Gene Details | GeDiPNet - Complete Gene Info, Disease Associations & Pathways

Gene Gene SNPs miRNA Gene ontology Other IDs Protein Pathways Associated diseases
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.	5587
Gene name Gene Name - the full gene name approved by the HGNC.	Protein kinase D1
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.	PRKD1
Synonyms (NCBI Gene) Gene synonyms aliases	CHDED, PKC-MU, PKCM, PKD, PRKCM
Disease Acronyms (UniProt) Disease acronyms from UniProt database	CHDED
Chromosome Chromosome number	14
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.	14q12
Summary Summary of gene provided in NCBI Entrez Gene.	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) pa

Show/Hide all(3)

SNP ID	Visualize variation	Clinical significance	Consequence
rs1057519635	C>T	Pathogenic	Non coding transcript variant, missense variant, coding sequence variant
rs1057519636	A>C	Pathogenic	Non coding transcript variant, missense variant, coding sequence variant
rs1439477100	C>T	Likely-pathogenic	Non coding transcript variant, missense variant, coding sequence variant

Show/Hide all(93)

miRTarBase ID	miRNA	Experiments	Reference
MIRT052152	hsa-let-7b-5p	CLASH	23622248
MIRT572969	hsa-miR-4645-5p	PAR-CLIP	20371350
MIRT572968	hsa-miR-4673	PAR-CLIP	20371350
MIRT572967	hsa-miR-766-3p	PAR-CLIP	20371350
MIRT572966	hsa-miR-3925-3p	PAR-CLIP	20371350
MIRT572964	hsa-miR-6837-3p	PAR-CLIP	20371350
MIRT572965	hsa-miR-942-5p	PAR-CLIP	20371350
MIRT572963	hsa-miR-6740-3p	PAR-CLIP	20371350
MIRT572962	hsa-miR-515-5p	PAR-CLIP	20371350
MIRT572961	hsa-miR-519e-5p	PAR-CLIP	20371350
MIRT572969	hsa-miR-4645-5p	PAR-CLIP	20371350
MIRT572968	hsa-miR-4673	PAR-CLIP	20371350
MIRT572967	hsa-miR-766-3p	PAR-CLIP	20371350
MIRT572966	hsa-miR-3925-3p	PAR-CLIP	20371350
MIRT572964	hsa-miR-6837-3p	PAR-CLIP	20371350
MIRT572965	hsa-miR-942-5p	PAR-CLIP	20371350
MIRT572963	hsa-miR-6740-3p	PAR-CLIP	20371350
MIRT572962	hsa-miR-515-5p	PAR-CLIP	20371350
MIRT572961	hsa-miR-519e-5p	PAR-CLIP	20371350
MIRT1263463	hsa-miR-1206	CLIP-seq
MIRT1263464	hsa-miR-124	CLIP-seq
MIRT1263465	hsa-miR-128	CLIP-seq
MIRT1263466	hsa-miR-183	CLIP-seq
MIRT1263467	hsa-miR-323-3p	CLIP-seq
MIRT1263468	hsa-miR-34a	CLIP-seq
MIRT1263469	hsa-miR-34c-5p	CLIP-seq
MIRT1263470	hsa-miR-3714	CLIP-seq
