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NECTIN4 (poliovirus receptor-related 4)

Written2008-01Marc Lopez
Centre de Recherches en Cancérologie de Marseille, Inserm UMR599, 27 bvd Leiroure,13009 Marseille, France

(Note : for Links provided by Atlas : click)

Identity

Alias_namesPVRL4
poliovirus receptor-related 4
Alias_symbol (synonym)nectin-4
PRR4
LNIR
Other aliasNectin-4
HGNC (Hugo) NECTIN4
LocusID (NCBI) 81607
Atlas_Id 44141
Location 1q23.3  [Link to chromosome band 1q23]
Location_base_pair Starts at 161070991 and ends at 161089595 bp from pter ( according to hg19-Feb_2009)  [Mapping NECTIN4.png]

DNA/RNA

Description The PVRL4 gene spans 17.85 kb, consists of 9 exons and 8 introns.
Transcription The human Nectin-4 mRNA consists of 1458 or 1533 bases (alternative splice forms).

Protein

Note Nectin-4 belongs to the family of adhesion molecules: Nectins. Four members have been described ( Nectin-1, Nectin-2, Nectin-3 and Nectin-4). Nectins belong to the immunoglobulin superfamily and exhibit three Ig-like domain in their extracellular region.
 
  Extracellular region of dimeric Nectin-4 is composed with three Ig domains of Ig V and IgC types. The last 4 aminoacids in the C-terminus region binds to the scaffold F-actin binding protein AF-6/afadin. Nectin-4 ectodomain is shedded from cell surface by the metalloprotease TACE/ ADAM-17.
Description Nectin-4 protein is 510 aminoacid long. Molecular weight is 66 kDa.
Expression Nectin-4 expression in mainly expressed during development. In mice Nectin-4 transcript are detected at day 11 d.p.c. In human Nectin-4 is not expressed in adult tissues.
Localisation Nectin-4 is expressed at epithelial adherens junctions. In tumors Nectin-4 expression can be observed in the cytoplasm.
Function Nectin-4 binds Nectin-1 through IgV domain interaction. Nectin-1 is involved in development. Nectin-4 increases tumor cell migration.
Homology With other members of the family.

Implicated in

Note
  
Entity Breast carcinoma of basal subtypes.
Disease Nectin-4 is found in breast tumors and its expression correlates with the basal subtype. The soluble form is detected in sera of patients with metastatic breast carcinoma and is a marker of disease progression.
Prognosis Adverse prognosis.
 
Oncogenesis Related to tumor cell migration.
  

Bibliography

Prominent role of the Ig-like V domain in trans-interactions of nectins. Nectin3 and nectin 4 bind to the predicted C-C'-C-D beta-strands of the nectin1 V domain.
Fabre S, Reymond N, Cocchi F, Menotti L, Dubreuil P, Campadelli-Fiume G, Lopez M
The Journal of biological chemistry. 2002 ; 277 (30) : 27006-27013.
PMID 12011057
 
Nectin-4 is a new histological and serological tumor associated marker for breast cancer.
Fabre-Lafay S, Monville F, Garrido-Urbani S, Berruyer-Pouyet C, Ginestier C, Reymond N, Finetti P, Sauvan R, Adélaïde J, Geneix J, Lecocq E, Popovici C, Dubreuil P, Viens P, Gonçalves A, Charafe-Jauffret E, Jacquemier J, Birnbaum D, Lopez M
BMC cancer. 2007 ; 7 : page 73.
PMID 17474988
 
Nectin4/PRR4, a new afadin-associated member of the nectin family that trans-interacts with nectin1/PRR1 through V domain interaction.
Reymond N, Fabre S, Lecocq E, Adelaïde J, Dubreuil P, Lopez M
The Journal of biological chemistry. 2001 ; 276 (46) : 43205-43215.
PMID 11544254
 

Citation

This paper should be referenced as such :
Lopez, M
PVRL4 (poliovirus receptor-related 4)
Atlas Genet Cytogenet Oncol Haematol. 2008;12(5):387-388.
Free journal version : [ pdf ]   [ DOI ]
On line version : http://AtlasGeneticsOncology.org/Genes/PVRL4ID44141ch1q23.html


