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CD5 CD5 molecule [ Homo sapiens (human) ]

Gene ID: 921, updated on 2-Nov-2024

Summary

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Official Symbol
CD5provided by HGNC
Official Full Name
CD5 moleculeprovided by HGNC
Primary source
HGNC:HGNC:1685
See related
Ensembl:ENSG00000110448 MIM:153340; AllianceGenome:HGNC:1685
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
T1; LEU1
Summary
This gene encodes a member of the scavenger receptor cysteine-rich (SRCR) superfamily. Members of this family are secreted or membrane-anchored proteins mainly found in cells associated with the immune system. This protein is a type-I transmembrane glycoprotein found on the surface of thymocytes, T lymphocytes and a subset of B lymphocytes. The encoded protein contains three SRCR domains and may act as a receptor to regulate T-cell proliferation. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Oct 2016]
Expression
Biased expression in lymph node (RPKM 19.1), appendix (RPKM 11.9) and 10 other tissues See more
Orthologs
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Genomic context

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See CD5 in Genome Data Viewer
Location:
11q12.2
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (61093963..61127852)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (61045145..61079346)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (60861435..60895324)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369325 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60824202-60824702 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:60828388-60829587 Neighboring gene long intergenic non-protein coding RNA 2954 Neighboring gene uncharacterized LOC124902677 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4792 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60859431-60860393 Neighboring gene Sharpr-MPRA regulatory region 3147/8872 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:60902229-60902744 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:60902745-60903260 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60904582-60905082 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60905083-60905583 Neighboring gene VPS37C subunit of ESCRT-I Neighboring gene H3K27ac hESC enhancers GRCh37_chr11:60928361-60928954 and GRCh37_chr11:60928955-60929547 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:60933107-60933784 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3386 Neighboring gene uncharacterized LOC124902678 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60960971-60961472 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:60961473-60961972

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

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Related articles in PubMed

  1. CD5-positive mucosa-associated lymphoid tissue (MALT) lymphoma: a clinicopathologic study of 14 cases. Jaso J, et al. Hum Pathol, 2012 Sep. PMID 22406370
  2. Selection of the alternative exon 1 from the cd5 gene down-regulates membrane level of the protein in B lymphocytes. Garaud S, et al. J Immunol, 2008 Aug 1. PMID 18641338
  3. The CD5 ectodomain interacts with conserved fungal cell wall components and protects from zymosan-induced septic shock-like syndrome. Vera J, et al. Proc Natl Acad Sci U S A, 2009 Feb 3. PMID 19141631, Free PMC Article
  4. Characteristics of CD5-positive splenic marginal zone lymphoma with leukemic manifestation ; clinical, flow cytometry, and histopathological findings of 11 cases. Kojima M, et al. J Clin Exp Hematop, 2010. PMID 21123968
  5. CD5 expression in B cells from patients with systemic lupus erythematosus. Youinou P, et al. Crit Rev Immunol, 2011. PMID 21395509