MIRT1263471	hsa-miR-3910	CLIP-seq
MIRT1263472	hsa-miR-4263	CLIP-seq
MIRT1263473	hsa-miR-449a	CLIP-seq
MIRT1263474	hsa-miR-449b	CLIP-seq
MIRT1263475	hsa-miR-450b-5p	CLIP-seq
MIRT1263476	hsa-miR-4521	CLIP-seq
MIRT1263477	hsa-miR-506	CLIP-seq
MIRT1263478	hsa-miR-518a-5p	CLIP-seq
MIRT1263479	hsa-miR-527	CLIP-seq
MIRT1263480	hsa-miR-548a-3p	CLIP-seq
MIRT1263481	hsa-miR-548an	CLIP-seq
MIRT1263482	hsa-miR-548e	CLIP-seq
MIRT1263483	hsa-miR-548f	CLIP-seq
MIRT1263484	hsa-miR-576-5p	CLIP-seq
MIRT1263485	hsa-miR-586	CLIP-seq
MIRT2077571	hsa-miR-335	CLIP-seq
MIRT2077572	hsa-miR-587	CLIP-seq
MIRT2304089	hsa-miR-1827	CLIP-seq
MIRT1263468	hsa-miR-34a	CLIP-seq
MIRT1263469	hsa-miR-34c-5p	CLIP-seq
MIRT1263473	hsa-miR-449a	CLIP-seq
MIRT1263474	hsa-miR-449b	CLIP-seq
MIRT2304090	hsa-miR-4514	CLIP-seq
MIRT2304091	hsa-miR-4692	CLIP-seq
MIRT2304092	hsa-miR-4717-3p	CLIP-seq
MIRT2304093	hsa-miR-4733-3p	CLIP-seq
MIRT2304094	hsa-miR-4742-5p	CLIP-seq
MIRT2304095	hsa-miR-549	CLIP-seq
MIRT2304096	hsa-miR-940	CLIP-seq
MIRT1263463	hsa-miR-1206	CLIP-seq
MIRT2457181	hsa-miR-141	CLIP-seq
MIRT2457182	hsa-miR-200a	CLIP-seq
MIRT2457183	hsa-miR-376a	CLIP-seq
MIRT2457184	hsa-miR-376b	CLIP-seq
MIRT2457185	hsa-miR-4773	CLIP-seq
MIRT2457186	hsa-miR-875-3p	CLIP-seq
MIRT1263465	hsa-miR-128	CLIP-seq
MIRT2601019	hsa-miR-2052	CLIP-seq
MIRT2601020	hsa-miR-2276	CLIP-seq
MIRT1263468	hsa-miR-34a	CLIP-seq
MIRT1263469	hsa-miR-34c-5p	CLIP-seq
MIRT2601021	hsa-miR-3692	CLIP-seq
MIRT2601022	hsa-miR-3924	CLIP-seq
MIRT2601023	hsa-miR-4277	CLIP-seq
MIRT1263473	hsa-miR-449a	CLIP-seq
MIRT1263474	hsa-miR-449b	CLIP-seq
MIRT2601024	hsa-miR-4708-3p	CLIP-seq
MIRT2601025	hsa-miR-4772-3p	CLIP-seq
MIRT2601026	hsa-miR-514	CLIP-seq
MIRT2601027	hsa-miR-514b-3p	CLIP-seq
MIRT2601028	hsa-miR-544	CLIP-seq
MIRT1263465	hsa-miR-128	CLIP-seq
MIRT2601019	hsa-miR-2052	CLIP-seq
MIRT2601020	hsa-miR-2276	CLIP-seq
MIRT1263468	hsa-miR-34a	CLIP-seq
MIRT1263469	hsa-miR-34c-5p	CLIP-seq
MIRT2601021	hsa-miR-3692	CLIP-seq
MIRT2601022	hsa-miR-3924	CLIP-seq
MIRT2601023	hsa-miR-4277	CLIP-seq
MIRT1263473	hsa-miR-449a	CLIP-seq
MIRT1263474	hsa-miR-449b	CLIP-seq
MIRT2601024	hsa-miR-4708-3p	CLIP-seq
MIRT2601025	hsa-miR-4772-3p	CLIP-seq
MIRT2601026	hsa-miR-514	CLIP-seq
MIRT2601027	hsa-miR-514b-3p	CLIP-seq
MIRT2601028	hsa-miR-544	CLIP-seq

