Human Gene PRKD1 (ENST00000331968.11_11) from GENCODE V47lift37
  Description: protein kinase D1, transcript variant 2 (from RefSeq NM_002742.3)
Gencode Transcript: ENST00000331968.11_11
Gencode Gene: ENSG00000184304.17_18
Transcript (Including UTRs)
   Position: hg19 chr14:30,045,685-30,397,053 Size: 351,369 Total Exon Count: 18 Strand: -
Coding Region
   Position: hg19 chr14:30,046,444-30,396,718 Size: 350,275 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:30,045,685-30,397,053)mRNA (may differ from genome)Protein (912 aa)
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-  Comments and Description Text from UniProtKB
  ID: KPCD1_HUMAN
DESCRIPTION: RecName: Full=Serine/threonine-protein kinase D1; EC=2.7.11.13; AltName: Full=Protein kinase C mu type; AltName: Full=Protein kinase D; AltName: Full=nPKC-D1; AltName: Full=nPKC-mu;
FUNCTION: Serine/threonine-protein kinase that converts transient diacylglycerol (DAG) signals into prolonged physiological effects downstream of PKC, and is involved in the regulation of MAPK8/JNK1 and Ras signaling, Golgi membrane integrity and trafficking, cell survival through NF-kappa-B activation, cell migration, cell differentiation by mediating HDAC7 nuclear export, cell proliferation via MAPK1/3 (ERK1/2) signaling, and plays a role in cardiac hypertrophy, VEGFA-induced angiogenesis, genotoxic-induced apoptosis and flagellin-stimulated inflammatory response. Phosphorylates the epidermal growth factor receptor (EGFR) on dual threonine residues, which leads to the suppression of epidermal growth factor (EGF)-induced MAPK8/JNK1 activation and subsequent JUN phosphorylation. Phosphorylates RIN1, inducing RIN1 binding to 14-3-3 proteins YWHAB, YWHAE and YWHAZ and increased competition with RAF1 for binding to GTP-bound form of Ras proteins (NRAS, HRAS and KRAS). Acts downstream of the heterotrimeric G-protein beta/gamma-subunit complex to maintain the structural integrity of the Golgi membranes, and is required for protein transport along the secretory pathway. In the trans-Golgi network (TGN), regulates the fission of transport vesicles that are on their way to the plasma membrane. May act by activating the lipid kinase phosphatidylinositol 4-kinase beta (PI4KB) at the TGN for the local synthesis of phosphorylated inositol lipids, which induces a sequential production of DAG, phosphatidic acid (PA) and lyso-PA (LPA) that are necessary for membrane fission and generation of specific transport carriers to the cell surface. Under oxidative stress, is phosphorylated at Tyr-463 via SRC-ABL1 and contributes to cell survival by activating IKK complex and subsequent nuclear translocation and activation of NFKB1. Involved in cell migration by regulating integrin alpha-5/beta-3 recycling and promoting its recruitment in newly forming focal adhesion. In osteoblast differentiation, mediates the bone morphogenic protein 2 (BMP2)- induced nuclear export of HDAC7, which results in the inhibition of HDAC7 transcriptional repression of RUNX2. In neurons, plays an important role in neuronal polarity by regulating the biogenesis of TGN-derived dendritic vesicles, and is involved in the maintenance of dendritic arborization and Golgi structure in hippocampal cells. May potentiate mitogenesis induced by the neuropeptide bombesin or vasopressin by mediating an increase in the duration of MAPK1/3 (ERK1/2) signaling, which leads to accumulation of immediate-early gene products including FOS that stimulate cell cycle progression. Plays an important role in the proliferative response induced by low calcium in keratinocytes, through sustained activation of MAPK1/3 (ERK1/2) pathway. Downstream of novel PKC signaling, plays a role in cardiac hypertrophy by phosphorylating HDAC5, which in turn triggers XPO1/CRM1-dependent nuclear export of HDAC5, MEF2A transcriptional activation and induction of downstream target genes that promote myocyte hypertrophy and pathological cardiac remodeling. Mediates cardiac troponin I (TNNI3) phosphorylation at the PKA sites, which results in reduced myofilament calcium sensitivity, and accelerated crossbridge cycling kinetics. The PRKD1-HDAC5 pathway is also involved in angiogenesis by mediating VEGFA-induced specific subset of gene expression, cell migration, and tube formation. In response to VEGFA, is necessary and required for HDAC7 phosphorylation which induces HDAC7 nuclear export and endothelial cell proliferation and migration. During apoptosis induced by cytarabine and other genotoxic agents, PRKD1 is cleaved by caspase-3 at Asp-378, resulting in activation of its kinase function and increased sensitivity of cells to the cytotoxic effects of genotoxic agents. In epithelial cells, is required for transducing flagellin-stimulated inflammatory responses by binding and phosphorylating TLR5, which contributes to MAPK14/p38 activation and production of inflammatory cytokines. May play a role in inflammatory response by mediating activation of NF-kappa- B. May be involved in pain transmission by directly modulating TRPV1 receptor.
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
COFACTOR: Magnesium.
ENZYME REGULATION: Activated by DAG and phorbol esters. Phorbol- ester/DAG-type domain 1 binds DAG with high affinity and appears to play the dominant role in mediating translocation to the cell membrane and trans-Golgi network. Phorbol-ester/DAG-type domain 2 binds phorbol ester with higher affinity. Autophosphorylation of Ser-742 and phosphorylation of Ser-738 by PKC relieves auto- inhibition by the PH domain. Phosphorylation on Tyr-463 by the SRC-ABL1 pathway in response to oxidative stress, is also required for activation. Activated by DAPK1 under oxidative stress.
SUBUNIT: Interacts (via N-terminus) with ADAP1/CENTA1. Interacts with MAPK13 and SRC. Interacts with DAPK1 in an oxidative stress- regulated manner.
INTERACTION: P12830:CDH1; NbExp=7; IntAct=EBI-1181072, EBI-727477; O15264:MAPK13; NbExp=6; IntAct=EBI-1181072, EBI-2116951; P02795:MT2A; NbExp=7; IntAct=EBI-1181072, EBI-996616;
SUBCELLULAR LOCATION: Cytoplasm. Cell membrane. Golgi apparatus, trans-Golgi network (By similarity). Note=Translocation to the cell membrane is required for kinase activation.
PTM: Phosphorylated at Ser-397 and Ser-401 by MAPK13 during regulation of insulin secretion in pancreatic beta cells. Phosphorylated by DAPK1.
SIMILARITY: Belongs to the protein kinase superfamily. CAMK Ser/Thr protein kinase family. PKD subfamily.
SIMILARITY: Contains 1 PH domain.
SIMILARITY: Contains 2 phorbol-ester/DAG-type zinc fingers.
SIMILARITY: Contains 1 protein kinase domain.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/PRKCMID41860ch14q11.html";

