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SLC3A2 solute carrier family 3 member 2 [ Homo sapiens (human) ]

Gene ID: 6520, updated on 3-Mar-2019

Summary

Official Symbol
SLC3A2provided by HGNC
Official Full Name
solute carrier family 3 member 2provided by HGNC
Primary source
HGNC:HGNC:11026
See related
Ensembl:ENSG00000168003 MIM:158070
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
4F2; CD98; MDU1; 4F2HC; 4T2HC; NACAE; CD98HC
Summary
This gene is a member of the solute carrier family and encodes a cell surface, transmembrane protein. The protein exists as the heavy chain of a heterodimer, covalently bound through di-sulfide bonds to one of several possible light chains. The encoded transporter plays a role in regulation of intracellular calcium levels and transports L-type amino acids. Alternatively spliced transcript variants, encoding different isoforms, have been characterized. [provided by RefSeq, Nov 2010]
Expression
Ubiquitous expression in kidney (RPKM 68.6), bone marrow (RPKM 41.5) and 25 other tissues See more
Orthologs

Genomic context

See SLC3A2 in Genome Data Viewer
Location:
11q12.3
Exon count:
14
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 11 NC_000011.10 (62856012..62888883)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (62623484..62656355)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA host gene 1 Neighboring gene small nucleolar RNA, C/D box 26 Neighboring gene small nucleolar RNA, C/D box 25 Neighboring gene uncharacterized LOC105369333 Neighboring gene cholinergic receptor muscarinic 1 Neighboring gene RNA, 7SL, cytoplasmic 259, pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SLC3A2 PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env Antibodies raised against the human fusion regulatory protein 1 (FRP-1; CD98) molecule suppress cell fusion mediated by HIV-1 gp160 PubMed
env The functional interaction between CD98 and CD147 is involved in the regulation of HIV-1 gp160-mediated cell fusion PubMed
Pr55(Gag) gag Cellular biotinylated 4F2 cell-surface antigen heavy chain (4F2HC) protein is incorporated into HIV-1 Gag virus-like particles PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Amino acid transport across the plasma membrane, organism-specific biosystem (from REACTOME)
    Amino acid transport across the plasma membrane, organism-specific biosystemAmino acid transport across plasma membranes is critical to the uptake of these molecules from the gut, to their reabsortion in the kidney proximal tubulues, and to their distribution to cells in whi...
  • Basigin interactions, organism-specific biosystem (from REACTOME)
    Basigin interactions, organism-specific biosystemBasigin is a widely expressed transmembrane glycoprotein that belongs to the Ig superfamily and is highly enriched on the surface of epithelial cells. Basigin is involved in intercellular interaction...
  • Calcineurin-regulated NFAT-dependent transcription in lymphocytes, organism-specific biosystem (from Pathway Interaction Database)
    Calcineurin-regulated NFAT-dependent transcription in lymphocytes, organism-specific biosystem
    Calcineurin-regulated NFAT-dependent transcription in lymphocytes
  • 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...
  • Ferroptosis, organism-specific biosystem (from KEGG)
    Ferroptosis, organism-specific biosystemFerroptosis is a regulated form of cell death and characterized by a production of reactive oxygen species (ROS) from accumulated iron and lipid peroxidation. It can be induced by experimental compou...
  • Ferroptosis, conserved biosystem (from KEGG)
    Ferroptosis, conserved biosystemFerroptosis is a regulated form of cell death and characterized by a production of reactive oxygen species (ROS) from accumulated iron and lipid peroxidation. It can be induced by experimental compou...
  • 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...
  • Histidine, lysine, phenylalanine, tyrosine, proline and tryptophan catabolism, organism-specific biosystem (from REACTOME)
    Histidine, lysine, phenylalanine, tyrosine, proline and tryptophan catabolism, organism-specific biosystemThe catabolic pathways of histidine, lysine, phenylalanine, tyrosine, proline and tryptophan are described in this section (Berg et al. 2002).
  • Metabolism, organism-specific biosystem (from REACTOME)
    Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
  • Metabolism of amino acids and derivatives, organism-specific biosystem (from REACTOME)
    Metabolism of amino acids and derivatives, organism-specific biosystemThis group of reactions is responsible for: 1) the breakdown of amino acids; 2) the synthesis of urea from ammonia and amino groups generated by amino acid breakdown; 3) the synthesis of the ten amin...
  • Protein digestion and absorption, organism-specific biosystem (from KEGG)
    Protein digestion and absorption, organism-specific biosystemProtein is a dietary component essential for nutritional homeostasis in humans. Normally, ingested protein undergoes a complex series of degradative processes following the action of gastric, pancrea...
  • Protein digestion and absorption, conserved biosystem (from KEGG)
    Protein digestion and absorption, conserved biosystemProtein is a dietary component essential for nutritional homeostasis in humans. Normally, ingested protein undergoes a complex series of degradative processes following the action of gastric, pancrea...
  • SLC-mediated transmembrane transport, organism-specific biosystem (from REACTOME)
    SLC-mediated transmembrane transport, organism-specific biosystemProteins with transporting functions can be roughly classified into 3 categories: ATP-powered pumps, ion channels, and transporters. Pumps utilize the energy released by ATP hydrolysis to power the m...
  • Transmembrane transport of small molecules, organism-specific biosystem (from REACTOME)
    Transmembrane transport of small molecules, organism-specific biosystem
    Transmembrane transport of small molecules
  • Transport of inorganic cations/anions and amino acids/oligopeptides, organism-specific biosystem (from REACTOME)
    Transport of inorganic cations/anions and amino acids/oligopeptides, organism-specific biosystemTeleologically, one might argue that inorganic cation and anion transport would be evolutionarily among the oldest transport functions. Eight families comprise the group that transports exclusively i...
  • Tryptophan catabolism, organism-specific biosystem (from REACTOME)
    Tryptophan catabolism, organism-specific biosystemTryptophan is catabolized in seven steps to yield aminomuconate. Intermedistes in this process are used as well for the synthesis of serotonin and kynurenine (Peters 1991).
  • mTOR signaling pathway, organism-specific biosystem (from KEGG)
    mTOR signaling pathway, organism-specific biosystemThe mammalian (mechanistic) target of rapamycin (mTOR) is a highly conserved serine/threonine protein kinase, which exists in two complexes termed mTOR complex 1 (mTORC1) and 2 (mTORC2). mTORC1 conta...
  • mTOR signaling pathway, conserved biosystem (from KEGG)
    mTOR signaling pathway, conserved biosystemThe mammalian (mechanistic) target of rapamycin (mTOR) is a highly conserved serine/threonine protein kinase, which exists in two complexes termed mTOR complex 1 (mTORC1) and 2 (mTORC2). mTORC1 conta...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
cadherin binding HDA PubMed 
calcium:sodium antiporter activity TAS
Traceable Author Statement
more info
PubMed 
catalytic activity IEA
Inferred from Electronic Annotation
more info
 
