Tbio PCDH12 Protocadherin-12

Protein Summary

Description

Cellular adhesion molecule that may play an important role in cell-cell interactions at interendothelial junctions (By similarity). Acts as a regulator of cell migration, probably via increasing cell-cell adhesion (PubMed:21402705). Promotes homotypic calcium-dependent aggregation and adhesion and clusters at intercellular junctions (By similarity). Unable to bind to catenins, weakly associates with the cytoskeleton (By similarity). This gene belongs to the protocadherin gene family, a subfamily of the cadherin superfamily. The encoded protein consists of an extracellular domain containing 6 cadherin repeats, a transmembrane domain and a cytoplasmic tail that differs from those of the classical cadherins. The gene localizes to the region on chromosome 5 where the protocadherin gene clusters reside. The exon organization of this transcript is similar to that of the gene cluster transcripts, notably the first large exon, but no significant sequence homology exists. The function of this cellular adhesion protein is undetermined but mouse protocadherin 12 does not bind catenins and appears to have no affect on cell migration or growth. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• Q9NPG4
• Q6UXB6
• Q96KB8
• Q9H7Y6
• Q9H8E0

Gene Name

• PCDH12

Ensembl ID

• ENST00000231484
• ENSP00000231484
• ENSG00000113555

Symbol

• VECAD2
• VE-cadherin-2

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
cell line	0.66
tissue sample	0.64
protein domain	0.58
small molecule perturbation	0.54
tissue	0.51

Protein Classes

No PANTHER Classes or DTO Classes found

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 19.39   (req: < 5)

Gene RIFs: 5   (req: <= 3)

Antibodies: 86   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 19.39   (req: >= 5)

Gene RIFs: 5   (req: > 3)

Antibodies: 86   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 7

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Expression Data (0 Tissues)

tutorial

No expression data found

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Related Tools (4)

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (0)

No active ligands found

Protein-Protein Interactions (36)

Explore Interacting Targets

1 – 10 of 36

• See Interactions on String-DB

PCDH10

Tbio

Novelty:  0.01058382

p_int:  0.999998707

p_ni:  0.000001293

Score:  0.297

Data Source:  BioPlex,STRINGDB

PCDH17

Tbio

Novelty:  0.03341603

p_int:  0.999997475

p_ni:  0.000002313

p_wrong:  2.12e-7

Score:  0.812

Data Source:  BioPlex,STRINGDB

CLIC3

Tbio

Family:  IC

Novelty:  0.07268934

p_int:  0.999994826

p_ni:  0.000005057

p_wrong:  1.17e-7

Score:  0.26

Data Source:  BioPlex,STRINGDB

PCDHGA11

Tdark

Novelty:  0.44130091

p_int:  0.999991974

p_ni:  0.000008025

p_wrong:  1e-9

Score:  0.185

Data Source:  BioPlex,STRINGDB

DCBLD1

Tbio

Novelty:  0.21754882

p_int:  0.999988052

p_ni:  0.000011932

p_wrong:  1.6e-8

Score:  0.235

Data Source:  BioPlex,STRINGDB

CDON

Tbio

Novelty:  0.00447262

p_int:  0.999942382

p_ni:  0.00005754

p_wrong:  7.8e-8

Score:  0.175

Data Source:  BioPlex,STRINGDB

PTPRS

Tchem

Family:  Enzyme

Novelty:  0.00587115

p_int:  0.999941342

p_ni:  0.000058657

Score:  0.22

Data Source:  BioPlex,STRINGDB

PCDHGC3

Tbio

Novelty:  0.07203024

p_int:  0.999938912

p_ni:  0.000061088

Score:  0.171

Data Source:  BioPlex,STRINGDB

TMTC4

Tdark

Novelty:  0.53734704

p_int:  0.999399341

p_ni:  0.000600657

p_wrong:  2e-9

Score:  0.193

Data Source:  BioPlex,STRINGDB

LTBP1

Tbio

Novelty:  0.00958396

p_int:  0.99925543

p_ni:  0.000744565

p_wrong:  6e-9

Score:  0.155

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (2)

PathwayCommons (2)

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5

1 – 2 of 2

Data Source	Name	Explore in Pharos	Explore in Source
PathwayCommons: panther	Cadherin signaling pathway	150 targets	PathwayCommons: panther
PathwayCommons: panther	Wnt signaling pathway	264 targets	PathwayCommons: panther

Name	Explore in Pharos	Explore in Source
Cadherin signaling pathway	150 targets	PathwayCommons: panther
Wnt signaling pathway	264 targets	PathwayCommons: panther

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (11)

Functions (1)

Components (4)

Processes (6)

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10

1 – 1 of 1

GO Term	Evidence	Assigned by
calcium ion binding	Inferred from Electronic Annotation (IEA)	InterPro

Disease Associations (null)

No disease associations found

GWAS Traits (7)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 7

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
neutrophil percentage of leukocytes	EFO_0007990	1	1	1		73.9
lymphocyte percentage of leukocytes	EFO_0007993	1	1	1		67.9
mean platelet volume	EFO_0004584	1	1	1		54.4
insomnia measurement	EFO_0007876	1	1	0	1	44.2
eosinophil count	EFO_0004842	1	1	1		8.1

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 7

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
neutrophil percentage of leukocytes	EFO_0007990	1		73.9
lymphocyte percentage of leukocytes	EFO_0007993	1		67.9
mean platelet volume	EFO_0004584	1		54.4
insomnia measurement	EFO_0007876	0	1	44.2
eosinophil count	EFO_0004842	1		8.1

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UniProt Keyword Find Similar Targets

No Header	No Header
Calcium
Cell adhesion
Cell junction
Cell membrane
Complete proteome
Disease mutation
Epilepsy
Glycoprotein
Membrane
Mental retardation

GWAS Trait Find Similar Targets

No Header	No Header
eosinophil count
erosive tooth wear measurement
insomnia measurement
lymphocyte percentage of leukocytes
mathematical ability
mean platelet volume
neutrophil percentage of leukocytes

IDG Resources

No IDG generated resources found

Orthologs (11)

1 – 5 of 11

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	protocadherin 12	VGNC:4120	471677
Macaque	protocadherin 12		705232
Mouse	protocadherin 12	MGI:1855700	53601
Rat	protocadherin 12	RGD:619917	116808
Dog	protocadherin 12	VGNC:44295	487191

Species	Name	OMA	EggNOG	Inparanoid
Chimp	protocadherin 12
Macaque	protocadherin 12
Mouse	protocadherin 12
Rat	protocadherin 12
Dog	protocadherin 12

Publication Statistics

PubMed Score 19.39

PubMed score by year

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PubTator Score 8.86

PubTator score by year

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Related Publications

Text Mined References (16)

GeneRif Annotations (5)

Items per page:

10

0 of 0

PMID	Year	Title