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    CD58 CD58 molecule [ Homo sapiens ]

    Gene ID: 965, updated on 11-May-2012
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    Summary

    Official Symbol
    CD58provided by HGNC
    Official Full Name
    CD58 moleculeprovided by HGNC
    Primary source
    HGNC:1688
    Locus tag
    RP5-1086K13.2
    See related
    Ensembl:ENSG00000116815; HPRD:01081; MIM:153420; Vega:OTTHUMG00000022749
    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; FLJ23181; FLJ43722
    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]
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    Genomic context

    Location :
    1p13
    Sequence :
    Chromosome: 1; NC_000001.10 (117057156..117113715, complement)
    See CD58 in Epigenomics, MapViewer

    Chromosome 1 - NC_000001.10Genomic Context describing neighboring genes Neighboring gene ATPase, Na+/K+ transporting, alpha 1 polypeptide Neighboring gene ATP1A1 opposite strand Neighboring gene uncharacterized LOC100506459 Neighboring gene nucleosome assembly protein 1-like 4 pseudogene 1 Neighboring gene immunoglobulin superfamily, member 3 Neighboring gene microRNA 320b-1

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    Genomic regions, transcripts, and products

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details
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    Bibliography

    Related articles in PubMed

    1. Combined genetic inactivation of β2-Microglobulin and CD58 reveals frequent escape from immune recognition in diffuse large B cell lymphoma. Challa-Malladi M, et al. Cancer Cell, 2011 Dec 13. PMID 22137796.
    2. Lack of association between CD58 genetic variations and aspirin-exacerbated respiratory disease in a Korean population. Pasaje CF, et al. J Asthma, 2011 Aug. PMID 21726122.
    3. Association study of ITGAM, ITGAX, and CD58 autoimmune risk loci in systemic sclerosis: results from 2 large European Caucasian cohorts. Coustet B, et al. J Rheumatol, 2011 Jun. PMID 21362770.
    4. Modeling the cumulative genetic risk for multiple sclerosis from genome-wide association data. Wang JH, et al. Genome Med, 2011 Jan 18. PMID 21244703.
    5. Most common SNPs associated with rheumatoid arthritis in subjects of European ancestry confer risk of rheumatoid arthritis in African-Americans. Hughes LB, et al. Arthritis Rheum, 2010 Oct 22. PMID 20973039.

    See all (55) citations in PubMed

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. In 21 percent of diffuse large B cell lymphoma cases, lesions involve the CD58 gene, which encodes a molecule involved in T and natural killer cell-mediated responses
      Title: Combined genetic inactivation of β2-Microglobulin and CD58 reveals frequent escape from immune recognition in diffuse large B cell lymphoma.
    2. Two large cohorts of systemic sclerosis (SSc) patients of European Caucasian ancestry do not support the implication of ITGAM, ITGAX, and CD58 genes in the genetic susceptibility of SSc, although they were identified as autoimmune disease risk genes.
      Title: Association study of ITGAM, ITGAX, and CD58 autoimmune risk loci in systemic sclerosis: results from 2 large European Caucasian cohorts.
    3. Seven selected CD58 single-nucleotide polymorphisms were found to not affect aspirin-exacerbated respiratory disease susceptibility in a Korean population.
      Title: Lack of association between CD58 genetic variations and aspirin-exacerbated respiratory disease in a Korean population.
    4. Studies indicate that SNP in IL7RA, IL2RA, CD58 and CLEC16A genes has been consistently associated with MS.
      Title: The genetics of multiple sclerosis: an update 2010.
    5. Data show that coculture with activated T cells upregulated expression of CD54 and CD58 and secretion of galectin-1 by MSCs.
      Title: Modulated expression of adhesion molecules and galectin-1: role during mesenchymal stromal cell immunoregulatory functions.
    6. Studies indicate that five SNPs showed genome-wide significant association with MS: HLA-DRA, IL7R, IL2RA, CD58 and CLEC16A.
      Title: Replication of CD58 and CLEC16A as genome-wide significant risk genes for multiple sclerosis.
    7. Genetic variants at CD58, is associated with rheumatoid arthritis risk
      Title: Genetic variants at CD28, PRDM1 and CD2/CD58 are associated with rheumatoid arthritis risk.
    8. Observational study of gene-disease association and gene-gene interaction. (HuGE Navigator)
      Title: Integration of genetic risk factors into a clinical algorithm for multiple sclerosis susceptibility: a weighted genetic risk score.
    9. Observational study and meta-analysis of gene-disease association. (HuGE Navigator)
      Title: Replication of CD58 and CLEC16A as genome-wide significant risk genes for multiple sclerosis.
    10. Susceptibility gene for multiple sclerosis in Australians.
      Title: Replication of KIAA0350, IL2RA, RPL5 and CD58 as multiple sclerosis susceptibility genes in Australians.
    Submit: New GeneRIF Correction See all (24)
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    Phenotypes

    Review eQTL and phenotype association data in this region using PheGenI

    Genome-wide association study identifies new multiple sclerosis susceptibility loci on chromosomes 12 and 20.

    Meta-analysis of genome scans and replication identify CD6, IRF8 and TNFRSF1A as new multiple sclerosis susceptibility loci.

    Modeling the cumulative genetic risk for multiple sclerosis from genome-wide association data.

