UniProtKB - O75056 (SDC3_HUMAN)
Protein
Syndecan-3
Gene
SDC3
Organism
Homo sapiens (Human)
Status
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.By similarity1 Publication
GO - Molecular functioni
- identical protein binding Source: IntAct
GO - Biological processi
- cell migration Source: GO_Central
- glycosaminoglycan biosynthetic process Source: Reactome
- glycosaminoglycan catabolic process Source: Reactome
- leukocyte migration Source: Reactome
- retinoid metabolic process Source: Reactome
Enzyme and pathway databases
PathwayCommonsi | O75056 |
Reactomei | R-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 |
SIGNORi | O75056 |
Names & Taxonomyi
Protein namesi | Recommended name: Syndecan-3Short name: SYND3 |
Gene namesi | Name:SDC3 Synonyms:KIAA0468 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
EuPathDBi | HostDB:ENSG00000162512.15 |
HGNCi | HGNC:10660, SDC3 |
MIMi | 186357, gene |
neXtProti | NX_O75056 |
Subcellular locationi
Plasma membrane
Extracellular region or secreted
- collagen-containing extracellular matrix Source: BHF-UCL
Golgi apparatus
- Golgi lumen Source: Reactome
Lysosome
- lysosomal lumen Source: Reactome
Plasma Membrane
- plasma membrane Source: UniProtKB
Other locations
- cell surface Source: GO_Central
- integral component of membrane Source: UniProtKB-KW
- membrane Source: UniProtKB
- microspike Source: UniProtKB
Topology
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Topological domaini | 1 – 387 | ExtracellularSequence analysisAdd BLAST | 387 | |
Transmembranei | 388 – 408 | HelicalSequence analysisAdd BLAST | 21 | |
Topological domaini | 409 – 442 | CytoplasmicSequence analysisAdd BLAST | 34 |
Keywords - Cellular componenti
Cell membrane, MembranePathology & Biotechi
Organism-specific databases
DisGeNETi | 9672 |
MalaCardsi | SDC3 |
OpenTargetsi | ENSG00000162512 |
PharmGKBi | PA35590 |
Miscellaneous databases
Pharosi | O75056, Tbio |
Polymorphism and mutation databases
BioMutai | SDC3 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000183989 | 1 – 442 | Syndecan-3Add BLAST | 442 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Glycosylationi | 80 | O-linked (Xyl...) (glycosaminoglycan) serineSequence analysis | 1 | |
Glycosylationi | 82 | O-linked (Xyl...) (glycosaminoglycan) serineSequence analysis | 1 | |
Glycosylationi | 84 | O-linked (Xyl...) (glycosaminoglycan) serineSequence analysis | 1 | |
Glycosylationi | 91 | O-linked (Xyl...) (glycosaminoglycan) serineSequence analysis | 1 | |
Glycosylationi | 314 | O-linked (Xyl...) (glycosaminoglycan) serineSequence analysis | 1 | |
Glycosylationi | 367 | O-linked (Xyl...) (glycosaminoglycan) serineSequence analysis | 1 | |
Modified residuei | 409 | Phosphotyrosine1 Publication | 1 | |
Modified residuei | 419 | Phosphotyrosine1 Publication | 1 | |
Modified residuei | 431 | Phosphotyrosine1 Publication | 1 | |
Modified residuei | 441 | Phosphotyrosine1 Publication | 1 |
Post-translational modificationi
O-glycosylated within the Thr/Ser-rich region which could interact with lectin domains on other molecules.Curated
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 383 – 384 | Cleavage of ectodomainSequence analysis | 2 |
Keywords - PTMi
Glycoprotein, Heparan sulfate, Phosphoprotein, ProteoglycanProteomic databases
EPDi | O75056 |
jPOSTi | O75056 |
MassIVEi | O75056 |
MaxQBi | O75056 |
PaxDbi | O75056 |
PeptideAtlasi | O75056 |
PRIDEi | O75056 |
ProteomicsDBi | 49730 |
TopDownProteomicsi | O75056 |
PTM databases
GlyGeni | O75056, 9 sites, 3 O-linked glycans (3 sites) |
iPTMneti | O75056 |
PhosphoSitePlusi | O75056 |
Expressioni
Tissue specificityi
Expressed in the nervous system, the adrenal gland, and the spleen.1 Publication
Gene expression databases
Bgeei | ENSG00000162512, Expressed in left adrenal gland and 204 other tissues |
ExpressionAtlasi | O75056, baseline and differential |
Genevisiblei | O75056, HS |
Organism-specific databases
HPAi | ENSG00000162512, Low tissue specificity |
Interactioni
Subunit structurei
Interacts with TIAM1 (PubMed:23395182).
