Seroatlas · Human Serome Atlas

PCDH11Y

Protocadherin-11 Y-linked

Also known as: PC11Y_HUMAN, PCDH22, PCDHY

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

Protein identityUniProt · HPA

UniProt accession: Q9BZA8
Gene: PCDH11Y
Ensembl: ENSG00000099715
Chromosome: Y
Canonical length: 1340 aa
Protein class: Disease related genes, Predicted intracellular proteins, Predicted membrane proteins

OverviewNCBI Gene

This gene belongs to the protocadherin gene family, a subfamily of the cadherin superfamily. The encoded protein consists of an extracellular domain containing 7 cadherin repeats, a transmembrane domain and a cytoplasmic tail that differs from those of the classical cadherins. The gene is located in a major X/Y block of homology and its Y homolog, despite divergence leading to coding region changes, is the most closely related cadherin family member. The protein is thought to play a fundamental role in cell-cell recognition essential for the segmental development and function of the central nervous system. Disruption of this gene may be associated with developmental dyslexia. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jun 2014]

Canonical amino-acid sequenceUniProt

1340 residues, UniProt reviewed canonical sequence.

>Q9BZA8|PCDH11Y
     1  MFRVGFLIIS SSSSLSPLLL VSVVRVNTTN CHKCLLSGTY IFAVLLVCVV FHSGAQEKNY
    61  TIREEIPENV LIGNLLKDLN LSLIPNKSLT TTMQFKLVYK TGDVPLIRIE EDTGEIFTTG
   121  ARIDREKLCA GIPRDEHCFY EVEVAILPDE IFRLVKIRFL IEDINDNAPL FPATVINISI
   181  PENSAINSKY TLPAAVDPDV GINGVQNYEL IKSQNIFGLD VIETPEGDKM PQLIVQKELD
   241  REEKDTYVMK VKVEDGGFPQ RSSTAILQVS VTDTNDNHPV FKETEIEVSI PENAPVGTSV
   301  TQLHATDADI GENAKIHFSF SNLVSNIARR LFHLNATTGL ITIKEPLDRE ETPNHKLLVL
   361  ASDGGLMPAR AMVLVNVTDV NDNVPSIDIR YIVNPVNDTV VLSENIPLNT KIALITVTDK
   421  DADHNGRVTC FTDHEIPFRL RPVFSNQFLL ENAAYLDYES TKEYAIKLLA ADAGKPPLNQ
   481  SAMLFIKVKD ENDNAPVFTQ SFVTVSIPEN NSPGIQLMKV SATDADSGPN AEINYLLGPD
   541  APPEFSLDRR TGMLTVVKKL DREKEDKYLF TILAKDNGVP PLTSNVTVFV SIIDQNDNSP
   601  VFTHNEYKFY VPENLPRHGT VGLITVTDPD YGDNSAVTLS ILDENDDFTI DSQTGVIRPN
   661  ISFDREKQES YTFYVKAEDG GRVSRSSSAK VTINVVDVND NKPVFIVPPY NYSYELVLPS
   721  TNPGTVVFQV IAVDNDTGMN AEVRYSIVGG NTRDLFAIDQ ETGNITLMEK CDVTDLGLHR
   781  VLVKANDLGQ PDSLFSVVIV NLFVNESVTN ATLINELVRK SIEAPVTPNT EIADVSSPTS
   841  DYVKILVAAV AGTITVVVVI FITAVVRCRQ APHLKAAQKN MQNSEWATPN PENRQMIMMK
   901  KKKKKKKHSP KNLLLNVVTI EETKADDVDS DGNRVTLDLP IDLEEQTMGK YNWVTTPTTF
   961  KPDSPDLARH YKSASPQPAF QIQPETPLNL KHHIIQELPL DNTFVACDSI SNCSSSSSDP
  1021  YSVSDCGYPV TTFEVPVSVH TRPSQRRVTF HLPEGSQESS SDGGLGDHDA GSLTSTSHGL
  1081  PLGYPQEEYF DRATPSNRTE GDGNSDPEST FIPGLKKEIT VQPTVEEASD NCTQECLIYG
  1141  HSDACWMPAS LDHSSSSQAQ ASALCHSPPL SQASTQHHSP PVTQTIVLCH SPPVTQTIAL
  1201  CHSPPPIQVS ALHHSPPLVQ GTALHHSPPS AQASALCYSP PLAQAAAISH SSSLPQVIAL
  1261  HRSQAQSSVS LQQGWVQGAN GLCSVDQGVQ GSATSQFYTM SERLHPSDDS IKVIPLTTFA
  1321  PRQQARPSRG DSPIMETHPL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PCDH11Y 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): 0.46
Highest tissue expression: 2.4 nTPM

Expression across tissuesHPA

Tissue

cerebral cortex: 2.4 nTPM
hypothalamus: 1.8 nTPM
amygdala: 1.4 nTPM
hippocampal formation: 1.1 nTPM
basal ganglia: 0.8 nTPM
retina: 0.7 nTPM

Single-cell type

retinal horizontal cells: 789 nCPM
retinal amacrine cells: 167 nCPM
cytotrophoblasts: 115 nCPM
renal collecting duct principal cells: 88 nCPM
oligodendrocyte progenitor cells: 63 nCPM
brain inhibitory neurons: 59 nCPM

Immune cell

neutrophil: 0.2 nTPM
basophil: 0.1 nTPM
total PBMC: 0.1 nTPM
classical monocyte: 0 nTPM
eosinophil: 0 nTPM
gdT-cell: 0 nTPM

Brain region

cerebral cortex: 13 nTPM
basal ganglia: 13 nTPM
amygdala: 12 nTPM
hypothalamus: 11 nTPM
midbrain: 9.4 nTPM
hippocampal formation: 8.7 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): 1.66
gnomAD pLI: 0
gnomAD missense Z: -0.14

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of PCDH11Y in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

CTNNB1

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads PCDH11Y as an antibody target. Whether an autoantibody or antibody against PCDH11Y could matter depends on whether native PCDH11Y is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PCDH11Y is annotated at the cell surface, where native PCDH11Y 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 PCDH11Y as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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