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Protein

Syndecan-2

Gene

SDC2

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

Functioni

Cell surface proteoglycan that bears heparan sulfate. Regulates dendritic arbor morphogenesis (By similarity).By similarity

GO - Molecular functioni

  • PDZ domain binding Source: BHF-UCL

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Photoprotein

Keywords - Biological processi

Differentiation, Luminescence, Neurogenesis

Enzyme and pathway databases

BioCyciZFISH:ENSG00000169439-MONOMER.
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-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-3928662. EPHB-mediated forward signaling.
R-HSA-4420332. Defective B3GALT6 causes EDSP2 and SEMDJL1.
R-HSA-975634. Retinoid metabolism and transport.
SIGNORiP34741.

Names & Taxonomyi

Protein namesi
Recommended name:
Syndecan-2
Short name:
SYND2
Alternative name(s):
Fibroglycan
Heparan sulfate proteoglycan core protein
Short name:
HSPG
CD_antigen: CD362
Gene namesi
Name:SDC2
Synonyms:HSPG1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 8

Organism-specific databases

HGNCiHGNC:10659. SDC2.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini19 – 144ExtracellularSequence analysisAdd BLAST126
Transmembranei145 – 169HelicalSequence analysisAdd BLAST25
Topological domaini170 – 201CytoplasmicSequence analysisAdd BLAST32

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi6383.
OpenTargetsiENSG00000169439.
PharmGKBiPA35589.

Chemistry databases

DrugBankiDB00020. Sargramostim.

Polymorphism and mutation databases

BioMutaiSDC2.
DMDMi158962336.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 18Sequence analysisAdd BLAST18
ChainiPRO_000003350319 – 201Syndecan-2Add BLAST183

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi41O-linked (Xyl...) (heparan sulfate)Sequence analysis1
Glycosylationi55O-linked (Xyl...) (heparan sulfate)Sequence analysis1
Glycosylationi57O-linked (Xyl...) (heparan sulfate)Sequence analysis1
Glycosylationi101O-linked (GalNAc...)1 Publication1
Modified residuei115Phosphoserine; by FAM20C1 Publication1
Modified residuei187PhosphoserineCombined sources1

Post-translational modificationi

O-glycosylated with core 1 or possibly core 8 glycans. Contains heparan sulfate.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei142 – 143Cleavage of ectodomainSequence analysis2

Keywords - PTMi

Glycoprotein, Heparan sulfate, Phosphoprotein, Proteoglycan

Proteomic databases

EPDiP34741.
PaxDbiP34741.
PeptideAtlasiP34741.
PRIDEiP34741.

PTM databases

iPTMnetiP34741.
PhosphoSitePlusiP34741.
UniCarbKBiP34741.

Expressioni

Gene expression databases

BgeeiENSG00000169439.
CleanExiHS_SDC2.
ExpressionAtlasiP34741. baseline and differential.
GenevisibleiP34741. HS.

Organism-specific databases

HPAiCAB025123.
HPA044416.

Interactioni

Subunit structurei

Interacts (via cytoplasmic domain) with SARM1 (By similarity). Forms a complex with SDCBP and PDCD6IP (PubMed:22660413).By similarity1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
CASKO149362EBI-1172957,EBI-1215506
NF1P213594EBI-1172957,EBI-1172917

GO - Molecular functioni

  • PDZ domain binding Source: BHF-UCL

Protein-protein interaction databases

BioGridi112285. 84 interactors.
DIPiDIP-29943N.
IntActiP34741. 14 interactors.
MINTiMINT-1536313.
STRINGi9606.ENSP00000307046.

Structurei

3D structure databases

ProteinModelPortaliP34741.
SMRiP34741.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the syndecan proteoglycan family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IW5I. Eukaryota.
ENOG4111QSA. LUCA.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000263414.
HOVERGENiHBG004501.
InParanoidiP34741.
KOiK16336.
OMAiMQRAWIL.
OrthoDBiEOG091G0OOE.
PhylomeDBiP34741.
TreeFamiTF320463.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR031201. Syndecan-2.
IPR027789. Syndecan/Neurexin_dom.
IPR030479. Syndecan_CS.
[Graphical view]
PANTHERiPTHR10915. PTHR10915. 1 hit.
PTHR10915:SF6. PTHR10915:SF6. 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.