Interacts with PTN (via heparan sulfate chains); this interaction mediates the neurite outgrowth-promoting signal from PTN to the cytoskeleton of growing neurites; this interaction mediates osteoblast recruitment (By similarity).
Interacts with MDK; this interaction induces SDC3 clustering; this interaction induces neuronal cell adhesion and neurite outgrowth (By similarity).
By similarity1 PublicationBinary interactionsi
Hide detailsO75056
With | #Exp. | IntAct |
---|---|---|
SDC2 [P34741] | 2 | EBI-1642090,EBI-1172957 |
itself | 3 | EBI-1642090,EBI-1642090 |
SDC4 [P31431] | 2 | EBI-1642090,EBI-3913237 |
GO - Molecular functioni
- identical protein binding Source: IntAct
Protein-protein interaction databases
BioGRIDi | 115027, 31 interactors |
DIPi | DIP-29944N |
IntActi | O75056, 8 interactors |
STRINGi | 9606.ENSP00000344468 |
Miscellaneous databases
RNActi | O75056, protein |
Family & Domainsi
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 115 – 302 | Ser/Thr-rich (mucin-like)Add BLAST | 188 |
Sequence similaritiesi
Belongs to the syndecan proteoglycan family.Curated
Keywords - Domaini
Transmembrane, Transmembrane helixPhylogenomic databases
eggNOGi | ENOG502QTD2, Eukaryota |
GeneTreei | ENSGT00940000160209 |
HOGENOMi | CLU_047258_0_0_1 |
InParanoidi | O75056 |
OMAi | KPGPPHR |
OrthoDBi | 1340825at2759 |
PhylomeDBi | O75056 |
TreeFami | TF320463 |
Family and domain databases
InterProi | View protein in InterPro IPR003585, Neurexin-like IPR001050, Syndecan IPR031194, Syndecan-3 IPR027789, Syndecan/Neurexin_dom IPR030479, Syndecan_CS |
PANTHERi | PTHR10915, PTHR10915, 1 hit PTHR10915:SF7, PTHR10915:SF7, 1 hit |
Pfami | View protein in Pfam PF01034, Syndecan, 1 hit |
SMARTi | View protein in SMART SM00294, 4.1m, 1 hit |
PROSITEi | View protein in PROSITE PS00964, SYNDECAN, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All
O75056-1 [UniParc]FASTAAdd to basket
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
Computationally mapped potential isoform sequencesi
There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basketD3DPN2 | D3DPN2_HUMAN | Syndecan | SDC3 hCG_15913 | 384 | Annotation score: |
Sequence cautioni
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_027251 | 208 | V → I. Corresponds to variant dbSNP:rs2491132EnsemblClinVar. | 1 | |
Natural variantiVAR_027252 | 303 | D → N1 PublicationCorresponds to variant dbSNP:rs4949184Ensembl. | 1 | |
Natural variantiVAR_027253 | 329 | T → I. Corresponds to variant dbSNP:rs2282440EnsemblClinVar. | 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. |
CCDSi | CCDS30661.1 |
RefSeqi | NP_055469.3, NM_014654.3 |
Genome annotation databases
Ensembli | ENST00000339394; ENSP00000344468; ENSG00000162512 |
GeneIDi | 9672 |
KEGGi | hsa:9672 |
UCSCi | uc001bse.3, human |
Keywords - Coding sequence diversityi
PolymorphismSimilar proteinsi
Cross-referencesi
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. |
CCDSi | CCDS30661.1 |
RefSeqi | NP_055469.3, NM_014654.3 |
3D structure databases
SMRi | O75056 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 115027, 31 interactors |
DIPi | DIP-29944N |
IntActi | O75056, 8 interactors |
