Seroatlas · Human Serome Atlas

CNPY3

Protein canopy homolog 3

Also known as: CAG4A, CNPY3_HUMAN, TNRC5

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

Protein identityUniProt · HPA

UniProt accession: Q9BT09
Gene: CNPY3
Ensembl: ENSG00000137161
Chromosome: 6
Canonical length: 278 aa
Protein class: Disease related genes, Human disease related genes, Predicted intracellular proteins
Subcellular location: Endoplasmic reticulum,Plasma membrane
Secretome location: Intracellular and membrane

OverviewNCBI Gene

This gene encodes a protein that binds members of the toll-like receptor protein family and functions as a chaperone to aid in folding and export of these proteins. Alternative splicing results in multiple transcript variants. Naturally occuring readthrough transcription occurs between this locus and the downstream GNMT (glycine N-methyltransferase) gene and is represented with GeneID:107080644. [provided by RefSeq, Jan 2016]

Canonical amino-acid sequenceUniProt

278 residues, UniProt reviewed canonical sequence.

>Q9BT09|CNPY3
     1  MDSMPEPASR CLLLLPLLLL LLLLLPAPEL GPSQAGAEEN DWVRLPSKCE VCKYVAVELK
    61  SAFEETGKTK EVIGTGYGIL DQKASGVKYT KSDLRLIEVT ETICKRLLDY SLHKERTGSN
   121  RFAKGMSETF ETLHNLVHKG VKVVMDIPYE LWNETSAEVA DLKKQCDVLV EEFEEVIEDW
   181  YRNHQEEDLT EFLCANHVLK GKDTSCLAEQ WSGKKGDTAA LGGKKSKKKS SRAKAAGGRS
   241  SSSKQRKELG GLEGDPSPEE DEGIQKASPL THSPPDEL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CNPY3 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: 0
Mean surface accessibility (rSASA): 0.48
Highest tissue expression: 135 nTPM

Expression across tissuesHPA

Tissue

bone marrow: 135 nTPM
spleen: 121 nTPM
choroid plexus: 121 nTPM
thymus: 104 nTPM
pancreas: 101 nTPM
liver: 74 nTPM

Single-cell type

hofbauer cells: 344 nCPM
pdcs: 282 nCPM
extravillous trophoblasts: 253 nCPM
neutrophils: 215 nCPM
monocytes: 200 nCPM
kupffer cells: 182 nCPM

Immune cell

neutrophil: 843 nTPM
plasmacytoid DC: 672 nTPM
classical monocyte: 477 nTPM
myeloid DC: 402 nTPM
total PBMC: 400 nTPM
intermediate monocyte: 331 nTPM

Brain region

white matter: 90 nTPM
medulla oblongata: 79 nTPM
choroid plexus: 79 nTPM
thalamus: 69 nTPM
pons: 68 nTPM
hypothalamus: 67 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about CNPY3.

Disease | AllUniProt

Conditions CNPY3 is implicated in, by any mechanism.

Developmental and epileptic encephalopathy 60 (DEE60) MIM:617929

Disease | GeneticClinVar

8 pathogenic / likely-pathogenic of 85 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Developmental and epileptic encephalopathy, 60

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): 0.57
gnomAD pLI: 0.4
gnomAD missense Z: 0.42
DepMap mean gene effect: 0.05
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

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of CNPY3 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 CNPY3 as an antibody target. Whether an autoantibody or antibody against CNPY3 could matter depends on whether native CNPY3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CNPY3 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 CNPY3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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