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P34741 (SDC2_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 134. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (6) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Syndecan-2

Short name=SYND2
Alternative name(s):
Fibroglycan
Heparan sulfate proteoglycan core protein
Short name=HSPG
CD_antigen=CD362
Gene names
Name:SDC2
Synonyms:HSPG1
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length201 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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

Subunit structure

Interacts (via cytoplasmic domain) with SARM1 By similarity.

Subcellular location

Membrane; Single-pass type I membrane protein.

Post-translational modification

O-glycosylated with core 1 or possibly core 8 glycans. Contains heparan sulfate. Ref.7

Sequence similarities

Belongs to the syndecan proteoglycan family.

Sequence caution

The sequence AAA52701.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Ontologies

Keywords
   Biological processDifferentiation
Neurogenesis
   Cellular componentMembrane
   Coding sequence diversityPolymorphism
   DomainSignal
Transmembrane
Transmembrane helix
   PTMGlycoprotein
Heparan sulfate
Phosphoprotein
Proteoglycan
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processcarbohydrate metabolic process

Traceable author statement. Source: Reactome

chondroitin sulfate metabolic process

Traceable author statement. Source: Reactome

dendrite morphogenesis

Inferred from electronic annotation. Source: Ensembl

extracellular matrix organization

Traceable author statement. Source: Reactome

glycosaminoglycan biosynthetic process

Traceable author statement. Source: Reactome

glycosaminoglycan catabolic process

Traceable author statement. Source: Reactome

glycosaminoglycan metabolic process

Traceable author statement. Source: Reactome

phototransduction, visible light

Traceable author statement. Source: Reactome

regulation of dendrite morphogenesis

Inferred from sequence or structural similarity. Source: UniProtKB

response to caffeine

Inferred from electronic annotation. Source: Ensembl

response to hypoxia

Inferred from electronic annotation. Source: Ensembl

retinoid metabolic process

Traceable author statement. Source: Reactome

small molecule metabolic process

Traceable author statement. Source: Reactome

wound healing

Inferred from electronic annotation. Source: Ensembl

   Cellular_componentGolgi lumen

Traceable author statement. Source: Reactome

integral component of membrane

Inferred from electronic annotation. Source: UniProtKB-KW

lysosomal lumen

Traceable author statement. Source: Reactome

neuronal cell body

Inferred from electronic annotation. Source: Ensembl

plasma membrane

Traceable author statement. Source: Reactome

   Molecular_functionPDZ domain binding

Inferred from physical interaction PubMed 18256285. Source: BHF-UCL

protein binding

Inferred from physical interaction PubMed 11356864PubMed 9660868. Source: IntAct

Complete GO annotation...

Binary interactions

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 1818 Potential
Chain19 – 201183Syndecan-2
PRO_0000033503

Regions

Topological domain19 – 144126Extracellular Potential
Transmembrane145 – 16925Helical; Potential
Topological domain170 – 20132Cytoplasmic Potential

Sites

Site142 – 1432Cleavage of ectodomain Potential

Amino acid modifications

Modified residue1871Phosphoserine Ref.8
Glycosylation411O-linked (Xyl...) (heparan sulfate) Potential
Glycosylation551O-linked (Xyl...) (heparan sulfate) Potential
Glycosylation571O-linked (Xyl...) (heparan sulfate) Potential
Glycosylation1011O-linked (GalNAc...) Ref.7

Natural variations

Natural variant591A → T. Ref.3
Corresponds to variant rs3816208 [ dbSNP | Ensembl ].
VAR_034675
Natural variant711S → T. Ref.1 Ref.5
Corresponds to variant rs1042381 [ dbSNP | Ensembl ].
VAR_034676

Experimental info

Sequence conflict1501I → T in BAB15150. Ref.2

Sequences

Sequence LengthMass (Da)Tools
P34741 [UniParc].

