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    DGKD diacylglycerol kinase delta [ Homo sapiens (human) ]

    Gene ID: 8527, updated on 3-Apr-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_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (233354494..233472098)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (233842577..233960616)
    105.20220307 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
    • 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 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 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 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 protein kinase C signaling ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in phosphatidic acid biosynthetic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 kinase C-activating G protein-coupled receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    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 cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleus TAS
    Traceable Author Statement
    more info
    PubMed 
    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_2023_10

    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