Host Protein General Information (ID: PT0622)
  Protein Name
Lysosome-associated membrane glycoprotein 2 (LAMP2)
  Gene Name
LAMP2
  Host Species
Homo sapiens
  Uniprot Entry Name
LAMP2_HUMAN
  Protein Families
LAMP family
  Subcellular Location
Cell membrane
  External Link
NCBI Gene ID
3920
Uniprot ID
P13473
Ensembl ID
ENSG00000005893
HGNC ID
HGNC:6501
  Function in Host
Plays an important role in chaperone-mediated autophagy, aprocess that mediates lysosomal degradation of proteins in response tovarious stresses and as part of the normal turnover of proteins with along biological half-live. Functions bybinding target proteins, such as GAPDH and MLLT11, and targeting themfor lysosomal degradation. Plays a role in lysosomal proteindegradation in response to starvation. Required for thefusion of autophagosomes with lysosomes during autophagy. Cells that lack LAMP2 express normal levels ofVAMP8, but fail to accumulate STX17 on autophagosomes, which is themost likely explanation for the lack of fusion between autophagosomesand lysosomes. Required for normal degradation of thecontents of autophagosomes. Required for efficientMHCII-mediated presentation of exogenous antigens via its function inlysosomal protein degradation; antigenic peptides generated byproteases in the endosomal/lysosomal compartment are captured bynascent MHCII subunits. Is not required for efficientMHCII-mediated presentation of endogenous antigens. [1-5]
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  Related KEGG Pathway
Tuberculosis hsa05152            Pathway Map 
Autophagy - animal hsa04140            Pathway Map 
Lysosome hsa04142            Pathway Map 
Phagosome hsa04145            Pathway Map 
  3D Structure

Function of This Protein During Virus Infection
Virus NameSARS-COV-2 Protein Function Pro-viral [6]
Infected TissueLung Infection Time7-9 Days
Infected CellCalu-3 Cells (Human epithelial cell line) Cellosaurus IDCVCL_0609 
Method DescriptionTo detect the role of host protein LAMP2 in viral infection, LAMP2 protein knockout Calu-3 Cells were infected with SARS-COV-2 for 7 - 9 Days , and the effects on infection was detected through CRISPR-based genome-wide gene-knockout screen.
ResultsIt is reported that knockout of LAMP2 leads to the decreased SARS-CoV-2 RNA levels compared with control group.

 Full List of Virus RNA Interacting with This Protien
            RNA Region: 5'-UTR (hCoV-19/Wuhan-Hu-1/2019 )
              RNA Region Details RNA Info Click to show the detail information of this RNA binding region [7]
              Strains Name
hCoV-19/Wuhan-Hu-1/2019
              Strains Family
Beta (B.1.351)
              RNA Binding Region
5'-UTR
              Virus Name
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
              Infection Cells HEK293 Cells (Human embryonic kidney cell)  (CVCL_0045 )
              Cell Originated Tissue Liver
              Infection Time 48 h
              Interaction Score Prot score = 119
              Method Description RNA-protein interaction detection (RaPID) assay; liquid chromatography with tandem mass spectrometry (LC-MS/MS)

Differential Gene Expression During SARS-COV-2 Infection
GEO Accession: GSE152641
Sample Type: Blood
Samples Details: Healthy Control: 24; COVID-19: 62
Platform: GPL24676 Illumina NovaSeq 6000
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GEO Accession: GSE162835
Sample Type: Nasopharyngeal Swabs
Samples Details: COVID-19 (Mild Symptoms): 37; COVID-19 (Moderate Symptoms): 10; COVID-19 (Severe Symptoms): 3
Platform: GPL24676 Illumina NovaSeq 6000
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GEO Accession: GSE175779
Sample Type: Human Bronchial Epithelial Cells
Samples Details: Healthy Control: 4 (0, 24, 48, 72 and 96 h); COVID-19: 4 (24, 48, 72 and 96 h)
Platform: GPL18573 Illumina NextSeq 500
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Protein Sequence Information
MVCFRLFPVPGSGLVLVCLVLGAVRSYALELNLTDSENATCLYAKWQMNFTVRYETTNKTYKTVTISDHGTVTYNGSICGDDQNGPKIAVQFGPGFSWIANFTKAASTYSIDSVSFSYNTGDNTTFPDAEDKGILTVDELLAIRIPLNDLFRCNSLSTLEKNDVVQHYWDVLVQAFVQNGTVSTNEFLCDKDKTSTVAPTIHTTVPSPTTTPTPKEKPEAGTYSVNNGNDTCLLATMGLQLNITQDKVASVININPNTTHSTGSCRSHTALLRLNSSTIKYLDFVFAVKNENRFYLKEVNISMYLVNGSVFSIANNNLSYWDAPLGSSYMCNKEQTVSVSGAFQINTFDLRVQPFNVTQGKYSTAQDCSADDDNFLVPIAVGAALAGVLILVLLAYFIGLKHHHAGYEQF
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References
1 LAMP-2 is required for incorporating syntaxin-17 into autophagosomes and for their fusion with lysosomes. Biol Open. 2016 Oct 15;5(10):1516-1529.
2 Degradation of AF1Q by chaperone-mediated autophagy. Exp Cell Res. 2014 Sep 10;327(1):48-56.
3 The chaperone-mediated autophagy receptor organizes in dynamic protein complexes at the lysosomal membrane. Mol Cell Biol. 2008 Sep;28(18):5747-63.
4 Unique properties of lamp2a compared to other lamp2 isoforms. J Cell Sci. 2000 Dec;113 Pt 24:4441-50.
5 A receptor for the selective uptake and degradation of proteins by lysosomes. Science. 1996 Jul 26;273(5274):501-3.
6 Genome-wide CRISPR screens identify GATA6 as a proviral host factor for SARS-CoV-2 via modulation of ACE2. Nat Commun. 2022 Apr 25;13(1):2237.
7 RNA-Protein Interaction Analysis of SARS-CoV-2 5 and 3 Untranslated Regions Reveals a Role of Lysosome-Associated Membrane Protein-2a during Viral Infection. mSystems. 2021 Aug 31;6(4):e0064321.