Last modified August 21, 2007. Version 2.
Checksum: 7DA4159D54741054

FASTA20122,160
        10         20         30         40         50         60 
MRRAWILLTL GLVACVSAES RAELTSDKDM YLDNSSIEEA SGVYPIDDDD YASASGSGAD 

        70         80         90        100        110        120 
EDVESPELTT SRPLPKILLT SAAPKVETTT LNIQNKIPAQ TKSPEETDKE KVHLSDSERK 

       130        140        150        160        170        180 
MDPAEEDTNV YTEKHSDSLF KRTEVLAAVI AGGVIGFLFA IFLILLLVYR MRKKDEGSYD 

       190        200 
LGERKPSSAA YQKAPTKEFY A 

« Hide

References

« Hide 'large scale' references
[1]"Partial primary structure of the 48- and 90-kilodalton core proteins of cell surface-associated heparan sulfate proteoglycans of lung fibroblasts. Prediction of an integral membrane domain and evidence for multiple distinct core proteins at the cell surface of human lung fibroblasts."
Marynen P., Zhang J., Cassiman J.-J., den Berghe H., David G.
J. Biol. Chem. 264:7017-7024(1989) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANT THR-71.
Tissue: Lung fibroblast.
[2]"Complete sequencing and characterization of 21,243 full-length human cDNAs."
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. expand/collapse author list , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Tissue: Testis.
[3]"Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries."
Otsuki T., Ota T., Nishikawa T., Hayashi K., Suzuki Y., Yamamoto J., Wakamatsu A., Kimura K., Sakamoto K., Hatano N., Kawai Y., Ishii S., Saito K., Kojima S., Sugiyama T., Ono T., Okano K., Yoshikawa Y. expand/collapse author list , Aotsuka S., Sasaki N., Hattori A., Okumura K., Nagai K., Sugano S., Isogai T.
DNA Res. 12:117-126(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT THR-59.
Tissue: Embryo.
[4]Mural R.J., Istrail S., Sutton G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT THR-71.
Tissue: Brain and Muscle.
[6]"Initial characterization of the human central proteome."
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.
BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[7]"Human urinary glycoproteomics; attachment site specific analysis of N-and O-linked glycosylations by CID and ECD."
Halim A., Nilsson J., Ruetschi U., Hesse C., Larson G.
Mol. Cell. Proteomics 0:0-0(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: GLYCOSYLATION AT THR-101, STRUCTURE OF CARBOHYDRATES, IDENTIFICATION BY MASS SPECTROMETRY.
[8]"System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-187, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
CCDSCCDS6272.1.
PIRA33880.
RefSeqNP_002989.2. NM_002998.3.
UniGeneHs.1501.
Hs.598247.

3D structure databases

ProteinModelPortalP34741.
SMRP34741. Positions 170-201.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid112285. 24 interactions.
DIPDIP-29943N.
IntActP34741. 11 interactions.
MINTMINT-1536313.
STRING9606.ENSP00000307046.

Chemistry

DrugBankDB00020. Sargramostim.

PTM databases

PhosphoSiteP34741.

Polymorphism databases

DMDM158962336.

Proteomic databases

MaxQBP34741.
PaxDbP34741.
PRIDEP34741.

Protocols and materials databases

DNASU6383.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000302190; ENSP00000307046; ENSG00000169439.
GeneID6383.
KEGGhsa:6383.
UCSCuc003yhv.1. human.

Organism-specific databases

CTD6383.
GeneCardsGC08P097575.
HGNCHGNC:10659. SDC2.
HPACAB025123.
HPA044416.
MIM142460. gene.
neXtProtNX_P34741.
PharmGKBPA35589.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG85596.
HOGENOMHOG000263414.
HOVERGENHBG004501.
InParanoidP34741.
KOK16336.
OMAKMPAQTK.
OrthoDBEOG7GJ6G5.
PhylomeDBP34741.
TreeFamTF320463.

Enzyme and pathway databases

ReactomeREACT_111102. Signal Transduction.
REACT_111217. Metabolism.
REACT_116125. Disease.
REACT_118779. Extracellular matrix organization.

Gene expression databases

ArrayExpressP34741.
BgeeP34741.
CleanExHS_SDC2.
GenevestigatorP34741.

Family and domain databases

InterProIPR003585. Neurexin-like.
IPR001050. Syndecan.
IPR027789. Syndecan/Neurexin_dom.
[Graphical view]
PANTHERPTHR10915. PTHR10915. 1 hit.
PfamPF01034. Syndecan. 1 hit.
[Graphical view]
SMARTSM00294. 4.1m. 1 hit.
[Graphical view]
PROSITEPS00964. SYNDECAN. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

GeneWikiSDC2.
GenomeRNAi6383.
NextBio24788.
PROP34741.
SOURCESearch...

Entry information

Entry nameSDC2_HUMAN
AccessionPrimary (citable) accession number: P34741
Secondary accession number(s): B3KQA3, Q6PIS6, Q9H6V1
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: August 21, 2007
Last modified: July 9, 2014
This is version 134 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 8

Human chromosome 8: entries, gene names and cross-references to MIM

Human cell differentiation molecules

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