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Protein

Syndecan-1

Gene

Sdc1

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 both heparan sulfate and chondroitin sulfate and that links the cytoskeleton to the interstitial matrix.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei243 – 2442Cleavage

GO - Molecular functioni

  1. glycoprotein binding Source: MGI
  2. protein C-terminus binding Source: MGI

GO - Biological processi

  1. canonical Wnt signaling pathway Source: MGI
  2. inflammatory response Source: Ensembl
  3. myoblast development Source: UniProtKB
  4. odontogenesis Source: Ensembl
  5. positive regulation of exosomal secretion Source: MGI
  6. positive regulation of extracellular vesicular exosome assembly Source: MGI
  7. response to calcium ion Source: Ensembl
  8. response to cAMP Source: Ensembl
  9. response to glucocorticoid Source: Ensembl
  10. response to hydrogen peroxide Source: Ensembl
  11. response to toxic substance Source: Ensembl
  12. Sertoli cell development Source: Ensembl
  13. striated muscle cell development Source: Ensembl
  14. ureteric bud development Source: Ensembl
  15. wound healing Source: Ensembl
Complete GO annotation...

Enzyme and pathway databases

ReactomeiREACT_196489. A tetrasaccharide linker sequence is required for GAG synthesis.
REACT_196644. Syndecan interactions.
REACT_198569. Retinoid metabolism and transport.
REACT_198654. HS-GAG biosynthesis.
REACT_198967. HS-GAG degradation.
REACT_216017. Chylomicron-mediated lipid transport.
REACT_268952. Defective B3GAT3 causes JDSSDHD.
REACT_269282. Defective B4GALT7 causes EDS, progeroid type.
REACT_270174. Defective EXT2 causes exostoses 2.
REACT_271374. Defective EXT1 causes exostoses 1, TRPS2 and CHDS.

Names & Taxonomyi

Protein namesi
Recommended name:
Syndecan-1
Short name:
SYND1
Alternative name(s):
CD_antigen: CD138
Gene namesi
Name:Sdc1
Synonyms:Synd-1, Synd1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 12

Organism-specific databases

MGIiMGI:1349162. Sdc1.

Subcellular locationi

Membrane; Single-pass type I membrane protein. Secreted
Note: Shedding of the ectodomain produces a soluble form.

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini23 – 255233ExtracellularSequence AnalysisAdd
BLAST
Transmembranei256 – 27621HelicalSequence AnalysisAdd
BLAST
Topological domaini277 – 31135CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. cell surface Source: MGI
  2. cytoplasm Source: MGI
  3. external side of plasma membrane Source: MGI
  4. extracellular region Source: Reactome
  5. extracellular vesicular exosome Source: MGI
  6. focal adhesion Source: MGI
  7. Golgi lumen Source: Reactome
  8. integral component of membrane Source: UniProtKB-KW
  9. protein complex Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2222Sequence AnalysisAdd
BLAST
Chaini23 – 311289Syndecan-1PRO_0000033501Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi37 – 371O-linked (Xyl...) (chondroitin sulfate)1 Publication
Glycosylationi43 – 431N-linked (GlcNAc...)Sequence Analysis
Glycosylationi45 – 451O-linked (Xyl...) (heparan sulfate)Curated
Glycosylationi47 – 471O-linked (Xyl...) (heparan sulfate)Curated
Glycosylationi207 – 2071O-linked (Xyl...) (chondroitin sulfate)1 Publication
Glycosylationi217 – 2171O-linked (Xyl...) (chondroitin sulfate)1 Publication

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

MaxQBiP18828.
PaxDbiP18828.
PRIDEiP18828.

PTM databases

PhosphoSiteiP18828.

Miscellaneous databases

PMAP-CutDBP18828.

Expressioni

Gene expression databases

BgeeiP18828.
CleanExiMM_SDC1.
ExpressionAtlasiP18828. baseline and differential.
GenevestigatoriP18828.

