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Protein

Syndecan-4

Gene

Sdc4

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Cell surface proteoglycan that bears heparan sulfate.

GO - Molecular functioni

GO - Biological processi

  • cell migration Source: GO_Central
  • inner ear receptor stereocilium organization Source: MGI
  • neural tube closure Source: MGI
  • positive regulation of exosomal secretion Source: MGI
  • positive regulation of extracellular exosome assembly Source: MGI
  • positive regulation of focal adhesion assembly Source: Ensembl
  • positive regulation of protein kinase activity Source: Ensembl
  • positive regulation of stress fiber assembly Source: Ensembl
  • regulation of fibroblast migration Source: UniProtKB
  • signal transduction Source: GOC
  • ureteric bud development Source: Ensembl
  • wound healing Source: MGI
Complete GO annotation...

Enzyme and pathway databases

ReactomeiREACT_295031. Retinoid metabolism and transport.
REACT_324389. HS-GAG biosynthesis.
REACT_326072. A tetrasaccharide linker sequence is required for GAG synthesis.
REACT_326610. Syndecan interactions.
REACT_343711. HS-GAG degradation.

Names & Taxonomyi

Protein namesi
Recommended name:
Syndecan-4
Short name:
SYND4
Alternative name(s):
Ryudocan core protein
Gene namesi
Name:Sdc4
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 2

Organism-specific databases

MGIiMGI:1349164. Sdc4.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini24 – 145122ExtracellularSequence AnalysisAdd
BLAST
Transmembranei146 – 17025HelicalSequence AnalysisAdd
BLAST
Topological domaini171 – 19828CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane, Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2323Sequence AnalysisAdd
BLAST
Chaini24 – 198175Syndecan-4PRO_0000033512Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi44 – 441O-linked (Xyl...) (heparan sulfate)By similarity
Glycosylationi62 – 621O-linked (Xyl...) (heparan sulfate)Sequence Analysis
Glycosylationi64 – 641O-linked (Xyl...) (heparan sulfate)Sequence Analysis

Post-translational modificationi

Shedding is enhanced by a number of factors such as heparanase, thrombin or EGF. Also by stress and wound healing. PMA-mediated shedding is inhibited by TIMP3.

Keywords - PTMi

Glycoprotein, Heparan sulfate, Proteoglycan

Proteomic databases

MaxQBiO35988.
PaxDbiO35988.
PRIDEiO35988.

PTM databases

PhosphoSiteiO35988.

Miscellaneous databases

PMAP-CutDBO35988.

Expressioni

Tissue specificityi

Ubiquitous. Highest levels in liver, kidney and lung.

Gene expression databases

BgeeiO35988.
CleanExiMM_SDC4.
ExpressionAtlasiO35988. baseline and differential.
GenevisibleiO35988. MM.

Interactioni

Subunit structurei

Homodimer. Interacts with CDCP1 and SDCBP (By similarity). Interacts (via its cytoplasmic domain) with GIPC (via its PDZ domain). Interacts (via its cytoplasmic domain) with NUDT16L1.By similarity2 Publications

Protein-protein interaction databases

IntActiO35988. 1 interaction.
STRINGi10090.ENSMUSP00000017153.

Structurei

3D structure databases

ProteinModelPortaliO35988.
SMRiO35988. Positions 171-198.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the syndecan proteoglycan family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG83582.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000263414.
HOVERGENiHBG004501.
InParanoidiO35988.
KOiK16338.
OMAiQEPDDFE.
OrthoDBiEOG7RV9HS.
PhylomeDBiO35988.
TreeFamiTF320463.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR027789. Syndecan/Neurexin_dom.
IPR030479. Syndecan_CS.
[Graphical view]
PANTHERiPTHR10915. PTHR10915. 1 hit.
PfamiPF01034. Syndecan. 1 hit.
[Graphical view]
SMARTiSM00294. 4.1m. 1 hit.
[Graphical view]
PROSITEiPS00964. SYNDECAN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

O35988-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPACLLAPL LLLLLGGFPL VPGESIRETE VIDPQDLLEG RYFSGALPDD
60 70 80 90 100
EDAGGSDDFE LSGSGDLDDT EEPRPFPEVI EPLVPLDNHI PENAQPGIRV
110 120 130 140 150
PSEPKELEEN EVIPKRAPSD VGDDMSNKVS MSSTAQGSNI FERTEVLAAL
160 170 180 190
IVGGVVGILF AVFLILLLVY RMKKKDEGSY DLGKKPIYKK APTNEFYA
Length:198
Mass (Da):21,482
Last modified:January 1, 1998 - v1
Checksum:i4246963EC6A25915
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D89571 mRNA. Translation: BAA22135.1.
D89572 Genomic DNA. Translation: BAA22136.1.
BC005679 mRNA. Translation: AAH05679.1.
CCDSiCCDS17036.1.
PIRiJC5613.
RefSeqiNP_035651.1. NM_011521.2.
UniGeneiMm.3815.

