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Protein

Syndecan-4

Gene

Sdc4

Organism
Rattus norvegicus (Rat)
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

  • fibronectin binding Source: RGD
  • identical protein binding Source: RGD
  • protein kinase C binding Source: RGD
  • thrombospondin receptor activity Source: RGD

GO - Biological processi

  • cell adhesion Source: RGD
  • cell-cell signaling Source: RGD
  • cell migration Source: GO_Central
  • inner ear receptor cell stereocilium organization Source: RGD
  • negative regulation of T cell proliferation Source: RGD
  • neural tube closure Source: RGD
  • positive regulation of exosomal secretion Source: RGD
  • positive regulation of extracellular exosome assembly Source: RGD
  • positive regulation of focal adhesion assembly Source: RGD
  • positive regulation of protein kinase activity Source: RGD
  • positive regulation of stress fiber assembly Source: RGD
  • regulation of fibroblast migration Source: RGD
  • ureteric bud development Source: RGD
  • wound healing Source: RGD

Enzyme and pathway databases

ReactomeiR-RNO-1971475 A tetrasaccharide linker sequence is required for GAG synthesis
R-RNO-2022928 HS-GAG biosynthesis
R-RNO-2024096 HS-GAG degradation
R-RNO-202733 Cell surface interactions at the vascular wall
R-RNO-3000170 Syndecan interactions
R-RNO-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
Synonyms:Synd4
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 3

Organism-specific databases

RGDi3650 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 – 149ExtracellularSequence analysisAdd BLAST126
Transmembranei150 – 174HelicalSequence analysisAdd BLAST25
Topological domaini175 – 202CytoplasmicSequence analysisAdd BLAST28

Keywords - Cellular componenti

Membrane, Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 23Sequence analysisAdd BLAST23
ChainiPRO_000003351324 – 202Syndecan-4Add BLAST179

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi44O-linked (Xyl...) (heparan sulfate) serineCurated1
Glycosylationi65O-linked (Xyl...) (heparan sulfate) serineSequence analysis1
Glycosylationi67O-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 (By similarity).By similarity

Keywords - PTMi

Glycoprotein, Heparan sulfate, Proteoglycan

Proteomic databases

PaxDbiP34901
PRIDEiP34901

PTM databases

iPTMnetiP34901
PhosphoSitePlusiP34901

Expressioni

Gene expression databases

BgeeiENSRNOG00000014297
GenevisibleiP34901 RN

Interactioni

Subunit structurei

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

Binary interactionsi

Show more details

GO - Molecular functioni

  • fibronectin binding Source: RGD
  • identical protein binding Source: RGD
  • protein kinase C binding Source: RGD

Protein-protein interaction databases

BioGridi246895, 2 interactors
IntActiP34901, 7 interactors
MINTiP34901
STRINGi10116.ENSRNOP00000019386

Structurei

Secondary structure

1202
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi200 – 202Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5A2PX-ray2.50E/F/G/H195-202[»]
5G1DX-ray2.81C/D195-202[»]
ProteinModelPortaliP34901
SMRiP34901
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
InParanoidiP34901
KOiK16338
OMAiQEPDDFE
OrthoDBiEOG091G0OOE
PhylomeDBiP34901
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.

P34901-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPVCLFAPL LLLLLGGFPV APGESIRETE VIDPQDLLEG RYFSGALPDD
60 70 80 90 100
EDAGGLEQDS DFELSGSGDL DDTEEPRTFP EVISPLVPLD NHIPENAQPG
110 120 130 140 150
IRVPSEPKEL EENEVIPKRV PSDVGDDDVS NKVSMSSTSQ GSNIFERTEV
160 170 180 190 200
LAALIVGGVV GILFAVFLIL LLVYRMKKKD EGSYDLGKKP IYKKAPTNEF

YA
Length:202
Mass (Da):21,962
Last modified:February 1, 1994 - v1
Checksum:i5D9C8B3BF4C0D58A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M81786 mRNA Translation: AAA73167.1
S61868 mRNA Translation: AAB26725.1
PIRiA42410
RefSeqiNP_036781.1, NM_012649.2
UniGeneiRn.2029

Genome annotation databases

EnsembliENSRNOT00000019386; ENSRNOP00000019386; ENSRNOG00000014297
GeneIDi24771
KEGGirno:24771
UCSCiRGD:3650 rat

Similar proteinsi

Entry informationi

Entry nameiSDC4_RAT
AccessioniPrimary (citable) accession number: P34901
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: March 28, 2018
This is version 133 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome
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Main funding by: National Institutes of Health