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Protein

Syndecan-4

Gene

Sdc4

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

Functioni

Cell surface proteoglycan that bears heparan sulfate. Regulates exosome biogenesis in concert with SDCBP and PDCD6IP.By similarity

GO - Molecular functioni

GO - Biological processi

Enzyme and pathway databases

ReactomeiR-MMU-1971475 A tetrasaccharide linker sequence is required for GAG synthesis
R-MMU-2022928 HS-GAG biosynthesis
R-MMU-2024096 HS-GAG degradation
R-MMU-202733 Cell surface interactions at the vascular wall
R-MMU-3000170 Syndecan interactions
R-MMU-975634 Retinoid metabolism and transport

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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 2

Organism-specific databases

MGIiMGI:1349164 Sdc4

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini24 – 145ExtracellularSequence analysisAdd BLAST122
Transmembranei146 – 170HelicalSequence analysisAdd BLAST25
Topological domaini171 – 198CytoplasmicSequence analysisAdd BLAST28

Keywords - Cellular componenti

Membrane, Secreted

Pathology & Biotechi

Chemistry databases

ChEMBLiCHEMBL2062355

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 23Sequence analysisAdd BLAST23
ChainiPRO_000003351224 – 198Syndecan-4Add BLAST175

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi44O-linked (Xyl...) (heparan sulfate) serineBy similarity1
Glycosylationi62O-linked (Xyl...) (heparan sulfate) serineSequence analysis1
Glycosylationi64O-linked (Xyl...) (heparan sulfate) serineSequence analysis1

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 TIMP3.1 Publication

Keywords - PTMi

Glycoprotein, Heparan sulfate, Proteoglycan

Proteomic databases

EPDiO35988
PaxDbiO35988
PeptideAtlasiO35988
PRIDEiO35988

PTM databases

iPTMnetiO35988
PhosphoSitePlusiO35988

Miscellaneous databases

PMAP-CutDBiO35988

Expressioni

Tissue specificityi

Ubiquitous. Highest levels in liver, kidney and lung.

Gene expression databases

BgeeiENSMUSG00000017009 Expressed in 302 organ(s), highest expression level in stria vascularis of cochlear duct
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

Binary interactionsi

WithEntry#Exp.IntActNotes
PCOLCEQ151132EBI-9986850,EBI-8869614From Homo sapiens.

GO - Molecular functioni

Protein-protein interaction databases

IntActiO35988, 2 interactors
STRINGi10090.ENSMUSP00000017153

Structurei

3D structure databases

ProteinModelPortaliO35988
SMRiO35988
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the syndecan proteoglycan family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IXIG Eukaryota
ENOG4111QSA LUCA
GeneTreeiENSGT00530000063116
HOGENOMiHOG000263414
HOVERGENiHBG004501
InParanoidiO35988
KOiK16338
OMAiQEPDDFE
OrthoDBiEOG091G0OOE
PhylomeDBiO35988
TreeFamiTF320463

Family and domain databases

InterProiView protein in InterPro
IPR003585 Neurexin-like
IPR001050 Syndecan
IPR027789 Syndecan/Neurexin_dom
IPR030479 Syndecan_CS
PANTHERiPTHR10915 PTHR10915, 1 hit
PfamiView protein in Pfam
PF01034 Syndecan, 1 hit
SMARTiView protein in SMART
SM00294 4.1m, 1 hit
PROSITEiView protein in PROSITE
PS00964 SYNDECAN, 1 hit

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

Similar proteinsi

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
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiO35988, 2 interactors
STRINGi10090.ENSMUSP00000017153

Chemistry databases

ChEMBLiCHEMBL2062355

PTM databases

iPTMnetiO35988
PhosphoSitePlusiO35988

Proteomic databases

EPDiO35988
PaxDbiO35988
PeptideAtlasiO35988
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

eggNOGiENOG410IXIG Eukaryota
ENOG4111QSA LUCA
GeneTreeiENSGT00530000063116
HOGENOMiHOG000263414
HOVERGENiHBG004501
InParanoidiO35988
KOiK16338
OMAiQEPDDFE
OrthoDBiEOG091G0OOE
PhylomeDBiO35988
TreeFamiTF320463

Enzyme and pathway databases

ReactomeiR-MMU-1971475 A tetrasaccharide linker sequence is required for GAG synthesis
R-MMU-2022928 HS-GAG biosynthesis
R-MMU-2024096 HS-GAG degradation
R-MMU-202733 Cell surface interactions at the vascular wall
R-MMU-3000170 Syndecan interactions
R-MMU-975634 Retinoid metabolism and transport

Miscellaneous databases

ChiTaRSiSdc4 mouse
PMAP-CutDBiO35988
PROiPR:O35988
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000017009 Expressed in 302 organ(s), highest expression level in stria vascularis of cochlear duct
CleanExiMM_SDC4
ExpressionAtlasiO35988 baseline and differential
GenevisibleiO35988 MM

Family and domain databases

InterProiView protein in InterPro
IPR003585 Neurexin-like
IPR001050 Syndecan
IPR027789 Syndecan/Neurexin_dom
IPR030479 Syndecan_CS
PANTHERiPTHR10915 PTHR10915, 1 hit
PfamiView protein in Pfam
PF01034 Syndecan, 1 hit
SMARTiView protein in SMART
SM00294 4.1m, 1 hit
PROSITEiView protein in PROSITE
PS00964 SYNDECAN, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSDC4_MOUSE
AccessioniPrimary (citable) accession number: O35988
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: September 12, 2018
This is version 154 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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