External links

Nomenclature
HGNC (Hugo)NECTIN4   19688
Cards
AtlasPVRL4ID44141ch1q23
Entrez_Gene (NCBI)NECTIN4  81607  nectin cell adhesion molecule 4
AliasesEDSS1; LNIR; PRR4; PVRL4; 
nectin-4
GeneCards (Weizmann)NECTIN4
Ensembl hg19 (Hinxton)ENSG00000143217 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000143217 [Gene_View]  chr1:161070991-161089595 [Contig_View]  NECTIN4 [Vega]
ICGC DataPortalENSG00000143217
TCGA cBioPortalNECTIN4
AceView (NCBI)NECTIN4
Genatlas (Paris)NECTIN4
WikiGenes81607
SOURCE (Princeton)NECTIN4
Genetics Home Reference (NIH)NECTIN4
Genomic and cartography
GoldenPath hg38 (UCSC)NECTIN4  -     chr1:161070991-161089595 -  1q23.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)NECTIN4  -     1q23.3   [Description]    (hg19-Feb_2009)
EnsemblNECTIN4 - 1q23.3 [CytoView hg19]  NECTIN4 - 1q23.3 [CytoView hg38]
Mapping of homologs : NCBINECTIN4 [Mapview hg19]  NECTIN4 [Mapview hg38]
OMIM609607   613573   
Gene and transcription
Genbank (Entrez)AB105191 AB755430 AF160477 AF218028 AF426163
RefSeq transcript (Entrez)NM_030916
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)NECTIN4
Cluster EST : UnigeneHs.732297 [ NCBI ]
CGAP (NCI)Hs.732297
Alternative Splicing GalleryENSG00000143217
Gene ExpressionNECTIN4 [ NCBI-GEO ]   NECTIN4 [ EBI - ARRAY_EXPRESS ]   NECTIN4 [ SEEK ]   NECTIN4 [ MEM ]
Gene Expression Viewer (FireBrowse)NECTIN4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)81607
GTEX Portal (Tissue expression)NECTIN4
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96NY8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96NY8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96NY8
Splice isoforms : SwissVarQ96NY8
PhosPhoSitePlusQ96NY8
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)CD80_C2-set    Ig-like_dom    Ig-like_fold    Ig_sub    Ig_sub2    Ig_V-set    Nectin-4   
Domain families : Pfam (Sanger)C2-set_2 (PF08205)    V-set (PF07686)   
Domain families : Pfam (NCBI)pfam08205    pfam07686   
Domain families : Smart (EMBL)IG (SM00409)  IGc2 (SM00408)  
Conserved Domain (NCBI)NECTIN4
DMDM Disease mutations81607
Blocks (Seattle)NECTIN4
PDB (SRS)4FRW    4GJT    4JJH   
PDB (PDBSum)4FRW    4GJT    4JJH   
PDB (IMB)4FRW    4GJT    4JJH   
PDB (RSDB)4FRW    4GJT    4JJH   
Structural Biology KnowledgeBase4FRW    4GJT    4JJH   
SCOP (Structural Classification of Proteins)4FRW    4GJT    4JJH   
CATH (Classification of proteins structures)4FRW    4GJT    4JJH   
SuperfamilyQ96NY8
Human Protein AtlasENSG00000143217
Peptide AtlasQ96NY8
HPRD17934
IPIIPI00043992   IPI00910125   IPI00908560   
Protein Interaction databases
DIP (DOE-UCLA)Q96NY8
IntAct (EBI)Q96NY8
FunCoupENSG00000143217
BioGRIDNECTIN4
STRING (EMBL)NECTIN4
ZODIACNECTIN4
Ontologies - Pathways
QuickGOQ96NY8
Ontology : AmiGOvirus receptor activity  receptor activity  receptor binding  protein binding  plasma membrane  plasma membrane  integral component of plasma membrane  cell-cell adherens junction  cell-cell adherens junction  homophilic cell adhesion via plasma membrane adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  cell recognition  adherens junction organization  protein homodimerization activity  viral entry into host cell  cell adhesion molecule binding  extracellular exosome  
Ontology : EGO-EBIvirus receptor activity  receptor activity  receptor binding  protein binding  plasma membrane  plasma membrane  integral component of plasma membrane  cell-cell adherens junction  cell-cell adherens junction  homophilic cell adhesion via plasma membrane adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  cell recognition  adherens junction organization  protein homodimerization activity  viral entry into host cell  cell adhesion molecule binding  extracellular exosome  
NDEx NetworkNECTIN4
Atlas of Cancer Signalling NetworkNECTIN4
Wikipedia pathwaysNECTIN4
Orthology - Evolution
OrthoDB81607
GeneTree (enSembl)ENSG00000143217
Phylogenetic Trees/Animal Genes : TreeFamNECTIN4
HOVERGENQ96NY8
HOGENOMQ96NY8
Homologs : HomoloGeneNECTIN4
Homology/Alignments : Family Browser (UCSC)NECTIN4
Gene fusions - Rearrangements
Fusion : MitelmanUSP21/PVRL4 [1q23.3/1q23.3]  [t(1;1)(q23;q23)]  
Fusion: TCGAUSP21 1q23.3 PVRL4 1q23.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerNECTIN4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)NECTIN4
dbVarNECTIN4
ClinVarNECTIN4
1000_GenomesNECTIN4 
Exome Variant ServerNECTIN4
ExAC (Exome Aggregation Consortium)NECTIN4 (select the gene name)
Genetic variants : HAPMAP81607
Genomic Variants (DGV)NECTIN4 [DGVbeta]
DECIPHERNECTIN4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisNECTIN4 
Mutations
ICGC Data PortalNECTIN4 
TCGA Data PortalNECTIN4 
Broad Tumor PortalNECTIN4
OASIS PortalNECTIN4 [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDNECTIN4
BioMutasearch NECTIN4
DgiDB (Drug Gene Interaction Database)NECTIN4
DoCM (Curated mutations)NECTIN4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)NECTIN4 (select a term)
intoGenNECTIN4
NCG5 (London)NECTIN4
Cancer3DNECTIN4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609607    613573   
Orphanet19552   
MedgenNECTIN4
Genetic Testing Registry NECTIN4
NextProtQ96NY8 [Medical]
TSGene81607
GENETestsNECTIN4
Target ValidationNECTIN4
Huge Navigator NECTIN4 [HugePedia]
snp3D : Map Gene to Disease81607
BioCentury BCIQNECTIN4
ClinGenNECTIN4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD81607
Chemical/Pharm GKB GenePA134991624
Clinical trialNECTIN4
Miscellaneous
canSAR (ICR)NECTIN4 (select the gene name)
Probes
Litterature
PubMed40 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineNECTIN4
EVEXNECTIN4
GoPubMedNECTIN4
iHOPNECTIN4
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon May 22 09:21:06 CEST 2017

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