MMP10
protein-codingmatrix metallopeptidase 10, the group of M10 matrix metallopeptidases
Gene summary
This gene encodes a member of the peptidase M10 family of matrix metalloproteinases (MMPs). Proteins in this family are involved in the breakdown of extracellular matrix in normal physiological processes, such as embryonic development, reproduction, and tissue remodeling, as well as in disease processes, such as arthritis and metastasis. The encoded preproprotein is proteolytically processed to generate the mature protease. This secreted protease breaks down fibronectin, laminin, elastin, proteoglycan core protein, gelatins, and several types of collagen. The gene is part of a cluster of MMP genes on chromosome 11. [provided by RefSeq, Jan 2016]
- STMY2
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~10.1 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
No GenCC data available for this gene.
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to MMP10 variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_002425.3. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 1 | 1 | 2 | |||
| missense | 73 | 4 | 77 | |||
| nonsense | 1 | 1 | 2 | |||
| start loss | 0 | |||||
| frameshift | 1 | 1 | ||||
| splice donor/acceptor (+/-2bp) | 1 | 1 | 2 | |||
| Total | 0 | 0 | 76 | 6 | 2 | 84 |
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_002416.1 | 10 | MANE Select | |
| Ensembl | ENSP00000279441.4 | 10 | MANE Select | |
| Ensembl | ENSP00000441485.1 | 4 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Matrix Metalloproteinases
- MAPK6-MAPK4 signaling
- VEGFA-VEGFR2 Signaling Pathway
- Signal Transduction
- MAPK6/MAPK4 signaling
Biological Process
- proteolysis
- extracellular matrix disassembly
- extracellular matrix organization
- collagen catabolic process
Molecular Function
- metalloendopeptidase activity
- serine-type endopeptidase activity
- zinc ion binding
Cellular Component
- extracellular region
- extracellular space
- extracellular matrix
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000279441
- Coding exons
- 10
- Length
- 10126
- Individuals with no LoFs
- 121474
- Homozygous LoFs
- 33
- Heterozygous LoFs
- 4240
- Defined
- 125747
- p
- 0.0171
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | -1.08 | 299 | 251 | 1.19 | 0.0000120 | 3149 |
| Missense (PolyPhen) | 107 | 88.408 | 1.2103 | 1151 | ||
| Synonymous | -0.995 | 106 | 93.7 | 1.13 | 0.00000479 | 887 |
| Loss of Function | 0.0405 | 22 | 22.2 | 0.991 | 0.00000102 | 278 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0.0072 | 0.0067 | notable |
| Latino/Admixed American | 0.015 | 0.015 | notable |
| Ashkenazi Jewish | 0.020 | 0.020 | notable |
| East Asian | 0.0014 | 0.0011 | notable |
| Finnish | 0.0049 | 0.0049 | notable |
| European (Non-Finnish) | 0.024 | 0.024 | notable |
| South Asian | 0.017 | 0.016 | notable |
| Other | 0.022 | 0.022 | notable |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Can degrade fibronectin, gelatins of type I, III, IV, and V; weakly collagens III, IV, and V. Activates procollagenase.;
Recessive Scores
- pRec
- 0.634
Intolerance Scores
- LoFtool
- 0.928
- RVIS EVS
- 1.14
- RVIS percentile EVS
- 92.3
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- E
- Indispensability score
- 0.623
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |