UniProtKB - P50605 (SDC_CAEEL)
Protein
Probable syndecan
Gene
sdn-1
Organism
Caenorhabditis elegans
Status
Functioni
Cell surface proteoglycan that bears heparan sulfate (By similarity). Required for correct mitotic spindle orientation of the ABar blastomere division plane and this may be through modulation of astral microtubule array, and in association with the wnt-signaling proteins mig-5 and dsh-2 (PubMed:25344071). Involved in the migration of AQR and PQR neurons, which descend from the Q neuroblasts (PubMed:26022293). Promotes the axon guidance of D-type motor neurons (PubMed:24066155).By similarity3 Publications
GO - Biological processi
- axon guidance Source: InterPro
- cell migration Source: GO_Central
- embryo development ending in birth or egg hatching Source: WormBase
- epidermis morphogenesis Source: WormBase
- nematode larval development Source: WormBase
Enzyme and pathway databases
Reactomei | R-CEL-1971475, A tetrasaccharide linker sequence is required for GAG synthesis R-CEL-2022928, HS-GAG biosynthesis R-CEL-2024096, HS-GAG degradation R-CEL-3000170, Syndecan interactions R-CEL-381426, Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) R-CEL-3928662, EPHB-mediated forward signaling R-CEL-8957275, Post-translational protein phosphorylation |
Names & Taxonomyi
Protein namesi | Recommended name: Probable syndecan |
Gene namesi | Name:sdn-1Imported ORF Names:F57C7.3Imported |
Organismi | Caenorhabditis elegans |
Taxonomic identifieri | 6239 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Ecdysozoa › Nematoda › Chromadorea › Rhabditida › Rhabditina › Rhabditomorpha › Rhabditoidea › Rhabditidae › Peloderinae › Caenorhabditis |
Proteomesi |
|
Organism-specific databases
WormBasei | F57C7.3a ; CE05996 ; WBGene00004749 ; sdn-1 |
Subcellular locationi
Cytoplasm and Cytosol
- Cytoplasm 1 Publication
Other locations
- Membrane 1 Publication; Single-pass type I membrane protein Sequence analysis
- Cell surface 1 Publication
- Cell junction 1 Publication
Note: Initially localizes to the ABar blastomere cell surface during interphase and prophase, and is internalized during metaphase and anaphase.1 Publication
Other locations
- cell junction Source: UniProtKB-SubCell
- cell surface Source: WormBase
- cytoplasm Source: UniProtKB-SubCell
- integral component of membrane Source: UniProtKB-KW
Topology
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Topological domaini | 27 – 231 | ExtracellularSequence analysisAdd BLAST | 205 | |
Transmembranei | 232 – 252 | HelicalSequence analysisAdd BLAST | 21 | |
Topological domaini | 253 – 288 | CytoplasmicSequence analysisAdd BLAST | 36 |
Keywords - Cellular componenti
Cell junction, Cytoplasm, MembranePathology & Biotechi
Disruption phenotypei
Disrupted mitotic spindle orientation of the ABar blastomere division axis, orientating parallel rather than orthogonally to the division axis of AB derived cells ABpr and ABal (PubMed:25344071). Reduced mig-5 accumulation at the cell contact sites between the ABar and C blastomere cells (PubMed:25344071). Irregular positioning of the AQR and PQR neurons in larva at the L4 stage (PubMed:26022293).2 Publications
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 71 | S → A: Reduced heperan sulfate binding; when associated with A-86 and A-214. 1 Publication | 1 | |
Mutagenesisi | 86 | S → A: Reduced heperan sulfate binding; when associated with A-71 and A-214. 1 Publication | 1 | |
Mutagenesisi | 214 | S → A: Reduced heperan sulfate binding; when associated with A-71 and A-86. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Signal peptidei | 1 – 26 | Sequence analysisAdd BLAST | 26 | |
ChainiPRO_0000033514 | 27 – 288 | Probable syndecanAdd BLAST | 262 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Glycosylationi | 69 | N-linked (GlcNAc...) asparagineSequence analysis | 1 | |
Glycosylationi | 71 | O-linked (Xyl...) (glycosaminoglycan) serine1 Publication | 1 | |
Glycosylationi | 86 | O-linked (Xyl...) (glycosaminoglycan) serine1 Publication | 1 | |
Glycosylationi | 214 | O-linked (Xyl...) (glycosaminoglycan) serine1 Publication | 1 |
Keywords - PTMi
Glycoprotein, Heparan sulfate, ProteoglycanProteomic databases
PaxDbi | P50605 |
PeptideAtlasi | P50605 |
PTM databases
iPTMneti | P50605 |
Expressioni
Developmental stagei
Expressed from the one-cell stage of embryogenesis onwards.1 Publication
Gene expression databases
Bgeei | WBGene00004749, Expressed in pharyngeal muscle cell (C elegans) and 5 other tissues |