Show/Hide all(70)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000421	Component	Autophagosome membrane	IDA	22095288
GO:0001525	Process	Angiogenesis	IEA
GO:0001938	Process	Positive regulation of endothelial cell proliferation	IGI	20497126
GO:0004674	Function	Protein serine/threonine kinase activity	IDA	18440775, 22095288
GO:0004674	Function	Protein serine/threonine kinase activity	IMP	28428613
GO:0004674	Function	Protein serine/threonine kinase activity	TAS	8119958
GO:0004697	Function	Protein kinase C activity	IDA	12637538
GO:0004698	Function	Calcium-dependent protein kinase C activity	IEA
GO:0005515	Function	Protein binding	IPI	10831594, 12893243, 14550308, 15695390, 18509061, 19135240, 22095288, 22939624, 24623306
GO:0005524	Function	ATP binding	IEA
GO:0005794	Component	Golgi apparatus	IDA	11239398
GO:0005802	Component	Trans-Golgi network	IDA	19211839
GO:0005829	Component	Cytosol	IDA
GO:0005829	Component	Cytosol	ISS
GO:0005829	Component	Cytosol	TAS
GO:0005886	Component	Plasma membrane	IDA
GO:0006468	Process	Protein phosphorylation	IDA	24623306
GO:0006915	Process	Apoptotic process	IEA
GO:0006954	Process	Inflammatory response	IEA
GO:0007030	Process	Golgi organization	IMP	19211839
GO:0007165	Process	Signal transduction	TAS	8119958
GO:0007229	Process	Integrin-mediated signaling pathway	TAS	21488147
GO:0007265	Process	Ras protein signal transduction	IMP	24623306
GO:0007399	Process	Nervous system development	IEA
GO:0010508	Process	Positive regulation of autophagy	IMP	22095288
GO:0010595	Process	Positive regulation of endothelial cell migration	IMP	18332134
GO:0010837	Process	Regulation of keratinocyte proliferation	ISS
GO:0010976	Process	Positive regulation of neuron projection development	IMP	19211839
GO:0016301	Function	Kinase activity	IDA	24623306
GO:0018105	Process	Peptidyl-serine phosphorylation	IDA	18440775
GO:0018105	Process	Peptidyl-serine phosphorylation	IMP	28428613
GO:0018107	Process	Peptidyl-threonine phosphorylation	IDA	22095288
GO:0018107	Process	Peptidyl-threonine phosphorylation	IMP	28428613
GO:0018107	Process	Peptidyl-threonine phosphorylation	ISS
GO:0030148	Process	Sphingolipid biosynthetic process	TAS
GO:0030154	Process	Cell differentiation	IEA
GO:0031647	Process	Regulation of protein stability	IMP	24623306
GO:0032793	Process	Positive regulation of CREB transcription factor activity	IGI	20497126
GO:0033138	Process	Positive regulation of peptidyl-serine phosphorylation	IGI	20497126
GO:0034198	Process	Cellular response to amino acid starvation	IMP	22095288
GO:0034599	Process	Cellular response to oxidative stress	IDA	12505989
GO:0035556	Process	Intracellular signal transduction	IMP	18059339, 18440775
GO:0035924	Process	Cellular response to vascular endothelial growth factor stimulus	IGI	20497126
GO:0035924	Process	Cellular response to vascular endothelial growth factor stimulus	IMP	18059339, 18332134, 18440775
GO:0038033	Process	Positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway	IGI	20497126
GO:0038033	Process	Positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway	IMP	18440775
GO:0042802	Function	Identical protein binding	IPI	10831594
GO:0043123	Process	Positive regulation of I-kappaB kinase/NF-kappaB signaling	IMP	12505989
GO:0043536	Process	Positive regulation of blood vessel endothelial cell migration	IGI	20497126
GO:0043536	Process	Positive regulation of blood vessel endothelial cell migration	IMP	18440775
GO:0043552	Process	Positive regulation of phosphatidylinositol 3-kinase activity	IC	22095288
GO:0045087	Process	Innate immune response	IEA
GO:0045669	Process	Positive regulation of osteoblast differentiation	ISS
GO:0045766	Process	Positive regulation of angiogenesis	IGI	20497126
GO:0045766	Process	Positive regulation of angiogenesis	IMP	18332134, 18440775
GO:0045806	Process	Negative regulation of endocytosis	TAS	21488147
GO:0045944	Process	Positive regulation of transcription by RNA polymerase II	IMP	18059339
GO:0046777	Process	Protein autophosphorylation	IDA	24623306
GO:0046777	Process	Protein autophosphorylation	TAS	21488147
GO:0046872	Function	Metal ion binding	IEA
GO:0048010	Process	Vascular endothelial growth factor receptor signaling pathway	IMP	18059339
GO:0048193	Process	Golgi vesicle transport	ISS
GO:0051092	Process	Positive regulation of NF-kappaB transcription factor activity	IMP	12505989
GO:0060548	Process	Negative regulation of cell death	IMP	12505989
GO:0071447	Process	Cellular response to hydroperoxide	IMP	22095288
GO:0089700	Process	Protein kinase D signaling	IBA	21873635
GO:0089700	Process	Protein kinase D signaling	IGI	20497126
GO:1901727	Process	Positive regulation of histone deacetylase activity	IGI	20497126
GO:2001028	Process	Positive regulation of endothelial cell chemotaxis	IMP	18440775
GO:2001044	Process	Regulation of integrin-mediated signaling pathway	TAS	21488147

