Reviewed, UniProtKB/Swiss-Prot P18827 (SDC1_HUMAN)

Names and origin

Protein names

Recommended name:
    Syndecan-1
      Short name=SYND1
Alternative name(s):
    CD_antigen=CD138

Gene names

Name:	SDC1
Synonyms:	SDC

Organism

Homo sapiens (Human) [Complete proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	310 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Cell surface proteoglycan that bears both heparan sulfate and chondroitin sulfate and that links the cytoskeleton to the interstitial matrix.
Subunit structure	Interacts with CDCP1. Ref.8
Subcellular location	Membrane; Single-pass type I membrane protein.
Sequence similarities	Belongs to the syndecan proteoglycan family.

Ontologies

Keywords
Cellular component	Membrane
Coding sequence diversity	Polymorphism
Domain	Signal Transmembrane
PTM	Glycoprotein Heparan sulfate Phosphoprotein Proteoglycan
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	myoblast development Inferred from sequence or structural similarity. Source: UniProtKB striated muscle cell development Inferred from expression pattern. Source: UniProtKB
Cellular component	cytoplasm Inferred from direct assay. Source: HPA focal adhesion Inferred from direct assay. Source: HPA integral to plasma membrane Ref.2 Traceable author statement. Source: ProtInc
Molecular function	cytoskeletal protein binding Inferred from electronic annotation. Source: InterPro protein C-terminus binding Inferred from physical interaction. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 22	22	Potential
	Chain	23 – 310	288	Syndecan-1		PRO_0000033499
Regions
	Topological domain	23 – 254	232	Extracellular Potential
	Transmembrane	255 – 275	21	Potential
	Topological domain	276 – 310	35	Cytoplasmic Potential
Sites
	Site	250 – 251	2	Cleavage of ectodomain Potential
Amino acid modifications
	Modified residue	309	1	Phosphotyrosine Ref.9 Ref.10
	Glycosylation	37	1	O-linked (Xyl...) (chondroitin sulfate) By similarity
	Glycosylation	43	1	N-linked (GlcNAc...) Potential
	Glycosylation	45	1	O-linked (Xyl...) (heparan sulfate) By similarity
	Glycosylation	47	1	O-linked (Xyl...) (heparan sulfate) By similarity
	Glycosylation	206	1	O-linked (Xyl...) (chondroitin sulfate) By similarity
	Glycosylation	216	1	O-linked (Xyl...) (chondroitin sulfate) By similarity
Natural variations
	Natural variant	76	1	T → M: dbSNP rs2230922.		VAR_052242
	Natural variant	136	1	L → Q: dbSNP rs10205485. Ref.1 Ref.2 Ref.3 Ref.6 Ref.7		VAR_052243
Experimental info
	Sequence conflict	19	1	P → L in AAA60605. Ref.2
	Sequence conflict	259	1	G → V in AAH08765. Ref.6

