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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. Regulates exosome biogenesis in concert with SDCBP and PDCD6IP.By similarity

GO - Molecular functioni

  • glycoprotein binding Source: MGI
  • protein C-terminus binding Source: MGI

GO - Biological processi

Complete GO annotation...

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-3000170. Syndecan interactions.
R-MMU-975634. Retinoid metabolism and transport.

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
Proteomesi
  • UP000000589 Componenti: Chromosome 12

Organism-specific databases

MGIiMGI:1349162. Sdc1.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini23 – 255ExtracellularSequence analysisAdd BLAST233
Transmembranei256 – 276HelicalSequence analysisAdd BLAST21
Topological domaini277 – 311CytoplasmicSequence analysisAdd BLAST35

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane, Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 22Sequence analysisAdd BLAST22
ChainiPRO_000003350123 – 311Syndecan-1Add BLAST289

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi37O-linked (Xyl...) (chondroitin sulfate)1 Publication1
Glycosylationi43N-linked (GlcNAc...)Sequence analysis1
Glycosylationi45O-linked (Xyl...) (heparan sulfate)Curated1
Glycosylationi47O-linked (Xyl...) (heparan sulfate)Curated1
Glycosylationi207O-linked (Xyl...) (chondroitin sulfate)1 Publication1
Glycosylationi217O-linked (Xyl...) (chondroitin sulfate)1 Publication1
Modified residuei286PhosphoserineBy similarity1

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei243 – 244Cleavage2

Keywords - PTMi

Glycoprotein, Heparan sulfate, Phosphoprotein, Proteoglycan

Proteomic databases

PaxDbiP18828.
PeptideAtlasiP18828.
PRIDEiP18828.

PTM databases

iPTMnetiP18828.
PhosphoSitePlusiP18828.

Miscellaneous databases

PMAP-CutDBP18828.

Expressioni

Gene expression databases

BgeeiENSMUSG00000020592.
CleanExiMM_SDC1.
ExpressionAtlasiP18828. baseline and differential.
GenevisibleiP18828. MM.

Interactioni

Subunit structurei

Interacts with CDCP1 (By similarity). Interacts (via C-terminus) with TIAM1 (via PDZ domain) (PubMed:20361982).By similarity1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
PCOLCEQ151134EBI-9985816,EBI-8869614From a different organism.

GO - Molecular functioni

Protein-protein interaction databases

BioGridi203602. 1 interactor.
IntActiP18828. 1 interactor.
STRINGi10090.ENSMUSP00000020911.

Structurei

3D structure databases

ProteinModelPortaliP18828.
SMRiP18828.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the syndecan proteoglycan family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IYWX. Eukaryota.
ENOG410Y2QY. LUCA.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000133092.
HOVERGENiHBG017783.
InParanoidiP18828.
KOiK06257.
OMAiPTKQEEF.
OrthoDBiEOG091G0EYV.
PhylomeDBiP18828.
TreeFamiTF320463.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR031190. Syndecan-1.
IPR027789. Syndecan/Neurexin_dom.
IPR030479. Syndecan_CS.
[Graphical view]
PANTHERiPTHR10915. PTHR10915. 1 hit.
PTHR10915:SF5. PTHR10915:SF5. 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)DescriptionActionsGraphical viewLength
Sequence conflicti21L → V in AAA40159 (PubMed:8496192).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_00754250 – 93Missing in isoform 2. 1 PublicationAdd BLAST44

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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi203602. 1 interactor.
IntActiP18828. 1 interactor.
STRINGi10090.ENSMUSP00000020911.

PTM databases

iPTMnetiP18828.
PhosphoSitePlusiP18828.

Proteomic databases

PaxDbiP18828.
PeptideAtlasiP18828.
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

eggNOGiENOG410IYWX. Eukaryota.
ENOG410Y2QY. LUCA.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000133092.
HOVERGENiHBG017783.
InParanoidiP18828.
KOiK06257.
OMAiPTKQEEF.
OrthoDBiEOG091G0EYV.
PhylomeDBiP18828.
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-3000170. Syndecan interactions.
R-MMU-975634. Retinoid metabolism and transport.

Miscellaneous databases

PMAP-CutDBP18828.
PROiP18828.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000020592.
CleanExiMM_SDC1.
ExpressionAtlasiP18828. baseline and differential.
GenevisibleiP18828. MM.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR031190. Syndecan-1.
IPR027789. Syndecan/Neurexin_dom.
IPR030479. Syndecan_CS.
[Graphical view]
PANTHERiPTHR10915. PTHR10915. 1 hit.
PTHR10915:SF5. PTHR10915:SF5. 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 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: November 2, 2016
This is version 141 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

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.