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mmp13b matrix metallopeptidase 13b [ Danio rerio (zebrafish) ]

Gene ID: 100006896, updated on 14-Sep-2024

Summary

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Official Symbol
mmp13bprovided by ZNC
Official Full Name
matrix metallopeptidase 13bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-6152
See related
Ensembl:ENSDARG00000100794 AllianceGenome:ZFIN:ZDB-GENE-030131-6152
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fi36g12; wu:fi36g12
Summary
Predicted to enable metalloendopeptidase activity. Predicted to be involved in collagen catabolic process and extracellular matrix organization. Predicted to act upstream of or within proteolysis. Predicted to be located in extracellular matrix and extracellular region. Human ortholog(s) of this gene implicated in anodontia; artery disease (multiple); osteoarthritis; ovarian carcinoma; and spondyloepimetaphyseal dysplasia, Missouri type. Orthologous to human MMP13 (matrix metallopeptidase 13). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 15
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (33826061..33834606, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (33968328..33976655, complement)

Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene PDS5 cohesin associated factor B Neighboring gene NEDD4 binding protein 2-like 2 Neighboring gene inositol polyphosphate-5-phosphatase Ka Neighboring gene tektin 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Collagenolytic Activity Is Associated with Scar Resolution in Zebrafish Hearts after Cryoinjury. Gamba L, et al. J Cardiovasc Dev Dis, 2017 Feb 24. PMID 29367534, Free PMC Article
  2. The effect of the antidepressant venlafaxine on gene expression of biotransformation enzymes in zebrafish (Danio rerio) embryos. Hodkovicova N, et al. Environ Sci Pollut Res Int, 2020 Jan. PMID 31755053
  3. Inhibition of mmp13a during zebrafish fin regeneration disrupts fin growth, osteoblasts differentiation, and Laminin organization. Li L, et al. Dev Dyn, 2020 Feb. PMID 31487071
  4. Bromodomain and Extra-terminal (BET) Protein Inhibitors Suppress Chondrocyte Differentiation and Restrain Bone Growth. Niu N, et al. J Biol Chem, 2016 Dec 23. PMID 27821592, Free PMC Article
  5. A hyperactivating proinflammatory RIPK2 allele associated with early-onset osteoarthritis. Jurynec MJ, et al. Hum Mol Genet, 2018 Jul 1. PMID 29659823, Free PMC Article

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables hydrolase activity IEA
Inferred from Electronic Annotation
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
  
enables metalloendopeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables metallopeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in collagen catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in extracellular matrix organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
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
  

General protein information

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Preferred Names
collagenase 3
Names
matrix metallopeptidase 13b (collagenase 3)
matrix metalloproteinase 13b
XP_001345507.1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007126.7 Reference GRCz11 Primary Assembly

    Range
    33826061..33834606 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_001345471.8 → XP_001345507.1  collagenase 3

    UniProtKB/TrEMBL
    A0A8M1Q2B6
    Related
    ENSDARP00000130557.1, ENSDART00000163354.2
    Conserved Domains (4) summary
    cd00094
    Location:271 → 461
    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:103 → 256
    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:103 → 256
    Peptidase_M10; Matrixin
    pfam01471
    Location:29 → 82
    PG_binding_1; Putative peptidoglycan binding domain
Nucleotide Protein Strain
Heading Accession and Version

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