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Nckipsd NCK interacting protein with SH3 domain [ Rattus norvegicus (Norway rat) ]

Gene ID: 301009, updated on 6-Jun-2024

Summary

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Official Symbol
Nckipsdprovided by RGD
Official Full Name
NCK interacting protein with SH3 domainprovided by RGD
Primary source
RGD:1311323
See related
Ensembl:ENSRNOG00000031816 AllianceGenome:RGD:1311323
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable Arp2/3 complex binding activity. Predicted to be involved in endocytosis and positive regulation of neuron projection development. Predicted to be part of COP9 signalosome. Orthologous to human NCKIPSD (NCK interacting protein with SH3 domain). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 53.2), Testes (RPKM 52.1) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Nckipsd in Genome Data Viewer
Location:
8q32
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (118390121..118401121)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (109511484..109522622)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (117601035..117612302)

Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene protein kinase cAMP-dependent type II regulatory subunit alpha Neighboring gene uncharacterized LOC134480236 Neighboring gene small nucleolar RNA SNORA28 Neighboring gene inositol hexakisphosphate kinase 2 Neighboring gene cadherin, EGF LAG seven-pass G-type receptor 3 Neighboring gene solute carrier family 26 member 6 Neighboring gene transmembrane protein 89

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Control of growth cone motility and neurite outgrowth by SPIN90. Kim SM, et al. Exp Cell Res, 2011 Oct 1. PMID 21763308
  2. SPIN90 dephosphorylation is required for cofilin-mediated actin depolymerization in NMDA-stimulated hippocampal neurons. Cho IH, et al. Cell Mol Life Sci, 2013 Nov. PMID 23765104, Free PMC Article
  3. Interaction of SPIN90 with syndapin is implicated in clathrin-mediated endocytic pathway in fibroblasts. Kim SH, et al. Genes Cells, 2006 Oct. PMID 16999739
  4. Interaction of SPIN90 with dynamin I and its participation in synaptic vesicle endocytosis. Kim Y, et al. J Neurosci, 2005 Oct 12. PMID 16221862, Free PMC Article
  5. SPIN90/WISH interacts with PSD-95 and regulates dendritic spinogenesis via an N-WASP-independent mechanism. Lee S, et al. EMBO J, 2006 Oct 18. PMID 16990791, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SPIN90 plays critical roles in controlling growth cone dynamics and neurite outgrowth during neuronal development.
    Title: Control of growth cone motility and neurite outgrowth by SPIN90.
  2. SPIN90-PRD, a syndapin-binding domain, significantly inhibited endocytosis, and the inhibition was reversed by co-expression of syndapin.
    Title: Interaction of SPIN90 with syndapin is implicated in clathrin-mediated endocytic pathway in fibroblasts.
  3. 90 kDa SH3 protein interacting with Nck (SPIN90) can modulate the interactions of dynamin I with other endocytic proteins that cooperate in the coated vesicle formation, thus regulating synaptic vesicle endocytosis.
    Title: Interaction of SPIN90 with dynamin I and its participation in synaptic vesicle endocytosis.
  4. SPIN90/WISH is a downstream effector of PSD-95-dependent synaptic remodeling.
    Title: SPIN90/WISH interacts with PSD-95 and regulates dendritic spinogenesis via an N-WASP-independent mechanism.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables Arp2/3 complex binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in endocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of postsynapse assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of postsynapse assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of COP9 signalosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
is_active_in postsynapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in postsynapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

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Preferred Names
NCK-interacting protein with SH3 domain

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)

  1. NM_001393927.1 → NP_001380856.1  NCK-interacting protein with SH3 domain

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008
    UniProtKB/TrEMBL
    D3ZWX4
    Conserved Domains (3) summary
    cd11849
    Location:1 → 53
    SH3_SPIN90; Src homology 3 domain of SH3 protein interacting with Nck, 90 kDa (SPIN90)
    PRK14965
    Location:223 → 312
    PRK14965; DNA polymerase III subunits gamma and tau; Provisional
    pfam09431
    Location:562 → 675
    DUF2013; Protein of unknown function (DUF2013)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086026.1 Reference GRCr8

    Range
    118390121..118401121
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063265254.1 → XP_063121324.1  NCK-interacting protein with SH3 domain isoform X1

    UniProtKB/TrEMBL
    D3ZWX4

  2. XM_008766509.4 → XP_008764731.1  NCK-interacting protein with SH3 domain isoform X2

    See identical proteins and their annotated locations for XP_008764731.1

    UniProtKB/TrEMBL
    D3ZWX4
    Conserved Domains (1) summary
    pfam09431
    Location:500 → 617
    DUF2013; Protein of unknown function (DUF2013)

  3. XM_006243754.5 → XP_006243816.1  NCK-interacting protein with SH3 domain isoform X2

    See identical proteins and their annotated locations for XP_006243816.1

    UniProtKB/TrEMBL
    D3ZWX4
    Related
    ENSRNOP00000049566.5
    Conserved Domains (1) summary
    pfam09431
    Location:500 → 617
    DUF2013; Protein of unknown function (DUF2013)

  4. XM_039081237.2 → XP_038937165.1  NCK-interacting protein with SH3 domain isoform X3

    Conserved Domains (2) summary
    cd11849
    Location:1 → 53
    SH3_SPIN90; Src homology 3 domain of SH3 protein interacting with Nck, 90 kDa (SPIN90)
    PRK07994
    Location:230 → 312
    PRK07994; DNA polymerase III subunits gamma and tau; Validated

  5. XM_039081238.2 → XP_038937166.1  NCK-interacting protein with SH3 domain isoform X4

    Conserved Domains (1) summary
    pfam09431
    Location:251 → 364
    DUF2013; Protein of unknown function (DUF2013)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001106857.1: Suppressed sequence

    Description
    NM_001106857.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

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