Human Gene PRKCD (ENST00000330452.8_4) from GENCODE V47lift37
  Description: protein kinase C delta, transcript variant 1 (from RefSeq NM_006254.4)
Gencode Transcript: ENST00000330452.8_4
Gencode Gene: ENSG00000163932.16_17
Transcript (Including UTRs)
   Position: hg19 chr3:53,195,225-53,226,733 Size: 31,509 Total Exon Count: 19 Strand: +
Coding Region
   Position: hg19 chr3:53,212,439-53,226,282 Size: 13,844 Coding Exon Count: 17 

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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 (chr3:53,195,225-53,226,733)mRNA (may differ from genome)Protein (676 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: KPCD_HUMAN
DESCRIPTION: RecName: Full=Protein kinase C delta type; EC=2.7.11.13; AltName: Full=Tyrosine-protein kinase PRKCD; EC=2.7.10.2; AltName: Full=nPKC-delta;
FUNCTION: Calcium-independent, phospholipid- and diacylglycerol (DAG)-dependent serine/threonine-protein kinase that plays contrasting roles in cell death and cell survival by functioning as a pro-apoptotic protein during DNA damage-induced apoptosis, but acting as an anti-apoptotic protein during cytokine receptor- initiated cell death, is involved in tumor suppression as well as survival of several cancers, is required for oxygen radical production by NADPH oxidase and acts as positive or negative regulator in platelet functional responses. Upon DNA damage, activates the promoter of the death-promoting transcription factor BCLAF1/Btf to trigger BCLAF1-mediated p53/TP53 gene transcription and apoptosis. In response to oxidative stress, interact with and activate CHUK/IKKA in the nucleus, causing the phosphorylation of p53/TP53. In the case of ER stress or DNA damage-induced apoptosis, can form a complex with the tyrosine-protein kinase ABL1 which trigger apoptosis independently of p53/TP53. In cytosol can trigger apoptosis by activating MAPK11 or MAPK14, inhibiting AKT1 and decreasing the level of X-linked inhibitor of apoptosis protein (XIAP), whereas in nucleus induces apoptosis via the activation of MAPK8 or MAPK9. Upon ionizing radiation treatment, is required for the activation of the apoptosis regulators BAX and BAK, which trigger the mitochondrial cell death pathway. Can phosphorylate MCL1 and target it for degradation which is sufficient to trigger for BAX activation and apoptosis. Is required for the control of cell cycle progression both at G1/S and G2/M phases. Mediates phorbol 12-myristate 13-acetate (PMA)- induced inhibition of cell cycle progression at G1/S phase by up- regulating the CDK inhibitor CDKN1A/p21 and inhibiting the cyclin CCNA2 promoter activity. In response to UV irradiation can phosphorylate CDK1, which is important for the G2/M DNA damage checkpoint activation. Can protect glioma cells from the apoptosis induced by TNFSF10/TRAIL, probably by inducing increased phosphorylation and subsequent activation of AKT1. Is highly expressed in a number of cancer cells and promotes cell survival and resistance against chemotherapeutic drugs by inducing cyclin D1 (CCND1) and hyperphosphorylation of RB1, and via several pro- survival pathways, including NF-kappa-B, AKT1 and MAPK1/3 (ERK1/2). Can also act as tumor suppressor upon mitogenic stimulation with PMA or TPA. In N-formyl-methionyl-leucyl- phenylalanine (fMLP)-treated cells, is required for NCF1 (p47- phox) phosphorylation and activation of NADPH oxidase activity, and regulates TNF-elicited superoxide anion production in neutrophils, by direct phosphorylation and activation of NCF1 or indirectly through MAPK1/3 (ERK1/2) signaling pathways. May also play a role in the regulation of NADPH oxidase activity in eosinophil after stimulation with IL5, leukotriene B4 or PMA. In collagen-induced platelet aggregation, acts a negative regulator of filopodia formation and actin polymerization by interacting with and negatively regulating VASP phosphorylation. Downstream of PAR1, PAR4 and CD36/GP4 receptors, regulates differentially platelet dense granule secretion; acts as a positive regulator in PAR-mediated granule secretion, whereas it negatively regulates CD36/GP4-mediated granule release. Phosphorylates MUC1 in the C- terminal and regulates the interaction between MUC1 and beta- catenin.
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
CATALYTIC ACTIVITY: ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate.
ENZYME REGULATION: Novel PKCs (PRKCD, PRKCE, PRKCH and PRKCQ) are calcium-insensitive, but activated by diacylglycerol (DAG) and phosphatidylserine. Three specific sites; Thr-507 (activation loop of the kinase domain), Ser-645 (turn motif) and Ser-664 (hydrophobic region), need to be phosphorylated for its full activation.
SUBUNIT: Interacts with PDPK1 (via N-terminus region), RAD9A, CDCP1, MUC1 and VASP.
INTERACTION: P06241:FYN; NbExp=4; IntAct=EBI-704279, EBI-515315; P17677:GAP43; NbExp=4; IntAct=EBI-704279, EBI-1267511;
SUBCELLULAR LOCATION: Cytoplasm. Cytoplasm, perinuclear region. Nucleus. Endoplasmic reticulum. Mitochondrion. Cell membrane; Peripheral membrane protein.
DOMAIN: The C1 domain, containing the phorbol ester/DAG-type region 1 (C1A) and 2 (C1B), is the diacylglycerol sensor.
DOMAIN: The C2 domain is a non-calcium binding domain. It binds proteins containing phosphotyrosine in a sequence-specific manner.
PTM: Autophosphorylated and/or phosphorylated at Thr-507, within the activation loop; phosphorylation at Thr-507 is not a prerequisite for enzymatic activity. Autophosphorylated at Ser- 299, Ser-302 and Ser-304. Upon TNFSF10/TRAIL treatment, phosphorylated at Tyr-155; phosphorylation is required for its translocation to the endoplasmic reticulum and cleavage by caspase-3. Phosphorylated at Tyr-313, Tyr-334 and Tyr-567; phosphorylation of Tyr-313 and Tyr-567 following thrombin stimulation potentiates its kinase activity. Phosphorylated by protein kinase PDPK1; phosphorylation is inhibited by the apoptotic C-terminus cleavage product of PKN2.
SIMILARITY: Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. PKC subfamily.
SIMILARITY: Contains 1 AGC-kinase C-terminal domain.
SIMILARITY: Contains 1 C2 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/PRKCDID42901ch3p21.html";

