Nde1 nudE neurodevelopment protein 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nde1provided by MGI
Official Full Name: nudE neurodevelopment protein 1provided by MGI
Primary source: MGI:MGI:1914453
See related: Ensembl:ENSMUSG00000022678 AllianceGenome:MGI:1914453
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: Nude; mNudE; 2810027M15Rik
Summary: Enables identical protein binding activity and microtubule binding activity. Involved in centrosome duplication and neuron migration. Acts upstream of or within microtubule nucleation; nervous system development; and vesicle transport along microtubule. Located in spindle pole centrosome and synapse. Is expressed in several structures, including body cavity or lining; brain; early conceptus; integumental system; and vertebral axis musculature. Human ortholog(s) of this gene implicated in lissencephaly 4. Orthologous to human NDE1 (nudE neurodevelopment protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 33.4), thymus adult (RPKM 23.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 16 A1; 16 9.7 cM

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	16	NC_000082.7 (13981139..14010792)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	16	NC_000082.6 (14163275..14192928)

Chromosome 16 - NC_000082.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

The Cytoplasmic Dynein Associated Protein NDE1 Regulates Osteoclastogenesis by Modulating M-CSF and RANKL Signaling Pathways.
Title: The Cytoplasmic Dynein Associated Protein NDE1 Regulates Osteoclastogenesis by Modulating M-CSF and RANKL Signaling Pathways.
FBW7 couples structural integrity with functional output of primary cilia.
Title: FBW7 couples structural integrity with functional output of primary cilia.
These studies identify the LIS1/NDE1 complex as an important FGF signaling regulator and provide insights into the bidirectional regulation of cell signaling and transport machinery for endocytosis.
Title: The LIS1/NDE1 Complex Is Essential for FGF Signaling by Regulating FGF Receptor Intracellular Trafficking.
These data show that cell cycle-dependent mechanisms can control ciliary length through a CDK5-FBW7-NDE1 pathway.
Title: Cell cycle-dependent ubiquitylation and destruction of NDE1 by CDK5-FBW7 regulates ciliary length.
Findings suggest that cell cycle scaffold protein NDE1-mediated heterochromatin replication is indispensible for neuronal differentiation, and that the loss of NDE1 function may lead to genomic neurological disorders.
Title: The scaffold protein Nde1 safeguards the brain genome during S phase of early neural progenitor differentiation.
study provided comprehensive documentation of the expression patterns of Nde1 and Ndel1 in cultured cells as well as in mouse and human brains, and also highlighting that dosage effects of these two proteins might contribute to some cases of mental disorder
Title: The expression and roles of Nde1 and Ndel1 in the adult mammalian central nervous system.
Nde1 and Lis1 regulate central nervous system development by interpreting midline signals differentially.
Title: Spatially dependent dynamic MAPK modulation by the Nde1-Lis1-Brap complex patterns mammalian CNS.
A three-dimensional regulation of radial glial cells' cytoarchitecture by the Lis1-Nde1-DGC complex determines the number and spatial organization of cortical neurons as well as the size and shape of the cerebral cortex.
Title: Three-dimensional regulation of radial glial functions by Lis1-Nde1 and dystrophin glycoprotein complexes.
Mutually exclusive cytoplasmic dynein regulation by NudE-Lis1 and dynactin.
Title: Mutually exclusive cytoplasmic dynein regulation by NudE-Lis1 and dynactin.
NDE1 deficiency causes both a severe failure of neurogenesis and a deficiency in cortical lamination
Title: The essential role of centrosomal NDE1 in human cerebral cortex neurogenesis.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Variation

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Alleles

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

Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AW822251 (e-PCR)
- UniSTS:209169

AU042936 (e-PCR)
- UniSTS:160529

NoName (e-PCR)
- UniSTS:237438

D0S2247 (e-PCR)
- UniSTS:148113

Nde1 (e-PCR), detects polymorphism
- UniSTS:499126

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables microtubule binding	IBA Inferred from Biological aspect of Ancestor more info
enables microtubule binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell cycle	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell division	IEA Inferred from Electronic Annotation more info
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in centrosome duplication	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in centrosome localization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cerebral cortex development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cerebral cortex development	ISO Inferred from Sequence Orthology more info
involved_in chromosome segregation	IBA Inferred from Biological aspect of Ancestor more info
involved_in establishment of chromosome localization	IBA Inferred from Biological aspect of Ancestor more info
involved_in establishment of chromosome localization	ISO Inferred from Sequence Orthology more info
involved_in establishment of mitotic spindle orientation	IBA Inferred from Biological aspect of Ancestor more info
involved_in establishment of mitotic spindle orientation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within forebrain development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in microtubule nucleation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within microtubule nucleation	IDA Inferred from Direct Assay more info	PubMed
involved_in microtubule organizing center organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic centrosome separation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nervous system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neuroblast proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle transport along microtubule	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vesicle transport along microtubule	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
is_active_in centrosome	IBA Inferred from Biological aspect of Ancestor more info
located_in centrosome	IDA Inferred from Direct Assay more info	PubMed
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome, centromeric region	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
part_of kinesin complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in kinetochore	IBA Inferred from Biological aspect of Ancestor more info
located_in kinetochore	ISO Inferred from Sequence Orthology more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
located_in microtubule organizing center	IDA Inferred from Direct Assay more info	PubMed
located_in spindle	IDA Inferred from Direct Assay more info	PubMed
located_in spindle pole centrosome	IDA Inferred from Direct Assay more info	PubMed
located_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: nuclear distribution protein nudE homolog 1