P34741-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRRAWILLTL GLVACVSAES RAELTSDKDM YLDNSSIEEA SGVYPIDDDD
60 70 80 90 100
YASASGSGAD EDVESPELTT SRPLPKILLT SAAPKVETTT LNIQNKIPAQ
110 120 130 140 150
TKSPEETDKE KVHLSDSERK MDPAEEDTNV YTEKHSDSLF KRTEVLAAVI
160 170 180 190 200
AGGVIGFLFA IFLILLLVYR MRKKDEGSYD LGERKPSSAA YQKAPTKEFY

A
Length:201
Mass (Da):22,160
Last modified:August 21, 2007 - v2
Checksum:i7DA4159D54741054
GO

Sequence cautioni

The sequence AAA52701 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti150I → T in BAB15150 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_03467559A → T.1 PublicationCorresponds to variant rs3816208dbSNPEnsembl.1
Natural variantiVAR_03467671S → T.2 PublicationsCorresponds to variant rs1042381dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J04621 mRNA. Translation: AAA52701.1. Different initiation.
AK025488 mRNA. Translation: BAB15150.1.
AK074530 mRNA. Translation: BAG51965.1.
AK097839 mRNA. Translation: BAG53540.1.
CH471060 Genomic DNA. Translation: EAW91755.1.
BC030133 mRNA. Translation: AAH30133.1.
BC049836 mRNA. Translation: AAH49836.1.
CCDSiCCDS6272.1.
PIRiA33880.
RefSeqiNP_002989.2. NM_002998.3.
UniGeneiHs.1501.
Hs.598247.

Genome annotation databases

EnsembliENST00000302190; ENSP00000307046; ENSG00000169439.
GeneIDi6383.
KEGGihsa:6383.
UCSCiuc003yhv.2. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J04621 mRNA. Translation: AAA52701.1. Different initiation.
AK025488 mRNA. Translation: BAB15150.1.
AK074530 mRNA. Translation: BAG51965.1.
AK097839 mRNA. Translation: BAG53540.1.
CH471060 Genomic DNA. Translation: EAW91755.1.
BC030133 mRNA. Translation: AAH30133.1.
BC049836 mRNA. Translation: AAH49836.1.
CCDSiCCDS6272.1.
PIRiA33880.
RefSeqiNP_002989.2. NM_002998.3.
UniGeneiHs.1501.
Hs.598247.

3D structure databases

ProteinModelPortaliP34741.
SMRiP34741.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112285. 84 interactors.
DIPiDIP-29943N.
IntActiP34741. 14 interactors.
MINTiMINT-1536313.
STRINGi9606.ENSP00000307046.

Chemistry databases

DrugBankiDB00020. Sargramostim.

PTM databases

iPTMnetiP34741.
PhosphoSitePlusiP34741.
UniCarbKBiP34741.

Polymorphism and mutation databases

BioMutaiSDC2.
DMDMi158962336.

Proteomic databases

EPDiP34741.
PaxDbiP34741.
PeptideAtlasiP34741.
PRIDEiP34741.

Protocols and materials databases

DNASUi6383.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000302190; ENSP00000307046; ENSG00000169439.
GeneIDi6383.
KEGGihsa:6383.
UCSCiuc003yhv.2. human.

Organism-specific databases

CTDi6383.
DisGeNETi6383.
GeneCardsiSDC2.
HGNCiHGNC:10659. SDC2.
HPAiCAB025123.
HPA044416.
MIMi142460. gene.
neXtProtiNX_P34741.
OpenTargetsiENSG00000169439.
PharmGKBiPA35589.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IW5I. Eukaryota.
ENOG4111QSA. LUCA.
GeneTreeiENSGT00530000063116.
HOGENOMiHOG000263414.
HOVERGENiHBG004501.
InParanoidiP34741.
KOiK16336.
OMAiMQRAWIL.
OrthoDBiEOG091G0OOE.
PhylomeDBiP34741.
TreeFamiTF320463.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000169439-MONOMER.
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-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-3928662. EPHB-mediated forward signaling.
R-HSA-4420332. Defective B3GALT6 causes EDSP2 and SEMDJL1.
R-HSA-975634. Retinoid metabolism and transport.
SIGNORiP34741.

Miscellaneous databases

ChiTaRSiSDC2. human.
GeneWikiiSDC2.
GenomeRNAii6383.
PROiP34741.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000169439.
CleanExiHS_SDC2.
ExpressionAtlasiP34741. baseline and differential.
GenevisibleiP34741. HS.

Family and domain databases

InterProiIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR031201. Syndecan-2.
IPR027789. Syndecan/Neurexin_dom.
IPR030479. Syndecan_CS.
[Graphical view]
PANTHERiPTHR10915. PTHR10915. 1 hit.
PTHR10915:SF6. PTHR10915:SF6. 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 nameiSDC2_HUMAN
AccessioniPrimary (citable) accession number: P34741
Secondary accession number(s): B3KQA3, Q6PIS6, Q9H6V1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: August 21, 2007
Last modified: November 30, 2016
This is version 159 of the entry and version 2 of the sequence. [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 cell differentiation molecules
    CD nomenclature of surface proteins of human leucocytes and list of entries
  2. Human chromosome 8
    Human chromosome 8: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. 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.