Nid1 nidogen 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nid1provided by MGI
Official Full Name: nidogen 1provided by MGI
Primary source: MGI:MGI:97342
See related: Ensembl:ENSMUSG00000005397 AllianceGenome:MGI:97342
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Nid; entactin; nidogen-1; A630025O17; entactin-1
Summary: Enables collagen binding activity and laminin-1 binding activity. Acts upstream of or within cell-matrix adhesion; glomerular basement membrane development; and positive regulation of cell-substrate adhesion. Located in basement membrane. Is expressed in several structures, including alimentary system; blastocyst; eye; genitourinary system; and nervous system. Orthologous to human NID1 (nidogen 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in subcutaneous fat pad adult (RPKM 162.2), mammary gland adult (RPKM 90.0) and 19 other tissues See more
Orthologs: human all
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Genomic context

Location:: 13 A1; 13 5.26 cM

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	13	NC_000079.7 (13612252..13686849)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	13	NC_000079.6 (13437602..13512275)

Chromosome 13 - NC_000079.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Transmembrane serine protease 2 cleaves nidogen 1 and inhibits extrahepatic liver cancer cell migration and invasion.
Title: Transmembrane serine protease 2 cleaves nidogen 1 and inhibits extrahepatic liver cancer cell migration and invasion.
Obesity impairs skeletal muscle repair through NID-1 mediated extracellular matrix remodeling by mesenchymal progenitors.
Title: Obesity impairs skeletal muscle repair through NID-1 mediated extracellular matrix remodeling by mesenchymal progenitors.
Nidogen-1 Contributes to the Interaction Network Involved in Pro-B Cell Retention in the Peri-sinusoidal Hematopoietic Stem Cell Niche.
Title: Nidogen-1 Contributes to the Interaction Network Involved in Pro-B Cell Retention in the Peri-sinusoidal Hematopoietic Stem Cell Niche.
Analysis of nidogen-1 and laminin-gamma1 interaction reveals multiple binding modes.
Title: Analysis of nidogen-1/laminin γ1 interaction by cross-linking, mass spectrometry, and computational modeling reveals multiple binding modes.
These studies provide strong evidence for a pathophysiological link between meprin beta and urinary excretion of cleaved nidogen-1 during cisplatin-induced acute kidney injury.
Title: Basement membrane protein nidogen-1 is a target of meprin β in cisplatin nephrotoxicity.
The C-terminal domains of mouse laminin gamma 1 and nidogen 1 mediate interactions complex formation.
Title: Structural elucidation of full-length nidogen and the laminin-nidogen complex in solution.
nidogen-1 is essential to provide an anti-angiogenic environment of differentiated vessels.
Title: Anti-angiogenic effect of the basement membrane protein nidogen-1 in a mouse model of choroidal neovascularization.
finding demonstrates that nidogens, although homologous proteins, exert their effect on BM assembly through different binding domains, which may in turn result in alterations of BM structure and functions
Title: Different domains in nidogen-1 and nidogen-2 drive basement membrane formation in skin organotypic cocultures.
show that loss of nidogen 2, but not of nidogen 1, promotes lung metastasis of melanoma cells. Histological and ultrastructural analysis of nidogen 1- and 2-deficient lungs did not reveal differences in morphology and ultrastructure of basement membrane
Title: Absence of the basement membrane component nidogen 2, but not of nidogen 1, results in increased lung metastasis in mice.
Basement membrane deposition of nidogen 1 but not nidogen 2 requires the nidogen binding module of the laminin gamma1 chain.
Title: Basement membrane deposition of nidogen 1 but not nidogen 2 requires the nidogen binding module of the laminin gamma1 chain.

Submit: New GeneRIF Correction See all GeneRIFs (25)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D13Mit44 (e-PCR), detects polymorphism
- UniSTS:116535

X14194 (e-PCR)
- UniSTS:125797

Nid1 (e-PCR), detects polymorphism
- UniSTS:144018

Nid1 (e-PCR), detects polymorphism
- UniSTS:144019

Nid1 (e-PCR), detects polymorphism
- UniSTS:144020

Nid1 (e-PCR), detects polymorphism
- UniSTS:144021

UniSTS:144022 (e-PCR)
- UniSTS:144022

Nid1 (e-PCR), detects polymorphism
- UniSTS:144022

L17324 (e-PCR)
- UniSTS:124877

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables collagen binding	IDA Inferred from Direct Assay more info	PubMed
enables collagen binding	ISO Inferred from Sequence Orthology more info
enables extracellular matrix binding	IDA Inferred from Direct Assay more info	PubMed
enables extracellular matrix structural constituent	RCA inferred from Reviewed Computational Analysis more info	PubMed
enables laminin binding	ISO Inferred from Sequence Orthology more info
enables laminin-1 binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables proteoglycan binding	IEA Inferred from Electronic Annotation more info
enables proteoglycan binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell-matrix adhesion	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within extracellular matrix organization	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within glomerular basement membrane development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell adhesion	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within positive regulation of cell-substrate adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of integrin-mediated signaling pathway	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of muscle cell differentiation	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of basement membrane organization	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in basement membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basement membrane	IPI Inferred from Physical Interaction more info	PubMed
located_in basement membrane	ISO Inferred from Sequence Orthology more info
located_in basement membrane	NAS Non-traceable Author Statement more info	PubMed
located_in basement membrane	TAS Traceable Author Statement more info	PubMed
located_in cell periphery	IDA Inferred from Direct Assay more info	PubMed
located_in collagen-containing extracellular matrix	HDA more info	PubMed
located_in extracellular matrix	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular region	TAS Traceable Author Statement more info
part_of protein complex involved in cell-matrix adhesion	NAS Non-traceable Author Statement more info	PubMed

General protein information

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Preferred Names: nidogen-1

Names: NID-1; Nidogen precursor (Entactin); entactin 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)

NM_010917.3 → NP_035047.2 nidogen-1 precursor

See identical proteins and their annotated locations for NP_035047.2

Status: VALIDATED

Source sequence(s)

AC122465, CT010431

Consensus CDS

CCDS26244.1

UniProtKB/Swiss-Prot

P10493, Q3TKX9, Q8BQI3, Q8C3U8, Q8C9P6

Related

ENSMUSP00000005532.8, ENSMUST00000005532.9

Conserved Domains (8) summary

smart00135
Location:1012 → 1053

LY; Low-density lipoprotein-receptor YWTD domain

smart00179
Location:708 → 749

EGF_CA; Calcium-binding EGF-like domain

smart00539
Location:106 → 269

NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins

cd00255
Location:427 → 658

nidG2; Nidogen, G2 domain; Nidogen is an important component of the basement membrane, an extracellular sheet-like matrix. Nidogen is a multifunctional protein that interacts with many other basement membrane proteins, like collagen, perlecan, lamin, and has a ...

pfam00058
Location:990 → 1027

Ldl_recept_b; Low-density lipoprotein receptor repeat class B

pfam00086
Location:847 → 917

Thyroglobulin_1; Thyroglobulin type-1 repeat

pfam12947
Location:809 → 837

EGF_3; EGF domain

pfam14670
Location:1210 → 1234

FXa_inhibition; Coagulation Factor Xa inhibitory site