Seroatlas · Human Serome Atlas

PCDHAC1

Protocadherin alpha-C1

Also known as: PCDC1_HUMAN

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

Protein identityUniProt · HPA

UniProt accession
Q9H158
Gene
PCDHAC1
Ensembl
ENSG00000248383
Chromosome
5
Canonical length
963 aa
Protein class
Predicted membrane proteins
Subcellular location
Nucleoplasm,Nucleoli,Vesicles

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

963 residues, UniProt reviewed canonical sequence.

>Q9H158|PCDHAC1
     1  MVGCGVAVLC LWVSCGAAAG QLEYSVPEET ERGVAVGNLS ADLRLPAAAM SSRNFRFLSS
    61  HRELYFGVDL PSGNLVVREP ADREQLCRAK AACVLTYDLV LEDPLELHKI RIHVLDTNDN
   121  SPLFPAGDVQ LHIPEFLTPG ARFTLPNAQD DDEGSNGILS YSLSPSQHFR LDMGSRVDGS
   181  EYPELVLEKA LDREQRATHL LVLTARDGGL PARSGDAQVT IIVVDTNDNA PVFERSVYRT
   241  KVPETAPNGT VLFRVQALDP DEGSNGEVQY SLSNSTQAEL RHRFHVHPKS GEVQVAASLG
   301  PPETLLEAYI EARDEGVFGL ASTAKLLVEV TDVNDHAPEL DFLTLSNPVP EDAAPGTVIA
   361  LFSVKDEDLD SNGRVICGMS SAGPFQLTAS FDNYYSLLID GPLDREQISE YQVLITASDS
   421  GSPPLSTRRT ITVSVADVND NTPNFPQPQQ ELFVAENNGP GASLGRVFAQ DPDLGKNGLV
   481  SYELLDVISE GPSASSLLAV ESSSGAITAK TSFDFEQLRG FHFQVEGRDG GIPPRSATVT
   541  INLFVVDRND NYPVILFPLP RNGSVPVEIV PRSARTGHLV TKVVAEDADS GSNAWLSYHI
   601  SRASDSSLFR ISANIGELRT ARLVLPTDAV KQRVVVVVRD HGDPPLSSSV TLGVLLSNSV
   661  PQLLPDFEDV WEPGGQLSAQ NLYLVIALAC ISFLFLGCLL FFVCTKLHQS PGCCAQSCCR
   721  STEDLRYGSK MVSNPCMTSA TIDVTTVERL SQTYLYRASL GLGSDNNSLL LRGEYNAADL
   781  RNLATGVGLN LPISCIQIRN RKGDHANVNA MPRQPNPDWR YSASLRAGMH SSVHLEEAGI
   841  LRAGPGGPDQ QWPTVSSATP EPEAGEVSPP VGAGVNSNSW TFKYGPGNPK QSGPGELPDK
   901  FIIPGSPAII SIRQEPTNSQ IDKSDFITFG KKEETKKKKK KKKGNKTQEK KEKGNSTTDN
   961  SDQ

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PCDHAC1 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)
0.43
Highest tissue expression
28 nTPM

Expression across tissuesHPA

Tissue

  • parathyroid gland: 28 nTPM
  • lymph node: 1.1 nTPM
  • pancreas: 1.1 nTPM
  • cerebral cortex: 1 nTPM
  • gallbladder: 0.9 nTPM
  • thyroid gland: 0.8 nTPM

Single-cell type

  • alveolar cells type 1: 0.1 nCPM
  • alveolar cells type 2: 0.1 nCPM
  • early primary spermatocytes: 0.1 nCPM
  • adipocytes: 0 nCPM
  • adrenal cortex cells: 0 nCPM
  • adrenal medulla cells: 0 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: 13 nTPM
  • midbrain: 11 nTPM
  • pons: 8.7 nTPM
  • cerebral cortex: 5.9 nTPM
  • medulla oblongata: 5.8 nTPM
  • thalamus: 5.5 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)
1.02
gnomAD pLI
0
gnomAD missense Z
-0.01
DepMap mean gene effect
-0.06
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 PCDHAC1 as an antibody target. Whether an autoantibody or antibody against PCDHAC1 could matter depends on whether native PCDHAC1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PCDHAC1 is annotated at the cell surface, where native PCDHAC1 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 PCDHAC1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/PCDHAC1. 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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