PCDHGC5

Protein identityUniProt · HPA

UniProt accession

Q9Y5F6

Gene

PCDHGC5

Ensembl

ENSG00000240764

Chromosome

5

Canonical length

944 aa

Protein class

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

944 residues, UniProt reviewed canonical sequence.

>Q9Y5F6|PCDHGC5
     1  MGPKTLPQLA GKWQVLCMLS LCCWGWVSGQ LRYSVVEESE PGTLVGNVAQ DLGLKMTDLL
    61  SRRLQLGSEE NGRYFSLSLM SGALAVNQKI DRESLCGAST SCLLPVQVVT EHPLELIRVE
   121  VEILDLNDNS PSFATPEREM RISESAASGA RFPLDSAQDP DVGTNTVSFY TLSPNSHFSL
   181  NVKTLKDGKP FPELVLEQQL DREAQARHQL VLTAVDGGTP ARSGTTLISV IVLDINDNAP
   241  TFQSSVLRVG IPENAPIGTL LLRLNATDPD EGTNGQLDYS FGDHTSEAVR NLFGLDPSSG
   301  AIHVLGPIDF EESRFYEIHA RARDQGQPAM EGHCVIQVDV GDVNDNAPEV LLASLANPVL
   361  ESTPVGTVVG LFNVRDRDSG RNGEVSLDIS PDLPFQIKPS ENHYSLLTSQ PLDREATSHY
   421  IIELLASDAG SPSLHKHLTI RLNISDVNDN APRFNQQLYT AYILENRPPG SLLCTVAASD
   481  PDTGDNARLT YSIVGNQVQG APASSFVYVN PEDGRIFAQR TFDYELLQML QIVVGVRDSG
   541  SPPLHANTSL HVFVLDENDN APAVLHPRPD WEHSAPQRLP RSAPPGSLVT KVTAVDADAG
   601  HNAWLSYSLL PQSTAPGLFL VSTHTGEVRT ARALLEDDSD TQQVVVLVRD NGDPSLSSTA
   661  TVLLVLEDED PEEMPKSSDF LIHPPERSDL TLYLIVALAT VSLLSLVTFT FLSAKCLQGN
   721  ADGDGGGGQC CRRQDSPSPD FYKQSSPNLQ VSSDGTLKYM EVTLRPTDSQ SHCYRTCFSP
   781  ASDGSDFTFL RPLSVQQPTA LALEPDAIRS RSNTLRERSQ QAPPNTDWRF SQAQRPGTSG
   841  SQNGDDTGTW PNNQFDTEML QAMILASASE AADGSSTLGG GAGTMGLSAR YGPQFTLQHV
   901  PDYRQNVYIP GSNATLTNAA GKRDGKAPAG GNGNKKKSGK KEKK

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PCDHGC5 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

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about PCDHGC5.

Disease | ImmuneIEDB

Conditions an epitope on PCDHGC5 was assayed in.

• glioblastoma T cell

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)

0.74

gnomAD pLI

0

gnomAD missense Z

1.54

DepMap mean gene effect

-0.13

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

• cell adhesion
• homophilic cell adhesion via plasma membrane adhesion molecules
• negative regulation of neuron apoptotic process
• nervous system development
• synapse organization

Molecular functions

• calcium ion binding
• cell adhesion molecule binding

Cellular components

• plasma membrane

Protein domainsUniProt · Pfam · InterPro

• Cadherin-like
• Cadherin, N-terminal
• Cadherin-like superfamily
• Cadherin conserved site
• Cadherin, C-terminal catenin-binding domain
• Cadherin, cytoplasmic C-terminal domain
• Protocadherin/Cadherin-related Cell Adhesion
• Cadherin domain
• Cadherin-like
• Cadherin C-terminal cytoplasmic tail, catenin-binding region
• Cadherin cytoplasmic C-terminal

KeywordsUniProt

• Calcium
• Cell adhesion
• Cell membrane
• Glycoprotein
• Membrane
• Repeat
• Signal
• Transmembrane
• Transmembrane helix