Seroatlas · Human Serome Atlas

GDPD1

Lysophospholipase D GDPD1

Also known as: FLJ37451, GDE4, GDPD1_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession: Q8N9F7
Gene: GDPD1
Ensembl: ENSG00000153982
Chromosome: 17
Canonical length: 314 aa
Protein class: Predicted membrane proteins

OverviewNCBI Gene

This gene encodes a member of the glycerophosphodiester phosphodiesterase family of enzymes that catalyze the hydrolysis of deacylated glycerophospholipids to glycerol phosphate and alcohol. The encoded protein is localized to the cytoplasm and concentrates near the perinuclear region. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2009]

Canonical amino-acid sequenceUniProt

314 residues, UniProt reviewed canonical sequence.

>Q8N9F7|GDPD1
     1  MSSTAAFYLL STLGGYLVTS FLLLKYPTLL HQRKKQRFLS KHISHRGGAG ENLENTMAAF
    61  QHAVKIGTDM LELDCHITKD EQVVVSHDEN LKRATGVNVN ISDLKYCELP PYLGKLDVSF
   121  QRACQCEGKD NRIPLLKEVF EAFPNTPINI DIKVNNNVLI KKVSELVKRY NREHLTVWGN
   181  ANYEIVEKCY KENSDIPILF SLQRVLLILG LFFTGLLPFV PIREQFFEIP MPSIILKLKE
   241  PHTMSRSQKF LIWLSDLLLM RKALFDHLTA RGIQVYIWVL NEEQEYKRAF DLGATGVMTD
   301  YPTKLRDFLH NFSA

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against GDPD1 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability: Intracellular
Secreted: No
Transmembrane segments: 2
Mean surface accessibility (rSASA): 0.24
Highest tissue expression: 11 nTPM

Expression across tissuesHPA

Tissue

cerebral cortex: 11 nTPM
cerebellum: 8.5 nTPM
testis: 8 nTPM
hypothalamus: 6.9 nTPM
hippocampal formation: 5.6 nTPM
parathyroid gland: 5.5 nTPM

Single-cell type

early primary spermatocytes: 112 nCPM
early spermatids: 83 nCPM
retinal ganglion cells: 81 nCPM
brain excitatory neurons: 79 nCPM
brain inhibitory neurons: 75 nCPM
megakaryocyte-erythroid progenitors: 72 nCPM

Immune cell

basophil: 2.2 nTPM
naive CD8 T-cell: 0.7 nTPM
neutrophil: 0.7 nTPM
NK-cell: 0.7 nTPM
intermediate monocyte: 0.6 nTPM
non-classical monocyte: 0.6 nTPM

Brain region

cerebral cortex: 25 nTPM
cerebellum: 22 nTPM
pons: 21 nTPM
midbrain: 19 nTPM
white matter: 18 nTPM
medulla oblongata: 18 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance): 0.69
gnomAD pLI: 0
gnomAD missense Z: 1.56
DepMap mean gene effect: -0.03
DepMap dependency class: none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads GDPD1 as an antibody target. Whether an autoantibody or antibody against GDPD1 could matter depends on whether native GDPD1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

GDPD1 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label GDPD1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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