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PRKD2 protein kinase D2 [ Homo sapiens (human) ]

Gene ID: 25865, updated on 4-Nov-2018

Summary

Official Symbol
PRKD2provided by HGNC
Official Full Name
protein kinase D2provided by HGNC
Primary source
HGNC:HGNC:17293
See related
Ensembl:ENSG00000105287 MIM:607074; Vega:OTTHUMG00000183431
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
PKD2; HSPC187; nPKC-D2
Summary
The protein encoded by this gene belongs to the protein kinase D (PKD) family of serine/threonine protein kinases. This kinase can be activated by phorbol esters as well as by gastrin via the cholecystokinin B receptor (CCKBR) in gastric cancer cells. It can bind to diacylglycerol (DAG) in the trans-Golgi network (TGN) and may regulate basolateral membrane protein exit from TGN. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
Annotation information
Note: PKD2 (GeneID: 5311) and PRKD2 (GeneID: 25865) share the PKD2 symbol/alias in common. PKD2 is a widely used alternative name for protein kinase D2 (PRKD2), which can be confused with the official symbol for PKD2/polycystin-2/polycystic kidney disease 2. [19 Jun 2018]
Expression
Ubiquitous expression in spleen (RPKM 19.7), lymph node (RPKM 14.5) and 25 other tissues See more
Orthologs

Genomic context

See PRKD2 in Genome Data Viewer
Location:
19q13.32
Exon count:
19
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 19 NC_000019.10 (46674316..46717127, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (47177573..47220384, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene G protein subunit gamma 8 Neighboring gene dishevelled binding antagonist of beta catenin 3 Neighboring gene DACT3 antisense RNA 1 Neighboring gene RNA, 7SL, cytoplasmic 364, pseudogene Neighboring gene uncharacterized LOC107987269 Neighboring gene microRNA 320e Neighboring gene striatin 4 Neighboring gene fukutin related protein Neighboring gene solute carrier family 1 member 5

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 Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide association study identifies six susceptibility loci for chronic lymphocytic leukemia.
NHGRI GWA Catalog
Genome-wide association study and meta-analysis find that over 40 loci affect risk of type 1 diabetes.
NHGRI GWA Catalog

Pathways from BioSystems

  • Aldosterone synthesis and secretion, organism-specific biosystem (from KEGG)
    Aldosterone synthesis and secretion, organism-specific biosystemAldosterone is a steroid hormone synthesized in and secreted from the outer layer of the adrenal cortex, the zona glomerulosa. Aldosterone plays an important role in the regulation of systemic blood ...
  • Aldosterone synthesis and secretion, conserved biosystem (from KEGG)
    Aldosterone synthesis and secretion, conserved biosystemAldosterone is a steroid hormone synthesized in and secreted from the outer layer of the adrenal cortex, the zona glomerulosa. Aldosterone plays an important role in the regulation of systemic blood ...
  • Metabolism, organism-specific biosystem (from REACTOME)
    Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
  • Metabolism of lipids and lipoproteins, organism-specific biosystem (from REACTOME)
    Metabolism of lipids and lipoproteins, organism-specific biosystemLipids are hydrophobic but otherwise chemically diverse molecules that play a wide variety of roles in human biology. They include ketone bodies, fatty acids, triacylglycerols, phospholipids and sphi...
  • Rap1 signaling pathway, organism-specific biosystem (from KEGG)
    Rap1 signaling pathway, organism-specific biosystemRap1 is a small GTPase that controls diverse processes, such as cell adhesion, cell-cell junction formation and cell polarity. Like all G proteins, Rap1 cycles between an inactive GDP-bound and an ac...
  • Rap1 signaling pathway, conserved biosystem (from KEGG)
    Rap1 signaling pathway, conserved biosystemRap1 is a small GTPase that controls diverse processes, such as cell adhesion, cell-cell junction formation and cell polarity. Like all G proteins, Rap1 cycles between an inactive GDP-bound and an ac...
  • Sphingolipid de novo biosynthesis, organism-specific biosystem (from REACTOME)
    Sphingolipid de novo biosynthesis, organism-specific biosystemThe main steps involved in de novo sphingolipid synthesis are annotated here (Merrill 2002, Gault et al. 2010).
  • Sphingolipid metabolism, organism-specific biosystem (from REACTOME)
    Sphingolipid metabolism, organism-specific biosystemSphingolipids are derivatives of long chain sphingoid bases such as sphingosine (trans-1,3-dihydroxy 2-amino-4-octadecene), an 18-carbon unsaturated amino alcohol which is the most abundant sphingoid...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase C activity IEA
Inferred from Electronic Annotation
more info
 
protein kinase C binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein serine/threonine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein serine/threonine kinase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein serine/threonine kinase activity NAS
Non-traceable Author Statement
more info
PubMed 
protein serine/threonine kinase activity TAS
Traceable Author Statement
more info
 
