O75056 (SDC3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Syndecan-3
Short name=SYND3

Gene names

Name:	SDC3
Synonyms:	KIAA0468

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	442 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Ref.1
Subcellular location	Membrane; Single-pass type I membrane protein.
Tissue specificity	Expressed in the nervous system, the adrenal gland, and the spleen. Ref.1
Post-translational modification	O-glycosylated within the Thr/Ser-rich region which could interact with lectin domains on other molecules Probable.
Sequence similarities	Belongs to the syndecan proteoglycan family.
Sequence caution	The sequence BAA32313.2 differs from that shown. Reason: Intron retention.

Ontologies

Keywords
Cellular component	Membrane
Coding sequence diversity	Polymorphism
Domain	Transmembrane Transmembrane helix
PTM	Glycoprotein Heparan sulfate Phosphoprotein Proteoglycan
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	carbohydrate metabolic process Traceable author statement. Source: Reactome chondroitin sulfate metabolic process Traceable author statement. Source: Reactome glycosaminoglycan biosynthetic process Traceable author statement. Source: Reactome glycosaminoglycan catabolic process Traceable author statement. Source: Reactome
Cellular_component	Golgi lumen Traceable author statement. Source: Reactome integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW lysosomal lumen Traceable author statement. Source: Reactome plasma membrane Traceable author statement. Source: Reactome
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 442	442	Syndecan-3		PRO_0000183989
Regions
	Topological domain	1 – 387	387	Extracellular Potential
	Transmembrane	388 – 408	21	Helical; Potential
	Topological domain	409 – 442	34	Cytoplasmic Potential
	Compositional bias	115 – 302	188	Ser/Thr-rich (mucin-like)
Sites
	Site	383 – 384	2	Cleavage of ectodomain Potential
Amino acid modifications
	Modified residue	409	1	Phosphotyrosine Ref.5
	Modified residue	419	1	Phosphotyrosine Ref.5
	Modified residue	431	1	Phosphotyrosine Ref.5
	Modified residue	441	1	Phosphotyrosine Ref.5
	Glycosylation	80	1	O-linked (Xyl...) (glycosaminoglycan) Potential
	Glycosylation	82	1	O-linked (Xyl...) (glycosaminoglycan) Potential
	Glycosylation	84	1	O-linked (Xyl...) (glycosaminoglycan) Potential
	Glycosylation	91	1	O-linked (Xyl...) (glycosaminoglycan) Potential
	Glycosylation	314	1	O-linked (Xyl...) (glycosaminoglycan) Potential
	Glycosylation	367	1	O-linked (Xyl...) (glycosaminoglycan) Potential
Natural variations
	Natural variant	208	1	V → I. Corresponds to variant rs2491132 [ dbSNP | Ensembl ].		VAR_027251
	Natural variant	303	1	D → N. Ref.1 Corresponds to variant rs4949184 [ dbSNP | Ensembl ].		VAR_027252
	Natural variant	329	1	T → I. Corresponds to variant rs2282440 [ dbSNP | Ensembl ].		VAR_027253

