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PLD1 phospholipase D1 [ Homo sapiens (human) ]

Gene ID: 5337, updated on 1-Jun-2020

Summary

Official Symbol
PLD1provided by HGNC
Official Full Name
phospholipase D1provided by HGNC
Primary source
HGNC:HGNC:9067
See related
Ensembl:ENSG00000075651 MIM:602382
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
CVDD
Summary
This gene encodes a phosphatidylcholine-specific phospholipase which catalyzes the hydrolysis of phosphatidylcholine in order to yield phosphatidic acid and choline. The enzyme may play a role in signal transduction and subcellular trafficking. Alternative splicing results in multiple transcript variants with both catalytic and regulatory properties. [provided by RefSeq, Sep 2011]
Expression
Ubiquitous expression in gall bladder (RPKM 28.0), duodenum (RPKM 12.6) and 24 other tissues See more
Orthologs

Genomic context

See PLD1 in Genome Data Viewer
Location:
3q26.31
Exon count:
33
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (171600404..171810483, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (171318195..171528284, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene CRISPRi-validated cis-regulatory element chr3.4898 Neighboring gene RNA, U6 small nuclear 348, pseudogene Neighboring gene transmembrane protein 212 Neighboring gene TMEM212 antisense RNA 1 Neighboring gene uncharacterized LOC105374218

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?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 replication requires PLD1 as shown through specific PLD1 inhibitors in activated CD4+ T cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120-induced phosphatidylcholine-specific phospholipase D (PLD) activity is dependent on the activation of ERK1/2 PubMed
Tat tat Microarray analysis indicates HIV-1 Tat-induced upregulation of phosphatidylcholine-specific phospholipase D1 (PLD1) in primary human brain microvascular endothelial cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
N-acylphosphatidylethanolamine-specific phospholipase D activity IEA
Inferred from Electronic Annotation
more info
 
phosphatidylinositol binding IEA
Inferred from Electronic Annotation
more info
 
phospholipase D activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
phospholipase D activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Ras protein signal transduction TAS
Traceable Author Statement
more info
PubMed 
cell motility IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chemotaxis TAS
Traceable Author Statement
more info
PubMed 
inositol lipid-mediated signaling IEA
Inferred from Electronic Annotation
more info
 
lipid catabolic process IEA
Inferred from Electronic Annotation
more info
 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
phosphatidic acid biosynthetic process TAS
Traceable Author Statement
more info
 
phospholipid catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of translation IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of microvillus assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of microvillus assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of synaptic vesicle cycle IDA
Inferred from Direct Assay
more info
PubMed 
regulation of synaptic vesicle cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
small GTPase mediated signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
apical plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
cholinergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
cholinergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
endocytic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
endosome IDA
Inferred from Direct Assay
more info
PubMed 
late endosome membrane IEA
Inferred from Electronic Annotation
more info
 
lysosomal membrane HDA PubMed 
membrane HDA PubMed 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
specific granule membrane TAS
Traceable Author Statement
more info
 
tertiary granule membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
phospholipase D1
Names
choline phosphatase 1
phosphatidylcholine-hydrolyzing phospholipase D1
phospholipase D1, phosphatidylcholine-specific
NP_001123553.1
NP_002653.1
XP_005247590.1
XP_005247591.1
XP_011511199.1
XP_011511200.1
XP_011511201.1
XP_016862112.1
XP_016862113.1
XP_024309366.1

NCBI Reference Sequences (RefSeq)

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_029851.1 RefSeqGene

    Range
    5012..215091
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001130081.3NP_001123553.1  phospholipase D1 isoform b

    See identical proteins and their annotated locations for NP_001123553.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 1. The resulting isoform (b) has the same N- and C-termini, but is shorter compared to isoform a.
    Source sequence(s)
    AB209907, AC008134, DA464847
    Consensus CDS
    CCDS46957.1
    UniProtKB/TrEMBL
    Q59EA4
    Related
    ENSP00000348681.5, ENST00000356327.9
    Conserved Domains (5) summary
    cd07296
    Location:78209
    PX_PLD1; The phosphoinositide binding Phox Homology domain of Phospholipase D1
    cd09842
    Location:352502
    PLDc_vPLD1_1; Catalytic domain, repeat 1, of vertebrate phospholipase D1
    cd09844
    Location:716897
    PLDc_vPLD1_2; Catalytic domain, repeat 2, of vertebrate phospholipase D1
    PLN02866
    Location:821021
    PLN02866; phospholipase D
    cd01254
    Location:197326
    PH_PLD; Phospholipase D pleckstrin homology (PH) domain
  2. NM_002662.5NP_002653.1  phospholipase D1 isoform a