See all (118) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Expression of CD5 in salivary gland tumors: an ancillary marker for carcinoma showing thymus-like differentiation (CASTLE) of the major salivary gland.
    Title: Expression of CD5 in salivary gland tumors: an ancillary marker for carcinoma showing thymus-like differentiation (CASTLE) of the major salivary gland.
  2. CD5: from antiquated T cell marker to immunotherapy's new hope.
    Title: CD5: from antiquated T cell marker to immunotherapy's new hope.
  3. CD5 Suppresses IL-15-Induced Proliferation of Human Memory CD8(+) T Cells by Inhibiting mTOR Pathways.
    Title: CD5 Suppresses IL-15-Induced Proliferation of Human Memory CD8(+) T Cells by Inhibiting mTOR Pathways.
  4. Gene variation impact on prostate cancer progression: Lymphocyte modulator, activation, and cell adhesion gene variant contribution.
    Title: Gene variation impact on prostate cancer progression: Lymphocyte modulator, activation, and cell adhesion gene variant contribution.
  5. T cells expressing CD5/CD7 bispecific chimeric antigen receptors with fully human heavy-chain-only domains mitigate tumor antigen escape.
    Title: T cells expressing CD5/CD7 bispecific chimeric antigen receptors with fully human heavy-chain-only domains mitigate tumor antigen escape.
  6. 14-Color single tube for flow cytometric characterization of CD5+ B-LPDs and high sensitivity automated minimal residual disease quantitation of CLL/SLL.
    Title: 14-Color single tube for flow cytometric characterization of CD5+ B-LPDs and high sensitivity automated minimal residual disease quantitation of CLL/SLL.
  7. Clinical and biological features of B-cell neoplasms with CDK6 translocations: an association with a subgroup of splenic marginal zone lymphomas displaying frequent CD5 expression, prolymphocytic cells, and TP53 abnormalities.
    Title: Clinical and biological features of B-cell neoplasms with CDK6 translocations: an association with a subgroup of splenic marginal zone lymphomas displaying frequent CD5 expression, prolymphocytic cells, and TP53 abnormalities.
  8. Contribution of Evolutionary Selected Immune Gene Polymorphism to Immune-Related Disorders: The Case of Lymphocyte Scavenger Receptors CD5 and CD6.
    Title: Contribution of Evolutionary Selected Immune Gene Polymorphism to Immune-Related Disorders: The Case of Lymphocyte Scavenger Receptors CD5 and CD6.
  9. diffuse large B-cell lymphoma (DLBCL) patients with DECM showed significantly inferior clinical outcomes compared to the CD5(+), MYC(+) or CD5(-)MYC(-) patients. Combinational therapeutic modalities might be a candidate approach to improve the prognosis of these patients.
    Title: CD5(+)MYC(+) predicts worse prognosis in diffuse large B-cell lymphoma.
  10. Two different anti-CD5- chimeric antigen receptors with costimulators 4-1BB and 2B4 (referred to as BB.z-natural killer (NK) cells and 2B4.z-NK, respectively) were constructed. 2B4.z-NK cells exhibited rapid proliferation and higher anti-malignant efficacy in both malignant CD5+ cell lines and primary CD5+ malignant cells in vitro through upregulation of activation markers and cytotoxic granule release.
    Title: 2B4 costimulatory domain enhancing cytotoxic ability of anti-CD5 chimeric antigen receptor engineered natural killer cells against T cell malignancies.
Submit: New GeneRIF Correction See all GeneRIFs (79)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
EBI GWAS Catalog
Genetics of rheumatoid arthritis contributes to biology and drug discovery.
EBI GWAS Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of CD5 PubMed

Protein interactions

Protein Gene Interaction Pubs
Nef nef HIV-1 Nef impairs the generation of a CD3epsilon(+)CD5(+) CD1a(+) T cell differentiation precursor stage that initiates a D-J rearrangement of the TCRbeta locus PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables signaling receptor activity NAS
Non-traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in T cell costimulation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in apoptotic signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in cell recognition NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in external side of plasma membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
T-cell surface glycoprotein CD5
Names
CD5 antigen (p56-62)
epididymis secretory sperm binding protein
lymphocyte antigen T1/Leu-1

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_001346456.2 → NP_001333385.1  T-cell surface glycoprotein CD5 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains a distinct 5' UTR and lacks an in-frame portion of the 5' coding region, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, compared to isoform 1. This variant contains long terminal repeat (LTR) sequence and uses an alternate LTR promoter. The protein encoded lacks the leader peptide, compared to isoform 1 and represents an intracellular isoform found in a subset of B lymphocytes. (PMID: 15998834)
    Source sequence(s)
    AP000437, BC027901
    UniProtKB/TrEMBL
    H6D9U9

  2. NM_014207.4 → NP_055022.2  T-cell surface glycoprotein CD5 isoform 1 precursor

    See identical proteins and their annotated locations for NP_055022.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1). The protein encoded represents an isoform found on the surface of T lymphocytes, B lymphocytes and thymocytes.
    Source sequence(s)
    AK292698, AP000437, BC027901, DB143341, X04391
    Consensus CDS
    CCDS8000.1
    UniProtKB/Swiss-Prot
    A0N0P4, A8K9I3, P06127
    UniProtKB/TrEMBL
    A0A384ME09
    Related
    ENSP00000342681.3, ENST00000347785.8
    Conserved Domains (1) summary
    smart00202
    Location:36 → 133
    SR; Scavenger receptor Cys-rich

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    61093963..61127852
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    61045145..61079346
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P06127.2 GenPept UniProtKB/Swiss-Prot:P06127

Gene LinkOut

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