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PRKCD
Diseases sorted by gene-association score: autoimmune lymphoproliferative syndrome, type iii* (900), prkcd-related autoimmune lymphoproliferative syndrome* (500), systemic lupus erythematosus 16* (247), autoimmune lymphoproliferative syndrome* (192), common variable immunodeficiency* (112), b cell deficiency (22), lymphoproliferative syndrome (14), spinocerebellar ataxia 10 (9), adjustment disorder (8), ras-associated autoimmune leukoproliferative disorder (7), pneumonic plague (5)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 68.80 RPKM in Whole Blood
Total median expression: 771.16 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -172.10351-0.490 Picture PostScript Text
3' UTR -120.50451-0.267 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
IPR000961 - AGC-kinase_C
IPR000008 - C2_Ca-dep
IPR008973 - C2_Ca/lipid-bd_dom_CaLB
IPR020454 - DAG/PE-bd
IPR011009 - Kinase-like_dom
IPR017892 - Pkinase_C
IPR014376 - Prot_kin_PKC_delta
IPR002219 - Prot_Kinase_C-like_PE/DAG-bd
IPR000719 - Prot_kinase_cat_dom
IPR017441 - Protein_kinase_ATP_BS
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)
PF00433 - Protein kinase C terminal domain
PF07714 - Protein tyrosine and serine/threonine kinase

SCOP Domains:
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
56112 - Protein kinase-like (PK-like)
57889 - Cysteine-rich domain
57903 - FYVE/PHD zinc finger

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1YRK - X-ray MuPIT 2YUU - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q05655
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-  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    
Gene SorterGene Sorter    
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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:0004699 calcium-independent protein kinase C activity
GO:0004715 non-membrane spanning protein tyrosine kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008047 enzyme activator activity
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0019899 enzyme binding
GO:0019900 kinase binding
GO:0019901 protein kinase binding
GO:0043560 insulin receptor substrate binding
GO:0046872 metal ion binding

