U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    LAT linker for activation of T cells [ Homo sapiens (human) ]

    Gene ID: 27040, updated on 18-May-2023

    Summary

    Official Symbol
    LATprovided by HGNC
    Official Full Name
    linker for activation of T cellsprovided by HGNC
    Primary source
    HGNC:HGNC:18874
    See related
    Ensembl:ENSG00000213658 MIM:602354; AllianceGenome:HGNC:18874
    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
    LAT1; pp36; IMD52
    Summary
    The protein encoded by this gene is phosphorylated by ZAP-70/Syk protein tyrosine kinases following activation of the T-cell antigen receptor (TCR) signal transduction pathway. This transmembrane protein localizes to lipid rafts and acts as a docking site for SH2 domain-containing proteins. Upon phosphorylation, this protein recruits multiple adaptor proteins and downstream signaling molecules into multimolecular signaling complexes located near the site of TCR engagement. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in lymph node (RPKM 29.3), appendix (RPKM 13.0) and 19 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See LAT in Genome Data Viewer
    Location:
    16p11.2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2023_03 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (28984803..28990784)
    RS_2023_03 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (29265918..29271899)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (28996124..29002105)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene nuclear factor of activated T cells 2 interacting protein Neighboring gene microRNA 4517 Neighboring gene SPNS lysolipid transporter 1, lysophospholipid Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29036345-29036846 Neighboring gene nuclear pore complex interacting protein family, member B10, pseudogene

    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

    Associated conditions

    Description Tests
    Severe combined immunodeficiency due to LAT deficiency
    MedGen: C4479588 OMIM: 617514 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Common genetic variants associated with cognitive performance identified using the proxy-phenotype method.
    EBI GWAS Catalog
    Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Lck is recuited to a virological synapse (VS) interface and is highly colocalized with gp120 when cells interact with gp120+ICAM-1 bilayers, leading to activate ZAP70, LAT, SLP76, and PLCgamma PubMed
    Nef nef HIV-1 Nef inhibits expression of the LAT protein and its recruitment to SLP76-containing microclusters (MCs) PubMed
    nef HIV-1 Nef induces localization of LAT mainly from the plasma membrane to the intracellular membrane compartment PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Potential readthrough

    Included gene: SPIN1

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables signaling receptor complex adaptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in Ras protein signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in T cell activation TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in T cell receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in calcium-mediated signaling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in immune response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in integrin-mediated signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in intracellular signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in intracellular signal transduction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in lymphocyte homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mast cell degranulation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of protein kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of protein kinase activity IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in regulation of T cell activation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of T cell activation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of COP9 signalosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
     
    located_in cell-cell junction IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in immunological synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in immunological synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane raft TAS
    Traceable Author Statement
    more info
    PubMed 
    is_active_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    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

    Preferred Names
    linker for activation of T-cells family member 1
    Names
    36 kDa phospho-tyrosine adapter protein
    36 kDa phospho-tyrosine adaptor protein
    linker for activation of T cells, transmembrane adaptor
    p36-38

    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.

    mRNA and Protein(s)

    1. NM_001014987.2NP_001014987.1  linker for activation of T-cells family member 1 isoform b

      See identical proteins and their annotated locations for NP_001014987.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 4. The resulting isoform (b) is shorter at the N-terminus compared to isoform d.
      Source sequence(s)
      AC109460, AJ223280, BC011563, BI769296
      Consensus CDS
      CCDS32425.1
      UniProtKB/Swiss-Prot
      O43561
      Related
      ENSP00000378841.3, ENST00000395456.7
      Conserved Domains (1) summary
      pfam15234
      Location:1229
      LAT; Linker for activation of T-cells
    2. NM_001014988.2NP_001014988.1  linker for activation of T-cells family member 1 isoform c

      See identical proteins and their annotated locations for NP_001014988.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence and uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 4. The resulting isoform (c) is shorter at the N- terminus and lacks an internal aa compared to isoform d.
      Source sequence(s)
      AC109460, AJ223280, BC011563, BI769296, BI911769
      Consensus CDS
      CCDS45455.1
      UniProtKB/Swiss-Prot
      O43561
      Related
      ENSP00000398793.2, ENST00000454369.6
      Conserved Domains (1) summary
      pfam15234
      Location:1228
      LAT; Linker for activation of T-cells
    3. NM_001014989.2NP_001014989.2  linker for activation of T-cells family member 1 isoform d

      See identical proteins and their annotated locations for NP_001014989.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) encodes the longest isoform (d).
      Source sequence(s)
      AC109460, BC011563
      Consensus CDS
      CCDS53999.1
      UniProtKB/Swiss-Prot
      O43561
      Related
      ENSP00000378845.3, ENST00000395461.7
      Conserved Domains (1) summary
      pfam15234
      Location:37269
      LAT; Linker for activation of T-cells
    4. NM_014387.4NP_055202.1  linker for activation of T-cells family member 1 isoform a

      See identical proteins and their annotated locations for NP_055202.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR and coding sequence and contains an internal in-frame segment compared to variant 4. The resulting isoform (a) is shorter at the N-terminus and contains an internal segment compared to isoform d.
      Source sequence(s)
      AC109460, AF036906, AJ223280, BC011563, BI769296
      Consensus CDS
      CCDS10647.1
      UniProtKB/Swiss-Prot
      O43561, O43919
      UniProtKB/TrEMBL
      A0A024QZD6
      Related
      ENSP00000354119.5, ENST00000360872.9
      Conserved Domains (1) summary
      pfam15234
      Location:1262
      LAT; Linker for activation of T-cells

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_03

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      28984803..28990784
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      29265918..29271899
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)