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    Mmp13 matrix metallopeptidase 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 171052, updated on 31-Oct-2016
    Official Symbol
    Mmp13provided by RGD
    Official Full Name
    matrix metallopeptidase 13provided by RGD
    Primary source
    RGD:620196
    See related
    Ensembl:ENSRNOG00000008478
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Rattus
    Summary
    enzyme that degrades collagen type I [RGD, Feb 2006]
    Orthologs
    Location:
    8q11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (5522739..5533018)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 8 NC_005107.3 (5527980..5538259)

    Chromosome 8 - NC_005107.4Genomic Context describing neighboring genes Neighboring gene dynein cytoplasmic 2 heavy chain 1 Neighboring gene defective in cullin neddylation 1 domain containing 5 Neighboring gene similar to Aspartyl-tRNA synthetase (Aspartate--tRNA ligase) (AspRS) Neighboring gene matrix metallopeptidase 12

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    calcium ion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    calcium ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    calcium-dependent protein binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    collagen binding IEA
    Inferred from Electronic Annotation
    more info
     
    collagen binding ISO
    Inferred from Sequence Orthology
    more info
     
    collagen binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    fibronectin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    low-density lipoprotein particle receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    metalloendopeptidase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    metalloendopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
     
    metalloendopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    peptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    serine-type endopeptidase activity TAS
    Traceable Author Statement
    more info
     
    zinc ion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    bone mineralization IEA
    Inferred from Electronic Annotation
    more info
     
    bone mineralization ISO
    Inferred from Sequence Orthology
    more info
     
    bone morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    bone morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cartilage development ISO
    Inferred from Sequence Orthology
    more info
     
    cellular protein metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    cellular protein metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to fluid shear stress IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    collagen catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    collagen catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    collagen catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    embryonic hindlimb morphogenesis IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    endochondral ossification IEA
    Inferred from Electronic Annotation
    more info
     
    endochondral ossification IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    endochondral ossification ISO
    Inferred from Sequence Orthology
    more info
     
    estrous cycle IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    extracellular matrix disassembly IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular matrix disassembly ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular matrix disassembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    growth plate cartilage development IEA
    Inferred from Electronic Annotation
    more info
     
    growth plate cartilage development ISO
    Inferred from Sequence Orthology
    more info
     
    heart development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    luteolysis IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    ossification IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    osteoblast differentiation IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    parturition IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    peptide catabolic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of pancreatic trypsinogen secretion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    proteolysis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    proteolysis IEA
    Inferred from Electronic Annotation
    more info
     
    proteolysis ISO
    Inferred from Sequence Orthology
    more info
     
    response to drug IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to estrogen IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to hypoxia IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to mechanical stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular region TAS
    Traceable Author Statement
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    intercellular canaliculus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    lysosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    proteinaceous extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
     
    Preferred Names
    collagenase 3
    Names
    MMP-13
    UMRCASE
    interstitial collagenase
    matrix metalloproteinase-13
    NP_598214.1

    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_133530.1NP_598214.1  collagenase 3 precursor

      See identical proteins and their annotated locations for NP_598214.1

      Status: VALIDATED

      Source sequence(s)
      AC120947
      UniProtKB/TrEMBL
      G3V742
      Related
      ENSRNOP00000011507, ENSRNOT00000011507
      Conserved Domains (4) summary
      cd00094
      Location:282472
      HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...
      cd04278
      Location:113268
      ZnMc_MMP; Zinc-dependent metalloprotease, matrix metalloproteinase (MMP) sub-family. MMPs are responsible for a great deal of pericellular proteolysis of extracellular matrix and cell surface molecules, playing crucial roles in morphogenesis, cell fate ...
      pfam00413
      Location:113268
      Peptidase_M10; Matrixin
      pfam01471
      Location:4092
      PG_binding_1; Putative peptidoglycan binding domain

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005107.4 Reference Rnor_6.0 Primary Assembly

      Range
      5522739..5533018
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000076.1 Alternate Rn_Celera

      Range
      6061454..6071733
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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