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Mmp13 matrix metallopeptidase 13 [ Mus musculus (house mouse) ]

Gene ID: 17386, updated on 24-Jan-2023

Summary

Official Symbol
Mmp13provided by MGI
Official Full Name
matrix metallopeptidase 13provided by MGI
Primary source
MGI:MGI:1340026
See related
Ensembl:ENSMUSG00000050578 AllianceGenome:MGI:1340026
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Clg; Mmp1; MMP-13
Summary
This gene encodes a member of the matrix metalloproteinase family that plays a role in wound healing, skeletal development and bone remodeling. The encoded protein is activated by the removal of an N-terminal activation peptide to generate a zinc-dependent endopeptidase enzyme that can cleave various native collagens, including types I - IV, X and XIV. Mice lacking the encoded protein display profound defects in growth plate cartilage as well as a delay in the endochondral bone development. Lack of the encoded protein also impairs the wound healing process due to reduced keratinocyte migration and vascular density at the wound site. This gene is located in a cluster of other matrix metalloproteinase genes on chromosome 9. [provided by RefSeq, Jun 2015]
Expression
Biased expression in CNS E18 (RPKM 1.3), limb E14.5 (RPKM 0.9) and 13 other tissues See more
Orthologs
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Genomic context

See Mmp13 in Genome Data Viewer
Location:
9; 9 A1
Exon count:
10
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (7272514..7283333)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (7272514..7283333)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene dynein cytoplasmic 2 heavy chain 1 Neighboring gene DCN1, defective in cullin neddylation 1, domain containing 5 (S. cerevisiae) Neighboring gene predicted gene, 31639 Neighboring gene matrix metallopeptidase 12 Neighboring gene matrix metallopeptidase 1b (interstitial collagenase)

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (3) 

Pathways from PubChem

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium ion binding ISO
Inferred from Sequence Orthology
more info
 
enables calcium-dependent protein binding ISO
Inferred from Sequence Orthology
more info
 
enables collagen binding ISO
Inferred from Sequence Orthology
more info
 
enables endopeptidase activity ISO
Inferred from Sequence Orthology
more info
 
enables fibronectin binding ISO
Inferred from Sequence Orthology
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables low-density lipoprotein particle receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables metalloendopeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables metalloendopeptidase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables metalloendopeptidase activity ISO
Inferred from Sequence Orthology
more info
 
enables metallopeptidase activity IEA
Inferred from Electronic Annotation
more info
 
enables peptidase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables serine-type endopeptidase activity IEA
Inferred from Electronic Annotation
more info
 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in bone mineralization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in bone morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in collagen catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within collagen catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in collagen catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in collagen catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in endochondral ossification IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in extracellular matrix disassembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in extracellular matrix disassembly ISO
Inferred from Sequence Orthology
more info
 
involved_in extracellular matrix organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within growth plate cartilage development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in heart development ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of pancreatic trypsinogen secretion ISO
Inferred from Sequence Orthology
more info
 
involved_in protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within protein metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in proteolysis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in response to hormone ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular matrix IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular region TAS
Traceable Author Statement
more info
 
located_in extracellular space ISO
Inferred from Sequence Orthology
more info
 
located_in intercellular canaliculus ISO
Inferred from Sequence Orthology
more info
 
located_in lysosome ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
collagenase 3
Names
collagenase-1
interstitial collagenase
matrix metalloproteinase 13
NP_032633.1

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_008607.2NP_032633.1  collagenase 3 preproprotein

    See identical proteins and their annotated locations for NP_032633.1

    Status: REVIEWED

    Source sequence(s)
    AC174457, AK150728, BC125320
    Consensus CDS
    CCDS22803.1
    UniProtKB/Swiss-Prot
    P33435
    UniProtKB/TrEMBL
    Q3U9V5
    Related
    ENSMUSP00000015394.9, ENSMUST00000015394.10
    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:3392
    PG_binding_1; Putative peptidoglycan binding domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    7272514..7283333
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)