Interactioni

Subunit structurei

Interacts with CDCP1 (By similarity). Interacts (via C-terminus) with TIAM1 (via PDZ domain).By similarity1 Publication

Protein-protein interaction databases

BioGridi203602. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliP18828.
SMRiP18828. Positions 278-311.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the syndecan proteoglycan family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG86393.
HOGENOMiHOG000133092.
HOVERGENiHBG017783.
InParanoidiP18828.
KOiK06257.
OMAiPTKQEEF.
OrthoDBiEOG79KPG2.
PhylomeDBiP18828.
TreeFamiTF320463.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR027789. Syndecan/Neurexin_dom.
[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]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P18828-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MRRAALWLWL CALALRLQPA LPQIVAVNVP PEDQDGSGDD SDNFSGSGTG
60 70 80 90 100
ALPDTLSRQT PSTWKDVWLL TATPTAPEPT SSNTETAFTS VLPAGEKPEE
110 120 130 140 150
GEPVLHVEAE PGFTARDKEK EVTTRPRETV QLPITQRAST VRVTTAQAAV
160 170 180 190 200
TSHPHGGMQP GLHETSAPTA PGQPDHQPPR VEGGGTSVIK EVVEDGTANQ
210 220 230 240 250
LPAGEGSGEQ DFTFETSGEN TAVAAVEPGL RNQPPVDEGA TGASQSLLDR
260 270 280 290 300
KEVLGGVIAG GLVGLIFAVC LVAFMLYRMK KKDEGSYSLE EPKQANGGAY
310
QKPTKQEEFY A

Note: Major isoform.

Length:311
Mass (Da):32,905
Last modified:November 1, 1990 - v1
Checksum:i283FEC396FF40FCE
GO
Isoform 2 (identifier: P18828-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     50-93: Missing.

Note: Minor isoform.

Show »
Length:267
Mass (Da):28,235
Checksum:iB4481F155D7E5454
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti21 – 211L → V in AAA40159 (PubMed:8496192).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei50 – 9344Missing in isoform 2. 1 PublicationVSP_007542Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15487 mRNA. Translation: CAA33514.1.
Z22532 Genomic DNA. Translation: CAA80254.1.
AF134897 mRNA. Translation: AAD42345.1.
BC010560 mRNA. Translation: AAH10560.1.
L11565 Genomic DNA. Translation: AAA40159.1.
CCDSiCCDS25803.1. [P18828-1]
PIRiS06619.
RefSeqiNP_035649.1. NM_011519.2. [P18828-1]
UniGeneiMm.2580.

Genome annotation databases

EnsembliENSMUST00000020911; ENSMUSP00000020911; ENSMUSG00000020592. [P18828-1]
ENSMUST00000171158; ENSMUSP00000131491; ENSMUSG00000020592. [P18828-1]
GeneIDi20969.
KEGGimmu:20969.
UCSCiuc007nac.1. mouse. [P18828-1]
uc007nad.1. mouse. [P18828-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15487 mRNA. Translation: CAA33514.1.
Z22532 Genomic DNA. Translation: CAA80254.1.
AF134897 mRNA. Translation: AAD42345.1.
BC010560 mRNA. Translation: AAH10560.1.
L11565 Genomic DNA. Translation: AAA40159.1.
CCDSiCCDS25803.1. [P18828-1]
PIRiS06619.
RefSeqiNP_035649.1. NM_011519.2. [P18828-1]
UniGeneiMm.2580.

3D structure databases

ProteinModelPortaliP18828.
SMRiP18828. Positions 278-311.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi203602. 1 interaction.

PTM databases

PhosphoSiteiP18828.

Proteomic databases

MaxQBiP18828.
PaxDbiP18828.
PRIDEiP18828.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000020911; ENSMUSP00000020911; ENSMUSG00000020592. [P18828-1]
ENSMUST00000171158; ENSMUSP00000131491; ENSMUSG00000020592. [P18828-1]
GeneIDi20969.
KEGGimmu:20969.
UCSCiuc007nac.1. mouse. [P18828-1]
uc007nad.1. mouse. [P18828-2]

Organism-specific databases

CTDi6382.
MGIiMGI:1349162. Sdc1.

