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LAMP3 lysosomal associated membrane protein 3 [ Homo sapiens (human) ]

Gene ID: 27074, updated on 14-Nov-2024

Summary

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Official Symbol
LAMP3provided by HGNC
Official Full Name
lysosomal associated membrane protein 3provided by HGNC
Primary source
HGNC:HGNC:14582
See related
Ensembl:ENSG00000078081 MIM:605883; AllianceGenome:HGNC:14582
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LAMP; CD208; DCLAMP; LAMP-3; TSC403; DC LAMP; DC-LAMP
Summary
Dendritic cells (DCs) are the most potent antigen-presenting cells. Immature DCs efficiently capture antigens and differentiate into interdigitating dendritic cells (IDCs) in lymphoid tissues that induce primary T-cell responses (summary by de Saint-Vis et al., 1998 [PubMed 9768752]).[supplied by OMIM, Dec 2010]
Expression
Biased expression in lung (RPKM 74.1), appendix (RPKM 11.0) and 3 other tissues See more
Orthologs
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Genomic context

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See LAMP3 in Genome Data Viewer
Location:
3q27.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (183122215..183163813, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (185928423..185968931, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (182840003..182880522, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124906309 Neighboring gene methylcrotonyl-CoA carboxylase subunit 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20884 Neighboring gene uncharacterized LOC105374247 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20885 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:182877289-182877788 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20886 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14936 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14937 Neighboring gene small nucleolar RNA, C/D box 3 pseudogene 4 Neighboring gene MCF.2 cell line derived transforming sequence-like 2 Neighboring gene MPRA-validated peak4957 silencer Neighboring gene ReSE screen-validated silencer GRCh37_chr3:182951891-182952104 Neighboring gene uncharacterized LOC124906310

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. DC-LAMP+ dendritic cells are recruited to gastric lymphoid follicles in Helicobacter pylori-infected individuals. Hansson M, et al. Infect Immun, 2013 Oct. PMID 23876802, Free PMC Article
  2. Clinical Significance and Prognostic Value of the Expression of LAMP3 in Oral Squamous Cell Carcinoma. Lu J, et al. Dis Markers, 2017. PMID 28607528, Free PMC Article
  3. LAMP3 expression correlated with poor clinical outcome in human ovarian cancer. Wang D, et al. Tumour Biol, 2017 Mar. PMID 28349821
  4. Vitamin D(3) regulates LAMP3 expression in monocyte derived dendritic cells. Malaguarnera L, et al. Cell Immunol, 2017 Jan. PMID 27697285
  5. LAMP-3 (Lysosome-Associated Membrane Protein 3) Promotes the Intracellular Proliferation of Salmonella typhimurium. Lee EJ, et al. Mol Cells, 2016 Jul. PMID 27329040, Free PMC Article

See all (70) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The subtilisin-like protease furin regulates hemin-induced CD63 surface expression on platelets.
    Title: The subtilisin-like protease furin regulates hemin-induced CD63 surface expression on platelets.
  2. LAMP3 is a potent uterine corpus endometrial carcinoma prognostic biomarker associated with immune behavior.
    Title: LAMP3 is a potent uterine corpus endometrial carcinoma prognostic biomarker associated with immune behavior.
  3. Inhibition of LAMP3 mediates the protective effect of vitamin D against hypoxia/reoxygenation in trophoblast cells.
    Title: Inhibition of LAMP3 mediates the protective effect of vitamin D against hypoxia/reoxygenation in trophoblast cells.
  4. MiR-526b-3p enhances sensitivity of head and neck squamous cell carcinoma cells to radiotherapy via suppressing exosomal LAMP3-mediated autophagy.
    Title: MiR-526b-3p enhances sensitivity of head and neck squamous cell carcinoma cells to radiotherapy via suppressing exosomal LAMP3-mediated autophagy.
  5. Lysosome-Associated Membrane Protein 3 Induces Lysosome-Dependent Cell Death by Impairing Autophagic Caspase 8 Degradation in the Salivary Glands of Individuals With Sjogren's Disease.
    Title: Lysosome-Associated Membrane Protein 3 Induces Lysosome-Dependent Cell Death by Impairing Autophagic Caspase 8 Degradation in the Salivary Glands of Individuals With Sjögren's Disease.
  6. LAMP3 transfer via extracellular particles induces apoptosis in Sjogren's disease.
    Title: LAMP3 transfer via extracellular particles induces apoptosis in Sjögren's disease.
  7. LAMP3/CD63 Expression in Early and Late Endosomes in Human Vaginal Epithelial Cells Is Associated with Enhancement of HSV-2 Infection.
    Title: LAMP3/CD63 Expression in Early and Late Endosomes in Human Vaginal Epithelial Cells Is Associated with Enhancement of HSV-2 Infection.
  8. Upregulation of ATF4-LAMP3 Axis by ORF45 Facilitates Lytic Replication of Kaposi's Sarcoma-Associated Herpesvirus.
    Title: Upregulation of ATF4-LAMP3 Axis by ORF45 Facilitates Lytic Replication of Kaposi's Sarcoma-Associated Herpesvirus.
  9. LAMP3 inhibits autophagy and contributes to cell death by lysosomal membrane permeabilization.
    Title: LAMP3 inhibits autophagy and contributes to cell death by lysosomal membrane permeabilization.
  10. Association study of MCCC1/LAMP3 and DGKQ variants with Parkinson's disease in patients of Malay ancestry.
    Title: Association study of MCCC1/LAMP3 and DGKQ variants with Parkinson's disease in patients of Malay ancestry.
Submit: New GeneRIF Correction See all GeneRIFs (50)

