Seroatlas · Human Serome Atlas

PCDH20

Protocadherin-20

Also known as: FLJ22218, PCD20_HUMAN, PCDH13

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

Protein identityUniProt · HPA

UniProt accession: Q8N6Y1
Gene: PCDH20
Ensembl: ENSG00000280165
Chromosome: 13
Canonical length: 951 aa
Protein class: Predicted membrane proteins
Subcellular location: Vesicles,Cytokinetic bridge

OverviewNCBI Gene

This gene belongs to the protocadherin gene family, a subfamily of the cadherin superfamily. This gene encodes a protein which contains 6 extracellular cadherin domains, a transmembrane domain and a cytoplasmic tail differing from those of the classical cadherins. Although its specific function is undetermined, the cadherin-related neuronal receptor is thought to play a role in the establishment and function of specific cell-cell connections in the brain. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

951 residues, UniProt reviewed canonical sequence.

>Q8N6Y1|PCDH20
     1  MRGRGNARSS QALGVSWCPA TWHPRLDMGR LHRPRSSTSY RNLPHLFLFF LFVGPFSCLG
    61  SYSRATELLY SLNEGLPAGV LIGSLAEDLR LLPRSAGRPD PQSQLPERTG AEWNPPLSFS
   121  LASRGLSGQY VTLDNRSGEL HTSAQEIDRE ALCVEGGGGT AWSGSVSISS SPSDSCLLLL
   181  DVLVLPQEYF RFVKVKIAIR DINDNAPQFP VSQISVWVPE NAPVNTRLAI EHPAVDPDVG
   241  INGVQTYRLL DYHGMFTLDV EENENGERTP YLIVMGALDR ETQDQYVSII IAEDGGSPPL
   301  LGSATLTIGI SDINDNCPLF TDSQINVTVY GNATVGTPIA AVQAVDKDLG TNAQITYSYS
   361  QKVPQASKDL FHLDENTGVI KLFSKIGGSV LESHKLTILA NGPGCIPAVI TALVSIIKVI
   421  FRPPEIVPRY IANEIDGVVY LKELEPVNTP IAFFTIRDPE GKYKVNCYLD GEGPFRLSPY
   481  KPYNNEYLLE TTKPMDYELQ QFYEVAVVAW NSEGFHVKRV IKVQLLDDND NAPIFLQPLI
   541  ELTIEENNSP NAFLTKLYAT DADSEERGQV SYFLGPDAPS YFSLDSVTGI LTVSTQLDRE
   601  EKEKYRYTVR AVDCGKPPRE SVATVALTVL DKNDNSPRFI NKDFSFFVPE NFPGYGEIGV
   661  ISVTDADAGR NGWVALSVVN QSDIFVIDTG KGMLRAKVSL DREQQSSYTL WVEAVDGGEP
   721  ALSSTAKITI LLLDINDNPP LVLFPQSNMS YLLVLPSTLP GSPVTEVYAV DKDTGMNAVI
   781  AYSIIGRRGP RPESFRIDPK TGNITLEEAL LQTDYGLHRL LVKVSDHGYP EPLHSTVMVN
   841  LFVNDTVSNE SYIESLLRKE PEINIEEKEP QISIEPTHRK VESVSCMPTL VALSVISLGS
   901  ITLVTGMGIY ICLRKGEKHP REDENLEVQI PLKGKIDLHM RERKPMDISN I

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PCDH20 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: 1
Mean surface accessibility (rSASA): 0.38
Highest tissue expression: 7.8 nTPM

Expression across tissuesHPA

Tissue

cerebral cortex: 7.8 nTPM
smooth muscle: 7.8 nTPM
hippocampal formation: 7.6 nTPM
blood vessel: 4.6 nTPM
heart muscle: 3.2 nTPM
amygdala: 2.9 nTPM

Single-cell type

oligodendrocyte progenitor cells: 46 nCPM
brain excitatory neurons: 14 nCPM
brain inhibitory neurons: 9.1 nCPM
other brain neurons: 9 nCPM
paneth cells: 3.9 nCPM
oligodendrocytes: 3.1 nCPM

Immune cell

basophil: 0 nTPM
classical monocyte: 0 nTPM
eosinophil: 0 nTPM
gdT-cell: 0 nTPM
intermediate monocyte: 0 nTPM
MAIT T-cell: 0 nTPM

Brain region

hippocampal formation: 36 nTPM
cerebral cortex: 23 nTPM
midbrain: 9.9 nTPM
basal ganglia: 9.1 nTPM
hypothalamus: 8.1 nTPM
amygdala: 6.7 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): 0.38
gnomAD pLI: 0.86
gnomAD missense Z: 0.71
DepMap mean gene effect: -0.01
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 1% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

plasma membrane

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads PCDH20 as an antibody target. Whether an autoantibody or antibody against PCDH20 could matter depends on whether native PCDH20 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PCDH20 is annotated at the cell surface, where native PCDH20 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 PCDH20 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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