ICAM3 Gene (Protein Coding)

Intercellular Adhesion Molecule 3

GC19M010335
GIFtS:
43
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 ... See more...

Aliases for ICAM3 Gene

Aliases for ICAM3 Gene

  • Intercellular Adhesion Molecule 3 2 3 4 5
  • ICAM-3 3 4
  • ICAM-R 3 4
  • CD50 Antigen 4
  • CDW50 3
  • CDw50 4
  • CD50 3

External Ids for ICAM3 Gene

Previous GeneCards Identifiers for ICAM3 Gene

  • GC19M010565
  • GC19M010667
  • GC19M010289
  • GC19M010305
  • GC19M010444
  • GC19M010024

Summaries for ICAM3 Gene

Entrez Gene Summary for ICAM3 Gene

  • 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]

GeneCards Summary for ICAM3 Gene

ICAM3 (Intercellular Adhesion Molecule 3) is a Protein Coding gene. Diseases associated with ICAM3 include Tick-Borne Encephalitis and Severe Acute Respiratory Syndrome. Among its related pathways are Class I MHC mediated antigen processing and presentation and CLEC7A (Dectin-1) signaling. Gene Ontology (GO) annotations related to this gene include signaling receptor binding and integrin binding. An important paralog of this gene is ICAM5.

UniProtKB/Swiss-Prot Summary for ICAM3 Gene

  • ICAM proteins are ligands for the leukocyte adhesion protein LFA-1 (integrin alpha-L/beta-2) (PubMed:1448173). ICAM3 is also a ligand for integrin alpha-D/beta-2. In association with integrin alpha-L/beta-2, contributes to apoptotic neutrophil phagocytosis by macrophages (PubMed:23775590).

Gene Wiki entry for ICAM3 Gene

Additional gene information for ICAM3 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ICAM3 Gene

Genomics for ICAM3 Gene

GeneHancer (GH) Regulatory Elements for ICAM3 Gene

Promoters and enhancers for ICAM3 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH19J010338 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 514.4 +0.3 286 1.9 SIN3A POLR2A RELA MEF2B CHD1 NBN SPI1 SMARCA5 BCOR ELF1 ICAM3 ENSG00000167807 ZGLP1 TYK2 ICAM4 ICAM5 ICAM1 MRPL4 piR-54014
GH19J010601 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 22.2 -264.2 -264228 4.5 ZNF217 EP300 NRF1 USF1 PHF8 ZIC2 ZBTB10 ZBTB26 TARDBP KLF7 SLC44A2 CDKN2D KRI1 ICAM3 ILF3 ZNF627 PRKCSH TYK2 DNM2 S1PR5
GH19J010345 Promoter/Enhancer 1.3 FANTOM5 Ensembl ENCODE 28.1 -6.9 -6904 0.3 HES1 FOXA2 CEBPB ZNF316 KAT7 TRIM24 CEBPG SAP130 MAFK ZBTB33 piR-61101-324 CDKN2D ICAM3 SLC44A2 TYK2 RAVER1 DNM2 ICAM1 ATG4D
GH19J010331 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas 9.5 +6.2 6152 3.7 FOXK2 ZBTB40 ZNF217 EP300 CTCF SIN3A NRF1 TCF12 ZNF300 POLR2G RAVER1 ENSG00000274425 piR-54014 LOC100419831 ILF3 DNMT1 ZNF846 KRI1 ZNF266 ZNF177
GH19J010595 Promoter/Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 14.8 -256.4 -256414 1.9 TRIM22 TCF12 KLF9 ZNF384 SRF ARNT MEF2B NBN SPI1 NR2F2 KRI1 CDKN2D SLC44A2 ICAM3 ATG4D ILF3 TYK2 DNM2 C19orf38 S1PR5
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ICAM3 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ICAM3

Top Transcription factor binding sites by QIAGEN in the ICAM3 gene promoter:
  • Bach2
  • Pax-3
  • Sp1
  • Tal-1beta