MIM	HGNC	e!Ensembl
605435	9407	ENSG00000184304

Protein

UniProt ID

Q15139

Protein name

Serine/threonine-protein kinase D1 (EC 2.7.11.13) (Protein kinase C mu type) (Protein kinase D) (nPKC-D1) (nPKC-mu)

Protein 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 traffick

Family and domains

Pfam

Accession	ID	Position in sequence	Description	Type
PF00130	C1_1	147 → 198	Phorbol esters/diacylglycerol binding domain (C1 domain)	Domain
PF00130	C1_1	271 → 323	Phorbol esters/diacylglycerol binding domain (C1 domain)	Domain
PF00169	PH	423 → 541	PH domain	Domain
PF00069	Pkinase	584 → 839	Protein kinase domain	Domain

Sequence

MSAPPVLRPPSPLLPVAAAAAAAAAALVPGSGPGPAPFLAPVAAPVGGISFHLQIGLSRE
PVLLLQDSSGDYSLAHVREMACSIVDQKFPECGFYGMYDKILLFRHDPTSENILQLVKAA
SDIQEGDLIEVVLSASATFEDFQIRPHALFVHSYRAPAFCDHCGEMLWGLVRQGLKCEGC
GLNYHKRCAFKIPNNCSGVRRRRLSNVSLTGVSTIRTSSAELSTSAPDEPLLQKSPSESF
IGREKRSNSQSYIGRPIHLDKILMSKVKVPHTFVIHSYTRPTVCQYCKKLLKGLFRQGLQ
CKDCRFNCHKRCAPKVPNNCLGEVTINGDLLSPGAESDVVMEEGSDDNDSERNSGLMDDM
EEAMVQDAEMAMAECQNDSGEMQDPDPDHEDANRTISPSTSNNIPLMRVVQSVKHTKRKS
STVMKEGWMVHYTSKDTLRKRHYWRLDSKCITLFQNDTGSRYYKEIPLSEILSLEPVKTS
ALIPNGANPHCFEITTANVVYYVGENVVNPSSPSPNNSVLTSGVGADVARMWEIAIQHAL
MPVIPKGSSVGTGTNLHRDISVSISVSNCQIQENVDISTVYQIFPDEVLGSGQFGIVYGG
KHRKTGRDVAIKIIDKLRFPTKQESQLRNEVAILQNLHHPGVVNLECMFETPERVFVVME
KLHGDMLEMILSSEKGRLPEHITKFLITQILVALRHLHFKNIVHCDLKPENVLLASADPF
PQVKLCDFGFARIIGEKSFRRSVVGTPAYLAPEVLRNKGYNRSLDMWSVGVIIYVSLSGT
FPFNEDEDIHDQIQNAAFMYPPNPWKEISHEAIDLINNLLQVKMRKRYSVDKTLSHPWLQ
DYQTWLDLRELECKIGERYITHESDDLRWEKYAGEQGLQYPTHLINPSASHSDTPETEET
EMKALGERVSIL

