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DGKD diacylglycerol kinase delta [ Homo sapiens (human) ]

Gene ID: 8527, updated on 2-Nov-2024

Summary

Official Symbol
DGKDprovided by HGNC
Official Full Name
diacylglycerol kinase deltaprovided by HGNC
Primary source
HGNC:HGNC:2851
See related
Ensembl:ENSG00000077044 MIM:601826; AllianceGenome:HGNC:2851
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
dgkd-2; DGKdelta; DGK-delta
Summary
This gene encodes a cytoplasmic enzyme that phosphorylates diacylglycerol to produce phosphatidic acid. Diacylglycerol and phosphatidic acid are two lipids that act as second messengers in signaling cascades. Their cellular concentrations are regulated by the encoded protein, and so it is thought to play an important role in cellular signal transduction. Alternative splicing results in two transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
Expression
Broad expression in stomach (RPKM 11.9), bone marrow (RPKM 9.9) and 23 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See DGKD in Genome Data Viewer
Location:
2q37.1
Exon count:
40
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (233354494..233472098)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (233842577..233960616)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (234263140..234380744)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene autophagy related 16 like 1 Neighboring gene NANOG hESC enhancer GRCh37_chr2:234197330-234197831 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:234227861-234228828 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:234228829-234229795 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17338 Neighboring gene small Cajal body-specific RNA 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:234234987-234235964 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:234237262-234238093 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:234238124-234238905 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17339 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17340 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17341 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12470 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17342 Neighboring gene MPRA-validated peak4087 silencer Neighboring gene S-antigen visual arrestin Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17344 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17343 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17345 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:234307646-234308151 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17346 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12471 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17347 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr2:234334881-234336080 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17349 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17348 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:234359341-234359904 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:234376565-234376780 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:234382503-234383102 Neighboring gene ubiquitin specific peptidase 40 Neighboring gene PPFIA1 pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:234491694-234492284 Neighboring gene UDP glucuronosyltransferase family 1 member A12, pseudogene Neighboring gene UDP glucuronosyltransferase family 1 member A complex locus

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
A genome-wide scan of Ashkenazi Jewish Crohn's disease suggests novel susceptibility loci.
EBI GWAS Catalog
Common variants in the calcium-sensing receptor gene are associated with total serum calcium levels.
EBI GWAS Catalog
Genome-wide association of serum bilirubin levels in Korean population.
EBI GWAS Catalog
Meta-analysis of genome-wide association studies identifies six new Loci for serum calcium concentrations.
EBI GWAS Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of diacylglycerol kinase, delta 130kDa (DGKD) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ26930, KIAA0145

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables ATP-dependent diacylglycerol kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables ATP-dependent diacylglycerol kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables ATP-dependent diacylglycerol kinase activity TAS
Traceable Author Statement
more info
PubMed 
enables diacylglycerol binding NAS
Non-traceable Author Statement
more info
PubMed 
enables identical protein binding IDA
Inferred from Direct Assay
more info
PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein heterodimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein homodimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
involved_in diacylglycerol catabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in diacylglycerol metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within diacylglycerol metabolic process IC
Inferred by Curator
more info
PubMed 
involved_in diacylglycerol metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in endocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in intracellular signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in lipid phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in lipid phosphorylation TAS
Traceable Author Statement
more info
PubMed 
involved_in negative regulation of phospholipase C/protein kinase C signal transduction ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in phosphatidic acid biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in phosphatidic acid biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in phospholipase C-activating G protein-coupled receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in platelet activation TAS
Traceable Author Statement
more info
 
involved_in positive regulation of clathrin-dependent endocytosis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of epidermal growth factor receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of epidermal growth factor receptor signaling pathway TAS
Traceable Author Statement
more info
PubMed 
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
located_in clathrin-coated pit IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasmic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus TAS
Traceable Author Statement
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
diacylglycerol kinase delta
Names
DAG kinase delta
diacylglycerol kinase, delta 130kDa
diglyceride kinase delta
NP_001364188.1
NP_003639.2
NP_690618.2
XP_011510330.2
XP_011510331.2
XP_011510332.1
XP_011510333.1
XP_011510334.1
XP_011510335.2
XP_011510337.1
XP_011510341.2
XP_016860627.1
XP_047302053.1
XP_047302055.1
XP_047302056.1
XP_047302057.1
XP_047302058.1
XP_047302059.1
XP_054200226.1
XP_054200227.1
XP_054200228.1
XP_054200229.1
XP_054200230.1
XP_054200231.1
XP_054200232.1
XP_054200233.1
XP_054200234.1
XP_054200235.1
XP_054200236.1
XP_054200237.1
XP_054200238.1
XP_054200239.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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