Names: nuclear distribution gene E homolog 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_001114085.1 → NP_001107557.1 nuclear distribution protein nudE homolog 1 isoform b

See identical proteins and their annotated locations for NP_001107557.1

Status: VALIDATED

Description

Transcript Variant: This variant (b) uses an alternate splice site in the 3' coding region which results in a frameshift, compared to variant a. The encoded isoform (b) has a shorter and distinct C-terminus compared to isoform a.

Source sequence(s)

AF322073, AK012830, AK150826, BY308148

Consensus CDS

CCDS49770.1

UniProtKB/Swiss-Prot

Q9CZA6

Related

ENSMUSP00000112817.2, ENSMUST00000117958.8

Conserved Domains (3) summary

pfam04880
Location:134 → 309

NUDE_C; NUDE protein, C-terminal conserved region

pfam07926
Location:34 → 158

TPR_MLP1_2; TPR/MLP1/MLP2-like protein

cl03075
Location:34 → 127

GrpE; nucleotide exchange factor GrpE
NM_001285503.1 → NP_001272432.1 nuclear distribution protein nudE homolog 1 isoform c

See identical proteins and their annotated locations for NP_001272432.1

Status: VALIDATED

Description

Transcript Variant: This variant (c) uses an alternate splice site in the 3' coding region which results in a frameshift, compared to variant a. The encoded isoform (c) has a shorter and distinct C-terminus compared to isoform a.

Source sequence(s)

AC164291, AK146982, AW120739

Consensus CDS

CCDS70688.1

UniProtKB/Swiss-Prot

Q9CZA6

Related

ENSMUSP00000111461.3, ENSMUST00000115795.9

Conserved Domains (2) summary

COG1196
Location:1 → 186

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam04880
Location:134 → 309

NUDE_C; NUDE protein, C-terminal conserved region
NM_001285504.1 → NP_001272433.1 nuclear distribution protein nudE homolog 1 isoform d

See identical proteins and their annotated locations for NP_001272433.1

Status: VALIDATED

Description

Transcript Variant: This variant (d) lacks an exon in the 5' end that results in the use of a downstream AUG, compared to variant a. The encoded isoform (d) has a shorter N-terminal and a distinct C-terminus, compared to isoform a.

Source sequence(s)

AC164291, AK166858, AW120739

UniProtKB/Swiss-Prot

Q9CZA6

Conserved Domains (1) summary

pfam04880
Location:2 → 177

NUDE_C; NUDE protein, C-terminal conserved region
NM_023317.2 → NP_075806.2 nuclear distribution protein nudE homolog 1 isoform a

See identical proteins and their annotated locations for NP_075806.2

Status: VALIDATED

Description

Transcript Variant: This variant (a) encodes the longest isoform (a).

Source sequence(s)

AF322073, AK012830, BY308148

Consensus CDS

CCDS37263.2

UniProtKB/Swiss-Prot

Q3UBS6, Q3UIC1, Q9CZA6, Q9ERR0

Related

ENSMUSP00000023359.7, ENSMUST00000023359.13

Conserved Domains (3) summary

pfam04880
Location:134 → 309

NUDE_C; NUDE protein, C-terminal conserved region

pfam07926
Location:34 → 158

TPR_MLP1_2; TPR/MLP1/MLP2-like protein

cl03075
Location:34 → 127

GrpE; nucleotide exchange factor GrpE

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000082.7 Reference GRCm39 C57BL/6J

Range

13981139..14010792

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036160094.1 → XP_036015987.1 nuclear distribution protein nudE homolog 1 isoform X1

Conserved Domains (1) summary

pfam04880
Location:75 → 250

NUDE_C; NUDE protein, C-terminal conserved region
XM_036160095.1 → XP_036015988.1 nuclear distribution protein nudE homolog 1 isoform X2

UniProtKB/TrEMBL

F6Q325

Conserved Domains (1) summary

pfam04880
Location:2 → 177

NUDE_C; NUDE protein, C-terminal conserved region