Tchem MMP13 Collagenase 3

Protein Summary

Description

Plays a role in the degradation of extracellular matrix proteins including fibrillar collagen, fibronectin, TNC and ACAN. Cleaves triple helical collagens, including type I, type II and type III collagen, but has the highest activity with soluble type II collagen. Can also degrade collagen type IV, type XIV and type X. May also function by activating or degrading key regulatory proteins, such as TGFB1 and CTGF. Plays a role in wound healing, tissue remodeling, cartilage degradation, bone development, bone mineralization and ossification. Required for normal embryonic bone development and ossification. Plays a role in the healing of bone fractures via endochondral ossification. Plays a role in wound healing, probably by a mechanism that involves proteolytic activation of TGFB1 and degradation of CTGF. Plays a role in keratinocyte migration during wound healing. May play a role in cell migration and in tumor cell invasion. 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 protease cleaves type II collagen more efficiently than types I and III. It may be involved in articular cartilage turnover and cartilage pathophysiology associated with osteoarthritis. Mutations in this gene are associated with metaphyseal anadysplasia. This gene is part of a cluster of MMP genes on chromosome 11. [provided by RefSeq, Jan 2016]

Uniprot Accession IDs

• P45452
• A8K846
• B2RCZ3
• Q6NWN6

Gene Name

• MMP13

Ensembl ID

• ENST00000260302
• ENSP00000260302
• ENSG00000137745

Symbol

• CLG3
• MDST
• MANDP1
• MMP-13

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
protein domain	1
biological term	0.98
gene perturbation	0.85
chemical	0.82
disease	0.76

Protein Classes

PANTHER Classes

Protein / ... / Metalloprotease / Collagenase 3

DTO Classes

Protein / Enzyme / Protease / Metalloprotease / Collagenase 3

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 1748.44   (req: < 5)

Gene RIFs: 259   (req: <= 3)

Antibodies: 971   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 1748.44   (req: >= 5)

Gene RIFs: 259   (req: > 3)

Antibodies: 971   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 13

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligands: 2170

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Expression Data (0 Tissues)

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No expression data found

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Related Tools (4)

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (2170)

Explore Active Ligands

1 – 10 of 2170

Galardin

MMP13Tchem Enzyme

pKi : 8.7

CGS-27023

MMP13Tchem Enzyme

pKi : 7.48

CHEMBL187092

MMP13Tchem Enzyme

pIC50 : 9.05

SL422

MMP13Tchem Enzyme

pKi : 8.52

CHEMBL79433

MMP13Tchem Enzyme

pIC50 : 9

CHEMBL471537

MMP13Tchem Enzyme

pKi : 8.48

CHEMBL91636

MMP13Tchem Enzyme

pKi : 7.89

BMS-561392

MMP13Tchem Enzyme

pIC50 : 9.7

marimastat

MMP13Tchem Enzyme

pKi : 8.96

CHEMBL440498

MMP13Tchem Enzyme

pKi : 6.23

Protein-Protein Interactions (199)

Explore Interacting Targets

1 – 10 of 199

• See Interactions on String-DB

MYCBP2

Tbio

Family:  Enzyme

Novelty:  0.00413684

p_int:  0.999985544

p_ni:  0.000014456

Data Source:  BioPlex

FBXO45

Tbio

Novelty:  0.05784607

p_int:  0.999706516

p_ni:  0.000283778

p_wrong:  0.000009706

Data Source:  BioPlex

PEAK1

Tchem

Family:  Kinase

Novelty:  0.02919858

p_int:  0.997177393

p_ni:  0.002822606

p_wrong:  1e-9

Data Source:  BioPlex

SPRYD3

Tdark

Novelty:  3.99875244

p_int:  0.991992985

p_ni:  0.000021102

p_wrong:  0.007985913

Data Source:  BioPlex

HTRA2

Tbio

Family:  Enzyme

Novelty:  0.00343249

p_int:  0.991298641

p_ni:  0.008701359

Data Source:  BioPlex

GID4

Tbio

Novelty:  0.05252674

p_int:  0.983636686

p_ni:  0.016363314

Data Source:  BioPlex

ARMC8

Tbio

Novelty:  0.06820746

p_int:  0.982847074

p_ni:  0.017152926

Data Source:  BioPlex

WDR26

Tbio

Novelty:  0.04140166

p_int:  0.982235842

p_ni:  0.017764159

Data Source:  BioPlex

ADAMTS2

Tbio

Family:  Enzyme

Novelty:  0.00852208

p_int:  0.945194648

p_ni:  0.054542912

p_wrong:  0.00026244

Score:  0.362

Data Source:  BioPlex,STRINGDB

MKLN1

Tbio

Novelty:  0.05014385

p_int:  0.944621862

p_ni:  0.055378138

Data Source:  BioPlex

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (68)