Sequence length

912

Interactions

View interactions

	KEGG		Reactome
	Rap1 signaling pathway Aldosterone synthesis and secretion Chemical carcinogenesis - reactive oxygen species		Sphingolipid de novo biosynthesis

Show/Hide Causal Diseases (11)

Disease term	Disease name	dbSNP ID	References
Causal
Adenocarcinoma	Adenocarcinoma, Adenocarcinoma, Basal Cell, Adenocarcinoma, Oxyphilic, Adenocarcinoma, Tubular	rs121913530, rs886039394, rs121913474	25240283
Carcinoma	Carcinoma, Cribriform, Carcinoma, Granular Cell	rs121912654, rs555607708, rs786202962, rs1564055259	25240283
Colorectal cancer	Colorectal Carcinoma	rs137854568, rs137854573, rs137854575, rs387906234, rs121908380, rs121908702, rs267606674, rs794729661, rs121909055, rs281865417, rs267606884, rs28934575, rs587776769, rs104893815, rs587776800 View all (467 more)	21278247
Colorectal neoplasms	Colorectal Neoplasms	rs28929483, rs63751108, rs28929484, rs63749831, rs63750047, rs63751207, rs63749811, rs1553350126, rs63750875, rs63750955, rs587776706, rs63750871, rs587776715, rs63751466, rs63750049 View all (1682 more)	21278247
Congenital heart defects and ectodermal dysplasia	CONGENITAL HEART DEFECTS AND ECTODERMAL DYSPLASIA	rs1057519635, rs1057519636, rs1439477100	25529582, 27479907
Developmental delay	Global developmental delay	rs28941770, rs199469464, rs281865469, rs143747297, rs398123009, rs587777428, rs786205133, rs606231459, rs797044854, rs797045027, rs864309504, rs878853160, rs886039902, rs886042046, rs886041291 View all (32 more)
Microcephaly	Microcephaly	rs397704721, rs267607176, rs267607177, rs397704725, rs267606717, rs267606718, rs199422202, rs121434311, rs199422203, rs199422126, rs387906274, rs121434305, rs199422125, rs199422135, rs189678019 View all (280 more)
Nystagmus	Nystagmus	rs137852207, rs137852208, rs1928435502, rs137852209, rs137852210, rs1929191668, rs137852211, rs137852212, rs2124209414, rs387906720, rs387906721, rs1602791884, rs786205896
Schizophrenia	Schizophrenia	rs13447324, rs387906932, rs387906933, rs863223354, rs863223355, rs776061422, rs863223349, rs748809996, rs759748655, rs863223353, rs863223350, rs863223356, rs781821239, rs863223348, rs863223346 View all (12 more)	25056061, 31268507, 31374203, 30285260, 26198764
Scoliosis	Scoliosis, unspecified	rs1057518828, rs147296805, rs758163506, rs1555613564, rs1596852902, rs1596853067, rs1596853085
Syndactyly	Syndactyly	rs878854345, rs104893635, rs28931600, rs587777050, rs587777051, rs606231304

Show/Hide Unknown Diseases (10)

Disease term	Disease name	Evidence	References	Source
Unknown
Asthma	Asthma, Occupational		27504716	ClinVar
Congenital heart defects	congenital heart defects, multiple types			GenCC
Neurodevelopmental Disorders	complex neurodevelopmental disorder			GenCC
Cervical Cancer	Cervical Cancer	Our screens identified 10 miRNAs that enhance fitness of HeLa cells and have been reported to be up-regulated in cervical cancer (Table2).		GWAS, CBGDA
Diabetes	Diabetes			GWAS
Neuroticism	Neuroticism			GWAS
Dementia	Dementia			GWAS
Metabolic Syndrome	Metabolic Syndrome			GWAS
Glioblastoma	Glioblastoma	CRISPR screening of E3 ubiquitin ligases reveals Ring Finger Protein 185 as a novel tumor suppressor in glioblastoma repressed by promoter hypermethylation and miR-587		GWAS, CBGDA
Heart Failure	Heart Failure			GWAS