Sequences

	Sequence		Length	Mass (Da)
	P18827-1 [UniParc]. Last modified May 5, 2009. Version 3. Checksum: 8E9EF4A57F5FDBD0	FASTA	310	32,462
	10 20 30 40 50 60 MRRAALWLWL CALALSLQPA LPQIVATNLP PEDQDGSGDD SDNFSGSGAG ALQDITLSQQ 70 80 90 100 110 120 TPSTWKDTQL LTAIPTSPEP TGLEATAAST STLPAGEGPK EGEAVVLPEV EPGLTAREQE 130 140 150 160 170 180 ATPRPRETTQ LPTTHLASTT TATTAQEPAT SHPHRDMQPG HHETSTPAGP SQADLHTPHT 190 200 210 220 230 240 EDGGPSATER AAEDGASSQL PAAEGSGEQD FTFETSGENT AVVAVEPDRR NQSPVDQGAT 250 260 270 280 290 300 GASQGLLDRK EVLGGVIAGG LVGLIFAVCL VGFMLYRMKK KDEGSYSLEE PKQANGGAYQ 310 KPTKQEEFYA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Differential expression of cell surface heparan sulfate proteoglycans in human mammary epithelial cells and lung fibroblasts." Lories V., Cassiman J.-J., van de Berghe H., David G. J. Biol. Chem. 267:1116-1122(1992) [PubMed: 1339431] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANT GLN-136. Tissue: Fibroblast.
[2]	"Sequence of human syndecan indicates a novel gene family of integral membrane proteoglycans." Mali M., Jaakkola P., Arvilommi A.-M., Jalkanen M. J. Biol. Chem. 265:6884-6889(1990) [PubMed: 2324102] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANT GLN-136. Tissue: Mammary gland.
[3]	"Shift of syndecan-1 expression from epithelial to stromal cells during progression of solid tumours." Mennerich D., Vogel A., Klaman I., Dahl E., Lichtner R.B., Rosenthal A., Pohlenz H.D., Thierauch K.H., Sommer A. Eur. J. Cancer 40:1373-1382(2004) [PubMed: 15177497] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANT GLN-136.
[4]	"Generation and annotation of the DNA sequences of human chromosomes 2 and 4." Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H. , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K. Nature 434:724-731(2005) [PubMed: 15815621] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	Mural R.J., Istrail S., Sutton G.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. , 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 (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]	"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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT GLN-136. Tissue: Kidney.
[7]	"The mapping and visual ordering of the human syndecan-1 and N-myc genes near the telomeric region of chromosome 2p." Kaukonen J., Alanen-Kurki L., Jalkanen M., Palotie A. Hum. Genet. 99:295-297(1997) [PubMed: 9050911] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 23-310, VARIANT GLN-136. Tissue: Placenta.
[8]	"Adhesion signaling by a novel mitotic substrate of src kinases." Bhatt A.S., Erdjument-Bromage H., Tempst P., Craik C.S., Moasser M.M. Oncogene 24:5333-5343(2005) [PubMed: 16007225] [Abstract] Cited for: INTERACTION WITH CDCP1.
[9]	"Global survey of phosphotyrosine signaling identifies oncogenic kinases in lung cancer." Rikova K., Guo A., Zeng Q., Possemato A., Yu J., Haack H., Nardone J., Lee K., Reeves C., Li Y., Hu Y., Tan Z., Stokes M., Sullivan L., Mitchell J., Wetzel R., Macneill J., Ren J.M. , Yuan J., Bakalarski C.E., Villen J., Kornhauser J.M., Smith B., Li D., Zhou X., Gygi S.P., Gu T.-L., Polakiewicz R.D., Rush J., Comb M.J. Cell 131:1190-1203(2007) [PubMed: 18083107] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-309, MASS SPECTROMETRY.
[10]	"An extensive survey of tyrosine phosphorylation revealing new sites in human mammary epithelial cells." Heibeck T.H., Ding S.-J., Opresko L.K., Zhao R., Schepmoes A.A., Yang F., Tolmachev A.V., Monroe M.E., Camp D.G. II, Smith R.D., Wiley H.S., Qian W.-J. J. Proteome Res. 8:3852-3861(2009) [PubMed: 19534553] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-309, MASS SPECTROMETRY. Tissue: Mammary epithelium.
+	Additional computationally mapped references.

Web resources

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Cross-references

Sequence databases
EMBL GenBank DDBJ	X60306 mRNA. Translation: CAA42851.1. J05392 mRNA. Translation: AAA60605.1. AJ551176 mRNA. Translation: CAD80245.1. AC104792 Genomic DNA. Translation: AAX93151.1. CH471053 Genomic DNA. Translation: EAX00828.1. BC008765 mRNA. Translation: AAH08765.1. Z48199 Genomic DNA. Translation: CAA88235.1.
IPI	IPI00002441.
PIR	A41776.
RefSeq	NP_001006947.1. NP_002988.3.
UniGene	Hs.224607 Hs.665958
3D structure databases
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-1123N.
STRING	P18827.
PTM databases
PhosphoSite	P18827.
Proteomic databases
PRIDE	P18827.
Genome annotation databases
Ensembl	ENST00000254351; ENSP00000254351; ENSG00000115884; Homo sapiens. [Genome view] ENST00000381150; ENSP00000370542; ENSG00000115884; Homo sapiens. [Genome view]
GeneID	6382.
KEGG	hsa:6382.
UCSC	uc002rdo.1. human.
Organism-specific databases
CTD	6382.
GeneCards	GC02M020264.
H-InvDB	HIX0001856.
HGNC	HGNC:10658. SDC1.
HPA	CAB002424. HPA006185.
MIM	186355. gene.
PharmGKB	PA142672548.
GenAtlas	Search...
Phylogenomic databases
eggNOG	prNOG13207.
HOGENOM	HBG125238.
HOVERGEN	P18827.
InParanoid	P18827.
OMA	KQANGGA.
OrthoDB	EOG9GF612.
PhylomeDB	P18827.
Enzyme and pathway databases
Pathway_Interaction_DB	arf6_traffickingpathway. Arf6 trafficking events. avb3_integrin_pathway. Integrins in angiogenesis. syndecan_pathway. Proteogylcan syndecan-mediated signaling events. syndecan_1_pathway. Syndecan-1-mediated signaling events.
Reactome	REACT_602. Metabolism of lipids and lipoproteins.
Gene expression databases
ArrayExpress	P18827.
Bgee	P18827.
CleanEx	HS_SDC1.
Genevestigator	P18827.
GermOnline	ENSG00000115884. Homo sapiens.
Family and domain databases
InterPro	IPR003585. Neurexin-like. IPR001050. Syndecan. [Graphical view]
PANTHER	PTHR10915. Syndecan. 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 Resources
NextBio	24782.
PMAP-CutDB	P18827.
SOURCE	Search...

Entry information

Entry name

SDC1_HUMAN

Accession

Primary (citable) accession number: P18827
Secondary accession number(s): Q53QV0, Q546D3, Q96HB7

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1990
Last sequence update:	May 5, 2009
Last modified:	January 19, 2010
This is version 96 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

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.