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ICAM3 intercellular adhesion molecule 3 [ Homo sapiens (human) ]

Gene ID: 3385, updated on 11-Apr-2024

Summary

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Official Symbol
ICAM3provided by HGNC
Official Full Name
intercellular adhesion molecule 3provided by HGNC
Primary source
HGNC:HGNC:5346
See related
Ensembl:ENSG00000076662 MIM:146631; AllianceGenome:HGNC:5346
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
CD50; CDW50; ICAM-R
Summary
The protein encoded by this gene is a member of the intercellular adhesion molecule (ICAM) family. All ICAM proteins are type I transmembrane glycoproteins, contain 2-9 immunoglobulin-like C2-type domains, and bind to the leukocyte adhesion LFA-1 protein. This protein is constitutively and abundantly expressed by all leucocytes and may be the most important ligand for LFA-1 in the initiation of the immune response. It functions not only as an adhesion molecule, but also as a potent signalling molecule. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Feb 2016]
Expression
Biased expression in bone marrow (RPKM 55.9), spleen (RPKM 28.5) and 12 other tissues See more
Orthologs
all
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Genomic context

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See ICAM3 in Genome Data Viewer
Location:
19p13.2
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (10333776..10339624, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (10459888..10465751, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (10444452..10450300, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene FDX2-ZGLP1 readthrough Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10064 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:10427579-10427770 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:10430834-10431047 Neighboring gene ferredoxin 2 Neighboring gene ribonucleoprotein, PTB binding 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10442682-10443598 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10443599-10444515 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10445230-10445848 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10448906-10449654 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13959 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13960 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10450403-10451150 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10451151-10451898 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:10463923-10464686 Neighboring gene tyrosine kinase 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10474734-10475234 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:10491214-10491877 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13962 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13963 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:10499431-10499931 Neighboring gene cell division cycle 37, HSP90 cochaperone Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10066 Neighboring gene microRNA 1181

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
  • 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. Functional evaluation of various ICAM3 transcript variants in diffuse large B-Cell lymphoma. Li L, et al. Leuk Lymphoma, 2022 Dec. PMID 35849332
  2. Association of Circulating ICAM3 Concentrations with Severity and Short-term Outcomes of Acute Ischemic Stroke. Zicheng H, et al. Neurotox Res, 2021 Aug. PMID 33999358
  3. Vascular injury biomarkers and stroke risk: A population-based study. Pletsch-Borba L, et al. Neurology, 2020 Jun 2. PMID 32371447
  4. Changes in the Surface Expression of Intercellular Adhesion Molecule 3, the Induction of Apoptosis, and the Inhibition of Cell-Cycle Progression of Human Multidrug-Resistant Jurkat/A4 Cells Exposed to a Random Positioning Machine. Sokolovskaya A, et al. Int J Mol Sci, 2020 Jan 28. PMID 32013031, Free PMC Article
  5. ICAM3 mediates inflammatory signaling to promote cancer cell stemness. Shen W, et al. Cancer Lett, 2018 May 28. PMID 29477378, Free PMC Article

See all (97) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Functional evaluation of various ICAM3 transcript variants in diffuse large B-Cell lymphoma.
    Title: Functional evaluation of various ICAM3 transcript variants in diffuse large B-Cell lymphoma.
  2. Association of Circulating ICAM3 Concentrations with Severity and Short-term Outcomes of Acute Ischemic Stroke.
    Title: Association of Circulating ICAM3 Concentrations with Severity and Short-term Outcomes of Acute Ischemic Stroke.
  3. Changes in the Surface Expression of Intercellular Adhesion Molecule 3, the Induction of Apoptosis, and the Inhibition of Cell-Cycle Progression of Human Multidrug-Resistant Jurkat/A4 Cells Exposed to a Random Positioning Machine.
    Title: Changes in the Surface Expression of Intercellular Adhesion Molecule 3, the Induction of Apoptosis, and the Inhibition of Cell-Cycle Progression of Human Multidrug-Resistant Jurkat/A4 Cells Exposed to a Random Positioning Machine.
  4. Vascular injury biomarkers and stroke risk: A population-based study.
    Title: Vascular injury biomarkers and stroke risk: A population-based study.
  5. we identify a potential CSC regulator and suggest a novel mechanism by which ICAM3 governs cancer cell stemness and inflammation.
    Title: ICAM3 mediates inflammatory signaling to promote cancer cell stemness.
  6. Lewis-antigen-containing ICAM-2/3 on Jurkat leukemia cells interact with DC-SIGN to regulate DC functions.
    Title: Lewis-antigen-containing ICAM-2/3 on Jurkat leukemia cells interact with DC-SIGN to regulate DC functions.
  7. exploration of the underlying mechanism demonstrated that ICAM3 not only binds to LFA-1 with its extracellular domain and structure protein ERM but also to lamellipodia with its intracellular domain which causes a tension that pulls cells apart (metastasis).
    Title: ICAM3 mediates tumor metastasis via a LFA-1-ICAM3-ERM dependent manner.
  8. Increased expression of PECAM-1, ICAM-3, and VCAM-1 in colonic biopsies from patients with inflammatory bowel disease (IBD) in clinical remission is associated with subsequent flares; this suggests that increases in the expression of these proteins may be early events that lead to flares in patients with IBD
    Title: Increased Cell Adhesion Molecules, PECAM-1, ICAM-3, or VCAM-1, Predict Increased Risk for Flare in Patients With Quiescent Inflammatory Bowel Disease.
  9. with larger patient groups and preferably detailed histopathological and clinical evaluations, are needed to explain the severity of ICAM-1, ICAM-2, and ICAM-3 molecules in Barrett's esophagus
    Title: Investigation of intercellular adhesion molecules (ICAMs) gene expressions in patients with Barrett's esophagus.
  10. ICAM3 acts as recognition receptors in the phagocytosis portals of macrophages for engulfment of apoptotic neutrophils.
    Title: Novel role of ICAM3 and LFA-1 in the clearance of apoptotic neutrophils by human macrophages.
Submit: New GeneRIF Correction See all GeneRIFs (44)

