Seroatlas · Human Serome Atlas

PCDHA11

Protocadherin alpha-11

Also known as: CNR7, CNRN7, CNRS7, CRNR7, PCDAB_HUMAN, PCDH-ALPHA11

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

Protein identityUniProt · HPA

UniProt accession
Q9Y5I1
Gene
PCDHA11
Ensembl
ENSG00000249158
Chromosome
5
Canonical length
949 aa
Protein class
Predicted intracellular proteins, Predicted membrane proteins
Subcellular location
Vesicles,Cell Junctions,Cytoplasmic bodies

OverviewNCBI Gene

This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster. The large, uninterrupted N-terminal exons each encode six cadherin ectodomains while the C-terminal exons encode the cytoplasmic domain. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins that most likely play a critical role in the establishment and function of specific cell-cell connections in the brain. Alternative splicing has been observed and additional variants have been suggested but their full-length nature has yet to be determined. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

949 residues, UniProt reviewed canonical sequence.

>Q9Y5I1|PCDHA11
     1  MFGFQRRGLG TPRLQLWLLL LEFWEVGSGQ LHYSVSEEAK HGTFVGRIAQ DLGLELAELV
    61  QRLFRVASKT HGDLLEVNLQ NGILFVNSRI DREELCGQSA ECSIHLEVIV DRPLQVFHVN
   121  VEVKDINDNP PVFSLREQKL LIAESKQSDS RFPLEGASDA DIEENALLTY RLSKNEYFSL
   181  DSPTNGKQIK RLSLILKKSL DREKTPELNL LLTATDGGKP ELTGTVRLLV QVLDVNDNDP
   241  EFDKSEYKVS LMENAAKETL VLKLNATDRD EGVNGEVTYS LMSIKPNGRH LFTLDQNNGE
   301  VRVNGTLDYE ENKFYKIEVQ ATDKGTPPMA GHCTVWVEIL DTNDNSPEVA VTSLSLPVRE
   361  DAQPSTVIAL ISVSDRDSGV NGQVTCSLTP HVPFKLVSTF KNYYSLVLDS ALDRENVWAY
   421  ELVVTARDGG SPSLWATARV SVEVADVNDN APAFAQPEYT VFVKENNPPG CHIFTVSARD
   481  ADAQENALVS YSLVERRLGD RALSSYVSVH AESGKVYALQ PLDHEELELL QFQVSARDAG
   541  VPPLSSNVTL QVFVLDENDN APALLATQAG SAGGAVNKLV PRSVGAGHVV AKVRAVDADS
   601  GYNAWLSYEL QPAAGGSRIP FRVGLYTGEI STTRALDEAD SPRHRLLVLV KDHGEPALTA
   661  TATVLVSLVE SGQAPKASSR TLAGAASPEA ALVDVNVYLI IAICVVSSLL VLTLLLYTAL
   721  WWSATPTEGA CAPGKPTLVC SRAVGSWSYS QQRRQRVCSE EGPPKTDLMA FSPSLPLGLN
   781  KEEEGERQEP GSNHPGQPRQ PNPDWRYSAS LRAGMHSSVH LEEAGILRAG PGGPDQQWPT
   841  VSSATPEPEA GEVSPPVGAG VNSNSWTFKY GPGNPKQSGP GELPDKFIIP GSPAIISIRQ
   901  EPTNSQIDKS DFITFGKKEE TKKKKKKKKG NKTQEKKEKG NSTTDNSDQ

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PCDHA11 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)
0.44
Highest tissue expression
3.4 nTPM

Expression across tissuesHPA

Tissue

  • cerebellum: 3.4 nTPM
  • cerebral cortex: 3.3 nTPM
  • parathyroid gland: 2.5 nTPM
  • retina: 2.2 nTPM
  • pancreas: 1.7 nTPM
  • basal ganglia: 1.1 nTPM

Single-cell type

  • breast myoepithelial cells: 0.9 nCPM
  • late primary spermatocytes: 0.7 nCPM
  • somatotrophs: 0.3 nCPM
  • astrocytes: 0.1 nCPM
  • brain excitatory neurons: 0.1 nCPM
  • corticotrophs: 0.1 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

  • cerebellum: 16 nTPM
  • cerebral cortex: 12 nTPM
  • midbrain: 11 nTPM
  • basal ganglia: 10 nTPM
  • white matter: 8.3 nTPM
  • hippocampal formation: 8 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)
1.16
gnomAD pLI
0
gnomAD missense Z
-0.62
DepMap mean gene effect
0.02
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% 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 PCDHA11 as an antibody target. Whether an autoantibody or antibody against PCDHA11 could matter depends on whether native PCDHA11 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PCDHA11 is annotated at the cell surface, where native PCDHA11 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 PCDHA11 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/PCDHA11. 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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