  1. NG_029495.1 RefSeqGene

    Range
    4988..122592
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001377259.1NP_001364188.1  diacylglycerol kinase delta isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC013726, AC019221
    UniProtKB/TrEMBL
    Q53SE4
    Conserved Domains (5) summary
    cd09575
    Location:10081072
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00045
    Location:630787
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:190312
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd20847
    Location:791
    C1_DGKdelta_rpt1; first protein kinase C conserved region 1 (C1 domain) found in diacylglycerol kinase delta (DAG kinase delta) and similar proteins
    cd20893
    Location:98158
    C1_DGKdelta_rpt2; second protein kinase C conserved region 1 (C1 domain) found in diacylglycerol kinase delta (DAG kinase delta) and similar proteins
  2. NM_003648.3NP_003639.2  diacylglycerol kinase delta isoform 1

    See identical proteins and their annotated locations for NP_003639.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR and uses a different in-frame start codon, compared to variant 2. The encoded isoform (1) has a shorter, distinct N-terminus, compared to isoform 2.
    Source sequence(s)
    AC019221, BC006561, D63479, D73409
    Consensus CDS
    CCDS46546.1
    UniProtKB/TrEMBL
    Q53SE4
    Related
    ENSP00000386455.3, ENST00000409813.7
    Conserved Domains (7) summary
    cd09575
    Location:10971161
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00454
    Location:10981161
    SAM; Sterile alpha motif
    smart00045
    Location:719876
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:279401
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd00029
    Location:120169
    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 ...
    cd13274
    Location:11107
    PH_DGK_type2; Type 2 Diacylglycerol kinase Pleckstrin homology (PH) domain
    pfam00169
    Location:1098
    PH; PH domain
  3. NM_152879.3NP_690618.2  diacylglycerol kinase delta isoform 2

    See identical proteins and their annotated locations for NP_690618.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) represents the longer transcript and encodes the longer isoform (2).
    Source sequence(s)
    AC013726, AC019221, BC006561, D63479
    Consensus CDS
    CCDS2504.1
    UniProtKB/Swiss-Prot
    Q14158, Q16760, Q6PK55, Q8NG53
    UniProtKB/TrEMBL
    Q53SE4
    Related
    ENSP00000264057.2, ENST00000264057.7
    Conserved Domains (7) summary
    cd09575
    Location:11411205
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00454
    Location:11421205
    SAM; Sterile alpha motif
    smart00045
    Location:763920
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:323445
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd00029
    Location:164213
    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 ...
    cd13274
    Location:55151
    PH_DGK_type2; Type 2 Diacylglycerol kinase Pleckstrin homology (PH) domain
    pfam00169
    Location:54142
    PH; PH domain

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

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    233354494..233472098
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047446097.1XP_047302053.1  diacylglycerol kinase delta isoform X3

  2. XM_017005138.3XP_016860627.1  diacylglycerol kinase delta isoform X4

    UniProtKB/TrEMBL
    Q53SE4
    Conserved Domains (7) summary
    cd09575
    Location:11011165
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00454
    Location:11021165
    SAM; Sterile alpha motif
    smart00045
    Location:723880
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:283405
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd00029
    Location:124173
    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 ...
    cd13274
    Location:15111
    PH_DGK_type2; Type 2 Diacylglycerol kinase Pleckstrin homology (PH) domain
    pfam00169
    Location:14102
    PH; PH domain
  3. XM_011512028.4XP_011510330.2  diacylglycerol kinase delta isoform X1

  4. XM_011512029.4XP_011510331.2  diacylglycerol kinase delta isoform X2

  5. XM_011512033.4XP_011510335.2  diacylglycerol kinase delta isoform X7

  6. XM_011512039.3XP_011510341.2  diacylglycerol kinase delta isoform X9

  7. XM_047446101.1XP_047302057.1  diacylglycerol kinase delta isoform X10

  8. XM_011512031.4XP_011510333.1  diacylglycerol kinase delta isoform X6

    See identical proteins and their annotated locations for XP_011510333.1

    UniProtKB/TrEMBL
    Q53SE4
    Conserved Domains (7) summary
    cd09575
    Location:10831147
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00454
    Location:10841147
    SAM; Sterile alpha motif
    smart00045
    Location:705862
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:265387
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd00029
    Location:106155
    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 ...
    cd13274
    Location:193
    PH_DGK_type2; Type 2 Diacylglycerol kinase Pleckstrin homology (PH) domain
    pfam00169
    Location:184
    PH; PH domain
  9. XM_011512030.3XP_011510332.1  diacylglycerol kinase delta isoform X5

