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Prkd3 protein kinase D3 [ Mus musculus (house mouse) ]

Gene ID: 75292, updated on 21-Apr-2024

Summary

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Official Symbol
Prkd3provided by MGI
Official Full Name
protein kinase D3provided by MGI
Primary source
MGI:MGI:1922542
See related
Ensembl:ENSMUSG00000024070 AllianceGenome:MGI:1922542
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
PKD3; Pkcnu; Prkcn; 4930557O20Rik; 5730497N19Rik
Summary
Predicted to enable kinase activity. Predicted to be involved in protein kinase D signaling. Predicted to act upstream of or within phosphorylation. Predicted to be located in cytosol and nucleoplasm. Is expressed in several structures, including alimentary system; brain; integumental system; musculoskeletal system; and retina. Orthologous to human PRKD3 (protein kinase D3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 13.1), limb E14.5 (RPKM 11.2) and 25 other tissues See more
Orthologs
human all
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Genomic context

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Location:
17 E3; 17 49.69 cM
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (79256834..79328245, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (78949405..79020816, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E5629 Neighboring gene CCAAT/enhancer binding protein zeta, opposite strand Neighboring gene CCAAT/enhancer binding protein zeta Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 7 Neighboring gene predicted gene, 41622 Neighboring gene STARR-seq mESC enhancer starr_43275 Neighboring gene glutaminyl-peptide cyclotransferase (glutaminyl cyclase) Neighboring gene STARR-seq mESC enhancer starr_43276 Neighboring gene STARR-seq mESC enhancer starr_43277 Neighboring gene STARR-seq mESC enhancer starr_43278 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. T cell-intrinsic protein kinase D3 is dispensable for the cells' activation. Koutník J, et al. Front Immunol, 2022. PMID 36466811, Free PMC Article
  2. Protein kinase D3 promotes neutrophil migration during viral infection. Veazey JM, et al. Immunol Cell Biol, 2023 Feb. PMID 36318273, Free PMC Article
  3. Addressing the role of PKD3 in the T cell compartment with knockout mice. Koutník J, et al. Cell Commun Signal, 2022 Apr 19. PMID 35440091, Free PMC Article
  4. Pancreas-specific deletion of protein kinase D attenuates inflammation, necrosis, and severity of acute pancreatitis. Yuan J, et al. Biochim Biophys Acta Mol Basis Dis, 2021 Jan 1. PMID 33039594, Free PMC Article
  5. PKD3 deficiency causes alterations in microtubule dynamics during the cell cycle. Zhang T, et al. Cell Cycle, 2016 Jul 17. PMID 27245420, Free PMC Article

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Protein kinase D3 conditional knockout impairs osteoclast formation and increases trabecular bone volume in male mice.
    Title: Protein kinase D3 conditional knockout impairs osteoclast formation and increases trabecular bone volume in male mice.
  2. Protein kinase D3 promotes neutrophil migration during viral infection.
    Title: Protein kinase D3 promotes neutrophil migration during viral infection.
  3. T cell-intrinsic protein kinase D3 is dispensable for the cells' activation.
    Title: T cell-intrinsic protein kinase D3 is dispensable for the cells' activation.
  4. Addressing the role of PKD3 in the T cell compartment with knockout mice.
    Title: Addressing the role of PKD3 in the T cell compartment with knockout mice.
  5. A phosphoproteomic approach reveals that PKD3 controls PKA-mediated glucose and tyrosine metabolism.
    Title: A phosphoproteomic approach reveals that PKD3 controls PKA-mediated glucose and tyrosine metabolism.
  6. Deletion of Protein Kinase D3 Promotes Liver Fibrosis in Mice.
    Title: Deletion of Protein Kinase D3 Promotes Liver Fibrosis in Mice.
  7. Pancreas-specific deletion of protein kinase D attenuates inflammation, necrosis, and severity of acute pancreatitis.
    Title: Pancreas-specific deletion of protein kinase D attenuates inflammation, necrosis, and severity of acute pancreatitis.
  8. Inhibition of protein kinase D by CID755673 promotes maintenance of the pluripotency of embryonic stem cells.
    Title: Inhibition of protein kinase D by CID755673 promotes maintenance of the pluripotency of embryonic stem cells.
  9. The kinase PKD3 provides negative feedback on cholesterol and triglyceride synthesis by suppressing insulin signaling.
    Title: The kinase PKD3 provides negative feedback on cholesterol and triglyceride synthesis by suppressing insulin signaling.
  10. These data provide new insights of a specific PKD3 signaling pathway by identifying a new function, which has not been identified before.
    Title: PKD3 deficiency causes alterations in microtubule dynamics during the cell cycle.
Submit: New GeneRIF Correction See all GeneRIFs (16)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (6)  1 citation
  • Endonuclease-mediated (4) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC47171

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables diacylglycerol-dependent serine/threonine kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables protein kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein serine/threonine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in intracellular signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in phospholipase C-activating G protein-coupled receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within phosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in protein phosphorylation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
serine/threonine-protein kinase D3
Names
nPKC-nu
protein kinase C nu type
protein kinase C, nu
NP_001164475.1
NP_001164476.1
NP_083515.2
XP_030105983.1

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)

  1. NM_001171004.1 → NP_001164475.1  serine/threonine-protein kinase D3 isoform 1

    See identical proteins and their annotated locations for NP_001164475.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC151293, AC154274, BC089164
    Consensus CDS
    CCDS50185.1
    UniProtKB/TrEMBL
    Q5FWX6
    Related
    ENSMUSP00000113395.2, ENSMUST00000119284.8
    Conserved Domains (6) summary
    smart00220
    Location:580 → 832
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd00029
    Location:272 → 321
    C1; Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second ...
    cd01239
    Location:410 → 534
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:572 → 831
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:155 → 204
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam00169
    Location:417 → 531
    PH; PH domain

  2. NM_001171005.1 → NP_001164476.1  serine/threonine-protein kinase D3 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (3) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC151293, AC154274, AK030058
    Consensus CDS
    CCDS50184.1
    UniProtKB/TrEMBL
    D3Z6I0
    Related
    ENSMUSP00000113232.2, ENSMUST00000118768.8
    Conserved Domains (6) summary
    smart00220
    Location:485 → 737
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd00029
    Location:177 → 226
    C1; Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second ...
    cd01239
    Location:315 → 439
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:477 → 736
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:60 → 109
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam00169
    Location:322 → 436
    PH; PH domain

  3. NM_029239.3 → NP_083515.2  serine/threonine-protein kinase D3 isoform 2

    See identical proteins and their annotated locations for NP_083515.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AC151293, AC154274
    Consensus CDS
    CCDS37699.1
    UniProtKB/Swiss-Prot
    Q8K1Y2
    Related
    ENSMUSP00000132004.2, ENSMUST00000168887.8
    Conserved Domains (6) summary
    smart00220
    Location:579 → 831
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd00029
    Location:272 → 321
    C1; Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second ...
    cd01239
    Location:410 → 534
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:571 → 830
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:155 → 204
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam00169
    Location:417 → 531
    PH; PH domain

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

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    79256834..79328245 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030250123.2 → XP_030105983.1  serine/threonine-protein kinase D3 isoform X1

    Conserved Domains (2) summary
    cd01239
    Location:10 → 134
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:172 → 431
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8K1Y2.1 GenPept UniProtKB/Swiss-Prot:Q8K1Y2

Gene LinkOut

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