T.F., Bolund,L. and Gregersen,N.
  TITLE     Characterization of mouse Clpp protease cDNA, gene, and protein
  JOURNAL   Mamm Genome 11 (4), 275-280 (2000)
   PUBMED   10754102
REFERENCE   9  (bases 1 to 1207)
  AUTHORS   Santagata,S., Bhattacharyya,D., Wang,F.H., Singha,N., Hodtsev,A.
            and Spanopoulou,E.
  TITLE     Molecular cloning and characterization of a mouse homolog of
            bacterial ClpX, a novel mammalian class II member of the Hsp100/Clp
            chaperone family
  JOURNAL   J Biol Chem 274 (23), 16311-16319 (1999)
   PUBMED   10347188
REFERENCE   10 (bases 1 to 1207)
  AUTHORS   Ko,M.S., Threat,T.A., Wang,X., Horton,J.H., Cui,Y., Wang,X.,
            Pryor,E., Paris,J., Wells-Smith,J., Kitchen,J.R., Rowe,L.B.,
            Eppig,J., Satoh,T., Brant,L., Fujiwara,H., Yotsumoto,S. and
            Nakashima,H.
  TITLE     Genome-wide mapping of unselected transcripts from extraembryonic
            tissue of 7.5-day mouse embryos reveals enrichment in the t-complex
            and under-representation on the X chromosome
  JOURNAL   Hum Mol Genet 7 (12), 1967-1978 (1998)
   PUBMED   9811942
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY294002.1, AK145765.1 and AC073683.3.
            
            On Aug 14, 2009 this sequence version replaced NM_017393.1.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC001998.1, AK145765.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            gene product(s) localized to mito. :: reported by MitoCarta
            RefSeq Select criteria             :: based on single
                                                  protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-38                BY294002.1         2-39
            39-1023             AK145765.1         1-985
            1024-1207           AC073683.3         11461-11644         c
FEATURES             Location/Qualifiers
     source          1..1207
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 29.61 cM"
     gene            1..1207
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /note="caseinolytic mitochondrial matrix peptidase
                     proteolytic subunit"
                     /db_xref="GeneID:53895"
                     /db_xref="MGI:MGI:1858213"
     exon            1..250
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /inference="alignment:Splign:2.1.0"
     CDS             65..883
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /EC_number="3.4.21.92"
                     /note="putative ATP-dependent Clp protease proteolytic
                     subunit, mitochondrial; endopeptidase Clp; caseinolytic
                     protease, ATP-dependent, proteolytic subunit homolog;
                     caseinolytic peptidase, ATP-dependent, proteolytic subunit
                     homolog; ClpP caseinolytic peptidase, ATP-dependent,
                     proteolytic subunit"
                     /codon_start=1
                     /product="ATP-dependent Clp protease proteolytic subunit,
                     mitochondrial precursor"
                     /protein_id="NP_059089.1"
                     /db_xref="CCDS:CCDS28920.1"
                     /db_xref="GeneID:53895"
                     /db_xref="MGI:MGI:1858213"
                     /translation="MWPRVLLGEARVAVDGCRALLSRLAVHFSPPWTAVSCSPLRRSL
                     HGTATRAFPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQLLFL
                     QSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGSP
                     GMRHSLPNSRIMIHQPSGGARGQATDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVIES
                     AMERDRYMSPMEAQEFGILDKVLVHPPQDGEDEPELVQKETATAPTDPPAPTST"
     exon            251..322
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /inference="alignment:Splign:2.1.0"
     exon            323..419
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /inference="alignment:Splign:2.1.0"
     exon            420..607
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /inference="alignment:Splign:2.1.0"
     exon            608..713
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /inference="alignment:Splign:2.1.0"
     exon            714..1207
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /inference="alignment:Splign:2.1.0"
     regulatory      999..1004
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /note="hexamer: ATTAAA"
     polyA_site      1024
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /note="major polyA site"
     regulatory      1175..1180
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
                     /note="hexamer: ATTAAA"
     polyA_site      1194
                     /gene="Clpp"
                     /gene_synonym="D17Wsu160e"
ORIGIN      
        1 agtgactccc gcaaagcacg ccgggtgttg tagttccgga agccaagccg gagtgcgcgt
       61 cgtcatgtgg cccagagtgc tgctggggga ggcccgggtg gctgtggacg gatgtcgcgc
      121 tctgttgtct cgccttgccg tgcatttctc cccgccatgg actgctgtga gctgctcacc
      181 cctgcggagg agcctgcatg gaactgcgac gcgagctttc ccgctcatcc ccatagtggt
      241 ggagcagacg ggtcgaggcg agcgcgctta tgacatatac tcgaggctgt tgcgggaacg
      301 catcgtgtgc gtcatgggcc cgattgacga cagtgtggcc agtctggtca ttgcccagct
      361 gttgttctta cagtctgaaa gcaacaagaa gcccattcat atgtatatca acagcccagg
      421 tggtgtggta actgcgggcc tggccatcta cgacacaatg cagtacatcc tgaaccccat
      481 ctgcacgtgg tgtgttggac aggctgccag catgggctcc ctgctcctcg ctgctggcag
      541 cccgggcatg cgccattcac tgcccaattc cagaatcatg atccaccagc cctctggagg
      601 agccaggggc caagccacag acatcgccat ccaggcagag gaaatcatga agctgaaaaa
      661 gcagctatac aacatctacg ccaaacacac caagcagagc ctacaggtga tcgagtcagc
      721 aatggagagg gaccgctaca tgagccccat ggaggcccaa gagtttggca tcttggacaa
      781 ggtcttggtc cacccacctc aggacgggga ggatgagcca gaactggtac agaaggagac
      841 tgccacagcg ccgacggatc ctcctgcccc gacaagcacc taaggagtgg agaccagact
      901 gaaacttcct ctgctgggcc caagaacaac ccctagagga gatgtggatt gaggttgccc
      961 tcagagcagg gcagactgcc tgagacactg tgatttaaat taaatctttg tagtctttgt
     1021 cccatgtctg aagcaccttc cattacttct ccaagacagc aggcctcctt caccttgaca
     1081 aaccacttca gtaagcaaac cctggctctc ctggaactaa accaatctag cctcagactc
     1141 aggtacccac ctgcctcacc tcctgagtgc taggattaaa ggtgtacacc accacacctg
     1201 acttcaa
//