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
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
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)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env AM3 inhibits the interaction of DC-SIGN with ICAM3 and HIV-1 gp120 protein and blocks the DC-SIGN-dependent capture of HIV virions and the HIV trans-infection capability of DC-SIGN transfectants PubMed
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with ICAM3; predicted interaction to be relevant to viral egress at plasma membrane/extracellular matrix 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 integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables integrin binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables signaling receptor binding TAS
Traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-cell adhesion IEA
Inferred from Electronic Annotation
more info
  
involved_in phagocytosis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in extracellular exosome HDA PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
intercellular adhesion molecule 3
Names
ICAM-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_001320605.2 → NP_001307534.1  intercellular adhesion molecule 3 isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate internal exon, compared to variant 1. It encodes isoform 2 which is shorter than isoform 1.
    Source sequence(s)
    AC114271, AK226023, BC040123, CR982084
    UniProtKB/TrEMBL
    B2R736
    Conserved Domains (3) summary
    pfam03921
    Location:32 → 114
    ICAM_N; Intercellular adhesion molecule (ICAM), N-terminal domain
    pfam13895
    Location:221 → 300
    Ig_2; Immunoglobulin domain
    cl11960
    Location:117 → 211
    Ig; Immunoglobulin domain

  2. NM_001320606.2 → NP_001307535.1  intercellular adhesion molecule 3 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform 3 which is shorter than isoform 1.
    Source sequence(s)
    AK309643, BC040123, CR982084
    Consensus CDS
    CCDS82290.1
    UniProtKB/TrEMBL
    Q5NKU1
    Related
    ENST00000589261.5
    Conserved Domains (4) summary
    smart00410
    Location:343 → 399
    IG_like; Immunoglobulin like
    pfam03921
    Location:1 → 37
    ICAM_N; Intercellular adhesion molecule (ICAM), N-terminal domain
    pfam13895
    Location:240 → 319
    Ig_2; Immunoglobulin domain
    cl11960
    Location:40 → 134
    Ig; Immunoglobulin domain

  3. NM_001320608.2 → NP_001307537.1  intercellular adhesion molecule 3 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) retains an intron and initiates translation at a downstream start site, compared to variant 1. It encodes isoform 4 which is shorter than isoform 1.
    Source sequence(s)
    AC114271, BC034409, BC046121, CR982084
    Related
    ENST00000589900.5
    Conserved Domains (3) summary
    smart00410
    Location:159 → 215
    IG_like; Immunoglobulin like
    pfam13895
    Location:56 → 135
    Ig_2; Immunoglobulin domain
    cl11960
    Location:160 → 208
    Ig; Immunoglobulin domain

  4. NM_001395374.1 → NP_001382303.1  intercellular adhesion molecule 3 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AC114271
    Conserved Domains (1) summary
    cl11960
    Location:225 → 274
    Ig; Immunoglobulin domain

  5. NM_001395375.1 → NP_001382304.1  intercellular adhesion molecule 3 isoform 6

    Status: REVIEWED

    Source sequence(s)
    AC114271
    Related
    ENST00000706692.1
    Conserved Domains (1) summary
    cl11960
    Location:129 → 178
    Ig; Immunoglobulin domain

  6. NM_001395376.1 → NP_001382305.1  intercellular adhesion molecule 3 isoform 7

    Status: REVIEWED

    Source sequence(s)
    AC114271
    UniProtKB/TrEMBL
    A0A9L9PXS1
    Related
    ENSP00000516505.1, ENST00000706691.1
    Conserved Domains (1) summary
    cl11960
    Location:84 → 133
    Ig; Immunoglobulin domain

  7. NM_002162.5 → NP_002153.2  intercellular adhesion molecule 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_002153.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC114271, AK226023, BC040123, CR982084
    Consensus CDS
    CCDS12235.1
    UniProtKB/Swiss-Prot
    P32942, Q6PD68
    UniProtKB/TrEMBL
    B2R736
    Related
    ENSP00000160262.3, ENST00000160262.10
    Conserved Domains (4) summary
    pfam03921
    Location:32 → 114
    ICAM_N; Intercellular adhesion molecule (ICAM), N-terminal domain
    pfam13895
    Location:317 → 396
    Ig_2; Immunoglobulin domain
    cd00096
    Location:420 → 476
    Ig; Immunoglobulin domain
    cl11960
    Location:117 → 211
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    10333776..10339624 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    10459888..10465751 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P32942.2 GenPept UniProtKB/Swiss-Prot:P32942

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