-  Primer design for this transcript
 

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-  MalaCards Disease Associations
  MalaCards Gene Search: PRKD1
Diseases sorted by gene-association score: congenital heart defects and ectodermal dysplasia* (1220), malignant epithelial tumor of salivary glands* (350), autosomal dominant polycystic kidney disease (6), polycystic kidney disease 4, with or without hepatic disease (3), subacute glomerulonephritis (3), polycystic kidney disease 2 (2), autosomal genetic disease (2), autosomal dominant disease (2), ascending cholangitis (1), hemidystonia (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 15.72 RPKM in Cells - Cultured fibroblasts
Total median expression: 192.94 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -121.40335-0.362 Picture PostScript Text
3' UTR -163.70759-0.216 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR020454 - DAG/PE-bd
IPR011009 - Kinase-like_dom
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR002219 - Prot_Kinase_C-like_PE/DAG-bd
IPR000719 - Prot_kinase_cat_dom
IPR017441 - Protein_kinase_ATP_BS
IPR015727 - Protein_Kinase_C_mu-related
IPR002290 - Ser/Thr_dual-sp_kinase_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF00130 - Phorbol esters/diacylglycerol binding domain (C1 domain)
PF00169 - PH domain
PF06293 - Lipopolysaccharide kinase (Kdo/WaaP) family
PF07714 - Protein tyrosine and serine/threonine kinase
PF14531 - Kinase-like

