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    PRKD1 protein kinase D1 [ Homo sapiens (human) ]

    Gene ID: 5587, updated on 7-Jul-2024

    Summary

    Official Symbol
    PRKD1provided by HGNC
    Official Full Name
    protein kinase D1provided by HGNC
    Primary source
    HGNC:HGNC:9407
    See related
    Ensembl:ENSG00000184304 MIM:605435; AllianceGenome:HGNC:9407
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    PKD; PKCM; CHDED; PRKCM; PKC-MU
    Summary
    The protein encoded by this gene is a serine/threonine protein kinase involved in many cellular processes, including Golgi body membrane integrity and transport, cell migration and differentiation, MAPK8/JNK1 and Ras pathway signaling, MAPK1/3 (ERK1/2) pathway signaling, cell survival, and regulation of cell shape and adhesion. [provided by RefSeq, Jan 2017]
    Expression
    Broad expression in testis (RPKM 3.2), prostate (RPKM 2.7) and 22 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See PRKD1 in Genome Data Viewer
    Location:
    14q12
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (29576479..29927847, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (23774515..24125722, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (30045685..30397053, complement)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724934 Neighboring gene VISTA enhancer hs566 Neighboring gene VISTA enhancer hs1539 Neighboring gene VISTA enhancer hs1168 Neighboring gene VISTA enhancers hs342 and hs1523 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:29923477-29924033 Neighboring gene VISTA enhancer hs598 Neighboring gene RNA, U11 small nuclear 5, pseudogene Neighboring gene uncharacterized LOC124903297 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:30132632-30133196 Neighboring gene RNA, U6 small nuclear 1234, pseudogene Neighboring gene uncharacterized LOC105370429 Neighboring gene ribosomal protein S6 pseudogene 24

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Congenital heart defects and ectodermal dysplasia
    MedGen: C4479250 OMIM: 617364 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index.
    EBI GWAS Catalog
    Biological insights from 108 schizophrenia-associated genetic loci.
    EBI GWAS Catalog
    Genome-wide analysis of BMI in adolescents and young adults reveals additional insight into the effects of genetic loci over the life course.
    EBI GWAS Catalog
    Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Screening in Jurkat T-cells with a short-hairpin-RNA (shRNA) library identifies protein kinase D1, a member of the protein kinase C family (cytosolic serine/threonine kinase), is important for HIV-1 replication PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat Sulfated polymannuroguluronate (SPMG) potently arrests HIV-1 Tat-triggered protein kinase C (PKC)-dependent PKC-mu activation PubMed
    tat Phospholipase C/protein kinase C signaling pathway-dependent phosphorylation of p44/42 and JNK MAP kinases participates partially in IL-1beta induction by TAT PubMed
    tat Protein kinase C is required for HIV-1 Tat-mediated transactivation of the viral LTR promoter, indicating protein kinase C regulates the process of HIV-1 transactivation and may play a role in the transition of HIV from latency to productive growth PubMed
    tat Protein kinase C phosphorylates HIV-1 Tat on serine residue 46 PubMed
    tat HIV-1 Tat activates protein kinase C, resulting in the induction of TNF-alpha, IL-6 and IL-10 expression and the secretion of MCP-1 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables diacylglycerol-dependent serine/threonine kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables diacylglycerol-dependent serine/threonine kinase activity TAS
    Traceable Author Statement
    more info
     
    enables heat shock protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables phosphatidylinositol 3-kinase activator activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase C binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein serine kinase activity IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    enables protein serine/threonine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein serine/threonine kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein serine/threonine kinase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables protein serine/threonine kinase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in Golgi organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in Golgi vesicle transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in angiogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to amino acid starvation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cellular response to angiotensin IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to endothelin IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to hydroperoxide IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cellular response to norepinephrine stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to oxidative stress IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to phorbol 13-acetate 12-myristate IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to vascular endothelial growth factor stimulus IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in cellular response to vascular endothelial growth factor stimulus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in defense response to Gram-negative bacterium IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in integrin-mediated signaling pathway TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in intracellular signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in intracellular signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of endocytosis TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in peptidyl-serine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in peptidyl-threonine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of peptidyl-threonine phosphorylation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in phospholipase C-activating G protein-coupled receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of NF-kappaB transcription factor activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of NLRP3 inflammasome complex assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of angiogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of autophagy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of blood vessel endothelial cell migration IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of blood vessel endothelial cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of canonical NF-kappaB signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of cell size IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of endothelial cell chemotaxis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of endothelial cell chemotaxis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of endothelial cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of endothelial cell proliferation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of osteoblast differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of peptide hormone secretion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of peptidyl-serine phosphorylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of protein export from nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of protein import into nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of sarcomere organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein autophosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein autophosphorylation TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in regulation of integrin-mediated signaling pathway TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in regulation of keratinocyte proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of release of sequestered calcium ion into cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of skeletal muscle contraction by modulation of calcium ion sensitivity of myofibril IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in signal transduction TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in sphingolipid biosynthetic process TAS
    Traceable Author Statement
    more info
     
