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NECTIN2 nectin cell adhesion molecule 2 [ Homo sapiens (human) ]

Gene ID: 5819, updated on 4-Dec-2022

Summary

Official Symbol
NECTIN2provided by HGNC
Official Full Name
nectin cell adhesion molecule 2provided by HGNC
Primary source
HGNC:HGNC:9707
See related
Ensembl:ENSG00000130202 MIM:600798; AllianceGenome:HGNC:9707
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
HVEB; PRR2; CD112; PVRL2; PVRR2
Summary
This gene encodes a single-pass type I membrane glycoprotein with two Ig-like C2-type domains and an Ig-like V-type domain. This protein is one of the plasma membrane components of adherens junctions. It also serves as an entry for certain mutant strains of herpes simplex virus and pseudorabies virus, and it is involved in cell to cell spreading of these viruses. Variations in this gene have been associated with differences in the severity of multiple sclerosis. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in placenta (RPKM 24.8), testis (RPKM 23.6) and 25 other tissues See more
Orthologs
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Genomic context

See NECTIN2 in Genome Data Viewer
Location:
19q13.32
Exon count:
10
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (44846297..44889223)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (47671015..47713944)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (45349554..45392480)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene Cbl proto-oncogene C Neighboring gene basal cell adhesion molecule (Lutheran blood group) Neighboring gene translocase of outer mitochondrial membrane 40 Neighboring gene apolipoprotein E

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
A comprehensive genetic association study of Alzheimer disease in African Americans.
EBI GWAS Catalog
A genome-wide association study for late-onset Alzheimer's disease using DNA pooling.
EBI GWAS Catalog
APOE and BCHE as modulators of cerebral amyloid deposition: a florbetapir PET genome-wide association study.
EBI GWAS Catalog
Dementia revealed: novel chromosome 6 locus for late-onset Alzheimer disease provides genetic evidence for folate-pathway abnormalities.
EBI GWAS Catalog
Gene-environment interactions and obesity traits among postmenopausal African-American and Hispanic women in the Women's Health Initiative SHARe Study.
EBI GWAS Catalog
Genome-wide association analysis of age-at-onset in Alzheimer's disease.
EBI GWAS Catalog
Insights into the genetic architecture of early stage age-related macular degeneration: a genome-wide association study meta-analysis.
EBI GWAS Catalog
Large-scale genome-wide association studies in East Asians identify new genetic loci influencing metabolic traits.
EBI GWAS Catalog
Overrepresentation of glutamate signaling in Alzheimer's disease: network-based pathway enrichment using meta-analysis of genome-wide association studies.
EBI GWAS Catalog
SORL1 is genetically associated with late-onset Alzheimer's disease in Japanese, Koreans and Caucasians.
EBI GWAS Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cell adhesion molecule binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables cell adhesion molecule binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables coreceptor activity TAS
Traceable Author Statement
more info
PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein homodimerization activity IEA
Inferred from Electronic Annotation
more info
 
enables virus receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in acrosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in adhesion of symbiont to host IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cell part morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in cilium organization IEA
Inferred from Electronic Annotation
more info
 
involved_in coreceptor-mediated virion attachment to host cell IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in coreceptor-mediated virion attachment to host cell IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cytoskeleton organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in establishment of localization in cell IEA
Inferred from Electronic Annotation
more info
 
involved_in establishment of mitochondrion localization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in fertilization IEA
Inferred from Electronic Annotation
more info
 
involved_in fusion of virus membrane with host plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in fusion of virus membrane with host plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of T cell receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of T cell receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of immunoglobulin mediated immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of immunoglobulin mediated immune response IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of mast cell activation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of mast cell activation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of natural killer cell mediated cytotoxicity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of viral entry into host cell IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of viral entry into host cell IDA
Inferred from Direct Assay
more info
PubMed 
involved_in sperm mitochondrion organization IEA
Inferred from Electronic Annotation
more info
 
involved_in spermatid development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in spermatid nucleus differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in susceptibility to T cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in susceptibility to T cell mediated cytotoxicity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in susceptibility to natural killer cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in susceptibility to natural killer cell mediated cytotoxicity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in viral entry into host cell IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in apical junction complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cell surface IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell-cell contact zone IEA
Inferred from Electronic Annotation
more info
 
located_in cell-cell junction IDA
Inferred from Direct Assay
more info
PubMed 
located_in extracellular exosome HDA PubMed 
located_in focal adhesion HDA PubMed 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in membrane IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in zonula adherens ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 

General protein information

Preferred Names
nectin-2
Names
herpesvirus entry protein B
poliovirus receptor-like 2
poliovirus receptor-related 2 (herpesvirus entry mediator B)

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_029149.1 RefSeqGene

    Range
    5162..48088
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001042724.2NP_001036189.1  nectin-2 isoform delta precursor

    See identical proteins and their annotated locations for NP_001036189.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (delta) represents the longer transcript and encodes the longer isoform (delta).
    Source sequence(s)
    AJ708439, CN359643, CN410857, X80038
    Consensus CDS
    CCDS42576.1
    UniProtKB/Swiss-Prot
    Q92692, Q96J29
    Related
    ENSP00000252483.4, ENST00000252483.10
    Conserved Domains (3) summary
    smart00410
    Location:40158
    IG_like; Immunoglobulin like
    pfam13927
    Location:280333
    Ig_3; Immunoglobulin domain
    cl11960
    Location:162257
    Ig; Immunoglobulin domain
  2. NM_002856.3NP_002847.1  nectin-2 isoform alpha precursor

    See identical proteins and their annotated locations for NP_002847.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (alpha) has multiple differences in the coding region, compared to variant delta, one of which results in an early stop codon. The resulting protein (isoform alpha) has a distinct C-terminus and is shorter than isoform delta.
    Source sequence(s)
    AF058448, DA198252
    Consensus CDS
    CCDS12645.1
    UniProtKB/Swiss-Prot
    Q92692
    Related
    ENSP00000252485.3, ENST00000252485.8
    Conserved Domains (2) summary
    pfam13927
    Location:260333
    Ig_3; Immunoglobulin domain
    cl11960
    Location:162257
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    44846297..44889223
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047439169.1XP_047295125.1  nectin-2 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    47671015..47713944
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)