PRKD2 protein kinase D2 [Homo sapiens (human)] - Gene

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; AllianceGenome:HGNC:17293
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: mouse all
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Genomic context

Location:: 19q13.32

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (46674316..46717114, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (49499855..49545002, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (47177573..47220371, complement)

Chromosome 19 - NC_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Serine/threonine-protein kinase D2-mediated phosphorylation of DSG2 threonine 730 promotes esophageal squamous cell carcinoma progression.
Title: Serine/threonine-protein kinase D2-mediated phosphorylation of DSG2 threonine 730 promotes esophageal squamous cell carcinoma progression.
Golgi retention and oncogenic KIT signaling via PLCgamma2-PKD2-PI4KIIIbeta activation in gastrointestinal stromal tumor cells.
Title: Golgi retention and oncogenic KIT signaling via PLCγ2-PKD2-PI4KIIIβ activation in gastrointestinal stromal tumor cells.
Knockdown of PRKD2 Enhances Chemotherapy Sensitivity in Cervical Cancer via the TP53/CDKN1A Pathway.
Title: Knockdown of PRKD2 Enhances Chemotherapy Sensitivity in Cervical Cancer via the TP53/CDKN1A Pathway.
Protein Kinase D2 drives chylomicron-mediated lipid transport in the intestine and promotes obesity.
Title: Protein Kinase D2 drives chylomicron-mediated lipid transport in the intestine and promotes obesity.
High PKD2 predicts poor prognosis in lung adenocarcinoma via promoting Epithelial-mesenchymal Transition.
Title: High PKD2 predicts poor prognosis in lung adenocarcinoma via promoting Epithelial-mesenchymal Transition.
PKD2 and PKD3 were the two major isoforms of PKD overexpressed in breast cancer. Suppressing either PKD2 or PKD3 was able to reduce breast cancer cell proliferation and metastasis.
Title: Oncogenic functions of protein kinase D2 and D3 in regulating multiple cancer-related pathways in breast cancer.
Our findings demonstrate that recurrent and high-grade salivary gland polymorphous adenocarcinomas are underpinned by PRKD1 E710D hotspot mutations or PRKD2 rearrangements
Title: Genomic analysis of recurrences and high-grade forms of polymorphous adenocarcinoma.
Study identified, for the first time, a functional crosstalk between protein kinase D2 (PKD2) and Aurora A kinase in cancer cells. The data demonstrate that PKD2 is catalytically active during the G2-M phases of the cell cycle, and inactivation or depletion of PKD2 causes delay in mitotic entry due to downregulation of Aurora A, an effect that can be rescued by overexpression of Aurora A.
Title: Protein Kinase D2 Modulates Cell Cycle By Stabilizing Aurora A Kinase at Centrosomes.
exogenous SCF, CCL5 and CCL11 reversed the effect on MCs migration inhibited by PKD2/3 silencing. Mechanistically, PKD2/3 interacted with Erk1/2 and activated Erk1/2 or NF-kappaB signaling pathway, leading to AP-1 or NF-kappaB binding to the promoter of scf, ccl5 and ccl11.
Title: Protein kinase Ds promote tumor angiogenesis through mast cell recruitment and expression of angiogenic factors in prostate cancer microenvironment.
This review discusses the versatile functions of PKD2 from the perspective of cancer hallmarks as described by Hanahan and Weinberg. The PKD2 status, signaling pathways affected in different tumor types and the molecular mechanisms that lead to tumorigenesis and tumor progression are presented. [review]
Title: Protein kinase D2: a versatile player in cancer biology.

Submit: New GeneRIF Correction See all GeneRIFs (48)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D19S1076 (e-PCR)
- UniSTS:35374

A006X30 (e-PCR)
- UniSTS:12019

D19S1076 (e-PCR)
- UniSTS:40442

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables calcium,diacylglycerol-dependent serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables diacylglycerol-dependent serine/threonine kinase activity	TAS Traceable Author Statement more info
enables diacylglycerol-dependent, calcium-independent serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase C binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	IDA Inferred from Direct Assay more info	PubMed
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	NAS Non-traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in T cell receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in adaptive immune response	IEA Inferred from Electronic Annotation more info
involved_in angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in cell adhesion	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 endothelial tube morphogenesis	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 peptidyl-serine phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in peptidyl-threonine phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
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 DNA biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of DNA-binding transcription factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of ERK1 and ERK2 cascade	ISS Inferred from Sequence or Structural Similarity 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 T cell receptor signaling pathway	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 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 cell adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
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 endothelial cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of fibroblast growth factor receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of interleukin-2 production	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of interleukin-8 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
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 positive regulation of vascular endothelial growth factor receptor signaling pathway	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 protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in protein phosphorylation	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of T cell apoptotic process	IMP Inferred from Mutant Phenotype 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	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
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	TAS Traceable Author Statement more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: serine/threonine-protein kinase D2