Show/Hide Text Mining Associations (57)

Disease Name	Relationship Type	References
Associations from Text Mining
Adenocarcinoma	Associate	29266837, 31917707, 33878706
Asthma	Associate	27504716
Breast Neoplasms	Inhibit	19243594
Breast Neoplasms	Associate	23944680, 25287328
Bruton type agammaglobulinemia	Associate	10561498
Burnett Schwartz Berberian syndrome	Associate	25000413
Carcinogenesis	Stimulate	31819177
Carcinoid Tumor	Associate	16899224
Carcinoma Adenoid Cystic	Associate	29266837
Carcinoma Non Small Cell Lung	Associate	32985371
Carcinoma Pancreatic Ductal	Associate	27649783, 28360038, 31819177
Carcinoma Renal Cell	Associate	20459627
Cardiomegaly	Associate	37972803
Cholangiocarcinoma	Associate	36231050
Colorectal Neoplasms	Associate	24475022, 30451989, 37225445
Congenital Hereditary and Neonatal Diseases and Abnormalities	Associate	27479907
Cysts	Associate	34962918
Ductus Arteriosus Patent	Associate	27649783
Fahr's disease	Associate	39740729
Failed Back Surgery Syndrome	Associate	20443916
Glioma	Associate	15842253
Graves Ophthalmopathy	Associate	24086448
Heart Defects Congenital	Associate	27479907, 33919081
Heart Septal Defects Atrial	Associate	33919081
Hyperimmunoglobulin G1(A1) Syndrome	Stimulate	30958903
Hypoxia	Inhibit	30896865
Idiopathic Pulmonary Fibrosis	Associate	25000413
Inflammation	Associate	21292998
Intervertebral Disc Degeneration	Associate	34858418
Ischemia	Associate	31167779
Leukemia Lymphocytic Chronic B Cell	Associate	27127886
Leukemia Prolymphocytic T Cell	Associate	27127886
Lymphatic Diseases	Associate	27127886
Lymphatic Metastasis	Associate	37225445
Lymphoma Non Hodgkin	Associate	26426580
Melanoma	Associate	21993564, 35969127
Multiple Myeloma	Associate	12786795, 14504085
Multiple Myeloma	Stimulate	32799769
Nasopharyngeal Carcinoma	Associate	17494074
Neoplasm Metastasis	Associate	24336522, 30451989
Neoplasm Metastasis	Inhibit	25287328, 30958903
Neoplasms	Associate	16083495, 22791710, 24086585, 24336522, 25287328, 29266837, 30018032, 30045871, 30451989, 30843621, 30896865, 31167779, 35908410, 36497140
Neoplasms	Inhibit	20160036, 30958903
Neoplasms	Stimulate	32985371
Neoplasms Adipose Tissue	Associate	33491310
Obesity	Associate	25893265, 33491310
Pancreatic Neoplasms	Associate	20082306, 24336522, 24847910, 27649783, 28360038, 31819177
Polycystic Kidney Autosomal Dominant	Associate	26632257
Prostatic Neoplasms	Associate	17979146, 18602367, 20160036, 22797919, 24086585, 28077787, 31167779, 35595103, 37611675
Prostatic Neoplasms	Inhibit	18602367, 26764245
Pulmonary Valve Stenosis	Associate	33919081
Salivary Gland Neoplasms	Associate	26426580, 31917707, 33878706
Seizures	Associate	39740729
Squamous Cell Carcinoma of Head and Neck	Associate	32319563
Syndrome	Associate	27479907
Truncus Arteriosus Persistent	Associate	33919081
Uterine Cervical Dysplasia	Associate	31819177

PRKD1 (protein kinase D1)