PRKD1 protein kinase D1 [Homo sapiens (human)] - Gene

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: mouse all
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Genomic context

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_000014.9 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?

Protein kinase D (PKD) on the crossroad of lipid absorption, synthesis and utilization.
Title: Protein kinase D (PKD) on the crossroad of lipid absorption, synthesis and utilization.
Protein kinase D activity is a risk biomarker in prostate cancer that drives cell invasion by a Snail/ERK dependent mechanism.
Title: Protein kinase D activity is a risk biomarker in prostate cancer that drives cell invasion by a Snail/ERK dependent mechanism.
Protein kinase D1 overexpression potentiates epidermal growth factor signaling pathway in MCF-7 cells.
Title: Protein kinase D1 overexpression potentiates epidermal growth factor signaling pathway in MCF-7 cells.
IL-33 via PKCmu/PRKD1 Mediated alpha-Catenin Phosphorylation Regulates Endothelial Cell-Barrier Integrity and Ischemia-Induced Vascular Leakage.
Title: IL-33 via PKCμ/PRKD1 Mediated α-Catenin Phosphorylation Regulates Endothelial Cell-Barrier Integrity and Ischemia-Induced Vascular Leakage.
PKD autoinhibition in trans regulates activation loop autophosphorylation in cis.
Title: PKD autoinhibition in trans regulates activation loop autophosphorylation in cis.
Phosphorylation-dependent positive feedback on the oxytocin receptor through the kinase PKD1 contributes to long-term social memory.
Title: Phosphorylation-dependent positive feedback on the oxytocin receptor through the kinase PKD1 contributes to long-term social memory.
Protein kinase D1 variant associated with human epilepsy and peripheral nerve hypermyelination.
Title: Protein kinase D1 variant associated with human epilepsy and peripheral nerve hypermyelination.
Protein kinase D, ubiquitin and proteasome pathways are involved in adenosine receptor-stimulated NR4A expression in myeloid cells.
Title: Protein kinase D, ubiquitin and proteasome pathways are involved in adenosine receptor-stimulated NR4A expression in myeloid cells.
Protein Kinase D1, Reduced in Human Pancreatic Tumors, Increases Secretion of Small Extracellular Vesicles From Cancer Cells That Promote Metastasis to Lung in Mice.
Title: Protein Kinase D1, Reduced in Human Pancreatic Tumors, Increases Secretion of Small Extracellular Vesicles From Cancer Cells That Promote Metastasis to Lung in Mice.
HDAC4 and 5 repression of TBX5 is relieved by protein kinase D1.
Title: HDAC4 and 5 repression of TBX5 is relieved by protein kinase D1.

Submit: New GeneRIF Correction See all GeneRIFs (141)

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

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 EBI GWAS CatalogPubMed
Biological insights from 108 schizophrenia-associated genetic loci. EBI GWAS Catalog EBI GWAS CatalogPubMed
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 EBI GWAS CatalogPubMed
Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers. EBI GWAS Catalog EBI GWAS CatalogPubMed
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. 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)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SGC32910 (e-PCR)
- UniSTS:32269

G59832 (e-PCR)
- UniSTS:136981

RH119606 (e-PCR)
- UniSTS:133921

STS-X75756 (e-PCR)
- UniSTS:47916

UniSTS:224841 (e-PCR)
- UniSTS:224841

PRKCM_228 (e-PCR)
- UniSTS:277616

MARC_14413-14414:1010075307:1 (e-PCR)
- UniSTS:267659

RH47598 (e-PCR)
- UniSTS:59790

SHGC-106490 (e-PCR)
- UniSTS:169872

D14S1146 (e-PCR)
- UniSTS:57232

D14S252 (e-PCR)
- UniSTS:58027

AFM207xb12 (e-PCR)
- UniSTS:88771

RH121759 (e-PCR)
- UniSTS:134909

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

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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

EC 2.7.11.13

NP_001335319.1

EC 2.7.11.13

NP_002733.2

EC 2.7.11.13

XP_011535267.1

EC 2.7.11.13

XP_047287545.1

EC 2.7.11.13

XP_047287546.1

EC 2.7.11.13

XP_054232371.1

EC 2.7.11.13

XP_054232372.1

EC 2.7.11.13

XP_054232373.1

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.

Genomic

NG_052879.1 RefSeqGene

Range

4847..356215

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001330069.2 → NP_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:595 → 847

S_TKc; Serine/Threonine protein kinases, catalytic domain

cd00029
Location:279 → 328

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:424 → 551

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

cd14082
Location:587 → 846

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

pfam00130
Location:147 → 196

C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
NM_001348390.1 → NP_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:183 → 232

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:328 → 455

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

cd14082
Location:491 → 750

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

pfam00130
Location:51 → 100

C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
NM_002742.3 → NP_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:587 → 839

S_TKc; Serine/Threonine protein kinases, catalytic domain

cd00029
Location:271 → 320

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:416 → 543

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

cd14082
Location:579 → 838

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

pfam00130
Location:147 → 196

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

NC_000014.9 Reference GRCh38.p14 Primary Assembly

Range

29576479..29927847 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Related

ENST00000616995.5
XM_011536965.3 → XP_011535267.1 serine/threonine-protein kinase D1 isoform X2

UniProtKB/TrEMBL

Q1KKQ2

Conserved Domains (4) summary

cd00029
Location:183 → 232

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:328 → 455

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

cd14082
Location:491 → 750

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

pfam00130
Location:51 → 100

C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
XM_047431590.1 → XP_047287546.1 serine/threonine-protein kinase D1 isoform X3