    involved_in vascular endothelial growth factor receptor signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in vascular endothelial growth factor receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in Z disc IEA
    Inferred from Electronic Annotation
    more info
     
    located_in autophagosome membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell cortex IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell-cell junction IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
     
    located_in trans-Golgi network IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    serine/threonine-protein kinase D1
    Names
    nPKC-D1
    nPKC-mu
    protein kinase C mu type
    protein kinase C, mu
    protein kinase D
    NP_001316998.1
    NP_001335319.1
    NP_002733.2
    XP_011535267.1
    XP_047287545.1
    XP_047287546.1
    XP_054232371.1
    XP_054232372.1
    XP_054232373.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    Genomic

    1. NG_052879.1 RefSeqGene

      Range
      4847..356215
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001330069.2NP_001316998.1  serine/threonine-protein kinase D1 isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AL135858, AL355053, AL356756
      Consensus CDS
      CCDS81796.1
      UniProtKB/TrEMBL
      F8WBA3, Q1KKQ2
      Related
      ENSP00000390535.2, ENST00000415220.6
      Conserved Domains (5) summary
      smart00220
      Location:595847
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd00029
      Location:279328
      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:424551
      PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
      cd14082
      Location:587846
      STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
      pfam00130
      Location:147196
      C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    2. NM_001348390.1NP_001335319.1  serine/threonine-protein kinase D1 isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AL135858, AL355053, AL356756
      UniProtKB/TrEMBL
      Q1KKQ2
      Conserved Domains (4) summary
      cd00029
      Location:183232
      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:328455
      PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
      cd14082
      Location:491750
      STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
      pfam00130
      Location:51100
      C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    3. NM_002742.3NP_002733.2  serine/threonine-protein kinase D1 isoform 2

      See identical proteins and their annotated locations for NP_002733.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 2
      Source sequence(s)
      AL355053, BX645735, CN412379, X75756
      Consensus CDS
      CCDS9637.1
      UniProtKB/Swiss-Prot
      A6NL64, B2RAF6, Q15139
      UniProtKB/TrEMBL
      Q1KKQ2
      Related
      ENSP00000333568.6, ENST00000331968.11
      Conserved Domains (5) summary
      smart00220
      Location:587839
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd00029
      Location:271320
      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:416543
      PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
      cd14082
      Location:579838
      STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
      pfam00130
      Location:147196
      C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      29576479..29927847 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047431589.1XP_047287545.1  serine/threonine-protein kinase D1 isoform X1

      UniProtKB/TrEMBL
      Q1KKQ2
      Related
      ENST00000616995.5
    2. XM_011536965.3XP_011535267.1  serine/threonine-protein kinase D1 isoform X2

      UniProtKB/TrEMBL
      Q1KKQ2
      Conserved Domains (4) summary
      cd00029
      Location:183232
      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:328455
      PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
      cd14082
      Location:491750
      STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
      pfam00130
      Location:51100
      C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    3. XM_047431590.1XP_047287546.1  serine/threonine-protein kinase D1 isoform X3

      UniProtKB/TrEMBL
      Q1KKQ2

    RNA

    1. XR_943493.3 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      23774515..24125722 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054376396.1XP_054232371.1  serine/threonine-protein kinase D1 isoform X1

      UniProtKB/TrEMBL
      Q1KKQ2
    2. XM_054376397.1XP_054232372.1  serine/threonine-protein kinase D1 isoform X2

      UniProtKB/TrEMBL
      Q1KKQ2
    3. XM_054376398.1XP_054232373.1  serine/threonine-protein kinase D1 isoform X3

      UniProtKB/TrEMBL
      Q1KKQ2

    RNA

    1. XR_008488884.1 RNA Sequence