Biological Process:
GO:0002223 stimulatory C-type lectin receptor signaling pathway
GO:0006468 protein phosphorylation
GO:0006915 apoptotic process
GO:0007049 cell cycle
GO:0007165 signal transduction
GO:0008631 intrinsic apoptotic signaling pathway in response to oxidative stress
GO:0010469 regulation of receptor activity
GO:0016064 immunoglobulin mediated immune response
GO:0016310 phosphorylation
GO:0016572 histone phosphorylation
GO:0018105 peptidyl-serine phosphorylation
GO:0018107 peptidyl-threonine phosphorylation
GO:0018108 peptidyl-tyrosine phosphorylation
GO:0023021 termination of signal transduction
GO:0030168 platelet activation
GO:0030837 negative regulation of actin filament polymerization
GO:0032079 positive regulation of endodeoxyribonuclease activity
GO:0032091 negative regulation of protein binding
GO:0032147 activation of protein kinase activity
GO:0032613 interleukin-10 production
GO:0032615 interleukin-12 production
GO:0032930 positive regulation of superoxide anion generation
GO:0032956 regulation of actin cytoskeleton organization
GO:0034351 negative regulation of glial cell apoptotic process
GO:0035307 positive regulation of protein dephosphorylation
GO:0035556 intracellular signal transduction
GO:0038096 Fc-gamma receptor signaling pathway involved in phagocytosis
GO:0042100 B cell proliferation
GO:0042119 neutrophil activation
GO:0042307 positive regulation of protein import into nucleus
GO:0042742 defense response to bacterium
GO:0043312 neutrophil degranulation
GO:0043407 negative regulation of MAP kinase activity
GO:0043488 regulation of mRNA stability
GO:0046627 negative regulation of insulin receptor signaling pathway
GO:0050728 negative regulation of inflammatory response
GO:0050732 negative regulation of peptidyl-tyrosine phosphorylation
GO:0050821 protein stabilization
GO:0051490 negative regulation of filopodium assembly
GO:0060326 cell chemotaxis
GO:0060333 interferon-gamma-mediated signaling pathway
GO:0070301 cellular response to hydrogen peroxide
GO:0071447 cellular response to hydroperoxide
GO:0090331 negative regulation of platelet aggregation
GO:0090398 cellular senescence
GO:1900163 positive regulation of phospholipid scramblase activity
GO:1904385 cellular response to angiotensin
GO:2000304 positive regulation of ceramide biosynthetic process
GO:2000753 positive regulation of glucosylceramide catabolic process
GO:2000755 positive regulation of sphingomyelin catabolic process
GO:2001022 positive regulation of response to DNA damage stimulus
GO:2001235 positive regulation of apoptotic signaling pathway

Cellular Component:
GO:0005576 extracellular region
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0005911 cell-cell junction
GO:0016020 membrane
GO:0016363 nuclear matrix
GO:0035578 azurophil granule lumen
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC043350 - Homo sapiens protein kinase C, delta, mRNA (cDNA clone MGC:49908 IMAGE:5539909), complete cds.
Z22521 - H.sapiens protein kinase C delta cDNA, 5'end.
L07860 - Human protein kinase C-delta 13 mRNA, complete cds.
L07861 - Human protein kinase C-delta 13 mRNA, complete cds.
AK313216 - Homo sapiens cDNA, FLJ93717, highly similar to Homo sapiens protein kinase C, delta (PRKCD), mRNA.
LF214008 - JP 2014500723-A/21511: Polycomb-Associated Non-Coding RNAs.
AB527724 - Synthetic construct DNA, clone: pF1KB6236, Homo sapiens PRKCD gene for protein kinase C, delta, without stop codon, in Flexi system.
AK131548 - Homo sapiens cDNA FLJ16784 fis, clone CTONG2003764.
BC127261 - Homo sapiens jagged 2, mRNA (cDNA clone IMAGE:40128111).
D10495 - Homo sapiens mRNA for protein kinase C delta-type, complete cds.
AK294272 - Homo sapiens cDNA FLJ57052 complete cds, highly similar to Protein kinase C delta type (EC 2.7.11.13).
MA449585 - JP 2018138019-A/21511: Polycomb-Associated Non-Coding RNAs.
JD124832 - Sequence 105856 from Patent EP1572962.
JD280625 - Sequence 261649 from Patent EP1572962.
LF209985 - JP 2014500723-A/17488: Polycomb-Associated Non-Coding RNAs.
JD104420 - Sequence 85444 from Patent EP1572962.
LF333694 - JP 2014500723-A/141197: Polycomb-Associated Non-Coding RNAs.
MA445562 - JP 2018138019-A/17488: Polycomb-Associated Non-Coding RNAs.
MA569271 - JP 2018138019-A/141197: Polycomb-Associated Non-Coding RNAs.
AK130150 - Homo sapiens cDNA FLJ26640 fis, clone MPE01823, highly similar to Protein kinase C, delta type (EC 2.7.1.-).
DQ516383 - Homo sapiens protein kinase C delta VIII mRNA, partial cds, alternatively spliced.
JD092798 - Sequence 73822 from Patent EP1572962.
JD399609 - Sequence 380633 from Patent EP1572962.
JD476322 - Sequence 457346 from Patent EP1572962.
JD089225 - Sequence 70249 from Patent EP1572962.
JD548840 - Sequence 529864 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_keratinocytePathway - Keratinocyte Differentiation
h_HivnefPathway - HIV-I Nef: negative effector of Fas and TNF

