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SDC2 syndecan 2 [ Homo sapiens (human) ]

Gene ID: 6383, updated on 1-Aug-2020

Summary

Official Symbol
SDC2provided by HGNC
Official Full Name
syndecan 2provided by HGNC
Primary source
HGNC:HGNC:10659
See related
Ensembl:ENSG00000169439 MIM:142460
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

Genomic context

See SDC2 in Genome Data Viewer
Location:
8q22.1
Exon count:
9
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 8 NC_000008.11 (96493601..96611790)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (97505579..97624037)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724804 Neighboring gene uncharacterized LOC105375653 Neighboring gene RNA, U6 small nuclear 1172, pseudogene Neighboring gene carboxypeptidase Q Neighboring gene uncharacterized LOC101927066 Neighboring gene uncharacterized LOC105375655

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

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
PDZ domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
biological_process ND
No biological Data available
more info
 
cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular protein metabolic process TAS
Traceable Author Statement
more info
 
dendrite morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ephrin receptor signaling pathway TAS
Traceable Author Statement
more info
 
glycosaminoglycan biosynthetic process TAS
Traceable Author Statement
more info
 
glycosaminoglycan catabolic process TAS
Traceable Author Statement
more info
 
leukocyte migration TAS
Traceable Author Statement
more info
 
post-translational protein modification TAS
Traceable Author Statement
more info
 
regulation of dendrite morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
retinoid metabolic process TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
Golgi lumen TAS
Traceable Author Statement
more info
 
cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
collagen-containing extracellular matrix HDA PubMed 
endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
lysosomal lumen TAS
Traceable Author Statement
more info
 
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)

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
    P34741
    UniProtKB/TrEMBL
    A0A024R9D1
    Related
    ENSP00000307046.4, ENST00000302190.9
    Conserved Domains (1) summary
    pfam01034
    Location:138199
    Syndecan; Syndecan domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p13 Primary Assembly

    Range
    96493601..96611790
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024447228.1XP_024302996.1  syndecan-2 isoform X1

    Conserved Domains (1) summary
    pfam01034
    Location:109170
    Syndecan; Syndecan domain
  2. XM_011517212.3XP_011515514.1  syndecan-2 isoform X1

    See identical proteins and their annotated locations for XP_011515514.1

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