Genomic Locations for ICAM3 Gene

Genomic Locations for ICAM3 Gene
chr19:10,333,776-10,339,829
(GRCh38/hg38)
Size:
6,054 bases
Orientation:
Minus strand
chr19:10,444,452-10,450,499
(GRCh37/hg19)
Size:
6,048 bases
Orientation:
Minus strand

Genomic View for ICAM3 Gene

Genes around ICAM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ICAM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ICAM3 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for ICAM3 Gene

Proteins for ICAM3 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for ICAM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P32942-ICAM3_HUMAN
    Recommended name:
    Intercellular adhesion molecule 3
    Protein Accession:
    P32942
    Secondary Accessions:
    • Q6PD68

    Protein attributes for ICAM3 Gene

    Size:
    547 amino acids
    Molecular mass:
    59541 Da
    Quaternary structure:
    • Interacts with moesin/MSN.

    Three dimensional structures from OCA and Proteopedia for ICAM3 Gene

neXtProt entry for ICAM3 Gene

Protein Expression for ICAM3 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for ICAM3 Gene

  • Upon stimulation by a physiologic stimuli becomes rapidly and transiently phosphorylated on serine residues.
  • N-glycosylated; glycans consist of a mixture of tri- and tetra-antennary complex-type chains and high-mannose chains.
  • Glycosylation at Asn52, Asn84, Asn87, Asn101, Asn110, Asn134, Asn206, Asn264, Asn295, Asn308, Asn320, Asn363, Asn389, Asn453, and Asn457
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • ICAM3_HUMAN (286)

Other Protein References for ICAM3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Abcam antibodies for ICAM3

No data available for DME Specific Peptides for ICAM3 Gene

Domains & Families for ICAM3 Gene

Gene Families for ICAM3 Gene

HGNC:
Human Protein Atlas (HPA):
  • CD markers
  • Plasma proteins
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for ICAM3 Gene

Blocks:
  • Immunoglobulin subtype
  • Intercellular adhesion molecule/vascular cell adhesion molecule-1 signature
  • Intercellular adhesion molecule (ICAM) family signature
  • Intercellular adhesion molecule, N-terminal
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for ICAM3 Gene

GenScript: Design optimal peptide antigens:
  • ICAM-R (ICAM3_HUMAN)
  • Intercellular adhesion molecule 3 (Q5NKU1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P32942

UniProtKB/Swiss-Prot:

ICAM3_HUMAN :
  • Belongs to the immunoglobulin superfamily. ICAM family.
Family:
  • Belongs to the immunoglobulin superfamily. ICAM family.
genes like me logo Genes that share domains with ICAM3: view

Function for ICAM3 Gene

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  2. CRISPR
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  6. Cell Line

Molecular function for ICAM3 Gene

UniProtKB/Swiss-Prot Function:
ICAM proteins are ligands for the leukocyte adhesion protein LFA-1 (integrin alpha-L/beta-2) (PubMed:1448173). ICAM3 is also a ligand for integrin alpha-D/beta-2. In association with integrin alpha-L/beta-2, contributes to apoptotic neutrophil phagocytosis by macrophages (PubMed:23775590).
GENATLAS Biochemistry:
adhesion molecule intercellular 3,ligand for LFA1,counterreceptor,expressed only on the leukocytes interacting with moesin and promoting its redistribution to the uropod of T lymphocytes during cell polarization,Ig superfamily

Phenotypes From GWAS Catalog for ICAM3 Gene

Gene Ontology (GO) - Molecular Function for ICAM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 signaling receptor binding TAS 8459213
GO:0005178 integrin binding IPI 1448173
GO:0005515 protein binding IPI 12082081
genes like me logo Genes that share ontologies with ICAM3: view
genes like me logo Genes that share phenotypes with ICAM3: view

Animal Model Products

CRISPR Products

miRNA for ICAM3 Gene

miRTarBase miRNAs that target ICAM3

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ICAM3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ICAM3 Gene

