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    Mmp16 matrix metallopeptidase 16 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 65205, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Mmp16provided by RGD
    Official Full Name
    matrix metallopeptidase 16provided by RGD
    Primary source
    RGD:620199
    See related
    EnsemblRapid:ENSRNOG00000005708 AllianceGenome:RGD:620199
    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
    Mt3-mmp
    Summary
    Predicted to enable metalloaminopeptidase activity; metalloendopeptidase activity; and zinc ion binding activity. Involved in response to odorant. Predicted to be located in extracellular matrix. Predicted to be active in extracellular space and plasma membrane. Orthologous to human MMP16 (matrix metallopeptidase 16). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 92.7), Lung (RPKM 49.4) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Mmp16 in Genome Data Viewer
    Location:
    5q13
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (36109265..36353252)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (31312280..31556276)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (31568344..31818368)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 5, pseudogene 9 Neighboring gene U6 spliceosomal RNA Neighboring gene U7 small nuclear RNA Neighboring gene transfer RNA proline (anticodon AGG) 53

    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. Biochemical and spectroscopic characterization of the catalytic domain of MMP16 (cdMMP16). Meng F, et al. J Biol Inorg Chem, 2016 Jul. PMID 27229514
    2. Expression of three membrane-type matrix metalloproteinases (MT-MMPs) in rat vascular smooth muscle cells and characterization of MT3-MMPs with and without transmembrane domain. Shofuda K, et al. J Biol Chem, 1997 Apr 11. PMID 9092507
    3. Identification of the second membrane-type matrix metalloproteinase (MT-MMP-2) gene from a human placenta cDNA library. MT-MMPs form a unique membrane-type subclass in the MMP family. Takino T, et al. J Biol Chem, 1995 Sep 29. PMID 7559440
    4. Matrix metalloproteinase gene polymorphisms and bronchopulmonary dysplasia: identification of MMP16 as a new player in lung development. Hadchouel A, et al. PLoS One, 2008 Sep 11. PMID 18784838, Free PMC Article
    5. Membrane-type MMPs enable extracellular matrix permissiveness and mesenchymal cell proliferation during embryogenesis. Shi J, et al. Dev Biol, 2008 Jan 1. PMID 18022611, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. MMP16 polymorphisms appear to influence not only the pulmonary expression and function of MMP16 but also the risk of bronchopulmonary dysplasia
      Title: Matrix metalloproteinase gene polymorphisms and bronchopulmonary dysplasia: identification of MMP16 as a new player in lung development.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metalloaminopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metalloaminopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metalloendopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metalloendopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metalloendopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within bone development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chondrocyte proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within chondrocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in collagen catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in collagen catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within collagen catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in craniofacial suture morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within craniofacial suture morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in embryonic cranial skeleton morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within embryonic cranial skeleton morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endochondral ossification IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within endochondral ossification ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in extracellular matrix organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within ossification ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteolysis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to odorant IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in skeletal system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    matrix metalloproteinase-16
    Names
    MMP-16
    MT-MMP 3
    MT3MMP
    MTMMP3
    membrane-type matrix metalloproteinase 3
    membrane-type-3 matrix metalloproteinase
    NP_542954.2
    XP_038966660.1

    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_080776.4 → NP_542954.2  matrix metalloproteinase-16 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/Swiss-Prot
      O35541, O35548
      UniProtKB/TrEMBL
      A6IIB9, F1M7F5
      Related
      ENSRNOP00000040229.6, ENSRNOT00000050137.7
      Conserved Domains (5) summary
      PHA03247
      Location:292 → 338
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:340 → 532
      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 ...
      pfam00413
      Location:126 → 291
      Peptidase_M10; Matrixin
      pfam01471
      Location:46 → 96
      PG_binding_1; Putative peptidoglycan binding domain
      pfam11857
      Location:537 → 607
      DUF3377; Domain of unknown function (DUF3377)

    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
      36109265..36353252
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110732.2 → XP_038966660.1  matrix metalloproteinase-16 isoform X1

      Conserved Domains (4) summary
      PHA03247
      Location:29 → 75
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:77 → 269
      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 ...
      pfam00413
      Location:1 → 28
      Peptidase_M10; Matrixin
      pfam11857
      Location:274 → 344
      DUF3377; Domain of unknown function (DUF3377)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O35548.1 GenPept UniProtKB/Swiss-Prot:O35548

    Gene LinkOut

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