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Protein

Syndecan-1

Gene

Sdc1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -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

GO - Biological processi

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-202733 Cell surface interactions at the vascular wall
R-MMU-3000170 Syndecan interactions
R-MMU-449836 Other interleukin signaling
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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 12

Organism-specific databases

MGIiMGI:1349162 Sdc1

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 domaini23 – 255ExtracellularSequence analysisAdd BLAST233
Transmembranei256 – 276HelicalSequence analysisAdd BLAST21
Topological domaini277 – 311CytoplasmicSequence analysisAdd BLAST35

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) serine1 Publication1
Glycosylationi43N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi45O-linked (Xyl...) (heparan sulfate) serineCurated1
Glycosylationi47O-linked (Xyl...) (heparan sulfate) serineCurated1
Glycosylationi207O-linked (Xyl...) (chondroitin sulfate) serine1 Publication1
Glycosylationi217O-linked (Xyl...) (chondroitin sulfate) serine1 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 – 244Cleavage1 Publication2

Keywords - PTMi

Glycoprotein, Heparan sulfate, Phosphoprotein, Proteoglycan

Proteomic databases

PaxDbiP18828
PeptideAtlasiP18828
PRIDEiP18828

PTM databases

iPTMnetiP18828
PhosphoSitePlusiP18828

Miscellaneous databases

PMAP-CutDBiP18828

Expressioni

Gene expression databases

BgeeiENSMUSG00000020592 Expressed in 261 organ(s), highest expression level in cumulus cell
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 Homo sapiens.

GO - Molecular functioni

Protein-protein interaction databases

BioGridi203602, 1 interactor
ComplexPortaliCPX-3283 Syndecan-1-syntenin-1-ALIX complex
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
OMAiGEQDFTF
OrthoDBiEOG091G0EYV
PhylomeDBiP18828
TreeFamiTF320463

Family and domain databases

InterProiView protein in InterPro
IPR003585 Neurexin-like
IPR001050 Syndecan
IPR031190 Syndecan-1
IPR027789 Syndecan/Neurexin_dom
IPR030479 Syndecan_CS
PANTHERiPTHR10915 PTHR10915, 1 hit
PTHR10915:SF5 PTHR10915:SF5, 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

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

This entry has 2 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All

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

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
E0CYT6E0CYT6_MOUSE
Syndecan-1
Sdc1
206Annotation score:

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

Similar proteinsi

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
ComplexPortaliCPX-3283 Syndecan-1-syntenin-1-ALIX complex
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
OMAiGEQDFTF
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-202733 Cell surface interactions at the vascular wall
R-MMU-3000170 Syndecan interactions
R-MMU-449836 Other interleukin signaling
R-MMU-975634 Retinoid metabolism and transport

Miscellaneous databases

ChiTaRSiSdc1 mouse
PMAP-CutDBiP18828
PROiPR:P18828
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000020592 Expressed in 261 organ(s), highest expression level in cumulus cell
CleanExiMM_SDC1
ExpressionAtlasiP18828 baseline and differential
GenevisibleiP18828 MM

Family and domain databases

InterProiView protein in InterPro
IPR003585 Neurexin-like
IPR001050 Syndecan
IPR031190 Syndecan-1
IPR027789 Syndecan/Neurexin_dom
IPR030479 Syndecan_CS
PANTHERiPTHR10915 PTHR10915, 1 hit
PTHR10915:SF5 PTHR10915:SF5, 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
ProtoNetiSearch...

Entry informationi

Entry nameiSDC1_MOUSE
AccessioniPrimary (citable) accession number: P18828
Secondary accession number(s): Q62278, Q9WVD2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: November 1, 1990
Last modified: November 7, 2018
This is version 155 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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