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Protein

Syndecan-3

Gene

SDC3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Cell surface proteoglycan that may bear heparan sulfate (By similarity). May have a role in the organization of cell shape by affecting the actin cytoskeleton, possibly by transferring signals from the cell surface in a sugar-dependent mechanism.HMP:1 Publication

GO - Molecular functioni

  • identical protein binding Source: IntAct

GO - Biological processi

Enzyme and pathway databases

ReactomeiR-HSA-1971475. A tetrasaccharide linker sequence is required for GAG synthesis.
R-HSA-2022928. HS-GAG biosynthesis.
R-HSA-2024096. HS-GAG degradation.
R-HSA-202733. Cell surface interactions at the vascular wall.
R-HSA-3000170. Syndecan interactions.
R-HSA-3560783. Defective B4GALT7 causes EDS, progeroid type.
R-HSA-3560801. Defective B3GAT3 causes JDSSDHD.
R-HSA-3656237. Defective EXT2 causes exostoses 2.
R-HSA-3656253. Defective EXT1 causes exostoses 1, TRPS2 and CHDS.
R-HSA-4420332. Defective B3GALT6 causes EDSP2 and SEMDJL1.
R-HSA-975634. Retinoid metabolism and transport.
SIGNORiO75056.

Names & Taxonomyi

Protein namesi
Recommended name:
Syndecan-3
Short name:
SYND3
Gene namesi
Name:SDC3
Synonyms:KIAA0468
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000162512.15.
HGNCiHGNC:10660. SDC3.

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 domaini1 – 387ExtracellularIEP:Add BLAST387
Transmembranei388 – 408HelicalIEP:Add BLAST21
Topological domaini409 – 442CytoplasmicIEP:Add BLAST34

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi9672.
MalaCardsiSDC3.
OpenTargetsiENSG00000162512.
PharmGKBiPA35590.

Polymorphism and mutation databases

BioMutaiSDC3.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001839891 – 442Syndecan-3Add BLAST442

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi80O-linked (Xyl...) (glycosaminoglycan) serineIEP:1
Glycosylationi82O-linked (Xyl...) (glycosaminoglycan) serineIEP:1
Glycosylationi84O-linked (Xyl...) (glycosaminoglycan) serineIEP:1
Glycosylationi91O-linked (Xyl...) (glycosaminoglycan) serineIEP:1
Glycosylationi314O-linked (Xyl...) (glycosaminoglycan) serineIEP:1
Glycosylationi367O-linked (Xyl...) (glycosaminoglycan) serineIEP:1
Modified residuei409Phosphotyrosine1 Publication1
Modified residuei419Phosphotyrosine1 Publication1
Modified residuei431Phosphotyrosine1 Publication1
Modified residuei441Phosphotyrosine1 Publication1

Post-translational modificationi

O-glycosylated within the Thr/Ser-rich region which could interact with lectin domains on other molecules.IKR:

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei383 – 384Cleavage of ectodomainIEP:2

Keywords - PTMi

Glycoprotein, Heparan sulfate, Phosphoprotein, Proteoglycan

Proteomic databases

EPDiO75056.
MaxQBiO75056.
PaxDbiO75056.
PeptideAtlasiO75056.
PRIDEiO75056.
TopDownProteomicsiO75056.

PTM databases

iPTMnetiO75056.
PhosphoSitePlusiO75056.

Expressioni

Tissue specificityi

Expressed in the nervous system, the adrenal gland, and the spleen.1 Publication

Gene expression databases

BgeeiENSG00000162512.
CleanExiHS_SDC3.
ExpressionAtlasiO75056. baseline and differential.
GenevisibleiO75056. HS.

Organism-specific databases

HPAiCAB025786.
HPA017087.
HPA048085.

Interactioni

Subunit structurei

Interacts with TIAM1.1 Publication

Binary interactionsi

Show more details

GO - Molecular functioni

  • identical protein binding Source: IntAct

Protein-protein interaction databases

BioGridi115027. 13 interactors.
DIPiDIP-29944N.
IntActiO75056. 6 interactors.
MINTiMINT-3057059.
STRINGi9606.ENSP00000344468.

Structurei

3D structure databases

ProteinModelPortaliO75056.
SMRiO75056.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi115 – 302Ser/Thr-rich (mucin-like)Add BLAST188

Sequence similaritiesi

Belongs to the syndecan proteoglycan family.IKR:

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IJZ0. Eukaryota.
ENOG410Y2QY. LUCA.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000049151.
HOVERGENiHBG004144.
InParanoidiO75056.
KOiK16337.
OMAiTTQEPDI.
OrthoDBiEOG091G0UGA.
PhylomeDBiO75056.
TreeFamiTF320463.

Family and domain databases

InterProiView protein in InterPro
IPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR031194. Syndecan-3.
IPR027789. Syndecan/Neurexin_dom.
IPR030479. Syndecan_CS.
PANTHERiPTHR10915. PTHR10915. 1 hit.
PTHR10915:SF7. PTHR10915:SF7. 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.

O75056-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKPGPPHRAG AAHGAGAGAG AAAGPGARGL LLPPLLLLLL AGRAAGAQRW
60 70 80 90 100
RSENFERPVD LEGSGDDDSF PDDELDDLYS GSGSGYFEQE SGIETAMRFS
110 120 130 140 150
PDVALAVSTT PAVLPTTNIQ PVGTPFEELP SERPTLEPAT SPLVVTEVPE
160 170 180 190 200
EPSQRATTVS TTMATTAATS TGDPTVATVP ATVATATPST PAAPPFTATT
210 220 230 240 250
AVIRTTGVRR LLPLPLTTVA TARATTPEAP SPPTTAAVLD TEAPTPRLVS
260 270 280 290 300
TATSRPRALP RPATTQEPDI PERSTLPLGT TAPGPTEVAQ TPTPETFLTT
310 320 330 340 350
IRDEPEVPVS GGPSGDFELP EEETTQPDTA NEVVAVGGAA AKASSPPGTL
360 370 380 390 400
PKGARPGPGL LDNAIDSGSS AAQLPQKSIL ERKEVLVAVI VGGVVGALFA
410 420 430 440
AFLVTLLIYR MKKKDEGSYT LEEPKQASVT YQKPDKQEEF YA
Length:442
Mass (Da):45,497
Last modified:September 5, 2006 - v2
Checksum:iD4C284CBC36A92E2
GO

Sequence cautioni

The sequence BAA32313 differs from that shown. Intron retention.IKR:

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_027251208V → I. Corresponds to variant dbSNP:rs2491132Ensembl.1
Natural variantiVAR_027252303D → N1 PublicationCorresponds to variant dbSNP:rs4949184Ensembl.1
Natural variantiVAR_027253329T → I. Corresponds to variant dbSNP:rs2282440Ensembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF248634 mRNA. Translation: AAK39969.1.
AB007937 mRNA. Translation: BAA32313.2. Sequence problems.
AL445235 Genomic DNA. No translation available.
BC013974 mRNA. No translation available.
CCDSiCCDS30661.1.
RefSeqiNP_055469.3. NM_014654.3.
UniGeneiHs.158287.

Genome annotation databases

EnsembliENST00000339394; ENSP00000344468; ENSG00000162512.
GeneIDi9672.
KEGGihsa:9672.
UCSCiuc001bse.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Similar proteinsi

Entry informationi

Entry nameiSDC3_HUMAN
AccessioniPrimary (citable) accession number: O75056
Secondary accession number(s): Q5T1Z6
, Q5T1Z7, Q96CT3, Q96PR8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: September 5, 2006
Last modified: November 22, 2017
This is version 151 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families