Reactome (11)

KEGG (3)

PathwayCommons (3)

WikiPathways (51)

Activation of Matrix Metalloproteinases (R-HSA-1592389)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Activation of Matrix Metalloproteinases	33 targets	R-HSA-1592389
Reactome	Assembly of collagen fibrils and other multimeric structures	57 targets	R-HSA-2022090
Reactome	Collagen degradation	40 targets	R-HSA-1442490
Reactome	Collagen formation	90 targets	R-HSA-1474290
Reactome	Degradation of the extracellular matrix	111 targets	R-HSA-1474228

Name	Explore in Pharos	Explore in Source
Activation of Matrix Metalloproteinases	33 targets	R-HSA-1592389
Assembly of collagen fibrils and other multimeric structures	57 targets	R-HSA-2022090
Collagen degradation	40 targets	R-HSA-1442490
Collagen formation	90 targets	R-HSA-1474290
Degradation of the extracellular matrix	111 targets	R-HSA-1474228

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (16)

Functions (5)

Components (3)

Processes (8)

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GO Term	Evidence	Assigned by
calcium ion binding	Inferred from Direct Assay (IDA)	UniProtKB
collagen binding	Inferred from Direct Assay (IDA)	UniProtKB
metalloendopeptidase activity	Inferred from Direct Assay (IDA)	UniProtKB
zinc ion binding	Inferred from Direct Assay (IDA)	UniProtKB
serine-type endopeptidase activity	Traceable Author Statement (TAS)	Reactome

Disease Associations (null)

No disease associations found

GWAS Traits (8)

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1 – 5 of 8

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
matrix metalloproteinase 12 measurement	EFO_0010590	1	4	4		98.2
matrix metalloproteinase measurement	EFO_0004744	1	2	2		89.7
blood protein measurement	EFO_0007937	1	1	1		87.9
emphysema pattern measurement	EFO_0005850	1	2	3		45.6
matrix metalloproteinase 1 measurement	EFO_0010588	1	1	1		32.7

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
matrix metalloproteinase 12 measurement	EFO_0010590	4		98.2
matrix metalloproteinase measurement	EFO_0004744	2		89.7
blood protein measurement	EFO_0007937	1		87.9
emphysema pattern measurement	EFO_0005850	3		45.6
matrix metalloproteinase 1 measurement	EFO_0010588	1		32.7

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Calcium
Collagen degradation
Complete proteome
Direct protein sequencing
Disease mutation
Disulfide bond
Dwarfism
Extracellular matrix
Glycoprotein

GWAS Trait Find Similar Targets

No Header	No Header
asthma
blood protein measurement
emphysema pattern measurement
matrix metalloproteinase 1 measurement
matrix metalloproteinase 12 measurement
matrix metalloproteinase measurement
response to diisocyanate
reticulocyte count

MGI Phenotype Find Similar Targets

No Header	No Header
cardiovascular system phenotype
cellular phenotype
homeostasis/metabolism phenotype
limbs/digits/tail phenotype
skeleton phenotype

IDG Resources

No IDG generated resources found

Orthologs (14)

1 – 5 of 14

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	matrix metallopeptidase 13	VGNC:1095	451513
Macaque	matrix metallopeptidase 13		703980
Mouse	matrix metallopeptidase 13	MGI:1340026	17386
Rat	matrix metallopeptidase 13	RGD:620196	171052
Dog	matrix metallopeptidase 13	VGNC:43276	403763

Species	Name	OMA	EggNOG	Inparanoid
Chimp	matrix metallopeptidase 13
Macaque	matrix metallopeptidase 13
Mouse	matrix metallopeptidase 13
Rat	matrix metallopeptidase 13
Dog	matrix metallopeptidase 13

Publication Statistics

PubMed Score 1748.44

PubMed score by year

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PubTator Score 1057.39

PubTator score by year

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Related Publications

Text Mined References (303)

GeneRif Annotations (259)

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PMID	Year	Title