Seroatlas · Human Serome Atlas

GDE1

Glycerophosphodiester phosphodiesterase 1

Also known as: GDE1_HUMAN, MIR16

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

Protein identityUniProt · HPA

UniProt accession
Q9NZC3
Gene
GDE1
Ensembl
ENSG00000006007
Chromosome
16
Canonical length
331 aa
Protein class
Enzymes, Metabolic proteins, Predicted intracellular proteins, Predicted membrane proteins
Subcellular location
Nucleoplasm,Vesicles,Plasma membrane

OverviewNCBI Gene

Predicted to enable glycerophosphodiester phosphodiesterase activity; glycerophosphoinositol glycerophosphodiesterase activity; and lysophospholipase activity. Predicted to be involved in N-acylethanolamine metabolic process; ethanolamine metabolic process; and phospholipid metabolic process. Predicted to be located in membrane. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Apr 2025]

Canonical amino-acid sequenceUniProt

331 residues, UniProt reviewed canonical sequence.

>Q9NZC3|GDE1
     1  MWLWEDQGGL LGPFSFLLLV LLLVTRSPVN ACLLTGSLFV LLRVFSFEPV PSCRALQVLK
    61  PRDRISAIAH RGGSHDAPEN TLAAIRQAAK NGATGVELDI EFTSDGIPVL MHDNTVDRTT
   121  DGTGRLCDLT FEQIRKLNPA ANHRLRNDFP DEKIPTLREA VAECLNHNLT IFFDVKGHAH
   181  KATEALKKMY MEFPQLYNNS VVCSFLPEVI YKMRQTDRDV ITALTHRPWS LSHTGDGKPR
   241  YDTFWKHFIF VMMDILLDWS MHNILWYLCG ISAFLMQKDF VSPAYLKKWS AKGIQVVGWT
   301  VNTFDEKSYY ESHLGSSYIT DSMVEDCEPH F

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against GDE1 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
Cell surface
Secreted
No
Transmembrane segments
2
Mean surface accessibility (rSASA)
0.25
Highest tissue expression
72 nTPM

Expression across tissuesHPA

Tissue

  • parathyroid gland: 72 nTPM
  • tongue: 60 nTPM
  • skeletal muscle: 59 nTPM
  • heart muscle: 51 nTPM
  • basal ganglia: 45 nTPM
  • colon: 43 nTPM

Single-cell type

  • syncytiotrophoblasts: 444 nCPM
  • colonocytes: 109 nCPM
  • enterocytes: 104 nCPM
  • early primary spermatocytes: 102 nCPM
  • alveolar cells type 2: 102 nCPM
  • extravillous trophoblasts: 102 nCPM

Immune cell

  • basophil: 52 nTPM
  • neutrophil: 34 nTPM
  • non-classical monocyte: 23 nTPM
  • classical monocyte: 19 nTPM
  • intermediate monocyte: 18 nTPM
  • T-reg: 13 nTPM

Brain region

  • thalamus: 51 nTPM
  • midbrain: 49 nTPM
  • white matter: 48 nTPM
  • basal ganglia: 45 nTPM
  • hippocampal formation: 45 nTPM
  • hypothalamus: 45 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)
1.17
gnomAD pLI
0
gnomAD missense Z
0.79
DepMap mean gene effect
-0.09
DepMap dependency class
selective

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

InteractionsUniProt · HPA

Protein binding partners of GDE1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads GDE1 as an antibody target. Whether an autoantibody or antibody against GDE1 could matter depends on whether native GDE1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

GDE1 is annotated at the cell surface, where native GDE1 is exposed to circulating antibodies and is a prime autoantibody target that could block, deplete, or overstimulate it.

Annotation status

The present source text does not explicitly label GDE1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/GDE1. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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