Seroatlas · Human Serome Atlas

PCDHGA12

Protocadherin gamma-A12

Also known as: CDH21, FIB3, KIAA0588, PCDGC_HUMAN, PCDH-GAMMA-A12

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

Protein identityUniProt · HPA

UniProt accession
O60330
Gene
PCDHGA12
Ensembl
ENSG00000253159
Chromosome
5
Canonical length
932 aa
Protein class
Plasma proteins, Predicted membrane proteins
Subcellular location
Nucleoplasm,Vesicles,Plasma membrane,Cytosol

OverviewNCBI Gene

This gene is a member of the protocadherin gamma gene cluster, one of three related clusters tandemly linked on chromosome five. These gene clusters have an immunoglobulin-like organization, suggesting that a novel mechanism may be involved in their regulation and expression. The gamma gene cluster includes 22 genes divided into 3 subfamilies. Subfamily A contains 12 genes, subfamily B contains 7 genes and 2 pseudogenes, and the more distantly related subfamily C contains 3 genes. The tandem array of 22 large, variable region exons are followed by a constant region, containing 3 exons shared by all genes in the cluster. Each variable region exon encodes the extracellular region, which includes 6 cadherin ectodomains and a transmembrane region. The constant region exons encode the common cytoplasmic region. These neural cadherin-like cell adhesion proteins most likely play a critical role in the establishment and function of specific cell-cell connections in the brain. Alternative splicing has been described for the gamma cluster genes. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

932 residues, UniProt reviewed canonical sequence.

>O60330|PCDHGA12
     1  MIPARLHRDY KGLVLLGILL GTLWETGCTQ IRYSVPEELE KGSRVGDISR DLGLEPRELA
    61  ERGVRIIPRG RTQLFALNPR SGSLVTAGRI DREELCMGAI KCQLNLDILM EDKVKIYGVE
   121  VEVRDINDNA PYFRESELEI KISENAATEM RFPLPHAWDP DIGKNSLQSY ELSPNTHFSL
   181  IVQNGADGSK YPELVLKRAL DREEKAAHHL VLTASDGGDP VRTGTARIRV MVLDANDNAP
   241  AFAQPEYRAS VPENLALGTQ LLVVNATDPD EGVNAEVRYS FRYVDDKAAQ VFKLDCNSGT
   301  ISTIGELDHE ESGFYQMEVQ AMDNAGYSAR AKVLITVLDV NDNAPEVVLT SLASSVPENS
   361  PRGTLIALLN VNDQDSEENG QVICFIQGNL PFKLEKSYGN YYSLVTDIVL DREQVPSYNI
   421  TVTATDRGTP PLSTETHISL NVADTNDNPP VFPQASYSAY IPENNPRGVS LVSVTAHDPD
   481  CEENAQITYS LAENTIQGAS LSSYVSINSD TGVLYALSSF DYEQFRDLQV KVMARDNGHP
   541  PLSSNVSLSL FVLDQNDNAP EILYPALPTD GSTGVELAPR SAEPGYLVTK VVAVDRDSGQ
   601  NAWLSYRLLK ASEPGLFSVG LHTGEVRTAR ALLDRDALKQ SLVVAVQDHG QPPLSATVTL
   661  TVAVADSIPQ VLADLGSLES PANSETSDLT LYLVVAVAAV SCVFLAFVIL LLALRLRRWH
   721  KSRLLQASGG GLTGAPASHF VGVDGVQAFL QTYSHEVSLT TDSRKSHLIF PQPNYADMLV
   781  SQESFEKSEP LLLSGDSVFS KDSHGLIEQA PPNTDWRFSQ AQRPGTSGSQ NGDDTGTWPN
   841  NQFDTEMLQA MILASASEAA DGSSTLGGGA GTMGLSARYG PQFTLQHVPD YRQNVYIPGS
   901  NATLTNAAGK RDGKAPAGGN GNKKKSGKKE KK

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PCDHGA12 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)
0.42
Highest tissue expression
9.2 nTPM

Expression across tissuesHPA

Tissue

  • basal ganglia: 9.2 nTPM
  • amygdala: 5.7 nTPM
  • cerebral cortex: 4.4 nTPM
  • adrenal gland: 4 nTPM
  • heart muscle: 3.9 nTPM
  • blood vessel: 3.7 nTPM

Single-cell type

  • oligodendrocyte progenitor cells: 2.8 nCPM
  • astrocytes: 2.5 nCPM
  • bergmann glia: 1.5 nCPM
  • choroid plexus epithelial cells: 1.3 nCPM
  • brain excitatory neurons: 0.7 nCPM
  • brain inhibitory neurons: 0.7 nCPM

Immune cell

  • memory B-cell: 1.2 nTPM
  • basophil: 0.3 nTPM
  • plasmacytoid DC: 0.2 nTPM
  • classical monocyte: 0 nTPM
  • eosinophil: 0 nTPM
  • gdT-cell: 0 nTPM

Brain region

  • medulla oblongata: 32 nTPM
  • hypothalamus: 28 nTPM
  • basal ganglia: 24 nTPM
  • spinal cord: 22 nTPM
  • amygdala: 21 nTPM
  • cerebellum: 21 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)
0.8
gnomAD pLI
0
gnomAD missense Z
0.3
DepMap mean gene effect
-0.09
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 PCDHGA12 as an antibody target. Whether an autoantibody or antibody against PCDHGA12 could matter depends on whether native PCDHGA12 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PCDHGA12 is annotated at the cell surface, where native PCDHGA12 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 PCDHGA12 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/PCDHGA12. 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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