Sequences

	Sequence		Length	Mass (Da)
	O75056 [UniParc]. Last modified September 5, 2006. Version 2. Checksum: D4C284CBC36A92E2	FASTA	442	45,497
	10 20 30 40 50 60 MKPGPPHRAG AAHGAGAGAG AAAGPGARGL LLPPLLLLLL AGRAAGAQRW RSENFERPVD 70 80 90 100 110 120 LEGSGDDDSF PDDELDDLYS GSGSGYFEQE SGIETAMRFS PDVALAVSTT PAVLPTTNIQ 130 140 150 160 170 180 PVGTPFEELP SERPTLEPAT SPLVVTEVPE EPSQRATTVS TTMATTAATS TGDPTVATVP 190 200 210 220 230 240 ATVATATPST PAAPPFTATT AVIRTTGVRR LLPLPLTTVA TARATTPEAP SPPTTAAVLD 250 260 270 280 290 300 TEAPTPRLVS TATSRPRALP RPATTQEPDI PERSTLPLGT TAPGPTEVAQ TPTPETFLTT 310 320 330 340 350 360 IRDEPEVPVS GGPSGDFELP EEETTQPDTA NEVVAVGGAA AKASSPPGTL PKGARPGPGL 370 380 390 400 410 420 LDNAIDSGSS AAQLPQKSIL ERKEVLVAVI VGGVVGALFA AFLVTLLIYR MKKKDEGSYT 430 440 LEEPKQASVT YQKPDKQEEF YA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Cloning and characterization of human syndecan-3." Berndt C., Casaroli-Marano R.P., Vilaro S., Reina M. J. Cell. Biochem. 82:246-259(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, VARIANT ASN-303.
[2]	"Characterization of cDNA clones in size-fractionated cDNA libraries from human brain." Seki N., Ohira M., Nagase T., Ishikawa K., Miyajima N., Nakajima D., Nomura N., Ohara O. DNA Res. 4:345-349(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Brain.
[3]	"The DNA sequence and biological annotation of human chromosome 1." Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R. Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]	"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]. Tissue: Muscle.
[5]	"Phosphorylation of recombinant N-syndecan (syndecan 3) core protein." Asundi V.K., Carey D.J. Biochem. Biophys. Res. Commun. 240:502-506(1997) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION AT TYR-409; TYR-419; TYR-431 AND TYR-441.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF248634 mRNA. Translation: AAK39969.1. AB007937 mRNA. Translation: BAA32313.2. Sequence problems. AL445235 Genomic DNA. Translation: CAI22245.1. AL445235 Genomic DNA. Translation: CAI22250.1. BC013974 mRNA. No translation available.
IPI	IPI00395366.
RefSeq	NP_055469.3. NM_014654.3.
UniGene	Hs.158287.
3D structure databases
ProteinModelPortal	O75056.
SMR	O75056. Positions 410-442.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-29944N.
IntAct	O75056. 2 interactions.
STRING	9606.ENSP00000344468.
PTM databases
PhosphoSite	O75056.
Proteomic databases
PaxDb	O75056.
PRIDE	O75056.
Protocols and materials databases
DNASU	9672.
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000339394; ENSP00000344468; ENSG00000162512.
GeneID	9672.
KEGG	hsa:9672.
UCSC	uc001bse.2. human.
Organism-specific databases
CTD	9672.
GeneCards	GC01M031342.
H-InvDB	HIX0000348.
HGNC	HGNC:10660. SDC3.
HPA	CAB025786. HPA017087.
MIM	186357. gene.
neXtProt	NX_O75056.
PharmGKB	PA35590.
HUGE	Search...
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG85596.
HOGENOM	HOG000049151.
HOVERGEN	HBG004144.
InParanoid	O75056.
KO	K16337.
OMA	EETTQPD.
PhylomeDB	O75056.
Enzyme and pathway databases
Pathway_Interaction_DB	syndecan_pathway. Proteogylcan syndecan-mediated signaling events. syndecan_3_pathway. Syndecan-3-mediated signaling events.
Reactome	REACT_111217. Metabolism. REACT_116125. Disease.
Gene expression databases
ArrayExpress	O75056.
Bgee	O75056.
CleanEx	HS_SDC3.
Genevestigator	O75056.
GermOnline	ENSG00000162512. Homo sapiens.
Family and domain databases
InterPro	IPR003585. Neurexin-like. IPR001050. Syndecan. [Graphical view]
PANTHER	PTHR10915. PTHR10915. 1 hit.
Pfam	PF01034. Syndecan. 1 hit. [Graphical view]
SMART	SM00294. 4.1m. 1 hit. [Graphical view]
PROSITE	PS00964. SYNDECAN. 1 hit. [Graphical view]
ProtoNet	Search...
Other
ChiTaRS	SDC3. human.
GenomeRNAi	9672.
NextBio	36319.
SOURCE	Search...

Entry information

Entry name

SDC3_HUMAN

Accession

Primary (citable) accession number: O75056
Secondary accession number(s): Q5T1Z6 , Q5T1Z7, Q96CT3, Q96PR8

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	September 5, 2006
Last modified:	April 3, 2013
This is version 108 of the entry and version 2 of the sequence. [Complete history]

Entry status

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.