double-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
neutral amino acid transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
L-alpha-amino acid transmembrane transport TAS
Traceable Author Statement
more info
 
L-leucine import across plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
amino acid transport TAS
Traceable Author Statement
more info
PubMed 
calcium ion transport NAS
Non-traceable Author Statement
more info
PubMed 
carbohydrate metabolic process IEA
Inferred from Electronic Annotation
more info
 
leukocyte migration TAS
Traceable Author Statement
more info
 
response to exogenous dsRNA IMP
Inferred from Mutant Phenotype
more info
PubMed 
sodium ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
tryptophan transport ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
apical plasma membrane IEA
Inferred from Electronic Annotation
more info
 
cell surface HDA PubMed 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
extracellular exosome HDA PubMed 
integral component of membrane NAS
Non-traceable Author Statement
more info
PubMed 
melanosome IEA
Inferred from Electronic Annotation
more info
 
membrane HDA PubMed 
nucleus IDA
Inferred from Direct Assay
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
4F2 cell-surface antigen heavy chain
Names
CD98 heavy chain
antigen defined by monoclonal antibody 4F2, heavy chain
antigen identified by monoclonal antibodies 4F2, TRA1.10, TROP4, and T43
lymphocyte activation antigen 4F2 large subunit
monoclonal antibody 44D7
solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2
solute carrier family 3 (amino acid transporter heavy chain), member 2

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_001012662.2NP_001012680.1  4F2 cell-surface antigen heavy chain isoform b

