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    SDC2 syndecan 2 [ Homo sapiens (human) ]

    Gene ID: 6383, updated on 3-Apr-2024

    Summary

    Official Symbol
    SDC2provided by HGNC
    Official Full Name
    syndecan 2provided by HGNC
    Primary source
    HGNC:HGNC:10659
    See related
    Ensembl:ENSG00000169439 MIM:142460; AllianceGenome:HGNC:10659
    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
    HSPG; CD362; HSPG1; SYND2
    Summary
    The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan and is a member of the syndecan proteoglycan family. The syndecans mediate cell binding, cell signaling, and cytoskeletal organization and syndecan receptors are required for internalization of the HIV-1 tat protein. The syndecan-2 protein functions as an integral membrane protein and participates in cell proliferation, cell migration and cell-matrix interactions via its receptor for extracellular matrix proteins. Altered syndecan-2 expression has been detected in several different tumor types. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in thyroid (RPKM 143.2), liver (RPKM 70.5) and 19 other tissues See more
    Orthologs
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    Genomic context

    See SDC2 in Genome Data Viewer
    Location:
    8q22.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (96493813..96611790)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (97619532..97737516)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (97506041..97624018)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724804 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:97388962-97389724 Neighboring gene uncharacterized LOC105375653 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27665 Neighboring gene RNA, U6 small nuclear 1172, pseudogene Neighboring gene Sharpr-MPRA regulatory region 5310 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:97532917-97533417 Neighboring gene uncharacterized LOC124900253 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:97563257-97563757 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:97592183-97592688 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:97601754-97602254 Neighboring gene Sharpr-MPRA regulatory region 4348 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19389 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:97731641-97732141 Neighboring gene uncharacterized LOC124901985 Neighboring gene carboxypeptidase Q Neighboring gene uncharacterized LOC101927066 Neighboring gene uncharacterized LOC105375655 Neighboring gene Sharpr-MPRA regulatory region 10694

    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 Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env HIV-1 Env gp120/41 (JRFL Env in the contaxt of HIV-Gag-GFP VLP) binds to SDC2 (HSPG) on the surface of basophils PubMed
    env The V3 region (amino acids 298-329) of HIV-1 gp120 contains the syndecan-binding site for HIV-1 via 6-O sulfated motifs; a single conserved arginine (Arg-298) in the V3 region of gp120 governs HIV-1 binding to syndecans PubMed
    Tat tat Binding of HIV-1 Tat to heparan sulfate proteoglycans is competed out by the heparin-binding factor bFGF PubMed
    tat Cell membrane heparin sulfate proteoglycans bind to the basic region of HIV-1 Tat (amino acids 49-57) and act as receptors for extracellular Tat uptake, an effect that may contribute to the angiogenic properties of Tat in promoting Kaposi's sarcoma PubMed
    matrix gag HIV-1 MA interacts with SDC2 in primary hepatocytes PubMed
    gag Stimulation of human stellate cells with HIV-1 MA induce CXCR2 co-localization with syndecan-2 PubMed
    gag Treatment of human stellate cells with HIV-1 MA upregulates the expression of CXCR2, syndecan-2, collagen-I, alpha-SMA, vimentin, and endothelin-1 PubMed
    gag Exposure of human acute monocytic leukemia cells THP-1 to HIV-1 MA activates the syndecan-2/RACK-1/Jak-1 signal pathway, leading to STAT-1 phosphorylation PubMed
    gag HIV-1 matrix protein co-localizes with syndecan-2, syndecan-4, and CD44v3 on activated CD4+ T cells to modulate TNF-alpha and IL2 production PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables PDZ domain binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
     
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in dendrite morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of dendrite morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in Golgi lumen TAS
    Traceable Author Statement
    more info
     
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in collagen-containing extracellular matrix HDA PubMed 
    located_in endoplasmic reticulum lumen TAS
    Traceable Author Statement
    more info
     
    located_in lysosomal lumen TAS
    Traceable Author Statement
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    syndecan-2
    Names
    cell surface-associated heparan sulfate proteoglycan 1
    fibroglycan
    heparan sulfate proteoglycan 1, cell surface-associated
    heparan sulfate proteoglycan core protein
    syndecan proteoglycan 2

    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_002998.4NP_002989.2  syndecan-2 precursor

      See identical proteins and their annotated locations for NP_002989.2

      Status: REVIEWED

      Source sequence(s)
      AA114891, BC030133, BC049836, CK825252
      Consensus CDS
      CCDS6272.1
      UniProtKB/Swiss-Prot
      B3KQA3, P34741, Q6PIS6, Q9H6V1
      UniProtKB/TrEMBL
      B4DQ56
      Related
      ENSP00000307046.4, ENST00000302190.9
      Conserved Domains (1) summary
      pfam01034
      Location:138199
      Syndecan; Syndecan 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_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      96493813..96611790
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047422076.1XP_047278032.1  syndecan-2 isoform X1

      UniProtKB/TrEMBL
      E9PBI9
    2. XM_024447228.2XP_024302996.1  syndecan-2 isoform X1

      UniProtKB/TrEMBL
      B7Z5H2, E9PBI9
      Conserved Domains (1) summary
      pfam01034
      Location:109170
      Syndecan; Syndecan domain
    3. XM_011517212.4XP_011515514.1  syndecan-2 isoform X1

      See identical proteins and their annotated locations for XP_011515514.1

      UniProtKB/TrEMBL
      B7Z5H2, E9PBI9
      Related
      ENSP00000428256.1, ENST00000519914.5
      Conserved Domains (1) summary
      pfam01034
      Location:109170
      Syndecan; Syndecan domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      97619532..97737516
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054360963.1XP_054216938.1  syndecan-2 isoform X1

    2. XM_054360962.1XP_054216937.1  syndecan-2 isoform X1