Localization for ICAM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ICAM3 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ICAM3 gene
Compartment Confidence
plasma membrane 5
extracellular 2
cytoskeleton 2
nucleus 2
endoplasmic reticulum 2
endosome 2
cytosol 2
lysosome 2
golgi apparatus 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Mitochondria (2)
  • Nuclear membrane (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ICAM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane NAS,TAS --
GO:0005887 integral component of plasma membrane IBA,TAS 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0070062 extracellular exosome HDA 20458337
genes like me logo Genes that share ontologies with ICAM3: view

Pathways & Interactions for ICAM3 Gene

genes like me logo Genes that share pathways with ICAM3: view

Pathways by source for ICAM3 Gene

1 KEGG pathway for ICAM3 Gene
1 GeneGo (Thomson Reuters) pathway for ICAM3 Gene
  • Immune response_Role of integrins in NK cells cytotoxicity

SIGNOR curated interactions for ICAM3 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for ICAM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002223 stimulatory C-type lectin receptor signaling pathway TAS --
GO:0006909 phagocytosis IEA --
GO:0007155 cell adhesion IBA 21873635
GO:0030198 extracellular matrix organization TAS --
GO:0050776 regulation of immune response TAS --
genes like me logo Genes that share ontologies with ICAM3: view

Drugs & Compounds for ICAM3 Gene

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  1. Drug

(4) Drugs for ICAM3 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(6) Additional Compounds for ICAM3 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with ICAM3: view

Transcripts for ICAM3 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for ICAM3 Gene

4 REFSEQ mRNAs :
17 NCBI additional mRNA sequence :
10 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ICAM3

Alternative Splicing Database (ASD) splice patterns (SP) for ICAM3 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b · 7c
SP1: - -
SP2: -
SP3: -
SP4:
SP5:
SP6:

Relevant External Links for ICAM3 Gene

GeneLoc Exon Structure for
ICAM3

Expression for ICAM3 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ICAM3 Gene

mRNA expression in normal human tissues for ICAM3 Gene
mRNA expression by GTEx for ICAM3 GenemRNA expression by BioGPS for ICAM3 Gene

mRNA differential expression in normal tissues according to GTEx for ICAM3 Gene

This gene is overexpressed in Whole Blood (x35.3).

Protein differential expression in normal tissues from HIPED for ICAM3 Gene

This gene is overexpressed in Nasal epithelium (18.4) and Neutrophil (14.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ICAM3 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ICAM3

SOURCE GeneReport for Unigene cluster for ICAM3 Gene:

Hs.654563

mRNA Expression by UniProt/SwissProt for ICAM3 Gene:

P32942-ICAM3_HUMAN
Tissue specificity: Leukocytes.

Evidence on tissue expression from TISSUES for ICAM3 Gene

  • Bone marrow(4.5)
  • Liver(4.5)
  • Lung(4.3)
  • Blood(3.6)
  • Lymph node(3.5)
  • Spleen(3.5)
  • Heart(2.5)
  • Intestine(2.2)
  • Skin(2.2)
  • Nervous system(2.2)
  • Kidney(2.1)
genes like me logo Genes that share expression patterns with ICAM3: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for ICAM3 Gene

Orthologs for ICAM3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ICAM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia ICAM3 31 30
  • 99.45 (n)
 OneToOne
dog
(Canis familiaris)
 Mammalia ICAM3 30
  • 76.2 (n)
-- 31
  • 32 (a)
 ManyToMany
cow
(Bos Taurus)
 Mammalia ICAM3 31 30
  • 71.6 (n)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 31
  • 39 (a)
 ManyToMany
-- 31
  • 38 (a)
 ManyToMany
-- 31
  • 37 (a)
 ManyToMany
oppossum
(Monodelphis domestica)
 Mammalia -- 31
  • 32 (a)
 OneToMany
mouse
(Mus musculus)
 Mammalia Tcam1 31
  • 31 (a)
 ManyToMany
lizard
(Anolis carolinensis)
 Reptilia -- 31
  • 25 (a)
 ManyToMany
-- 31
  • 24 (a)
 ManyToMany
Species where no ortholog for ICAM3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for ICAM3 Gene

