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

Gene ID: 27040, updated on 7-Jun-2020

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
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

Genomic context

See LAT in Genome Data Viewer
Location:
16p11.2
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (28984803..28990784)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (28996147..29002104)

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 sphingolipid transporter 1 (putative) Neighboring gene nuclear pore complex interacting protein family, member B10, pseudogene Neighboring gene RRN3 pseudogene 2 Neighboring gene uncharacterized LOC101928215

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
Immunodeficiency 52
MedGen: C4479588 OMIM: 617514 GeneReviews: Not available
Compare labs

NHGRI GWAS Catalog

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

Homology

Gene Ontology Provided by GOA

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

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
    ENSP00000378841.2, ENST00000395456.6
    Conserved Domains (1) summary
    pfam15234
    Location:1233
    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:1232
    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
    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: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

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