    See identical proteins and their annotated locations for NP_002653.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AB209907, AC008134, BC068976, DA464847
    Consensus CDS
    CCDS3216.1
    UniProtKB/Swiss-Prot
    Q13393
    UniProtKB/TrEMBL
    Q59EA4
    Related
    ENSP00000342793.4, ENST00000351298.9
    Conserved Domains (1) summary
    cl26365
    Location:821059
    PLN03008; Phospholipase D delta

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    171600404..171810483 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005247534.2XP_005247591.1  phospholipase D1 isoform X2

    See identical proteins and their annotated locations for XP_005247591.1

    UniProtKB/Swiss-Prot
    Q13393
    Conserved Domains (5) summary
    cd07296
    Location:78209
    PX_PLD1; The phosphoinositide binding Phox Homology domain of Phospholipase D1
    cd09842
    Location:352502
    PLDc_vPLD1_1; Catalytic domain, repeat 1, of vertebrate phospholipase D1
    cd09844
    Location:716897
    PLDc_vPLD1_2; Catalytic domain, repeat 2, of vertebrate phospholipase D1
    PLN02866
    Location:821021
    PLN02866; phospholipase D
    cd01254
    Location:197326
    PH_PLD; Phospholipase D pleckstrin homology (PH) domain
  2. XM_005247533.2XP_005247590.1  phospholipase D1 isoform X1

    See identical proteins and their annotated locations for XP_005247590.1

    UniProtKB/Swiss-Prot
    Q13393
    Conserved Domains (1) summary
    cl26365
    Location:821059
    PLN03008; Phospholipase D delta
  3. XM_024453598.1XP_024309366.1  phospholipase D1 isoform X6

    Conserved Domains (1) summary
    cl26365
    Location:1653
    PLN03008; Phospholipase D delta
  4. XM_011512899.2XP_011511201.1  phospholipase D1 isoform X7

    Conserved Domains (3) summary
    cd09844
    Location:337518
    PLDc_vPLD1_2; Catalytic domain, repeat 2, of vertebrate phospholipase D1
    pfam13091
    Location:349520
    PLDc_2; PLD-like domain
    cl15239
    Location:185
    PLDc_SF; Catalytic domain of phospholipase D superfamily proteins
  5. XM_017006624.1XP_016862113.1  phospholipase D1 isoform X7

    Conserved Domains (3) summary
    cd09844
    Location:337518
    PLDc_vPLD1_2; Catalytic domain, repeat 2, of vertebrate phospholipase D1
    pfam13091
    Location:349520
    PLDc_2; PLD-like domain
    cl15239
    Location:185
    PLDc_SF; Catalytic domain of phospholipase D superfamily proteins
  6. XM_011512898.1XP_011511200.1  phospholipase D1 isoform X4

    Conserved Domains (6) summary
    cd07296
    Location:78209
    PX_PLD1; The phosphoinositide binding Phox Homology domain of Phospholipase D1
    cd09842
    Location:352502
    PLDc_vPLD1_1; Catalytic domain, repeat 1, of vertebrate phospholipase D1
    cd09844
    Location:754935
    PLDc_vPLD1_2; Catalytic domain, repeat 2, of vertebrate phospholipase D1
    cd01254
    Location:197326
    PH_PLD; Phospholipase D pleckstrin homology (PH) domain
    pfam00169
    Location:222327
    PH; PH domain
    pfam13091
    Location:766937
    PLDc_2; PLD-like domain
  7. XM_017006623.2XP_016862112.1  phospholipase D1 isoform X5

  8. XM_011512897.1XP_011511199.1  phospholipase D1 isoform X3

    See identical proteins and their annotated locations for XP_011511199.1

    UniProtKB/Swiss-Prot
    Q13393
    Conserved Domains (6) summary
    cd07296
    Location:78209
    PX_PLD1; The phosphoinositide binding Phox Homology domain of Phospholipase D1
    cd09842
    Location:352502
    PLDc_vPLD1_1; Catalytic domain, repeat 1, of vertebrate phospholipase D1
    cd09844
    Location:754935
    PLDc_vPLD1_2; Catalytic domain, repeat 2, of vertebrate phospholipase D1
    cd01254
    Location:197326
    PH_PLD; Phospholipase D pleckstrin homology (PH) domain
    pfam00169
    Location:222327
    PH; PH domain
    pfam13091
    Location:766937
    PLDc_2; PLD-like domain

RNA

  1. XR_001740174.1 RNA Sequence

  2. XR_001740175.1 RNA Sequence

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