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 association study of 14,000 cases of seven common diseases and 3,000 shared controls.
EBI GWAS Catalog
Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies.
EBI GWAS Catalog
Propensity score-based nonparametric test revealing genetic variants underlying bipolar disorder.
EBI GWAS Catalog
Web-based genome-wide association study identifies two novel loci and a substantial genetic component for Parkinson's 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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Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 downregulates the expression of lysosomal-associated membrane protein 3 (LAMP3) in human B cells PubMed
Tat tat HIV-1 Tat upregulates the expression of lysosomal-associated membrane protein 3 (LAMP3) in human primary T cells PubMed

Go to the HIV-1, Human Interaction Database

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

Process Evidence Code Pubs
involved_in adaptive immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in establishment of protein localization to organelle IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of proteasomal protein catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of autophagy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of viral life cycle IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in response to interferon-alpha IMP
Inferred from Mutant Phenotype
more info
 PubMed 
NOT involved_in symbiont entry into host cell IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in alveolar lamellar body membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cell surface IEA
Inferred from Electronic Annotation
more info
  
located_in early endosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in early endosome membrane IEA
Inferred from Electronic Annotation
more info
  
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
  
is_active_in late endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
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 vesicle IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
lysosome-associated membrane glycoprotein 3
Names
DC-lysosome-associated membrane glycoprotein

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_014398.4 → NP_055213.2  lysosome-associated membrane glycoprotein 3 precursor

    See identical proteins and their annotated locations for NP_055213.2

    Status: VALIDATED

    Source sequence(s)
    AC104641, AJ005766, DA994656, DC399447
    Consensus CDS
    CCDS3242.1
    UniProtKB/Swiss-Prot
    D3DNS4, O94781, Q8NEC8, Q9UQV4
    UniProtKB/TrEMBL
    B2R7Z2
    Related
    ENSP00000265598.3, ENST00000265598.8
    Conserved Domains (1) summary
    pfam01299
    Location:101 → 416
    Lamp; Lysosome-associated membrane glycoprotein (Lamp)

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    183122215..183163813 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005247360.6 → XP_005247417.1  lysosome-associated membrane glycoprotein 3 isoform X1

    UniProtKB/TrEMBL
    B2R7Z2
    Conserved Domains (1) summary
    pfam01299
    Location:101 → 418
    Lamp; Lysosome-associated membrane glycoprotein (Lamp)

  2. XM_047447967.1 → XP_047303923.1  lysosome-associated membrane glycoprotein 3 isoform X2

  3. XM_011512688.3 → XP_011510990.1  lysosome-associated membrane glycoprotein 3 isoform X3

    Conserved Domains (1) summary
    pfam01299
    Location:101 → 314
    Lamp; Lysosome-associated membrane glycoprotein (Lamp)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    185928423..185968931 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054346166.1 → XP_054202141.1  lysosome-associated membrane glycoprotein 3 isoform X1

  2. XM_054346167.1 → XP_054202142.1  lysosome-associated membrane glycoprotein 3 isoform X2

  3. XM_054346168.1 → XP_054202143.1  lysosome-associated membrane glycoprotein 3 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9UQV4.3 GenPept UniProtKB/Swiss-Prot:Q9UQV4

Gene LinkOut

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

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