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    HIV-1 protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 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
    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
    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 Protein Interaction Database

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    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    P19256 P06729 CD2    HPRD  PubMed  
    P19256 P31689 DNAJA1    HPRD  PubMed  
    P19256 Q15011 HERPUD1    HPRD  PubMed  
    BioGRID:107403 BioGRID:107352 CD2    BioGRID  PubMed Co-crystal Structure 
    BioGRID:107403 BioGRID:109534 DNAJA1    BioGRID  PubMed Two-hybrid 
    BioGRID:107403 BioGRID:115060 HERPUD1    BioGRID  PubMed Two-hybrid 
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    General gene information

    Markers

    Genotypes

    Pathways from BioSystems

    • Cell adhesion molecules (CAMs), organism-specific biosystem (from KEGG)
      Cell adhesion molecules (CAMs), organism-specific biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
    • Cell adhesion molecules (CAMs), conserved biosystem (from KEGG)
      Cell adhesion molecules (CAMs), conserved biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
    • Cell surface interactions at the vascular wall, organism-specific biosystem (from REACTOME)
      Cell surface interactions at the vascular wall, organism-specific biosystemLeukocyte extravasation is a rigorously controlled process that guides white cell movement from the vascular lumen to sites of tissue inflammation. The powerful adhesive interactions that are require...
    • Epstein-Barr virus infection, organism-specific biosystem (from KEGG)
      Epstein-Barr virus infection, organism-specific biosystemEpstein-Barr virus (EBV) is a ubiquitous human herpesvirus that is associated with oncogenesis. EBV infection to primary human B lymphocytes leads to induction of EBV-specific HLA-restricted cytotoxi...
    • Epstein-Barr virus infection, conserved biosystem (from KEGG)
      Epstein-Barr virus infection, conserved biosystemEpstein-Barr virus (EBV) is a ubiquitous human herpesvirus that is associated with oncogenesis. EBV infection to primary human B lymphocytes leads to induction of EBV-specific HLA-restricted cytotoxi...
    • Hemostasis, organism-specific biosystem (from REACTOME)
      Hemostasis, organism-specific biosystemHemostasis is a physiological response that culminates in the arrest of bleeding from an injured vessel. Under normal conditions the vascular endothelium supports vasodilation, inhibits platelet adhe...

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    blood coagulation TAS
    Traceable Author Statement
    more info
    		  
    cell adhesion NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    cell-cell adhesion NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    leukocyte migration TAS
    Traceable Author Statement
    more info
    		  
    Component Evidence Code Pubs
    anchored to membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    integral to plasma membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    plasma membrane TAS
    Traceable Author Statement
    more info
    		  
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    General protein information

    Preferred Names
    lymphocyte function-associated antigen 3
    Names
    lymphocyte function-associated antigen 3
    surface glycoprotein LFA-3
    CD58 antigen, (lymphocyte function-associated antigen 3)
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    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_001144822.1 → NP_001138294.1  lymphocyte function-associated antigen 3 isoform 2

      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, AL355794
      Consensus CDS
      CCDS44199.1
      UniProtKB/Swiss-Prot
      P19256
      Related
      ENSP00000409080, OTTHUMP00000231923, ENST00000457047, OTTHUMT00000387905
      Conserved Domains (1) summary
      cd05741
      Location:39 – 120
      Blast Score: 170
      Ig_CEACAM_D1_like; First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) and similar proteins

    2. NM_001779.2 → NP_001770.1  lymphocyte function-associated antigen 3 isoform 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, OTTHUMP00000024363, ENST00000369489, OTTHUMT00000059036
      Conserved Domains (1) summary
      cd05741
      Location:39 – 120
      Blast Score: 169
      Ig_CEACAM_D1_like; First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) and similar proteins

    RNA

    1. NR_026665.1 RNA Sequence

      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: Build 37.3

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

    Reference GRCh37.p5 Primary Assembly

    Genomic

    1. NC_000001.10 Reference GRCh37.p5 Primary Assembly

      Range
      117057156..117113715, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000133.1 Alternate HuRef

      Range
      114916575..114973314, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic AL355794.5 CAI22762.1
      CAI22764.1
    genomic AL390066.5 CAI19099.1
      CAI19101.1
    genomic CH471122.1 EAW56652.1
      EAW56653.1
      EAW56654.1
      EAW56655.1
      EAW56656.1
    genomic CS278854.1 CAJ86521.1
    genomic HH979247.1 CBX51827.1
    genomic Y14780.1 CAA75083.1
      CAA75084.1
    mRNA AK125710.1 None
    mRNA AK291980.1 BAF84669.1
    mRNA BC005930.1 AAH05930.1
    mRNA BT019816.1 AAV38619.1
    mRNA BT019817.1 AAV38620.1
    mRNA CA312671.1 None
    mRNA CD365881.1 None
    mRNA CR456939.1 CAG33220.1
    mRNA D28586.1 BAA05922.1
    mRNA S79616.1 AAB40000.2
    mRNA X06296.1 CAA29622.1
    mRNA Y00636.1 CAA68668.1
    Protein Accession Links
    GenPept Link UniProtKB Link
    P19256.1 GenPept UniProtKB/Swiss-Prot:P19256
    Q14748 GenPept UniProtKB/TrEMBL:Q14748
    Q16393 GenPept UniProtKB/TrEMBL:Q16393
    Q9BRW0 GenPept UniProtKB/TrEMBL:Q9BRW0
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    Additional Links

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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