ENSEMBL:
Gene Tree for ICAM3 (if available)
TreeFam:
Gene Tree for ICAM3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ICAM3: view image

Paralogs for ICAM3 Gene

Paralogs for ICAM3 Gene

(5) SIMAP similar genes for ICAM3 Gene using alignment to 9 proteins:

  • ICAM3_HUMAN
  • K7ELH4_HUMAN
  • K7EMH0_HUMAN
  • K7EP52_HUMAN
  • K7EQC7_HUMAN
  • K7ERF0_HUMAN
  • K7ERJ4_HUMAN
  • K7ERN2_HUMAN
  • Q5NKU1_HUMAN
genes like me logo Genes that share paralogs with ICAM3: view

Variants for ICAM3 Gene

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  1. SNP Genotyping and Copy Number Assay

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ICAM3 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
710377 Benign: not provided 10,335,130(-) C/T SYNONYMOUS_VARIANT,INTRON_VARIANT
710378 Benign: not provided 10,338,674(-) C/T INTRON_VARIANT
710379 Benign: not provided 10,338,838(-) T/C MISSENSE_VARIANT,FIVE_PRIME_UTR_VARIANT
rs17697947 - p.Ile63Val
rs2230399 - p.Ser525Thr

Additional dbSNP identifiers (rs#s) for ICAM3 Gene

Structural Variations from Database of Genomic Variants (DGV) for ICAM3 Gene

Variant ID Type Subtype PubMed ID
nsv470124 CNV gain 18288195
nsv470125 CNV loss 18288195
nsv518008 CNV gain 19592680

Variation tolerance for ICAM3 Gene

Residual Variation Intolerance Score: 74.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.58; 78.03% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ICAM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ICAM3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ICAM3 Gene

Disorders for ICAM3 Gene

MalaCards: The human disease database

(13) MalaCards diseases for ICAM3 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
tick-borne encephalitis
  • central european encephalitis
severe acute respiratory syndrome
  • sars
membranoproliferative glomerulonephritis
  • chronic glomerulonephritis, lobular
actinic prurigo
  • polymorphic light eruption, hereditary; hple
primary progressive multiple sclerosis
  • ppms
- elite association - COSMIC cancer census association via MalaCards
Search ICAM3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for ICAM3

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with ICAM3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ICAM3 Gene

Publications for ICAM3 Gene

  1. Cloning and characterization of a new intercellular adhesion molecule ICAM-R. (PMID: 1448174) Vazeux R … Gallatin WM (Nature 1992) 2 3 4 23 54
  2. Structural study of N-linked oligosaccharides of human intercellular adhesion molecule-3 (CD50). (PMID: 11179968) Funatsu O … Furukawa K (European journal of biochemistry 2001) 3 4 23 54
  3. Moesin interacts with the cytoplasmic region of intercellular adhesion molecule-3 and is redistributed to the uropod of T lymphocytes during cell polarization. (PMID: 9298994) Serrador JM … Sánchez-Madrid F (The Journal of cell biology 1997) 3 4 23 54
  4. Molecular cloning of ICAM-3, a third ligand for LFA-1, constitutively expressed on resting leukocytes. (PMID: 1448173) Fawcett J … Simmons DL (Nature 1992) 3 4 23 54
  5. Novel role of ICAM3 and LFA-1 in the clearance of apoptotic neutrophils by human macrophages. (PMID: 23775590) Kristóf E … Fésüs L (Apoptosis : an international journal on programmed cell death 2013) 3 4 54

ExternalLinks

View latest publications for ICAM3 gene in Mastermind

Products for ICAM3 Gene

  • Addgene plasmids for ICAM3

Sources for ICAM3 Gene