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NECTIN4 nectin cell adhesion molecule 4 [ Homo sapiens (human) ]

Gene ID: 81607, updated on 2-Nov-2024

Summary

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Official Symbol
NECTIN4provided by HGNC
Official Full Name
nectin cell adhesion molecule 4provided by HGNC
Primary source
HGNC:HGNC:19688
See related
Ensembl:ENSG00000143217 MIM:609607; AllianceGenome:HGNC:19688
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LNIR; PRR4; EDSS1; PVRL4; nectin-4
Summary
This gene encodes a member of the nectin family. The encoded protein contains two immunoglobulin-like (Ig-like) C2-type domains and one Ig-like V-type domain. It is involved in cell adhesion through trans-homophilic and -heterophilic interactions. It is a single-pass type I membrane protein. The soluble form is produced by proteolytic cleavage at the cell surface by the metalloproteinase ADAM17/TACE. The secreted form is found in both breast tumor cell lines and breast tumor patients. Mutations in this gene are the cause of ectodermal dysplasia-syndactyly syndrome type 1, an autosomal recessive disorder. Alternatively spliced transcript variants have been found but the full-length nature of the variant has not been determined.[provided by RefSeq, Jan 2011]
Expression
Biased expression in skin (RPKM 30.6), esophagus (RPKM 23.7) and 7 other tissues See more
Orthologs
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Genomic context

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See NECTIN4 in Genome Data Viewer
Location:
1q23.3
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (161070998..161089558, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (160208489..160227037, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (161040788..161059348, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1971 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1972 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:161015335-161016534 Neighboring gene upstream transcription factor 1 Neighboring gene Rho GTPase activating protein 30 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161038974-161039520 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1974 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161044543-161045219 Neighboring gene NECTIN4 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1975 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1466 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1467 Neighboring gene kelch domain containing 9 Neighboring gene prefoldin subunit 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1976 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:161087283-161088263

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Nectin-4: a new prognostic biomarker for efficient therapeutic targeting of primary and metastatic triple-negative breast cancer. M-Rabet M, et al. Ann Oncol, 2017 Apr 1. PMID 27998973
  2. Genetic variants in NECTIN4 encoding an adhesion molecule are associated with continued opioid use. Fang CP, et al. PLoS One, 2020. PMID 32555608, Free PMC Article
  3. Nectin-4 is a new histological and serological tumor associated marker for breast cancer. Fabre-Lafay S, et al. BMC Cancer, 2007 May 2. PMID 17474988, Free PMC Article
  4. Identification of nectin-4 oncoprotein as a diagnostic and therapeutic target for lung cancer. Takano A, et al. Cancer Res, 2009 Aug 15. PMID 19679554
  5. The Prognostic Role of Expression of Nectin-4 in Esophageal Cancer. Lin X, et al. Med Sci Monit, 2019 Dec 28. PMID 31883369, Free PMC Article

See all (89) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A Specificity Protein 1 assists the Progression of the Papillary Thyroid Cell Line by Initiating NECTIN4.
    Title: A Specificity Protein 1 assists the Progression of the Papillary Thyroid Cell Line by Initiating NECTIN4.
  2. Molecular Crosstalk Between Adherens Junction Proteins, E-cadherin and Nectin-4.
    Title: Molecular Crosstalk Between Adherens Junction Proteins, E-cadherin and Nectin-4.
  3. Nectin cell adhesion molecule-4 (NECTIN-4): A potential target for cancer therapy.
    Title: Nectin cell adhesion molecule-4 (NECTIN-4): A potential target for cancer therapy.
  4. Associations of TACSTD2/TROP2 and NECTIN-4/NECTIN-4 with molecular subtypes, PD-L1 expression, and FGFR3 mutational status in two advanced urothelial bladder cancer cohorts.
    Title: Associations of TACSTD2/TROP2 and NECTIN-4/NECTIN-4 with molecular subtypes, PD-L1 expression, and FGFR3 mutational status in two advanced urothelial bladder cancer cohorts.
  5. Expression of PVRL4, a molecular target for cancer treatment, is transcriptionally regulated by FOS.
    Title: Expression of PVRL4, a molecular target for cancer treatment, is transcriptionally regulated by FOS.
  6. Nectin-4 regulates cellular senescence-associated enlargement of cell size.
    Title: Nectin-4 regulates cellular senescence-associated enlargement of cell size.
  7. A Recurrent Nonsense Mutation in NECTIN4 Underlying Ectodermal Dysplasia-Syndactyly Syndrome with a Novel Phenotype in a Consanguineous Kashmiri Family.
    Title: A Recurrent Nonsense Mutation in NECTIN4 Underlying Ectodermal Dysplasia-Syndactyly Syndrome with a Novel Phenotype in a Consanguineous Kashmiri Family.
  8. A novel homozygous nonsense mutation in NECTIN4 gene in a Pakistani family with ectodermal dysplasia syndactyly syndrome 1.
    Title: A novel homozygous nonsense mutation in NECTIN4 gene in a Pakistani family with ectodermal dysplasia syndactyly syndrome 1.
  9. Trop-2 and Nectin-4 immunohistochemical expression in metastatic colorectal cancer: searching for the right population for drugs' development.
    Title: Trop-2 and Nectin-4 immunohistochemical expression in metastatic colorectal cancer: searching for the right population for drugs' development.
  10. Immunohistochemical Analysis of HER2, EGFR, and Nectin-4 Expression in Upper Urinary Tract Urothelial Carcinoma.
    Title: Immunohistochemical Analysis of HER2, EGFR, and Nectin-4 Expression in Upper Urinary Tract Urothelial Carcinoma.
Submit: New GeneRIF Correction See all GeneRIFs (71)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description Tests
Ectodermal dysplasia-syndactyly syndrome 1
MedGen: C3150807 OMIM: 613573 GeneReviews: Not available
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Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • DKFZp686K05193