    See identical proteins and their annotated locations for NP_001012680.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) represents the longest transcript and encodes the longest isoform (b).
    Source sequence(s)
    AA594112, AK025584, BC001061, DC395235
    Consensus CDS
    CCDS31588.1
    UniProtKB/Swiss-Prot
    P08195
    UniProtKB/TrEMBL
    J3KPF3
    Related
    ENSP00000367123.2, ENST00000377891.6
    Conserved Domains (4) summary
    cd11345
    Location:208537
    AmyAc_SLC3A2; Alpha amylase catalytic domain found in solute carrier family 3 member 2 proteins
    COG0366
    Location:238597
    AmyA; Glycosidase [Carbohydrate transport and metabolism]
    pfam11941
    Location:520625
    DUF3459; Domain of unknown function (DUF3459)
    pfam16028
    Location:161225
    SLC3A2_N; Solute carrier family 3 member 2 N-terminus
  2. NM_001012664.2NP_001012682.1  4F2 cell-surface antigen heavy chain isoform e

    See identical proteins and their annotated locations for NP_001012682.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks two alternate in-frame exons, compared to variant 2, resulting in a shorter protein (isoform e).
    Source sequence(s)
    AA594112, BC003000, DC395235
    Consensus CDS
    CCDS31589.1
    UniProtKB/Swiss-Prot
    P08195
    Related
    ENSP00000367121.2, ENST00000377889.6
    Conserved Domains (4) summary
    cd11345
    Location:145474
    AmyAc_SLC3A2; Alpha amylase catalytic domain found in solute carrier family 3 member 2 proteins
    COG0366
    Location:175534
    AmyA; Glycosidase [Carbohydrate transport and metabolism]
    pfam11941
    Location:457562
    DUF3459; Domain of unknown function (DUF3459)
    pfam16028
    Location:98162
    SLC3A2_N; Solute carrier family 3 member 2 N-terminus
  3. NM_001013251.2NP_001013269.1  4F2 cell-surface antigen heavy chain isoform f

    See identical proteins and their annotated locations for NP_001013269.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and lacks several in-frame exons of the 5' coding region, compared to variant 2. These differences cause translation initiation at a downstream ATG and an isoform (f) with a shorter N-terminus compared to isoform b.
    Source sequence(s)
    AA594112, AB018010, BX443653
    Consensus CDS
    CCDS31590.1
    UniProtKB/Swiss-Prot
    P08195
    Related
    ENSP00000340815.7, ENST00000338663.11
    Conserved Domains (3) summary
    cd11345
    Location:106435
    AmyAc_SLC3A2; Alpha amylase catalytic domain found in solute carrier family 3 member 2 proteins
    pfam11941
    Location:418523
    DUF3459; Domain of unknown function (DUF3459)
    pfam16028
    Location:59123
    SLC3A2_N; Solute carrier family 3 member 2 N-terminus
  4. NM_002394.5NP_002385.3  4F2 cell-surface antigen heavy chain isoform c

    See identical proteins and their annotated locations for NP_002385.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate in-frame exon and lacks an alternate exon in the 5' coding region, compared to variant 2, resulting in a shorter protein (isoform c).
    Source sequence(s)
    AA594112, BC001061, DC395235
    Consensus CDS
    CCDS8039.2
    UniProtKB/Swiss-Prot
    P08195
    Related
    ENSP00000367122.2, ENST00000377890.6
    Conserved Domains (4) summary
    cd11345
    Location:207536
    AmyAc_SLC3A2; Alpha amylase catalytic domain found in solute carrier family 3 member 2 proteins
    COG0366
    Location:237596
    AmyA; Glycosidase [Carbohydrate transport and metabolism]
    pfam11941
    Location:519624
    DUF3459; Domain of unknown function (DUF3459)
    pfam16028
    Location:160224
    SLC3A2_N; Solute carrier family 3 member 2 N-terminus

RNA

  1. NR_037193.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) has multiple differences compared to variant 2. This variant is represented as non-coding because it lacks a large portion of the coding region, including the translational start codon, found in variant 2.
    Source sequence(s)
    AA594112, AF055031, AK308797, BC001061
    Related
    ENST00000536981.5

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p12 Primary Assembly

    Range
    62856012..62888883
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001012661.1: Suppressed sequence

    Description
    NM_001012661.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
  2. NM_001012663.1: Suppressed sequence

    Description
    NM_001012663.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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