Reactome (by CSHL, EBI, and GO)

Protein Q05655 (Reactome details) participates in the following event(s):

R-HSA-212552 Caspase 3-mediated cleavage of PKC delta
R-HSA-5607734 PKC-delta translocates to plasma membrane
R-HSA-198314 DAG stimulates protein kinase C-delta
R-HSA-425861 Activation of Protein Kinase C novel isoforms
R-HSA-5218821 PDK1 phosphorylates PKC
R-HSA-450533 PKCdelta phosphorylates HuR
R-HSA-5607746 PKC-delta is activated
R-HSA-5218813 DAG and Ca+2 bind to PKC and tether it to membrane
R-HSA-5218805 PKC autophosphorylates
R-HSA-6798751 Exocytosis of azurophil granule lumen proteins
R-HSA-909552 Phosphorylation of STAT1 at Ser727
R-HSA-5607740 PKC-delta phosphorylates CARD9
R-HSA-111970 PKC phosphorylates GRK2
R-HSA-8982703 PKC binds active G alpha (z)
R-HSA-8982709 G-alpha(z):PKC dissociates to give phosphorylated G alpha (z)
R-HSA-5218823 PKC phosphorylates sphingosine kinase 1
R-HSA-8934446 Activated PKC phosphorylates SHC1
R-HSA-751040 PKC phosphorylates G alpha (z)
R-HSA-111465 Apoptotic cleavage of cellular proteins
R-HSA-5607764 CLEC7A (Dectin-1) signaling
R-HSA-1489509 DAG and IP3 signaling
R-HSA-2029485 Role of phospholipids in phagocytosis
R-HSA-114508 Effects of PIP2 hydrolysis
R-HSA-5218921 VEGFR2 mediated cell proliferation
R-HSA-75153 Apoptotic execution phase
R-HSA-450520 HuR (ELAVL1) binds and stabilizes mRNA
R-HSA-5621481 C-type lectin receptors (CLRs)
R-HSA-6798695 Neutrophil degranulation
R-HSA-9006925 Intracellular signaling by second messengers
R-HSA-2029480 Fcgamma receptor (FCGR) dependent phagocytosis
R-HSA-76002 Platelet activation, signaling and aggregation
R-HSA-416476 G alpha (q) signalling events
R-HSA-877300 Interferon gamma signaling
R-HSA-4420097 VEGFA-VEGFR2 Pathway
R-HSA-109581 Apoptosis
R-HSA-450531 Regulation of mRNA stability by proteins that bind AU-rich elements
R-HSA-168249 Innate Immune System
R-HSA-111933 Calmodulin induced events
R-HSA-162582 Signal Transduction
R-HSA-418597 G alpha (z) signalling events
R-HSA-109582 Hemostasis
R-HSA-388396 GPCR downstream signalling
R-HSA-913531 Interferon Signaling
R-HSA-194138 Signaling by VEGF
R-HSA-5357801 Programmed Cell Death
R-HSA-8953854 Metabolism of RNA
R-HSA-168256 Immune System
R-HSA-1250196 SHC1 events in ERBB2 signaling
R-HSA-111997 CaM pathway
R-HSA-372790 Signaling by GPCR
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-1227986 Signaling by ERBB2
R-HSA-111996 Ca-dependent events
R-HSA-112043 PLC beta mediated events
R-HSA-112040 G-protein mediated events
R-HSA-111885 Opioid Signalling
R-HSA-418594 G alpha (i) signalling events

-  Other Names for This Gene
  Alternate Gene Symbols: B0KZ81, B2R834, ENST00000330452.1, ENST00000330452.2, ENST00000330452.3, ENST00000330452.4, ENST00000330452.5, ENST00000330452.6, ENST00000330452.7, KPCD_HUMAN, NM_006254, PKCD , PRKCD , Q05655, Q15144, Q86XJ6, uc317syw.1, uc317syw.2
UCSC ID: ENST00000330452.8_4
RefSeq Accession: NM_006254.4
Protein: Q05655 (aka KPCD_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.