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables virus receptor activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in symbiont entry into host cell IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in adherens junction IDA
Inferred from Direct Assay
more info
 PubMed 
located_in extracellular exosome HDA PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
nectin-4
Names
Ig superfamily receptor LNIR
nectin 4
poliovirus receptor-related 4
poliovirus receptor-related protein 4

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_028109.1 RefSeqGene

    Range
    5038..23598
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_030916.3 → NP_112178.2  nectin-4 precursor

    See identical proteins and their annotated locations for NP_112178.2

    Status: REVIEWED

    Source sequence(s)
    BC010423, BC013892, CF529301, DB223835
    Consensus CDS
    CCDS1216.1
    UniProtKB/Swiss-Prot
    B4DQW3, Q96K15, Q96NY8
    UniProtKB/TrEMBL
    K4PZ75
    Related
    ENSP00000356991.3, ENST00000368012.4
    Conserved Domains (3) summary
    cd00096
    Location:266 → 329
    Ig; Immunoglobulin domain
    cd05888
    Location:38 → 146
    IgV_1_Nectin-4_like; First immunoglobulin (Ig) domain of nectin-4, and similar domains
    cd07704
    Location:149 → 242
    IgC1_2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 and nectin-4 (poliovirus receptor related protein 4), and similar domains; member of the C1-set of Ig superfamily (IgSF) domains

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    161070998..161089558 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005245508.4 → XP_005245565.1  nectin-4 isoform X3

    See identical proteins and their annotated locations for XP_005245565.1

    Conserved Domains (3) summary
    cd05888
    Location:46 → 146
    Ig1_Nectin-4_like; Frst immunoglobulin (Ig) domain of nectin-4 (also known as poliovirus receptor related protein 4, or as LNIR receptor) and similar proteins
    cd00096
    Location:266 → 329
    Ig; Immunoglobulin domain
    cd07704
    Location:149 → 242
    Ig2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3), nectin-4 (poliovirus receptor related protein 4) and similar proteins

  2. XM_047431288.1 → XP_047287244.1  nectin-4 isoform X4

  3. XM_011510022.3 → XP_011508324.1  nectin-4 isoform X2

    Conserved Domains (4) summary
    cd05888
    Location:46 → 146
    Ig1_Nectin-4_like; Frst immunoglobulin (Ig) domain of nectin-4 (also known as poliovirus receptor related protein 4, or as LNIR receptor) and similar proteins
    cd07704
    Location:149 → 242
    Ig2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3), nectin-4 (poliovirus receptor related protein 4) and similar proteins
    smart00408
    Location:268 → 320
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:259 → 332
    IG_like; Immunoglobulin like

  4. XM_011510021.3 → XP_011508323.1  nectin-4 isoform X1

    See identical proteins and their annotated locations for XP_011508323.1

    Conserved Domains (4) summary
    cd05888
    Location:46 → 146
    Ig1_Nectin-4_like; Frst immunoglobulin (Ig) domain of nectin-4 (also known as poliovirus receptor related protein 4, or as LNIR receptor) and similar proteins
    cd07704
    Location:149 → 242
    Ig2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3), nectin-4 (poliovirus receptor related protein 4) and similar proteins
    smart00408
    Location:268 → 320
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:259 → 332
    IG_like; Immunoglobulin like

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    160208489..160227037 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054338911.1 → XP_054194886.1  nectin-4 isoform X3

  2. XM_054338912.1 → XP_054194887.1  nectin-4 isoform X4

  3. XM_054338910.1 → XP_054194885.1  nectin-4 isoform X2

  4. XM_054338909.1 → XP_054194884.1  nectin-4 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96NY8.1 GenPept UniProtKB/Swiss-Prot:Q96NY8

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