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Reviewed, UniProtKB/Swiss-Prot P18827 (SDC1_HUMAN)

Last modified May 26, 2009. Version 87. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (6) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Web resources · Cross-references · Entry information · Relevant documents

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Names and origin

Protein namesRecommended name:
    Syndecan-1
      Short name=SYND1
Alternative name(s):
    CD_antigen=CD138
Gene names
Name: SDC1
Synonyms: SDC
OrganismHomo sapiens (Human)
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

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Protein attributes

Sequence length310 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level.

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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.

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Ontologies

Keywords
   Cellular componentMembrane
   Coding sequence diversityPolymorphism
   DomainSignal
Transmembrane
   PTMGlycoprotein
Heparan sulfate
Phosphoprotein
Proteoglycan
Gene Ontology (GO)
   Cellular componentintegral to plasma membrane Ref.2

Traceable author statement. Source: ProtInc

   Molecular functioncytoskeletal protein binding

Inferred from electronic annotation. Source: InterPro

protein C-terminus binding

Inferred from physical interaction. Source: UniProtKB

Complete GO annotation...

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Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2222 Potential
Chain23 – 310288Syndecan-1
PRO_0000033499

Regions

Topological domain23 – 254232Extracellular Potential
Transmembrane255 – 27521 Potential
Topological domain276 – 31035Cytoplasmic Potential

Sites

Site250 – 2512Cleavage of ectodomain Potential

Amino acid modifications

Modified residue3091Phosphotyrosine Ref.9
Glycosylation371O-linked (Xyl...) (chondroitin sulfate) By similarity
Glycosylation431N-linked (GlcNAc...) Potential
Glycosylation451O-linked (Xyl...) (heparan sulfate) By similarity
Glycosylation471O-linked (Xyl...) (heparan sulfate) By similarity
Glycosylation2061O-linked (Xyl...) (chondroitin sulfate) By similarity
Glycosylation2161O-linked (Xyl...) (chondroitin sulfate) By similarity

Natural variations

Natural variant761T → M: dbSNP rs2230922.
VAR_052242
Natural variant1361L → Q: dbSNP rs10205485.
VAR_052243

Experimental info

Sequence conflict191P → L in AAA60605. Ref.2
Sequence conflict2591G → V in AAH08765. Ref.6

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Sequences

Sequence LengthMass (Da)Tools
P18827-1 [UniParc].

Last modified May 5, 2009. Version 3.
Checksum: 8E9EF4A57F5FDBD0

FASTA31032,462
        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

« Hide

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References

« Hide '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. expand/collapse author list , 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., 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 (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. expand/collapse author list , 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.
+Additional computationally mapped references.

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Cross-references

Sequence databases

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.
IPIIPI00002441.
PIRA41776.
RefSeqNP_001006947.1.
NP_002988.3.
UniGeneHs.224607
Hs.712639

3D structure databases

ModBaseSearch...

Protein-protein interaction databases

DIPDIP:1123N.

PTM databases

PhosphoSiteP18827.

Proteomic databases

PRIDEP18827.

Genome annotation databases

EnsemblENSG00000115884. Homo sapiens. [Contig view]
GeneID6382.
KEGGhsa:6382.

Organism-specific databases

GeneCardsGC02M020264.
H-InvDBHIX0001856.
HGNCHGNC:10658. SDC1.
HPACAB002424.
HPA006185.
MIM186355. gene.
PharmGKBPA142672548.
GenAtlasSearch...

Phylogenomic databases

HOGENOMP18827.
HOVERGENP18827.

Enzyme and pathway databases

Pathway_Interaction_DBarf6_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.
ReactomeREACT_602. Lipid and lipoprotein metabolism.

Gene expression databases

ArrayExpressP18827.
BgeeP18827.
CleanExHS_SDC1.
GermOnlineENSG00000115884. Homo sapiens.

Family and domain databases

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

Other Resources

NextBio24782.
PMAP-CutDBP18827.
SOURCESearch...

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Entry information

Entry nameSDC1_HUMAN
AccessionPrimary (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: May 26, 2009
This is version 87 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectHPI (Human Proteome Initiative)

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Relevant documents

Human cell differentiation molecules

CD nomenclature of surface proteins of human leucocytes and list of entries

Human chromosome 2

Human chromosome 2: entries, gene names and cross-references to MIM

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

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

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Web resources · Cross-references · Entry information · Relevant documents