ExpressionAtlasi | P50605, baseline and differential |
Interactioni
Protein-protein interaction databases
BioGRIDi | 46171, 1 interactor |
ELMi | P50605 |
STRINGi | 6239.F57C7.3a |
Family & Domainsi
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 142 – 161 | Asp/Glu-rich (highly acidic)Add BLAST | 20 | |
Compositional biasi | 175 – 181 | Poly-Thr | 7 |
Domaini
The cytoplasmic domain is required for correct mitotic spindle orientation and internalization of sdn-1.1 Publication
Sequence similaritiesi
Belongs to the syndecan proteoglycan family.Curated
Keywords - Domaini
Signal, Transmembrane, Transmembrane helixPhylogenomic databases
eggNOGi | ENOG502RZ6V, Eukaryota |
GeneTreei | ENSGT00940000168670 |
InParanoidi | P50605 |
OMAi | DEPKQAR |
OrthoDBi | 1476863at2759 |
Family and domain databases
InterProi | View protein in InterPro IPR001050, Syndecan IPR027789, Syndecan/Neurexin_dom IPR030479, Syndecan_CS IPR031198, Syndecan_inverte |
PANTHERi | PTHR10915, PTHR10915, 1 hit PTHR10915:SF1, PTHR10915:SF1, 1 hit |
Pfami | View protein in Pfam PF01034, Syndecan, 1 hit |
PROSITEi | View protein in PROSITE PS00964, SYNDECAN, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All
P50605-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MILKLNFCLS TYSVLILLSL STQAFAANQA KTKVVPSSTI STKSLKNGIS
60 70 80 90 100
EQVEGSANIP GRLADIEVNG SGYPTDDEDG DDVHGSGKPP SSATTKSDKV
110 120 130 140 150
TSPSHAVVTA KPTTVPTTTA SFKPPVQPKP KPAANDKEIK VEEDEDDDED
160 170 180 190 200
EDEDDEDDEE DFADENIHND EDFFTTTTTT TYRPIVVATT STPRSAATNP
210 220 230 240 250
PRQQPPMVTS TISSGPFSPF HETLANGFYA AIAGGVLVAV ITAILLVLFV
260 270 280
VFRIRKKDEG SYALDEPKQA RPYASYGYTK ASTKEFYA
Computationally mapped potential isoform sequencesi
There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basketQ8I4H9 | Q8I4H9_CAEEL | Syndecan | sdn-1 CELE_F57C7.3, F57C7.3 | 287 | Annotation score: |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BX284606 Genomic DNA Translation: CAA93474.1 |
PIRi | T22846 |
RefSeqi | NP_741894.1, NM_171972.4 |
Genome annotation databases
EnsemblMetazoai | F57C7.3a.1; F57C7.3a.1; WBGene00004749 |
GeneIDi | 181259 |
UCSCi | F57C7.3a, c. elegans |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BX284606 Genomic DNA Translation: CAA93474.1 |
PIRi | T22846 |
RefSeqi | NP_741894.1, NM_171972.4 |
3D structure databases
SMRi | P50605 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 46171, 1 interactor |
ELMi | P50605 |
STRINGi | 6239.F57C7.3a |
PTM databases
iPTMneti | P50605 |
Proteomic databases
PaxDbi | P50605 |
PeptideAtlasi | P50605 |
Genome annotation databases
EnsemblMetazoai | F57C7.3a.1; F57C7.3a.1; WBGene00004749 |
GeneIDi | 181259 |
UCSCi | F57C7.3a, c. elegans |
Organism-specific databases
CTDi | 181259 |
WormBasei | F57C7.3a ; CE05996 ; WBGene00004749 ; sdn-1 |
Phylogenomic databases
eggNOGi | ENOG502RZ6V, Eukaryota |
GeneTreei | ENSGT00940000168670 |
InParanoidi | P50605 |
OMAi | DEPKQAR |
OrthoDBi | 1476863at2759 |
Enzyme and pathway databases
Reactomei | R-CEL-1971475, A tetrasaccharide linker sequence is required for GAG synthesis R-CEL-2022928, HS-GAG biosynthesis R-CEL-2024096, HS-GAG degradation R-CEL-3000170, Syndecan interactions R-CEL-381426, Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) R-CEL-3928662, EPHB-mediated forward signaling R-CEL-8957275, Post-translational protein phosphorylation |
Miscellaneous databases
PROi | PR:P50605 |
Gene expression databases
Bgeei | WBGene00004749, Expressed in pharyngeal muscle cell (C elegans) and 5 other tissues |
ExpressionAtlasi | P50605, baseline and differential |
Family and domain databases
InterProi | View protein in InterPro IPR001050, Syndecan IPR027789, Syndecan/Neurexin_dom IPR030479, Syndecan_CS IPR031198, Syndecan_inverte |
PANTHERi | PTHR10915, PTHR10915, 1 hit PTHR10915:SF1, PTHR10915:SF1, 1 hit |
Pfami | View protein in Pfam PF01034, Syndecan, 1 hit |
PROSITEi | View protein in PROSITE PS00964, SYNDECAN, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | SDC_CAEEL | |
Accessioni | P50605Primary (citable) accession number: P50605 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 1, 1996 |
Last sequence update: | October 1, 1996 | |
Last modified: | April 7, 2021 | |
This is version 134 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Caenorhabditis annotation project |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Caenorhabditis elegans
Caenorhabditis elegans: entries, gene names and cross-references to WormBase - SIMILARITY comments
Index of protein domains and families