Phylogenomic databases

eggNOGiNOG86393.
HOGENOMiHOG000133092.
HOVERGENiHBG017783.
InParanoidiP18828.
KOiK06257.
OMAiPTKQEEF.
OrthoDBiEOG79KPG2.
PhylomeDBiP18828.
TreeFamiTF320463.

Enzyme and pathway databases

ReactomeiREACT_196489. A tetrasaccharide linker sequence is required for GAG synthesis.
REACT_196644. Syndecan interactions.
REACT_198569. Retinoid metabolism and transport.
REACT_198654. HS-GAG biosynthesis.
REACT_198967. HS-GAG degradation.
REACT_216017. Chylomicron-mediated lipid transport.
REACT_268952. Defective B3GAT3 causes JDSSDHD.
REACT_269282. Defective B4GALT7 causes EDS, progeroid type.
REACT_270174. Defective EXT2 causes exostoses 2.
REACT_271374. Defective EXT1 causes exostoses 1, TRPS2 and CHDS.

Miscellaneous databases

NextBioi299930.
PMAP-CutDBP18828.
PROiP18828.
SOURCEiSearch...

Gene expression databases

BgeeiP18828.
CleanExiMM_SDC1.
ExpressionAtlasiP18828. baseline and differential.
GenevestigatoriP18828.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR027789. Syndecan/Neurexin_dom.
[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 of syndecan, an integral membrane proteoglycan."
    Saunders S., Jalkanen M., O'Farrell S., Bernfield M.
    J. Cell Biol. 108:1547-1556(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Tissue: Mammary gland.
  2. "Structural organization and genomic sequence of mouse syndecan-1 gene."
    Vihinen T., Auvinen P., Alanen-Kurki L., Jalkanen M.
    J. Biol. Chem. 268:17261-17269(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ISOFORM 1).
    Strain: BALB/c.
    Tissue: Liver.
  3. "Molecular polymorphism of the syndecans. Identification of a hypo-glycanated murine syndecan-1 splice variant."
    Romaris M., Coomans C., Ceulemans H., Bruystens A.-M., Vekemans S., David G.
    J. Biol. Chem. 274:18667-18674(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
    Strain: NMRI.
    Tissue: Embryo.
  4. "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] (ISOFORM 1).
    Strain: Czech II.
    Tissue: Mammary gland.
  5. "Organization and promoter activity of the mouse syndecan-1 gene."
    Hinkes M.T., Goldberger O., Neumann P., Kokenyeji R., Bernfield M.
    J. Biol. Chem. 268:11440-11448(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-22.
    Strain: BALB/c.
    Tissue: Liver.
  6. "Core protein structure and sequence determine the site and presence of heparan sulfate and chondroitin sulfate on syndecan-1."
    Kokenyesi R., Bernfield M.
    J. Biol. Chem. 269:12304-12309(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: GLYCOSYLATION AT SER-37; SER-207 AND SER-217.
  7. "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.
  8. "Constitutive and accelerated shedding of murine syndecan-1 is mediated by cleavage of its core protein at a specific juxtamembrane site."
    Wang Z., Gotte M., Bernfield M., Reizes O.
    Biochemistry 44:12355-12361(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: CLEAVAGE SITE AT ALA-243, IDENTIFICATION BY MASS SPECTROMETRY.
  9. "The Tiam1 PDZ domain couples to Syndecan1 and promotes cell-matrix adhesion."
    Shepherd T.R., Klaus S.M., Liu X., Ramaswamy S., DeMali K.A., Fuentes E.J.
    J. Mol. Biol. 398:730-746(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH TIAM1.

Entry informationi

Entry nameiSDC1_MOUSE
AccessioniPrimary (citable) accession number: P18828
Secondary accession number(s): Q62278, Q9WVD2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: November 1, 1990
Last modified: February 4, 2015
This is version 126 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.