Expression of PCDH1 in cancer - Summary

GENERAL INFORMATION
Gene name	PCDH1
Gene description	Protocadherin 1
Protein class	Plasma proteins Predicted intracellular proteins Predicted membrane proteins Predicted secreted proteins
Predicted localization	Intracellular,Membrane,Secreted
Number of transcripts	5
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HUMAN PROTEIN ATLAS INFORMATION

RNA category

TCGA (cancer tissue):	Expressed in all
HPA (cell line):	Cell line enhanced (CAPAN-2, HaCaT, RT4, TIME)
HPA (normal tissue):	Mixed

Protein evidence

Evidence at protein level

Protein expression
normal tissue

Cytoplasmic and membranous expression at variable levels in several different cell types.

ANTIBODY IHC RELIABILITY
Data reliability description	Antibody staining mainly consistent with RNA expression data.
Reliability score	Approved based on 2 antibodies. HPA047720 , HPA050538
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PROGNOSTIC SUMMARY
Prognostic marker in liver cancer (unfavourable), renal cancer (favourable) and pancreatic cancer (unfavourable).
Liver cancer p<0.001 Renal cancer p<0.001 Pancreatic cancer p<0.001 Show all

RNA EXPRESSION OVERVIEW
TCGA dataset RNA cancer category: Expressed in all

PROTEIN EXPRESSION

STAINING SUMMARY

HPA047720	HPA050538

GENE INFORMATION
Gene name	PCDH1 (HGNC Symbol)
Synonyms	pc42
Description	Protocadherin 1 (HGNC Symbol)
Entrez gene summary	This gene belongs to the protocadherin subfamily within the cadherin superfamily. The encoded protein is a membrane protein found at cell-cell boundaries. It is involved in neural cell adhesion, suggesting a possible role in neuronal development. The protein includes an extracelllular region, containing 7 cadherin-like domains, a transmembrane region and a C-terminal cytoplasmic region. Cells expressing the protein showed cell aggregation activity. Alternative splicing occurs in this gene. [provided by RefSeq, Jul 2008]
Chromosome	5
Cytoband	q31.3
Chromosome location (bp)	141853111 - 141879246
Protein evidence	Evidence at protein level (all genes)
Ensembl	ENSG00000156453 (version 83.38)
Entrez gene	5097
UniProt	Q08174 (UniProt - Evidence at protein level)
neXtProt	NX_Q08174
Antibodypedia	PCDH1 antibodies

PROTEIN BROWSER

PCDH1-001	PCDH1-002	PCDH1-003	PCDH1-006	PCDH1-007

PROTEIN INFORMATION
Splice variant	UniProt	Protein class	Gene ontology	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
PCDH1-001 ENSP00000378043 ENST00000394536	Q08174 [Direct mapping] Protocadherin-1 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Plasma proteins Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014) Show all	GO:0005509 [calcium ion binding] GO:0005886 [plasma membrane] GO:0005887 [integral component of plasma membrane] GO:0005911 [cell-cell junction] GO:0007155 [cell adhesion] GO:0007156 [homophilic cell adhesion via plasma membrane adhesion molecules] GO:0007267 [cell-cell signaling] GO:0007399 [nervous system development] GO:0016020 [membrane] Show all	1060 aa 114.7 kDa	Yes	1
PCDH1-002 ENSP00000287008 ENST00000287008	Q08174 [Direct mapping] Protocadherin-1 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Plasma proteins Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014) Show all	GO:0005509 [calcium ion binding] GO:0005515 [protein binding] GO:0005886 [plasma membrane] GO:0005887 [integral component of plasma membrane] GO:0005911 [cell-cell junction] GO:0007155 [cell adhesion] GO:0007156 [homophilic cell adhesion via plasma membrane adhesion molecules] GO:0007267 [cell-cell signaling] GO:0007399 [nervous system development] GO:0016020 [membrane] Show all	1237 aa 133.7 kDa	Yes	1
PCDH1-003 ENSP00000424667 ENST00000503492	D6RAX3 [Direct mapping] Protocadherin-1 Show all	MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins Predicted secreted proteins Secreted proteins predicted by MDSEC SignalP predicted secreted proteins Phobius predicted secreted proteins Protein evidence (Ezkurdia et al 2014) Show all	GO:0005509 [calcium ion binding] GO:0005886 [plasma membrane] GO:0007155 [cell adhesion] GO:0007156 [homophilic cell adhesion via plasma membrane adhesion molecules] GO:0016020 [membrane] GO:0016021 [integral component of membrane] Show all	382 aa 41.4 kDa	Yes	0
PCDH1-006 ENSP00000424204 ENST00000515351	H0Y9I5 [Direct mapping] Protocadherin-1 Show all	Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014) Show all		17 aa 1.9 kDa	No	0
PCDH1-007 ENSP00000424163 ENST00000514773	D6RBG2 [Direct mapping] Protocadherin-1 Show all	MEMSAT3 predicted membrane proteins THUMBUP predicted membrane proteins Predicted secreted proteins Secreted proteins predicted by MDSEC SignalP predicted secreted proteins Phobius predicted secreted proteins SPOCTOPUS predicted secreted proteins Protein evidence (Ezkurdia et al 2014) Show all	GO:0005509 [calcium ion binding] GO:0005886 [plasma membrane] GO:0007155 [cell adhesion] GO:0007156 [homophilic cell adhesion via plasma membrane adhesion molecules] GO:0016020 [membrane] Show all	150 aa 16.3 kDa	Yes	0