Genome annotation databases

EnsembliENSMUST00000017153; ENSMUSP00000017153; ENSMUSG00000017009.
GeneIDi20971.
KEGGimmu:20971.
UCSCiuc008nuq.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D89571 mRNA. Translation: BAA22135.1.
D89572 Genomic DNA. Translation: BAA22136.1.
BC005679 mRNA. Translation: AAH05679.1.
CCDSiCCDS17036.1.
PIRiJC5613.
RefSeqiNP_035651.1. NM_011521.2.
UniGeneiMm.3815.

3D structure databases

ProteinModelPortaliO35988.
SMRiO35988. Positions 171-198.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiO35988. 1 interaction.
STRINGi10090.ENSMUSP00000017153.

Chemistry

ChEMBLiCHEMBL2062355.

PTM databases

PhosphoSiteiO35988.

Proteomic databases

MaxQBiO35988.
PaxDbiO35988.
PRIDEiO35988.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000017153; ENSMUSP00000017153; ENSMUSG00000017009.
GeneIDi20971.
KEGGimmu:20971.
UCSCiuc008nuq.1. mouse.

Organism-specific databases

CTDi6385.
MGIiMGI:1349164. Sdc4.

Phylogenomic databases

eggNOGiNOG83582.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000263414.
HOVERGENiHBG004501.
InParanoidiO35988.
KOiK16338.
OMAiQEPDDFE.
OrthoDBiEOG7RV9HS.
PhylomeDBiO35988.
TreeFamiTF320463.

Enzyme and pathway databases

ReactomeiREACT_295031. Retinoid metabolism and transport.
REACT_324389. HS-GAG biosynthesis.
REACT_326072. A tetrasaccharide linker sequence is required for GAG synthesis.
REACT_326610. Syndecan interactions.
REACT_343711. HS-GAG degradation.

Miscellaneous databases

ChiTaRSiSdc4. mouse.
NextBioi299938.
PMAP-CutDBO35988.
PROiO35988.
SOURCEiSearch...

Gene expression databases

BgeeiO35988.
CleanExiMM_SDC4.
ExpressionAtlasiO35988. baseline and differential.
GenevisibleiO35988. MM.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR027789. Syndecan/Neurexin_dom.
IPR030479. Syndecan_CS.
[Graphical view]
PANTHERiPTHR10915. PTHR10915. 1 hit.
PfamiPF01034. Syndecan. 1 hit.
[Graphical view]
SMARTiSM00294. 4.1m. 1 hit.
[Graphical view]
PROSITEiPS00964. SYNDECAN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular cloning, genomic organization, promoter activity, and tissue-specific expression of the mouse ryudocan gene."
    Tsuzuki S., Kojima T., Katsumi A., Yamazaki T., Sugiura I., Saito H.
    J. Biochem. 122:17-24(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA].
    Strain: 129/SvJ and C3H/An.
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Mammary tumor.
  3. "Shedding of syndecan-1 and -4 ectodomains is regulated by multiple signaling pathways and mediated by a TIMP-3-sensitive metalloproteinase."
    Fitzgerald M.L., Wang Z., Park P.W., Murphy G., Bernfield M.
    J. Cell Biol. 148:811-824(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: SHEDDING.
  4. "Synectin, syndecan-4 cytoplasmic domain binding PDZ protein, inhibits cell migration."
    Gao Y., Li M., Chen W., Simons M.
    J. Cell. Physiol. 184:373-379(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH GIPC.
  5. "Syndesmos, a syndecan-4 cytoplasmic domain interactor, binds to the focal adhesion adaptor proteins paxillin and Hic-5."
    Denhez F., Wilcox-Adelman S.A., Baciu P.C., Saoncella S., Lee S., French B., Neveu W., Goetinck P.F.
    J. Biol. Chem. 277:12270-12274(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH NUDT16L1.

Entry informationi

Entry nameiSDC4_MOUSE
AccessioniPrimary (citable) accession number: O35988
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: July 22, 2015
This is version 131 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.