STRINGi | 9606.ENSP00000344468 |
PTM databases
GlyGeni | O75056, 9 sites, 3 O-linked glycans (3 sites) |
iPTMneti | O75056 |
PhosphoSitePlusi | O75056 |
Polymorphism and mutation databases
BioMutai | SDC3 |
Proteomic databases
EPDi | O75056 |
jPOSTi | O75056 |
MassIVEi | O75056 |
MaxQBi | O75056 |
PaxDbi | O75056 |
PeptideAtlasi | O75056 |
PRIDEi | O75056 |
ProteomicsDBi | 49730 |
TopDownProteomicsi | O75056 |
Protocols and materials databases
Antibodypediai | 1502, 221 antibodies |
DNASUi | 9672 |
Genome annotation databases
Ensembli | ENST00000339394; ENSP00000344468; ENSG00000162512 |
GeneIDi | 9672 |
KEGGi | hsa:9672 |
UCSCi | uc001bse.3, human |
Organism-specific databases
CTDi | 9672 |
DisGeNETi | 9672 |
EuPathDBi | HostDB:ENSG00000162512.15 |
GeneCardsi | SDC3 |
HGNCi | HGNC:10660, SDC3 |
HPAi | ENSG00000162512, Low tissue specificity |
MalaCardsi | SDC3 |
MIMi | 186357, gene |
neXtProti | NX_O75056 |
OpenTargetsi | ENSG00000162512 |
PharmGKBi | PA35590 |
HUGEi | Search... |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | ENOG502QTD2, Eukaryota |
GeneTreei | ENSGT00940000160209 |
HOGENOMi | CLU_047258_0_0_1 |
InParanoidi | O75056 |
OMAi | KPGPPHR |
OrthoDBi | 1340825at2759 |
PhylomeDBi | O75056 |
TreeFami | TF320463 |
Enzyme and pathway databases
PathwayCommonsi | O75056 |
Reactomei | R-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 |
SIGNORi | O75056 |
Miscellaneous databases
BioGRID-ORCSi | 9672, 5 hits in 844 CRISPR screens |
ChiTaRSi | SDC3, human |
GeneWikii | SDC3 |
GenomeRNAii | 9672 |
Pharosi | O75056, Tbio |
PROi | PR:O75056 |
RNActi | O75056, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000162512, Expressed in left adrenal gland and 204 other tissues |
ExpressionAtlasi | O75056, baseline and differential |
Genevisiblei | O75056, HS |
Family and domain databases
InterProi | View protein in InterPro IPR003585, Neurexin-like IPR001050, Syndecan IPR031194, Syndecan-3 IPR027789, Syndecan/Neurexin_dom IPR030479, Syndecan_CS |
PANTHERi | PTHR10915, PTHR10915, 1 hit PTHR10915:SF7, PTHR10915:SF7, 1 hit |
Pfami | View protein in Pfam PF01034, Syndecan, 1 hit |
SMARTi | View protein in SMART SM00294, 4.1m, 1 hit |
PROSITEi | View protein in PROSITE PS00964, SYNDECAN, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | SDC3_HUMAN | |
Accessioni | O75056Primary (citable) accession number: O75056 Secondary accession number(s): Q5T1Z6 Q96PR8 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 30, 2000 |
Last sequence update: | September 5, 2006 | |
Last modified: | December 2, 2020 | |
This is version 173 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any 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
Reference proteomeDocuments
- Human polymorphisms and disease mutations
Index of human polymorphisms and disease mutations - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - SIMILARITY comments
Index of protein domains and families - Human chromosome 1
Human chromosome 1: entries, gene names and cross-references to MIM - Human entries with polymorphisms or disease mutations
List of human entries with polymorphisms or disease mutations