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Protein

Syndecan-4

Gene

SDC4

Organism
Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript 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

Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Syndecan-4
Short name:
SYND4
Gene namesi
Name:SDC4
OrganismiPongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
Taxonomic identifieri9601 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaePongo
Proteomesi
  • UP000001595 Componenti: Chromosome 20

Subcellular locationi

  • Membrane Sequence analysis; Single-pass type I membrane protein Sequence analysis
  • Secreted By similarity

  • Note: Shedding of the ectodomain produces a soluble form.By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini19 – 145127ExtracellularSequence 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 – 1818Sequence analysisAdd
BLAST
Chaini19 – 198180Syndecan-4PRO_0000329297Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi39 – 391O-linked (Xyl...) (heparan sulfate)By similarity
Glycosylationi61 – 611O-linked (Xyl...) (heparan sulfate)Sequence analysis
Glycosylationi63 – 631O-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 (By similarity).By similarity

Keywords - PTMi

Glycoprotein, Heparan sulfate, Proteoglycan

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

Protein-protein interaction databases

STRINGi9601.ENSPPYP00000012352.

Structurei

3D structure databases

ProteinModelPortaliQ5RAT9.
SMRiQ5RAT9. Positions 171-198.
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.
InParanoidiQ5RAT9.
KOiK16338.
OMAiQEPDDFE.
OrthoDBiEOG091G0OOE.
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.

Q5RAT9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPARLFALL LLFVGGVAES IRETEVIDPQ DLLEGRYFSG ALPDDEDVVG
60 70 80 90 100
PGQESDDFEL SGSGDLDDLE DSIIGPEVIH PLVPLDNHIP ERAGSGSQVP
110 120 130 140 150
TEPKKLEENE VIPKRISPIE ESEDVSNKVS MSSTVQGSNI FERTEVLAAL
160 170 180 190
IVGGIVGILF AVFLILLLMY RMKKKDEGSY DLGKKPIYKK APTNEFYA
Length:198
Mass (Da):21,618
Last modified:December 21, 2004 - v1
Checksum:i688488B14BD45EEE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR858923 mRNA. Translation: CAH91121.1.
RefSeqiNP_001127378.1. NM_001133906.1.
XP_009231914.1. XM_009233639.1.
UniGeneiPab.10102.

Genome annotation databases

EnsembliENSPPYT00000012834; ENSPPYP00000012352; ENSPPYG00000011054.
GeneIDi100174444.
KEGGipon:100174444.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR858923 mRNA. Translation: CAH91121.1.
RefSeqiNP_001127378.1. NM_001133906.1.
XP_009231914.1. XM_009233639.1.
UniGeneiPab.10102.

3D structure databases

ProteinModelPortaliQ5RAT9.
SMRiQ5RAT9. Positions 171-198.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi9601.ENSPPYP00000012352.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSPPYT00000012834; ENSPPYP00000012352; ENSPPYG00000011054.
GeneIDi100174444.
KEGGipon:100174444.

Organism-specific databases

CTDi6385.

Phylogenomic databases

eggNOGiENOG410IXIG. Eukaryota.
ENOG4111QSA. LUCA.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000263414.
HOVERGENiHBG004501.
InParanoidiQ5RAT9.
KOiK16338.
OMAiQEPDDFE.
OrthoDBiEOG091G0OOE.
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]
ProtoNetiSearch...

Entry informationi

Entry nameiSDC4_PONAB
AccessioniPrimary (citable) accession number: Q5RAT9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: December 21, 2004
Last modified: September 7, 2016
This is version 70 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. SIMILARITY comments
    Index of protein domains and families

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 one 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.