NP_001073349.1

EC 2.7.11.13

NP_001073350.1

EC 2.7.11.13

NP_001073351.1

EC 2.7.11.13

NP_057541.2

EC 2.7.11.13

XP_005258773.2

EC 2.7.11.13

XP_047294523.1

EC 2.7.11.13

XP_047294524.1

EC 2.7.11.13

XP_054176459.1

EC 2.7.11.13

XP_054176460.1

EC 2.7.11.13

XP_054176461.1

EC 2.7.11.13

XP_054176462.1

EC 2.7.11.13

XP_054176463.1

EC 2.7.11.13

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)

NM_001079880.2 → NP_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

B4DTS2, M0QZW1, M0R2R2, Q8NCK8, Q8TB08, Q9BZL6, Q9P0T6, Q9Y3X8

UniProtKB/TrEMBL

Q8N2H2

Related

ENSP00000393978.1, ENST00000433867.5

Conserved Domains (4) summary

cd01239
Location:391 → 511

PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain

cd14082
Location:547 → 806

STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D

cd20840
Location:129 → 201

C1_PKD2_rpt1; first protein kinase C conserved region 1 (C1 domain) found in protein kinase D2 (PKD2) and similar proteins

cd20843
Location:254 → 331

C1_PKD2_rpt2; second protein kinase C conserved region 1 (C1 domain) found in protein kinase D2 (PKD2) and similar proteins
NM_001079881.2 → NP_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

B4DTS2, M0QZW1, M0R2R2, Q8NCK8, Q8TB08, Q9BZL6, Q9P0T6, Q9Y3X8

UniProtKB/TrEMBL

Q8N2H2

Related

ENSP00000470804.1, ENST00000595515.5

Conserved Domains (4) summary

cd01239
Location:391 → 511

PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain

cd14082
Location:547 → 806

STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D

cd20840
Location:129 → 201

C1_PKD2_rpt1; first protein kinase C conserved region 1 (C1 domain) found in protein kinase D2 (PKD2) and similar proteins

cd20843
Location:254 → 331

C1_PKD2_rpt2; second protein kinase C conserved region 1 (C1 domain) found in protein kinase D2 (PKD2) and similar proteins
NM_001079882.2 → NP_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/TrEMBL

Q8N2H2

Related

ENSP00000472744.1, ENST00000600194.5

Conserved Domains (5) summary

smart00220
Location:398 → 650

S_TKc; Serine/Threonine protein kinases, catalytic domain

cd00029
Location:108 → 157

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:234 → 354

PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain

cd14082
Location:390 → 649

STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D

cl00040
Location:1 → 31

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 ...
NM_016457.5 → NP_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

B4DTS2, M0QZW1, M0R2R2, Q8NCK8, Q8TB08, Q9BZL6, Q9P0T6, Q9Y3X8

UniProtKB/TrEMBL

Q8N2H2

Related

ENSP00000291281.3, ENST00000291281.9

Conserved Domains (4) summary

cd01239
Location:391 → 511

PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain

cd14082
Location:547 → 806

STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D

cd20840
Location:129 → 201

C1_PKD2_rpt1; first protein kinase C conserved region 1 (C1 domain) found in protein kinase D2 (PKD2) and similar proteins

cd20843
Location:254 → 331

C1_PKD2_rpt2; second protein kinase C conserved region 1 (C1 domain) found in protein kinase D2 (PKD2) and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000019.10 Reference GRCh38.p14 Primary Assembly

Range

46674316..46717114 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005258716.3 → XP_005258773.2 serine/threonine-protein kinase D2 isoform X1

See identical proteins and their annotated locations for XP_005258773.2

UniProtKB/TrEMBL

Q8N2H2

Conserved Domains (5) summary

smart00220
Location:398 → 650

S_TKc; Serine/Threonine protein kinases, catalytic domain

cd00029
Location:108 → 157

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:234 → 354

PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain

cd14082
Location:390 → 649

STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D

cl00040
Location:1 → 31

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 ...
XM_047438568.1 → XP_047294524.1 serine/threonine-protein kinase D2 isoform X1
XM_047438567.1 → XP_047294523.1 serine/threonine-protein kinase D2 isoform X1