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prkd1 protein kinase D1 [ Danio rerio (zebrafish) ]

Gene ID: 557123, updated on 11-Apr-2024

Summary

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Official Symbol
prkd1provided by ZNC
Official Full Name
protein kinase D1provided by ZNC
Primary source
ZFIN:ZDB-GENE-080131-1
See related
Ensembl:ENSDARG00000075949 AllianceGenome:ZFIN:ZDB-GENE-080131-1
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:dkeyp-47g2.1
Summary
Predicted to enable ATP binding activity; calcium-dependent protein kinase C activity; and metal ion binding activity. Acts upstream of or within regulation of angiogenesis and regulation of lymphangiogenesis. Predicted to be located in cytoplasm and membrane. Orthologous to human PRKD1 (protein kinase D1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 17
Exon count:
19
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (28882868..28969131)
105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (28865879..28952168)

Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108179771 Neighboring gene G2/M-phase specific E3 ubiquitin protein ligase Neighboring gene si:dkey-28g23.3 Neighboring gene forkhead box G1a Neighboring gene uncharacterized LOC101886722 Neighboring gene spectrin, beta, non-erythrocytic 5

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Different regulation of physiological and tumor angiogenesis in zebrafish by protein kinase D1 (PKD1). Hollenbach M, et al. PLoS One, 2013. PMID 23874489, Free PMC Article
  2. Cloning and expression analysis of a protein kinase C gene, PKCmu, and its regulation of the promoter region in zebrafish. Chen JY, et al. DNA Cell Biol, 2007 Jun. PMID 17570765
  3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. cloning and expression analysis of a protein kinase C gene, PKCmu, and its regulation of the promoter region (PKCmu)
    Title: Cloning and expression analysis of a protein kinase C gene, PKCmu, and its regulation of the promoter region in zebrafish.
  2. PKD1 contributes to the regulation of physiological angiogenesis and lymphangiogenesis during zebrafish development and is essential for tumor angiogenesis.
    Title: Different regulation of physiological and tumor angiogenesis in zebrafish by protein kinase D1 (PKD1).
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables diacylglycerol-dependent serine/threonine kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables protein kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein serine/threonine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein serine/threonine kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in animal organ development IEA
Inferred from Electronic Annotation
more info
  
involved_in cell development IEA
Inferred from Electronic Annotation
more info
  
involved_in intracellular signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in phospholipase C-activating G protein-coupled receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within phosphorylation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of angiogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of lymphangiogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
serine/threonine-protein kinase D1
Names
PKD1
XP_005158873.1
XP_021323105.1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007128.7 Reference GRCz11 Primary Assembly

    Range
    28882868..28969131
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021467430.1 → XP_021323105.1  serine/threonine-protein kinase D1 isoform X2

    UniProtKB/TrEMBL
    A0A8M9PPI9
    Related
    ENSDARP00000098837.4, ENSDART00000110322.4
    Conserved Domains (4) summary
    cd00029
    Location:237 → 286
    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:380 → 509
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:545 → 804
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:114 → 163
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)

  2. XM_005158816.4 → XP_005158873.1  serine/threonine-protein kinase D1 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B599, X1WHC7
    Related
    ENSDARP00000129639.1, ENSDART00000153937.3
    Conserved Domains (5) summary
    smart00220
    Location:561 → 813
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd00029
    Location:245 → 294
    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:388 → 517
    PH_PKD; Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain
    cd14082
    Location:553 → 812
    STKc_PKD; Catalytic domain of the Serine/Threonine kinase, Protein Kinase D
    pfam00130
    Location:114 → 163
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
Nucleotide Protein
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