SCOP Domains:
50729 - PH domain-like
56112 - Protein kinase-like (PK-like)
57889 - Cysteine-rich domain
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on Q15139
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0004697 protein kinase C activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0042802 identical protein binding
GO:0046872 metal ion binding

Biological Process:
GO:0001525 angiogenesis
GO:0001938 positive regulation of endothelial cell proliferation
GO:0002376 immune system process
GO:0006468 protein phosphorylation
GO:0006915 apoptotic process
GO:0006954 inflammatory response
GO:0007030 Golgi organization
GO:0007165 signal transduction
GO:0007229 integrin-mediated signaling pathway
GO:0007265 Ras protein signal transduction
GO:0007399 nervous system development
GO:0008283 cell proliferation
GO:0010508 positive regulation of autophagy
GO:0010595 positive regulation of endothelial cell migration
GO:0010837 regulation of keratinocyte proliferation
GO:0010976 positive regulation of neuron projection development
GO:0016310 phosphorylation
GO:0018105 peptidyl-serine phosphorylation
GO:0018107 peptidyl-threonine phosphorylation
GO:0030148 sphingolipid biosynthetic process
GO:0030154 cell differentiation
GO:0031647 regulation of protein stability
GO:0032793 positive regulation of CREB transcription factor activity
GO:0033138 positive regulation of peptidyl-serine phosphorylation
GO:0034198 cellular response to amino acid starvation
GO:0034599 cellular response to oxidative stress
GO:0035556 intracellular signal transduction
GO:0035924 cellular response to vascular endothelial growth factor stimulus
GO:0038033 positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043536 positive regulation of blood vessel endothelial cell migration
GO:0043552 positive regulation of phosphatidylinositol 3-kinase activity
GO:0045087 innate immune response
GO:0045669 positive regulation of osteoblast differentiation
GO:0045766 positive regulation of angiogenesis
GO:0045806 negative regulation of endocytosis
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0046777 protein autophosphorylation
GO:0048010 vascular endothelial growth factor receptor signaling pathway
GO:0048193 Golgi vesicle transport
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0060548 negative regulation of cell death
GO:0071447 cellular response to hydroperoxide
GO:0089700 protein kinase D signaling
GO:1901727 positive regulation of histone deacetylase activity
GO:2001028 positive regulation of endothelial cell chemotaxis
GO:2001044 regulation of integrin-mediated signaling pathway

Cellular Component:
GO:0000421 autophagosome membrane
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  X75756 - H.sapiens mRNA for protein kinase C mu.
AK314170 - Homo sapiens cDNA, FLJ94883, highly similar to Homo sapiens protein kinase D1 (PRKD1), mRNA.
BC160015 - Synthetic construct Homo sapiens clone IMAGE:100063951, MGC:193130 protein kinase D1 (PRKD1) mRNA, encodes complete protein.
JD307337 - Sequence 288361 from Patent EP1572962.
JD042974 - Sequence 23998 from Patent EP1572962.
JD501719 - Sequence 482743 from Patent EP1572962.
JD403044 - Sequence 384068 from Patent EP1572962.
JD532564 - Sequence 513588 from Patent EP1572962.
JD409572 - Sequence 390596 from Patent EP1572962.
JD398239 - Sequence 379263 from Patent EP1572962.
JD125349 - Sequence 106373 from Patent EP1572962.
JD383412 - Sequence 364436 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q15139 (Reactome details) participates in the following event(s):

R-HSA-429698 PRKD1,2,3 phosphorylates COL4A3BP-2
R-HSA-1660661 Sphingolipid de novo biosynthesis
R-HSA-428157 Sphingolipid metabolism
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: A6NL64, B2RAF6, ENST00000331968.1, ENST00000331968.10, ENST00000331968.2, ENST00000331968.3, ENST00000331968.4, ENST00000331968.5, ENST00000331968.6, ENST00000331968.7, ENST00000331968.8, ENST00000331968.9, KPCD1_HUMAN, NM_002742, PKD, PKD1, PRKCM, Q15139, uc317tii.1, uc317tii.2
UCSC ID: ENST00000331968.11_11
RefSeq Accession: NM_002742.3
Protein: Q15139 (aka KPCD1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.