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CD58 CD58 molecule [ Homo sapiens (human) ]

Gene ID: 965, updated on 8-Jul-2021

Summary

Official Symbol
CD58provided by HGNC
Official Full Name
CD58 moleculeprovided by HGNC
Primary source
HGNC:HGNC:1688
See related
Ensembl:ENSG00000116815 MIM:153420
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
ag3; LFA3; LFA-3
Summary
This gene encodes a member of the immunoglobulin superfamily. The encoded protein is a ligand of the T lymphocyte CD2 protein, and functions in adhesion and activation of T lymphocytes. The protein is localized to the plasma membrane. Alternatively spliced transcript variants have been described. [provided by RefSeq, Jan 2009]
Expression
Low expression observed in reference dataset See more
Orthologs
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Genomic context

See CD58 in Genome Data Viewer
Location:
1p13.1
Exon count:
7
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (116500390..116571037, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (117057156..117113648, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATP1A1 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 13778 Neighboring gene long intergenic non-protein coding RNA 1762 Neighboring gene HNF1 motif-containing MPRA enhancer 99 Neighboring gene uncharacterized LOC112268235 Neighboring gene CRISPRi-validated cis-regulatory element chr1.8038 Neighboring gene Sharpr-MPRA regulatory region 12485 Neighboring gene uncharacterized LOC105378925 Neighboring gene nucleosome assembly protein 1 like 4 pseudogene 1 Neighboring gene microRNA 548ac Neighboring gene uncharacterized LOC105378924 Neighboring gene immunoglobulin superfamily member 3 Neighboring gene microRNA 320b-1

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
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
GeneReviews: Not available
Genome-wide association study identifies new multiple sclerosis susceptibility loci on chromosomes 12 and 20.
GeneReviews: Not available
Genome-wide meta-analysis identifies novel multiple sclerosis susceptibility loci.
GeneReviews: Not available
Meta-analysis of genome scans and replication identify CD6, IRF8 and TNFRSF1A as new multiple sclerosis susceptibility loci.
GeneReviews: Not available
Modeling the cumulative genetic risk for multiple sclerosis from genome-wide association data.
GeneReviews: Not available

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Molecular interactions of CD2 with LFA-3 and CD28 with B7-1 in conjunction with TCR occupancy prevent T cells from programmed apoptosis mediated by binding of CD4 to HIV-1 gp120, resulting in increased levels of IL-2 and IL-4 secretion from the T cells PubMed
env Antibodies to LFA-3 block the early stages of HIV-1 infection by cell-free virus following HIV-1 gp120 binding to CD4 PubMed
Nef nef B lymphocytes exposed to supernatants from HIV-1 Nef-expressing macrophages have upregulated expression of receptors CD22, CD54, and CD58 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

Homology

Clone Names

  • FLJ23181, FLJ43722

General protein information

Preferred Names
lymphocyte function-associated antigen 3
Names
CD58 antigen, (lymphocyte function-associated antigen 3)
surface glycoprotein LFA-3

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.

mRNA and Protein(s)

  1. NM_001144822.2NP_001138294.1  lymphocyte function-associated antigen 3 isoform 2

    See identical proteins and their annotated locations for NP_001138294.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) includes an alternate segment in the 3' coding region compared to variant 1 that causes a frameshift. The resulting protein (isoform 2) has a distinct C-terminus, compared to isoform 1. This variant (2) also contains a unique 3' UTR compared to variant 1.
    Source sequence(s)
    AK291980
    Consensus CDS
    CCDS44199.1
    UniProtKB/Swiss-Prot
    P19256
    Related
    ENSP00000409080.2, ENST00000457047.6
    Conserved Domains (1) summary
    cd05741
    Location:39120
    Ig_CEACAM_D1_like; First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) and similar proteins
  2. NM_001779.3NP_001770.1  lymphocyte function-associated antigen 3 isoform 1

    See identical proteins and their annotated locations for NP_001770.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shortest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL355794, CA312671, Y00636
    Consensus CDS
    CCDS888.1
    UniProtKB/Swiss-Prot
    P19256
    Related
    ENSP00000358501.5, ENST00000369489.10
    Conserved Domains (1) summary
    cd05741
    Location:39120
    Ig_CEACAM_D1_like; First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) and similar proteins

RNA

  1. NR_026665.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL355794, CD365881, X06296

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    116500390..116571037 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017002869.2XP_016858358.1  lymphocyte function-associated antigen 3 isoform X1

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