    UniProtKB/TrEMBL
    Q53SE4
    Conserved Domains (7) summary
    cd09575
    Location:10981162
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00454
    Location:10991162
    SAM; Sterile alpha motif
    smart00045
    Location:720877
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:280402
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd00029
    Location:121170
    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 ...
    cd13274
    Location:12108
    PH_DGK_type2; Type 2 Diacylglycerol kinase Pleckstrin homology (PH) domain
    pfam00169
    Location:1199
    PH; PH domain
  10. XM_011512032.4XP_011510334.1  diacylglycerol kinase delta isoform X6

    See identical proteins and their annotated locations for XP_011510334.1

    UniProtKB/TrEMBL
    Q53SE4
    Conserved Domains (7) summary
    cd09575
    Location:10831147
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00454
    Location:10841147
    SAM; Sterile alpha motif
    smart00045
    Location:705862
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:265387
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd00029
    Location:106155
    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 ...
    cd13274
    Location:193
    PH_DGK_type2; Type 2 Diacylglycerol kinase Pleckstrin homology (PH) domain
    pfam00169
    Location:184
    PH; PH domain
  11. XM_047446100.1XP_047302056.1  diacylglycerol kinase delta isoform X8

  12. XM_011512035.2XP_011510337.1  diacylglycerol kinase delta isoform X8

    See identical proteins and their annotated locations for XP_011510337.1

    UniProtKB/TrEMBL
    Q53SE4
    Conserved Domains (5) summary
    cd09575
    Location:10081072
    SAM_DGK-delta; SAM domain of diacylglycerol kinase delta
    smart00045
    Location:630787
    DAGKa; Diacylglycerol kinase accessory domain (presumed)
    smart00046
    Location:190312
    DAGKc; Diacylglycerol kinase catalytic domain (presumed)
    cd20847
    Location:791
    C1_DGKdelta_rpt1; first protein kinase C conserved region 1 (C1 domain) found in diacylglycerol kinase delta (DAG kinase delta) and similar proteins
    cd20893
    Location:98158
    C1_DGKdelta_rpt2; second protein kinase C conserved region 1 (C1 domain) found in diacylglycerol kinase delta (DAG kinase delta) and similar proteins
  13. XM_047446099.1XP_047302055.1  diacylglycerol kinase delta isoform X8

  14. XM_047446103.1XP_047302059.1  diacylglycerol kinase delta isoform X11

  15. XM_047446102.1XP_047302058.1  diacylglycerol kinase delta isoform X11

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_011332690.1 Reference GRCh38.p14 PATCHES

    Range
    299832..335841
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    233842577..233960616
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054344253.1XP_054200228.1  diacylglycerol kinase delta isoform X3

  2. XM_054344254.1XP_054200229.1  diacylglycerol kinase delta isoform X4

  3. XM_054344262.1XP_054200237.1  diacylglycerol kinase delta isoform X16

  4. XM_054344258.1XP_054200233.1  diacylglycerol kinase delta isoform X14

  5. XM_054344251.1XP_054200226.1  diacylglycerol kinase delta isoform X12

  6. XM_054344252.1XP_054200227.1  diacylglycerol kinase delta isoform X13

  7. XM_054344260.1XP_054200235.1  diacylglycerol kinase delta isoform X15

  8. XM_054344257.1XP_054200232.1  diacylglycerol kinase delta isoform X6

  9. XM_054344256.1XP_054200231.1  diacylglycerol kinase delta isoform X6

  10. XM_054344255.1XP_054200230.1  diacylglycerol kinase delta isoform X5

  11. XM_054344261.1XP_054200236.1  diacylglycerol kinase delta isoform X8

  12. XM_054344259.1XP_054200234.1  diacylglycerol kinase delta isoform X8

  13. XM_054344264.1XP_054200239.1  diacylglycerol kinase delta isoform X11

  14. XM_054344263.1XP_054200238.1  diacylglycerol kinase delta isoform X11