Process Evidence Code Pubs
T cell receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
adaptive immune response IEA
Inferred from Electronic Annotation
more info
 
angiogenesis IEA
Inferred from Electronic Annotation
more info
 
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cell death IMP
Inferred from Mutant Phenotype
more info
PubMed 
cellular response to vascular endothelial growth factor stimulus IGI
Inferred from Genetic Interaction
more info
PubMed 
cellular response to vascular endothelial growth factor stimulus IMP
Inferred from Mutant Phenotype
more info
PubMed 
endothelial tube morphogenesis TAS
Traceable Author Statement
more info
PubMed 
intracellular signal transduction IMP
Inferred from Mutant Phenotype
more info
PubMed 
peptidyl-serine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
peptidyl-serine phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
peptidyl-threonine phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of CREB transcription factor activity IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of DNA biosynthetic process ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of DNA-binding transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of ERK1 and ERK2 cascade ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of NF-kappaB transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of T cell receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of angiogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of angiogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of blood vessel endothelial cell migration IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of blood vessel endothelial cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of endothelial cell chemotaxis IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of endothelial cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of endothelial cell proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of endothelial cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of fibroblast growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of histone deacetylase activity IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of interleukin-2 production ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of interleukin-8 production IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of intracellular signal transduction IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of peptidyl-serine phosphorylation IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of vascular endothelial growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein autophosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein autophosphorylation TAS
Traceable Author Statement
more info
PubMed 
protein kinase D signaling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein kinase D signaling IGI
Inferred from Genetic Interaction
more info
PubMed 
protein phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein phosphorylation NAS
Non-traceable Author Statement
more info
PubMed 
sphingolipid biosynthetic process TAS
Traceable Author Statement
more info
 
vascular endothelial growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
serine/threonine-protein kinase D2
NP_001073349.1
NP_001073350.1
NP_001073351.1
NP_057541.2
XP_005258773.2

NCBI Reference Sequences (RefSeq)

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_001079880.1NP_001073349.1  serine/threonine-protein kinase D2 isoform A

    See identical proteins and their annotated locations for NP_001073349.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2, and 3 encode the same isoform (A).
    Source sequence(s)
    AC008635, AF309082, AL050147
    Consensus CDS
    CCDS12689.1
    UniProtKB/Swiss-Prot
    Q9BZL6
    Related
    ENSP00000393978.1, ENST00000433867.5
    Conserved Domains (4) summary
    cd00029
    Location:265314
    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:391511
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:547806
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:139188
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
  2. NM_001079881.1NP_001073350.1  serine/threonine-protein kinase D2 isoform A

    See identical proteins and their annotated locations for NP_001073350.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2, and 3 encode the same isoform (A).
    Source sequence(s)
    AC008635, AF309082, AL050147
    Consensus CDS
    CCDS12689.1
    UniProtKB/Swiss-Prot
    Q9BZL6
    Related
    ENSP00000470804.1, OTTHUMP00000271663, ENST00000595515.5, OTTHUMT00000466597
    Conserved Domains (4) summary
    cd00029
    Location:265314
    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:391511
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:547806
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:139188
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
  3. NM_001079882.1NP_001073351.1  serine/threonine-protein kinase D2 isoform B

    See identical proteins and their annotated locations for NP_001073351.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains a distinct 5' UTR and lacks an in-frame portion of the 5' coding region, compared to variant 1. The resulting isoform (B) has a shorter N-terminus when compared to isoform A.
    Source sequence(s)
    AF309082, AL050147, DA475821
    Consensus CDS
    CCDS59401.1
    UniProtKB/Swiss-Prot
    Q9BZL6
    Related
    ENSP00000472744.1, OTTHUMP00000271662, ENST00000600194.5, OTTHUMT00000466594
    Conserved Domains (5) summary
    smart00220
    Location:398650
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd00029
    Location:108157
    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:234354
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:390649
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    cl00040
    Location:131
    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 ...
  4. NM_016457.4NP_057541.2  serine/threonine-protein kinase D2 isoform A

    See identical proteins and their annotated locations for NP_057541.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, and 3 encode the same isoform (A).
    Source sequence(s)
    AC008635, AF309082, AL050147
    Consensus CDS
    CCDS12689.1
    UniProtKB/Swiss-Prot
    Q9BZL6
    Related
    ENSP00000291281.3, OTTHUMP00000271661, ENST00000291281.8, OTTHUMT00000466591
    Conserved Domains (4) summary
    cd00029
    Location:265314
    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:391511
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:547806
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:139188
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p12 Primary Assembly

    Range
    46674316..46717127 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005258716.2XP_005258773.2  serine/threonine-protein kinase D2 isoform X1

    See identical proteins and their annotated locations for XP_005258773.2

    UniProtKB/Swiss-Prot
    Q9BZL6
    Related
    ENSP00000469106.1, OTTHUMP00000271659, ENST00000601806.5, OTTHUMT00000466589
    Conserved Domains (5) summary
    smart00220
    Location:398650
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd00029
    Location:108157
    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:234354
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:390649
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    cl00040
    Location:131
    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 ...
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